Query 041198
Match_columns 93
No_of_seqs 47 out of 49
Neff 2.8
Searched_HMMs 46136
Date Fri Mar 29 04:45:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041198.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041198hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03217 transcription factor 100.0 6.3E-52 1.4E-56 286.5 10.2 91 1-93 1-92 (93)
2 smart00353 HLH helix loop heli 98.7 4E-08 8.6E-13 57.5 5.2 48 16-65 5-52 (53)
3 cd00083 HLH Helix-loop-helix d 98.6 9.6E-08 2.1E-12 56.4 5.1 50 14-65 11-60 (60)
4 PF00010 HLH: Helix-loop-helix 98.6 1.1E-07 2.4E-12 56.7 4.8 46 16-61 10-55 (55)
5 KOG1319 bHLHZip transcription 97.2 0.00095 2E-08 52.7 5.5 63 15-77 70-134 (229)
6 KOG1318 Helix loop helix trans 96.9 0.0015 3.3E-08 54.9 5.2 57 15-72 241-297 (411)
7 KOG4304 Transcriptional repres 95.3 0.035 7.6E-07 43.5 4.7 50 16-65 41-93 (250)
8 KOG0561 bHLH transcription fac 83.2 1.8 3.9E-05 36.6 4.0 42 21-65 74-115 (373)
9 PF07606 DUF1569: Protein of u 80.6 3.7 8.1E-05 29.3 4.4 47 1-58 1-47 (152)
10 KOG3561 Aryl-hydrocarbon recep 80.6 4.4 9.5E-05 37.1 5.8 50 13-64 26-75 (803)
11 PF15370 DUF4598: Domain of un 76.3 1.2 2.6E-05 31.4 0.8 17 24-40 1-17 (112)
12 PF10393 Matrilin_ccoil: Trime 74.4 6.4 0.00014 24.3 3.6 23 52-74 20-42 (47)
13 PF02179 BAG: BAG domain; Int 69.6 9.4 0.0002 24.2 3.7 43 21-79 1-44 (76)
14 smart00338 BRLZ basic region l 66.2 21 0.00046 21.7 4.7 50 41-90 12-61 (65)
15 PRK00253 fliE flagellar hook-b 66.2 37 0.0008 23.6 6.4 53 20-72 5-64 (108)
16 PF00034 Cytochrom_C: Cytochro 66.0 7.3 0.00016 22.5 2.5 17 16-32 74-90 (91)
17 PF08826 DMPK_coil: DMPK coile 65.1 19 0.00041 23.1 4.5 45 30-74 14-58 (61)
18 PF06103 DUF948: Bacterial pro 62.5 20 0.00043 22.9 4.2 34 46-79 24-57 (90)
19 PF15233 SYCE1: Synaptonemal c 60.9 29 0.00063 25.9 5.3 48 19-73 5-52 (134)
20 KOG2483 Upstream transcription 60.1 36 0.00078 26.8 6.0 48 15-64 67-114 (232)
21 PF15483 DUF4641: Domain of un 59.2 7.5 0.00016 33.7 2.3 26 54-79 417-442 (445)
22 KOG4029 Transcription factor H 58.0 9.1 0.0002 28.7 2.3 47 15-62 117-163 (228)
23 PF09602 PhaP_Bmeg: Polyhydrox 57.2 55 0.0012 25.0 6.4 58 20-77 44-107 (165)
24 PF14197 Cep57_CLD_2: Centroso 57.0 51 0.0011 21.3 6.6 33 43-75 35-67 (69)
25 smart00533 MUTSd DNA-binding d 56.9 57 0.0012 23.9 6.3 57 13-75 214-270 (308)
26 PF13713 BRX_N: Transcription 55.6 15 0.00032 22.0 2.5 20 54-73 11-30 (39)
27 PF05508 Ran-binding: RanGTP-b 53.8 31 0.00067 28.4 4.9 28 49-76 78-105 (302)
28 PF07106 TBPIP: Tat binding pr 51.1 64 0.0014 22.8 5.7 29 51-79 112-140 (169)
29 PHA02571 a-gt.4 hypothetical p 50.5 44 0.00095 24.2 4.7 46 14-64 8-53 (109)
30 COG4575 ElaB Uncharacterized c 50.5 37 0.00081 24.2 4.3 21 17-37 5-25 (104)
31 PF04344 CheZ: Chemotaxis phos 50.4 1.1E+02 0.0024 23.2 7.6 43 47-89 96-138 (214)
32 PF08227 DASH_Hsk3: DASH compl 48.6 21 0.00046 21.9 2.5 33 59-91 6-38 (45)
33 PF10073 DUF2312: Uncharacteri 47.0 70 0.0015 21.5 5.0 47 46-92 2-48 (74)
34 smart00657 RPOL4c DNA-directed 46.4 20 0.00044 24.5 2.4 20 15-34 97-116 (118)
35 TIGR01639 P_fal_TIGR01639 Plas 46.3 13 0.00029 23.2 1.4 22 15-36 8-29 (61)
36 PF07303 Occludin_ELL: Occludi 45.9 49 0.0011 22.6 4.2 40 50-89 17-59 (101)
37 COG2882 FliJ Flagellar biosynt 45.3 1.1E+02 0.0025 22.6 6.4 58 21-79 38-95 (148)
38 PF11155 DUF2935: Domain of un 44.6 69 0.0015 21.6 4.8 20 43-62 105-124 (124)
39 PF13234 rRNA_proc-arch: rRNA- 44.2 1.1E+02 0.0024 23.0 6.3 57 16-73 210-267 (268)
40 PRK14143 heat shock protein Gr 44.1 1.3E+02 0.0027 23.7 6.8 59 18-79 65-128 (238)
41 PF00170 bZIP_1: bZIP transcri 43.2 65 0.0014 19.5 4.1 38 42-79 13-50 (64)
42 PHA03011 hypothetical protein; 42.4 76 0.0016 23.3 4.9 52 23-74 67-118 (120)
43 smart00340 HALZ homeobox assoc 42.3 43 0.00093 20.9 3.2 20 49-68 9-32 (44)
44 PF06842 DUF1242: Protein of u 41.3 16 0.00034 21.6 1.1 11 50-60 8-18 (36)
45 PF08606 Prp19: Prp19/Pso4-lik 39.6 42 0.00091 22.5 3.0 23 52-74 47-69 (70)
46 PTZ00344 pyridoxal kinase; Pro 38.8 1.7E+02 0.0037 22.2 6.6 75 14-88 54-153 (296)
47 PF09665 RE_Alw26IDE: Type II 38.7 1.1E+02 0.0023 27.3 6.1 69 13-92 407-478 (511)
48 PF06305 DUF1049: Protein of u 37.5 37 0.00079 20.3 2.3 19 56-74 49-67 (68)
49 KOG3960 Myogenic helix-loop-he 37.4 84 0.0018 26.1 5.0 27 41-67 149-175 (284)
50 COG3880 Modulator of heat shoc 37.4 41 0.0009 26.1 3.1 30 59-90 133-162 (176)
51 cd04779 HTH_MerR-like_sg4 Heli 36.5 1.5E+02 0.0033 20.9 6.9 47 46-92 79-131 (134)
52 PRK05014 hscB co-chaperone Hsc 35.9 1.7E+02 0.0036 21.4 6.0 27 46-72 144-170 (171)
53 PF07743 HSCB_C: HSCB C-termin 35.8 1.1E+02 0.0023 18.9 5.3 41 20-66 38-78 (78)
54 PRK12729 fliE flagellar hook-b 34.9 94 0.002 22.8 4.5 32 42-73 54-85 (127)
55 PF04802 SMK-1: Component of I 34.3 35 0.00077 25.8 2.3 21 43-63 164-184 (193)
56 PRK14148 heat shock protein Gr 34.2 2.1E+02 0.0045 21.9 6.4 34 46-79 63-101 (195)
57 KOG2588 Predicted DNA-binding 34.0 40 0.00086 31.9 3.0 51 21-75 290-340 (953)
58 TIGR02613 mob_myst_B mobile my 33.8 66 0.0014 23.5 3.6 16 14-29 1-16 (186)
59 PF06441 EHN: Epoxide hydrolas 33.6 88 0.0019 21.6 4.0 43 16-58 6-53 (112)
60 PRK14145 heat shock protein Gr 33.4 2.2E+02 0.0048 21.9 6.8 60 17-79 42-106 (196)
61 PF14282 FlxA: FlxA-like prote 33.2 1.2E+02 0.0027 20.5 4.6 55 19-76 18-72 (106)
62 KOG3863 bZIP transcription fac 32.9 1.1E+02 0.0024 27.6 5.4 61 20-80 470-536 (604)
63 TIGR03843 conserved hypothetic 32.5 53 0.0011 26.6 3.1 28 51-78 192-220 (253)
64 PRK14156 heat shock protein Gr 32.5 2.2E+02 0.0047 21.5 6.5 35 45-79 49-88 (177)
65 KOG0250 DNA repair protein RAD 32.4 1.4E+02 0.0031 28.7 6.3 55 16-78 333-388 (1074)
66 PRK12525 RNA polymerase sigma 32.3 1E+02 0.0022 20.9 4.2 14 18-31 36-49 (168)
67 PRK13844 recombination protein 31.3 1.5E+02 0.0032 23.0 5.3 56 14-78 2-57 (200)
68 PF06050 HGD-D: 2-hydroxygluta 31.2 2.1E+02 0.0047 21.4 6.0 50 19-69 98-147 (349)
69 TIGR02473 flagell_FliJ flagell 31.2 1.6E+02 0.0034 19.4 6.8 57 20-77 34-90 (141)
70 PRK14139 heat shock protein Gr 31.2 2.4E+02 0.0051 21.4 6.4 62 15-79 27-93 (185)
71 cd07135 ALDH_F14-YMR110C Sacch 30.8 2E+02 0.0044 23.4 6.2 50 18-76 3-52 (436)
72 COG1400 SEC65 Signal recogniti 30.5 1.2E+02 0.0025 21.1 4.2 47 14-60 29-89 (93)
73 PF10191 COG7: Golgi complex c 30.5 2.1E+02 0.0045 25.7 6.6 59 19-79 33-94 (766)
74 cd07092 ALDH_ABALDH-YdcW Esche 30.1 2.4E+02 0.0052 22.6 6.4 52 15-75 14-65 (450)
75 smart00099 btg1 tob/btg1 famil 29.9 1.1E+02 0.0025 21.6 4.1 27 50-76 5-39 (108)
76 PRK11512 DNA-binding transcrip 29.4 56 0.0012 22.1 2.4 20 15-34 125-144 (144)
77 PRK13454 F0F1 ATP synthase sub 29.4 1.4E+02 0.0031 21.7 4.7 39 47-85 134-173 (181)
78 KOG0810 SNARE protein Syntaxin 29.1 2.4E+02 0.0053 22.9 6.3 49 15-74 164-218 (297)
79 PLN03227 serine palmitoyltrans 28.9 65 0.0014 25.5 3.0 18 18-35 365-382 (392)
80 TIGR03791 TTQ_mauG tryptophan 28.8 46 0.00099 26.5 2.2 19 16-34 262-280 (291)
81 PF02049 FliE: Flagellar hook- 28.7 1.6E+02 0.0035 19.4 4.5 32 41-72 22-53 (96)
82 cd00179 SynN Syntaxin N-termin 28.7 1.8E+02 0.004 19.4 6.6 54 20-73 16-69 (151)
83 PRK14162 heat shock protein Gr 28.6 2.7E+02 0.0058 21.3 6.5 35 45-79 61-100 (194)
84 PRK05771 V-type ATP synthase s 28.4 2.2E+02 0.0047 24.5 6.2 16 21-36 54-69 (646)
85 PRK13694 hypothetical protein; 28.3 2.1E+02 0.0045 19.8 5.3 48 45-92 9-56 (83)
86 PF08663 HalX: HalX domain; I 28.3 1.1E+02 0.0024 20.0 3.5 24 58-81 39-62 (71)
87 cd05134 RasGAP_RASA3 RASA3 (or 28.3 76 0.0016 25.8 3.4 45 28-79 5-49 (310)
88 PF02888 CaMBD: Calmodulin bin 28.2 33 0.00072 23.3 1.1 17 43-59 9-25 (77)
89 TIGR02603 CxxCH_TIGR02603 puta 28.1 49 0.0011 22.7 2.0 18 15-32 116-133 (133)
90 PF10044 Ret_tiss: Retinal tis 28.1 55 0.0012 22.8 2.2 18 53-70 63-80 (95)
91 PRK14011 prefoldin subunit alp 28.0 1.2E+02 0.0025 22.1 4.0 25 50-74 5-29 (144)
92 PF01166 TSC22: TSC-22/dip/bun 27.9 36 0.00078 22.3 1.2 30 61-90 13-42 (59)
93 cd07149 ALDH_y4uC Uncharacteri 27.9 2.8E+02 0.0061 22.1 6.4 25 15-39 16-40 (453)
94 KOG3923 D-aspartate oxidase [A 27.6 41 0.00089 28.4 1.8 24 15-38 252-275 (342)
95 PF08453 Peptidase_M9_N: Pepti 27.4 1.1E+02 0.0024 22.7 3.9 75 17-92 41-127 (190)
96 PRK00294 hscB co-chaperone Hsc 27.1 2.6E+02 0.0057 20.7 6.0 19 54-72 154-172 (173)
97 PHA01735 hypothetical protein 27.0 1.3E+02 0.0029 20.5 3.9 40 15-59 3-44 (76)
98 cd07093 ALDH_F8_HMSADH Human a 27.0 3.3E+02 0.0072 21.8 6.7 52 15-75 14-65 (455)
99 PRK14471 F0F1 ATP synthase sub 27.0 2.3E+02 0.0049 19.9 6.3 48 45-92 109-158 (164)
100 PF10474 DUF2451: Protein of u 26.8 1.5E+02 0.0032 22.8 4.6 32 52-83 89-120 (234)
101 COG0598 CorA Mg2+ and Co2+ tra 26.8 3.1E+02 0.0067 21.4 7.1 45 45-89 217-263 (322)
102 cd07152 ALDH_BenzADH NAD-depen 26.3 3.1E+02 0.0066 22.0 6.4 50 16-74 9-58 (443)
103 PF04380 BMFP: Membrane fusoge 26.2 1.9E+02 0.0041 18.8 5.7 37 20-56 6-43 (79)
104 PF12348 CLASP_N: CLASP N term 26.0 1.6E+02 0.0035 20.8 4.4 60 17-78 39-103 (228)
105 TIGR01280 xseB exodeoxyribonuc 25.9 1.8E+02 0.004 18.5 6.8 57 23-79 4-60 (67)
106 cd02062 Nitro_FMN_reductase Pr 25.9 1.1E+02 0.0024 19.1 3.2 27 13-40 11-37 (122)
107 cd01173 pyridoxal_pyridoxamine 25.8 2.6E+02 0.0056 20.2 6.0 49 14-62 49-99 (254)
108 PRK14552 C/D box methylation g 25.5 1.3E+02 0.0029 25.3 4.4 34 47-80 231-264 (414)
109 PRK14340 (dimethylallyl)adenos 25.3 1.1E+02 0.0025 25.2 3.9 45 17-61 280-328 (445)
110 PF06657 Cep57_MT_bd: Centroso 25.2 1.7E+02 0.0037 19.2 4.1 15 60-74 22-36 (79)
111 cd04881 ACT_HSDH-Hom ACT_HSDH_ 25.1 66 0.0014 18.1 1.9 17 16-32 50-66 (79)
112 PF09840 DUF2067: Uncharacteri 25.1 1.6E+02 0.0035 22.3 4.4 49 18-66 7-63 (190)
113 PF13873 Myb_DNA-bind_5: Myb/S 25.1 1.7E+02 0.0037 17.8 4.6 61 14-74 2-68 (78)
114 PHA02414 hypothetical protein 25.0 2.8E+02 0.006 20.2 5.9 20 18-37 2-21 (111)
115 PF07739 TipAS: TipAS antibiot 24.9 1.2E+02 0.0025 19.4 3.2 21 17-37 25-45 (118)
116 PRK14141 heat shock protein Gr 24.8 3.1E+02 0.0067 21.2 6.0 52 22-79 36-92 (209)
117 PF04350 PilO: Pilus assembly 24.7 2.1E+02 0.0046 18.8 4.6 35 57-91 25-59 (144)
118 PRK15326 type III secretion sy 24.7 86 0.0019 21.4 2.6 33 25-57 43-75 (80)
119 CHL00123 rps6 ribosomal protei 24.7 77 0.0017 21.1 2.4 23 15-37 16-38 (97)
120 cd07138 ALDH_CddD_SSP0762 Rhod 24.6 3.3E+02 0.0071 22.1 6.4 52 15-75 31-82 (466)
121 PF06005 DUF904: Protein of un 24.3 1.9E+02 0.0041 18.8 4.1 23 51-73 14-36 (72)
122 PF04420 CHD5: CHD5-like prote 24.3 2.6E+02 0.0057 20.1 5.3 52 20-80 40-91 (161)
123 cd05128 RasGAP_GAP1_like The G 24.2 1.1E+02 0.0024 24.6 3.6 32 42-79 19-50 (315)
124 PRK05756 pyridoxamine kinase; 24.2 3.1E+02 0.0067 20.5 5.9 50 14-63 51-102 (286)
125 PF03874 RNA_pol_Rpb4: RNA pol 24.1 89 0.0019 20.6 2.6 19 14-32 98-116 (117)
126 PF09346 SMI1_KNR4: SMI1 / KNR 24.1 48 0.001 20.3 1.3 21 16-36 1-21 (130)
127 COG5499 Predicted transcriptio 24.1 84 0.0018 23.1 2.7 25 41-65 84-112 (120)
128 PF08640 U3_assoc_6: U3 small 23.9 1.2E+02 0.0026 20.0 3.2 26 15-40 15-40 (83)
129 PF09373 PMBR: Pseudomurein-bi 23.9 1E+02 0.0022 17.0 2.4 20 14-33 2-21 (33)
130 PF04912 Dynamitin: Dynamitin 23.6 3.8E+02 0.0082 21.6 6.5 23 55-77 322-344 (388)
131 PRK05399 DNA mismatch repair p 23.4 2.5E+02 0.0054 25.5 6.0 57 13-75 496-552 (854)
132 PF13442 Cytochrome_CBB3: Cyto 23.4 81 0.0018 18.5 2.1 15 15-29 53-67 (67)
133 TIGR01070 mutS1 DNA mismatch r 23.1 2.8E+02 0.0061 25.2 6.2 57 13-75 482-538 (840)
134 PF03147 FDX-ACB: Ferredoxin-f 23.1 78 0.0017 20.4 2.1 22 14-35 66-87 (94)
135 PRK04163 exosome complex RNA-b 22.9 1.2E+02 0.0027 23.0 3.5 33 45-77 191-225 (235)
136 PF10076 DUF2313: Uncharacteri 22.9 2.8E+02 0.006 19.7 5.1 50 28-84 2-51 (179)
137 COG5238 RNA1 Ran GTPase-activa 22.9 58 0.0013 27.9 1.9 15 59-73 371-385 (388)
138 PF13935 Ead_Ea22: Ead/Ea22-li 22.7 2.8E+02 0.0061 19.5 5.2 24 51-74 115-138 (139)
139 TIGR03345 VI_ClpV1 type VI sec 22.7 4.2E+02 0.0092 24.1 7.2 14 45-58 398-411 (852)
140 TIGR01140 L_thr_O3P_dcar L-thr 22.6 2.2E+02 0.0049 21.4 4.8 54 25-79 212-265 (330)
141 PF15112 DUF4559: Domain of un 22.5 4E+02 0.0086 22.3 6.5 66 14-79 157-246 (307)
142 TIGR00986 3a0801s05tom22 mitoc 22.5 1.6E+02 0.0034 22.2 3.9 38 18-60 47-84 (145)
143 COG3074 Uncharacterized protei 22.4 1.7E+02 0.0036 20.2 3.7 26 50-75 13-38 (79)
144 KOG0288 WD40 repeat protein Ti 22.3 4.2E+02 0.009 23.5 6.9 46 47-92 47-97 (459)
145 COG1269 NtpI Archaeal/vacuolar 22.3 2E+02 0.0043 25.3 5.0 61 20-80 64-131 (660)
146 PRK10325 heat shock protein Gr 22.3 3.5E+02 0.0076 20.4 6.6 55 19-79 41-100 (197)
147 PRK12728 fliE flagellar hook-b 22.3 2.4E+02 0.0051 19.4 4.5 31 42-72 29-59 (102)
148 PF04124 Dor1: Dor1-like famil 22.3 3.3E+02 0.0072 21.4 5.9 34 56-89 144-178 (338)
149 PF04688 Phage_holin: Phage ly 22.2 69 0.0015 19.5 1.7 17 16-32 6-22 (47)
150 PF08766 DEK_C: DEK C terminal 22.2 1.5E+02 0.0032 17.6 3.1 26 66-91 4-29 (54)
151 KOG4438 Centromere-associated 22.0 5.3E+02 0.011 22.8 7.4 35 45-79 269-303 (446)
152 PF09763 Sec3_C: Exocyst compl 21.9 3.5E+02 0.0076 23.4 6.4 73 18-90 28-110 (701)
153 KOG0810 SNARE protein Syntaxin 21.8 1.9E+02 0.0042 23.4 4.5 60 20-79 43-102 (297)
154 PRK00790 fliE flagellar hook-b 21.8 2.4E+02 0.0052 19.8 4.5 32 41-72 36-67 (109)
155 PF08946 Osmo_CC: Osmosensory 21.6 98 0.0021 19.4 2.2 31 42-75 2-32 (46)
156 cd04776 HTH_GnyR Helix-Turn-He 21.6 2.7E+02 0.0059 18.9 5.6 66 13-78 33-110 (118)
157 PF06188 HrpE: HrpE/YscL/FliH 21.5 3.5E+02 0.0075 20.1 6.1 48 45-92 65-124 (191)
158 PRK15422 septal ring assembly 21.4 1.9E+02 0.0042 19.8 3.9 29 50-78 13-41 (79)
159 PF15450 DUF4631: Domain of un 21.4 3.7E+02 0.0079 24.2 6.4 65 16-80 304-376 (531)
160 PRK13460 F0F1 ATP synthase sub 21.0 3.2E+02 0.0069 19.5 5.8 47 45-92 117-165 (173)
161 PRK10534 L-threonine aldolase; 20.9 3E+02 0.0066 20.4 5.1 58 17-74 208-266 (333)
162 PRK14335 (dimethylallyl)adenos 20.7 1.5E+02 0.0033 24.4 3.8 46 16-61 289-338 (455)
163 TIGR03872 cytochrome_MoxG cyto 20.7 1E+02 0.0022 21.8 2.5 19 14-32 103-121 (133)
164 PF06210 DUF1003: Protein of u 20.6 1.1E+02 0.0024 21.3 2.6 30 49-78 74-103 (108)
165 PRK13473 gamma-aminobutyraldeh 20.6 4.7E+02 0.01 21.3 6.5 24 15-38 34-57 (475)
166 COG0621 MiaB 2-methylthioadeni 20.6 1.4E+02 0.0031 25.5 3.7 45 16-60 276-324 (437)
167 PRK12381 bifunctional succinyl 20.5 1E+02 0.0022 24.3 2.7 25 16-40 380-404 (406)
168 PRK14163 heat shock protein Gr 20.5 4.2E+02 0.0092 20.7 6.6 34 46-79 63-101 (214)
169 PRK13453 F0F1 ATP synthase sub 20.4 3.3E+02 0.0072 19.5 5.9 46 46-92 120-167 (173)
170 PF06103 DUF948: Bacterial pro 20.4 2.4E+02 0.0052 17.9 6.0 16 21-36 30-45 (90)
171 KOG3232 Vacuolar assembly/sort 20.4 66 0.0014 25.5 1.6 11 65-75 191-201 (203)
172 PF12329 TMF_DNA_bd: TATA elem 20.3 2.5E+02 0.0055 18.0 6.2 18 18-35 10-27 (74)
173 cd07086 ALDH_F7_AASADH-like NA 20.3 4.4E+02 0.0095 21.6 6.3 26 15-40 30-55 (478)
174 PF04399 Glutaredoxin2_C: Glut 20.3 1.1E+02 0.0023 22.0 2.6 29 44-72 48-76 (132)
175 TIGR01837 PHA_granule_1 poly(h 20.3 1.2E+02 0.0027 21.0 2.8 16 62-77 96-111 (118)
176 PF02401 LYTB: LytB protein; 20.3 92 0.002 24.9 2.4 21 49-69 89-109 (281)
177 KOG1107 Membrane coat complex 20.2 2E+02 0.0044 26.8 4.7 49 13-63 697-745 (760)
178 PF01544 CorA: CorA-like Mg2+ 20.2 3.4E+02 0.0074 19.5 7.3 34 46-79 190-223 (292)
179 PRK00977 exodeoxyribonuclease 20.1 2.7E+02 0.0058 18.3 6.8 59 21-79 11-69 (80)
180 PRK03578 hscB co-chaperone Hsc 20.1 3.7E+02 0.008 19.8 6.0 20 53-72 156-175 (176)
181 cd07981 TAF12 TATA Binding Pro 20.0 2.4E+02 0.0053 17.7 4.9 28 28-55 6-33 (72)
No 1
>PLN03217 transcription factor ATBS1; Provisional
Probab=100.00 E-value=6.3e-52 Score=286.53 Aligned_cols=91 Identities=77% Similarity=1.079 Sum_probs=87.9
Q ss_pred CCCcccccccCCCCCCCcHhHHHHHHHHHHHhchhhhh-hccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 041198 1 MSSRRSRSRQSSGVSRISYDQIGDLVSKLQQLIPELRS-RRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELLASID 79 (93)
Q Consensus 1 mssrrsrsr~~~~asrisddqI~dLvsKLQ~LLP~~~~-r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~D 79 (93)
|||||||+||.+|+++||||||+|||+|||+|||++++ |+++++|++|||||||||||+||||||||||||+|||++
T Consensus 1 MSsRRSrsrq~s~s~risddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSerLs~LL~t-- 78 (93)
T PLN03217 1 MSGRRSRSRQSSGTSRISEDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSERLSELLAN-- 78 (93)
T ss_pred CCcccccccccCCCCCCCHHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--
Confidence 99999999988899999999999999999999999986 889999999999999999999999999999999999999
Q ss_pred CCcHHHHHHHHhhC
Q 041198 80 SNSAEAAIIRSLLM 93 (93)
Q Consensus 80 ~ns~~a~iirsLL~ 93 (93)
.|++||+|||||||
T Consensus 79 ~~s~~a~iIRSlL~ 92 (93)
T PLN03217 79 SDTAQAALIRSLLT 92 (93)
T ss_pred cCCchHHHHHHHhc
Confidence 67899999999997
No 2
>smart00353 HLH helix loop helix domain.
Probab=98.71 E-value=4e-08 Score=57.48 Aligned_cols=48 Identities=31% Similarity=0.560 Sum_probs=41.9
Q ss_pred CCcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHH
Q 041198 16 RISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVD 65 (93)
Q Consensus 16 risddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVd 65 (93)
+-..++|++.+..|+.++|... .+.+.+.+.||++||+||+.|+.+++
T Consensus 5 r~RR~~~n~~~~~L~~lip~~~--~~~k~~k~~iL~~ai~yi~~L~~~~~ 52 (53)
T smart00353 5 RRRRRKINEAFDELRSLLPTLP--NNKKLSKAEILRLAIEYIKSLQEELQ 52 (53)
T ss_pred HHHHHHHHHHHHHHHHHCCCCC--CCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 3456899999999999999875 45677899999999999999999986
No 3
>cd00083 HLH Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, dimerization creates a parallel, left-handed, four helix bundle; the basic region N-terminal to the first amphipathic helix mediates high-affinity DNA-binding; there are several groups of HLH proteins: those (E12/E47) which bind specific hexanucleotide sequences such as E-box (5-CANNTG-3) or StRE 5-ATCACCCCAC-3), those lacking the basic domain (Emc, Id) function as negative regulators since they fail to bind DNA, those (hairy, E(spl), deadpan) which repress transcription although they can bind specific hexanucleotide sequences such as N-box (5-CACGc/aG-3), those which have a COE domain (Collier/Olf-1/EBF) which is involved in both in dimerization and in DNA binding, and those which bind pentanucleotides ACGTG or GCGTG and
Probab=98.62 E-value=9.6e-08 Score=56.39 Aligned_cols=50 Identities=34% Similarity=0.565 Sum_probs=44.0
Q ss_pred CCCCcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHH
Q 041198 14 VSRISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVD 65 (93)
Q Consensus 14 asrisddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVd 65 (93)
.++...++|++.+..|+.+||... .+.+.+.+.||+.||+||+.|+.+++
T Consensus 11 ~Er~RR~~~n~~~~~L~~llp~~~--~~~k~~k~~iL~~a~~yI~~L~~~~~ 60 (60)
T cd00083 11 RERRRRERINDAFDELRSLLPTLP--PSKKLSKAEILRKAVDYIKSLQELLQ 60 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCC--CCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 456678999999999999999996 55677999999999999999998863
No 4
>PF00010 HLH: Helix-loop-helix DNA-binding domain only nuclear translocator protein (Arnt).; InterPro: IPR011598 The helix-loop-helix (HLH) DNA-binding domain consists of a closed bundle of four helices in a left-handed twist with two crossover connections. The HLH domain directs dimerisation, and is juxtaposed to basic regions to create a DNA interaction interface surface that recognises specific DNA sequences. Basic region/HLH (bHLH) proteins regulate diverse biological pathways []. bHLH proteins include MyoD [], SREBPs (sterol regulatory element binding proteins) [], and yeast Pho4 (phosphatase system) []. In certain proteins the bHLH domain contains a leucine-zipper motif. The bHLH/leucine zipper (bHLHZip) domain specifies dimerisation within a network of proteins and determines sequence-specific DNA binding []. bHLHZip domains occur in the transcription factors Myc, Mad, Max and Usf [, ]. This entry is bHLHZip, which covers the bHLH domain and the leucine zipper motif, when present.; PDB: 1NLW_A 1NKP_D 1A93_A 2A93_A 1AM9_C 3U5V_A 1A0A_B 2QL2_C 1UKL_C 1AN4_B ....
Probab=98.59 E-value=1.1e-07 Score=56.70 Aligned_cols=46 Identities=37% Similarity=0.593 Sum_probs=39.7
Q ss_pred CCcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHH
Q 041198 16 RISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLH 61 (93)
Q Consensus 16 risddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLh 61 (93)
+-..++|++.+..|+.+||........+.+.+.||+.||+||+.||
T Consensus 10 r~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 10 RRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp HHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence 3456899999999999999964455667899999999999999987
No 5
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=97.16 E-value=0.00095 Score=52.71 Aligned_cols=63 Identities=32% Similarity=0.421 Sum_probs=52.3
Q ss_pred CCCcHhHHHHHHHHHHHhchhhhhhc-c-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 041198 15 SRISYDQIGDLVSKLQQLIPELRSRR-S-DKVSASKILQETCDYIRSLHREVDDLSDRLSELLAS 77 (93)
Q Consensus 15 srisddqI~dLvsKLQ~LLP~~~~r~-~-~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~s 77 (93)
++=..|-|+-=-+-||.|+|.+..-- + -|.+.|-|||.||.||.-||.|..+--+-+++|=..
T Consensus 70 EqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s~L~k~ 134 (229)
T KOG1319|consen 70 EQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVSTLRKD 134 (229)
T ss_pred HHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44456677777888999999996443 2 388999999999999999999999999999998554
No 6
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=96.94 E-value=0.0015 Score=54.85 Aligned_cols=57 Identities=32% Similarity=0.522 Sum_probs=44.4
Q ss_pred CCCcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041198 15 SRISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLS 72 (93)
Q Consensus 15 srisddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLs 72 (93)
+|=..+-||+.|.+|-+|||.++--. .+....-||+-+|.|||.||++-....|...
T Consensus 241 ERRRR~nIN~~IkeLg~liP~~~~~~-~~~nKgtILk~s~dYIr~Lqq~~q~~~E~~~ 297 (411)
T KOG1318|consen 241 ERRRRENINDRIKELGQLIPKCNSED-MKSNKGTILKASCDYIRELQQTLQRARELEN 297 (411)
T ss_pred HHHHHHHHHHHHHHHHHhCCCCCcch-hhcccchhhHHHHHHHHHHHHHHHHHHHHHh
Confidence 34456899999999999999995322 3334778999999999999998876666543
No 7
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=95.27 E-value=0.035 Score=43.49 Aligned_cols=50 Identities=28% Similarity=0.460 Sum_probs=42.3
Q ss_pred CCcHhHHHHHHHHHHHhchhhhhh---ccccchHHHHHHHHHHHHHHHHHHHH
Q 041198 16 RISYDQIGDLVSKLQQLIPELRSR---RSDKVSASKILQETCDYIRSLHREVD 65 (93)
Q Consensus 16 risddqI~dLvsKLQ~LLP~~~~r---~~~~~SaskvLqETC~YIrsLhrEVd 65 (93)
+=..+.||+.+..|+.|||+.-.. +..|--.|.||+=|.+|.|.||+-..
T Consensus 41 KkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~ 93 (250)
T KOG4304|consen 41 KKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQ 93 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhcccc
Confidence 335789999999999999999654 45678899999999999999998543
No 8
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=83.19 E-value=1.8 Score=36.60 Aligned_cols=42 Identities=33% Similarity=0.547 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHH
Q 041198 21 QIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVD 65 (93)
Q Consensus 21 qI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVd 65 (93)
-||-=..-|.+|||- .-+.|.|.|-|||.|..||-.|..+--
T Consensus 74 SINAGFqsLr~LlPr---~eGEKLSKAAILQQTa~yI~~Le~~Kt 115 (373)
T KOG0561|consen 74 SINAGFQSLRALLPR---KEGEKLSKAAILQQTADYIHQLEGHKT 115 (373)
T ss_pred hhhHHHHHHHHhcCc---ccchhhHHHHHHHHHHHHHHHHHhccc
Confidence 377778889999994 346688999999999999999976643
No 9
>PF07606 DUF1569: Protein of unknown function (DUF1569); InterPro: IPR011463 This entry represents a family of hypothetical proteins identified in Rhodopirellula baltica and other bacteria.
Probab=80.60 E-value=3.7 Score=29.28 Aligned_cols=47 Identities=23% Similarity=0.563 Sum_probs=37.0
Q ss_pred CCCcccccccCCCCCCCcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHH
Q 041198 1 MSSRRSRSRQSSGVSRISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIR 58 (93)
Q Consensus 1 mssrrsrsr~~~~asrisddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIr 58 (93)
|+.||. ++-+-+.|++.+|+.|.|+. .+.-.+-|++.||.--+..|+
T Consensus 1 ~~~~r~----------l~f~~l~e~~~ri~~L~~~~-~~~wGkms~~Qml~Hc~~~~~ 47 (152)
T PF07606_consen 1 MSDRRE----------LQFEDLDEIINRINRLTPDT-QPQWGKMSVSQMLAHCAQSIE 47 (152)
T ss_pred CCcccc----------CcccCHHHHHHHHHHhCcCC-CCCcCCcCHHHHHHHHHHHHH
Confidence 666665 77788899999999999974 455578899999987666554
No 10
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=80.58 E-value=4.4 Score=37.10 Aligned_cols=50 Identities=22% Similarity=0.374 Sum_probs=40.8
Q ss_pred CCCCCcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHH
Q 041198 13 GVSRISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREV 64 (93)
Q Consensus 13 ~asrisddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEV 64 (93)
.++|=..||+|-+|.-|-.+||.+.. -+-|.-...||++|..+||.+ +|+
T Consensus 26 ~~EKrRRdq~N~yI~ELs~Mvp~~~~-~~RK~DK~tVLr~aV~~lr~~-k~~ 75 (803)
T KOG3561|consen 26 EIEKRRRDQMNKYIEELSEMVPTNAS-LSRKPDKLTVLRMAVDHLRLI-KEQ 75 (803)
T ss_pred hHHHHHHHHHHHHHHHHHHhhhcchh-cccCchHHHHHHHHHHHHHHH-hhh
Confidence 35777899999999999999999863 334567789999999999865 555
No 11
>PF15370 DUF4598: Domain of unknown function (DUF4598)
Probab=76.25 E-value=1.2 Score=31.39 Aligned_cols=17 Identities=35% Similarity=0.829 Sum_probs=15.3
Q ss_pred HHHHHHHHhchhhhhhc
Q 041198 24 DLVSKLQQLIPELRSRR 40 (93)
Q Consensus 24 dLvsKLQ~LLP~~~~r~ 40 (93)
||++|||++||++...|
T Consensus 1 dll~rl~~FLPqm~~AN 17 (112)
T PF15370_consen 1 DLLSRLQAFLPQMKAAN 17 (112)
T ss_pred CHHHHHHHHHHHHHHHH
Confidence 58999999999998777
No 12
>PF10393 Matrilin_ccoil: Trimeric coiled-coil oligomerisation domain of matrilin; InterPro: IPR019466 This entry represents a short domain found the matrilin (cartilage matrix) proteins. It forms a coiled coil structure and contains a single cysteine residue at its start which is likely to form a di-sulphide bridge with a corresponding cysteine in an upstream EGF domain (IPR006209 from INTERPRO), thereby spanning the VWA domain of the protein (IPR002035 from INTERPRO).This domain is likely to be responsible for protein trimerisation []. ; PDB: 1AQ5_C.
Probab=74.38 E-value=6.4 Score=24.34 Aligned_cols=23 Identities=30% Similarity=0.515 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 041198 52 ETCDYIRSLHREVDDLSDRLSEL 74 (93)
Q Consensus 52 ETC~YIrsLhrEVddLSerLsqL 74 (93)
-|-+||++|.+..+++|.||.+|
T Consensus 20 ~v~~~lq~Lt~kL~~vs~RLe~L 42 (47)
T PF10393_consen 20 KVTSALQSLTQKLDAVSKRLEAL 42 (47)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45679999999999999999886
No 13
>PF02179 BAG: BAG domain; InterPro: IPR003103 BAG domains are present in Bcl-2-associated athanogene 1 and silencer of death domains. The BAG proteins are modulators of chaperone activity, they bind to HSP70/HSC70 proteins and promote substrate release. The proteins have anti-apoptotic activity and increase the anti-cell death function of BCL-2 induced by various stimuli. BAG-1 binds to the serine/threonine kinase Raf-1 or Hsc70/Hsp70 in a mutually exclusive interaction. BAG-1 promotes cell growth by binding to and stimulating Raf-1 activity. The binding of Hsp70 to BAG-1 diminishes Raf-1 signalling and inhibits subsequent events, such as DNA synthesis, as well as arrests the cell cycle. BAG-1 has been suggested to function as a molecular switch that encourages cells to proliferate in normal conditions but become quiescent under a stressful environment []. BAG-family proteins contain a single BAG domain, except for human BAG-5 which has four BAG repeats. The BAG domain is a conserved region located at the C terminus of the BAG-family proteins that binds the ATPase domain of Hsc70/Hsp70. The BAG domain is evolutionarily conserved, and BAG domain containing proteins have been described and/or proven in a variety of organisms including Mus musculus (Mouse), Xenopus spp., Drosophila spp., Bombyx mori (Silk moth), Caenorhabditis elegans, Saccharomyces cerevisiae (Baker's yeast), Schizosaccharomyces pombe (Fission yeast), and Arabidopsis thaliana (Mouse-ear cress). The BAG domain has 110-124 amino acids and is comprised of three anti-parallel alpha-helices, each approximately 30-40 amino acids in length. The first and second helices interact with the serine/threonine kinase Raf-1 and the second and third helices are the sites of the BAG domain interaction with the ATPase domain of Hsc70/Hsp70. Binding of the BAG domain to the ATPase domain is mediated by both electrostatic and hydrophobic interactions in BAG-1 and is energy requiring.; GO: 0051087 chaperone binding; PDB: 1M7K_A 1M62_A 1T7S_A 1UGO_A 1I6Z_A 3A8Y_C 1UK5_A 3FZM_B 3FZL_B 3M3Z_B ....
Probab=69.57 E-value=9.4 Score=24.19 Aligned_cols=43 Identities=26% Similarity=0.381 Sum_probs=32.9
Q ss_pred HHHHHHHHHHH-hchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 041198 21 QIGDLVSKLQQ-LIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELLASID 79 (93)
Q Consensus 21 qI~dLvsKLQ~-LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~D 79 (93)
||++.+.+++. |.|....- +.....+|.--|+|.|-++|-.+|
T Consensus 1 ~I~~i~~~v~~~l~~~v~~~----------------~~~~~~~~~~~l~E~L~~~LlkLD 44 (76)
T PF02179_consen 1 KIEKIIDEVEKELQPEVEQF----------------DGKKDEKEYLRLSEMLMQLLLKLD 44 (76)
T ss_dssp HHHHHHHHHHHCHHHHHHHH----------------HHHHCCHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHH----------------hccCcHHHHHHHHHHHHHHHHHhc
Confidence 57777777777 77776433 467778888889999999887776
No 14
>smart00338 BRLZ basic region leucin zipper.
Probab=66.20 E-value=21 Score=21.69 Aligned_cols=50 Identities=20% Similarity=0.251 Sum_probs=35.7
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcHHHHHHHH
Q 041198 41 SDKVSASKILQETCDYIRSLHREVDDLSDRLSELLASIDSNSAEAAIIRS 90 (93)
Q Consensus 41 ~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~D~ns~~a~iirs 90 (93)
..+++|.+-=+--=.||..|+.+|.+|..--.+|...++.-..+-..++.
T Consensus 12 rNR~aA~~~R~rKk~~~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk~ 61 (65)
T smart00338 12 RNREAARRSRERKKAEIEELERKVEQLEAENERLKKEIERLRRELEKLKS 61 (65)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44667777767777899999999999998888888776643344444443
No 15
>PRK00253 fliE flagellar hook-basal body protein FliE; Reviewed
Probab=66.18 E-value=37 Score=23.61 Aligned_cols=53 Identities=15% Similarity=0.232 Sum_probs=41.5
Q ss_pred hHHHHHHHHHHHhchhhhhh-------ccccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041198 20 DQIGDLVSKLQQLIPELRSR-------RSDKVSASKILQETCDYIRSLHREVDDLSDRLS 72 (93)
Q Consensus 20 dqI~dLvsKLQ~LLP~~~~r-------~~~~~SaskvLqETC~YIrsLhrEVddLSerLs 72 (93)
..|+-++...|.+.++.... .....+-+.+|+.+.+.+...|.+.+++.+.+.
T Consensus 5 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sF~~~L~~ai~~vn~~q~~a~~~~~~~~ 64 (108)
T PRK00253 5 QGIEGVLSQLQATAMEASGQAKPAQGAAVGTADFAGQLKAALDKVNDTQQAARTLAEKFE 64 (108)
T ss_pred HhHHHHHHHHHHHHHHhccCCCCCCCCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46777888888888776421 112368899999999999999999999987764
No 16
>PF00034 Cytochrom_C: Cytochrome c; InterPro: IPR003088 Cytochromes c (cytC) can be defined as electron-transfer proteins having one or several haem c groups, bound to the protein by one or, more generally, two thioether bonds involving sulphydryl groups of cysteine residues. The fifth haem iron ligand is always provided by a histidine residue. CytC possess a wide range of properties and function in a large number of different redox processes. Ambler [] recognised four classes of cytC. Class I includes the low-spin soluble cytC of mitochondria and bacteria, with the haem-attachment site towards the N terminus, and the sixth ligand provided by a methionine residue about 40 residues further on towards the C terminus. On the basis of sequence similarity, class I cytC were further subdivided into five classes, IA to IE. Class IB includes the eukaryotic mitochondrial cytC and prokaryotic 'short' cyt c2 exemplified by Rhodopila globiformis cyt c2; class IA includes 'long' cyt c2, such as Rhodospirillum rubrum cyt c2 and Aquaspirillum itersonii cyt c-550, which have several extra loops by comparison with class IB cytC.; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding; PDB: 1YNR_B 2AI5_A 1AYG_A 3O5C_C 1YEA_A 3CXH_W 1YTC_A 1YEB_A 2YBB_Y 2B4Z_A ....
Probab=65.97 E-value=7.3 Score=22.49 Aligned_cols=17 Identities=35% Similarity=0.514 Sum_probs=15.1
Q ss_pred CCcHhHHHHHHHHHHHh
Q 041198 16 RISYDQIGDLVSKLQQL 32 (93)
Q Consensus 16 risddqI~dLvsKLQ~L 32 (93)
.+|++||.+|+..|..|
T Consensus 74 ~ls~~e~~~l~ayl~sl 90 (91)
T PF00034_consen 74 ILSDEEIADLAAYLRSL 90 (91)
T ss_dssp TSSHHHHHHHHHHHHHT
T ss_pred CCCHHHHHHHHHHHHHh
Confidence 58999999999998875
No 17
>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure. It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.
Probab=65.13 E-value=19 Score=23.14 Aligned_cols=45 Identities=29% Similarity=0.386 Sum_probs=36.2
Q ss_pred HHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041198 30 QQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSEL 74 (93)
Q Consensus 30 Q~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqL 74 (93)
|.+--++++.+++-..+.+=|||+=...+.|..||+.|-+.+.++
T Consensus 14 Q~~~eEL~kvk~~n~~~e~kLqeaE~rn~eL~~ei~~L~~e~ee~ 58 (61)
T PF08826_consen 14 QAIQEELTKVKSANLAFESKLQEAEKRNRELEQEIERLKKEMEEL 58 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344455666566666788899999999999999999999998774
No 18
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=62.54 E-value=20 Score=22.94 Aligned_cols=34 Identities=26% Similarity=0.472 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 041198 46 ASKILQETCDYIRSLHREVDDLSDRLSELLASID 79 (93)
Q Consensus 46 askvLqETC~YIrsLhrEVddLSerLsqLl~s~D 79 (93)
..+.++|+=.-++.++.|+|.+.+...+++...+
T Consensus 24 l~~~l~~~~~ti~~l~~~~~~i~~e~~~ll~~~n 57 (90)
T PF06103_consen 24 LKKTLDEVNKTIDTLQEQVDPITKEINDLLHNTN 57 (90)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 3567777777788888888887777777776653
No 19
>PF15233 SYCE1: Synaptonemal complex central element protein 1
Probab=60.94 E-value=29 Score=25.89 Aligned_cols=48 Identities=29% Similarity=0.387 Sum_probs=32.1
Q ss_pred HhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041198 19 YDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSE 73 (93)
Q Consensus 19 ddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsq 73 (93)
+-+|.|||.++-.|=- .|--++.=|.||-.....||+|.|.|..-=+.
T Consensus 5 eP~iE~LInrInelQQ-------aKKk~~EELgEa~~l~eaL~~ELDsL~~Ekvh 52 (134)
T PF15233_consen 5 EPQIEDLINRINELQQ-------AKKKSSEELGEAQALWEALQRELDSLNGEKVH 52 (134)
T ss_pred cchHHHHHHHHHHHHH-------HHHHhHHHHHHHHHHHHHHHHHHHHHhhhHHH
Confidence 3466666665433211 22256778999999999999999999654333
No 20
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=60.06 E-value=36 Score=26.82 Aligned_cols=48 Identities=21% Similarity=0.331 Sum_probs=37.3
Q ss_pred CCCcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHH
Q 041198 15 SRISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREV 64 (93)
Q Consensus 15 srisddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEV 64 (93)
++=..++|-+-...|..++|.....+.+- .+-||.-+-.||..|+++.
T Consensus 67 Ek~RRahlk~~~~~Lk~~vP~~~~~~~~t--~lsiL~kA~~~i~~l~~~~ 114 (232)
T KOG2483|consen 67 EKRRRAHLKDCFESLKDSVPLLNGETRST--TLSILDKALEHIQSLERKS 114 (232)
T ss_pred hHHHHHHHHHHHHHHHHhCCCCCCcchhh--hhHhhhhHHHHHHHHHhHH
Confidence 34567999999999999999996333221 6889999999999987643
No 21
>PF15483 DUF4641: Domain of unknown function (DUF4641)
Probab=59.25 E-value=7.5 Score=33.73 Aligned_cols=26 Identities=27% Similarity=0.563 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcC
Q 041198 54 CDYIRSLHREVDDLSDRLSELLASID 79 (93)
Q Consensus 54 C~YIrsLhrEVddLSerLsqLl~s~D 79 (93)
|-----||+|||||-|.|+.+..-.|
T Consensus 417 CpRC~~LQkEIedLreQLaamqsl~~ 442 (445)
T PF15483_consen 417 CPRCLVLQKEIEDLREQLAAMQSLAD 442 (445)
T ss_pred CcccHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445699999999999998765443
No 22
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=58.03 E-value=9.1 Score=28.65 Aligned_cols=47 Identities=26% Similarity=0.421 Sum_probs=39.4
Q ss_pred CCCcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHH
Q 041198 15 SRISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHR 62 (93)
Q Consensus 15 srisddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhr 62 (93)
+|..=.++|.--..|+.+||..-.- ..|-|+-..|..|..||+-|+.
T Consensus 117 ER~Rv~~vN~~f~~Lr~~lP~~~~~-~kklSKveTLr~A~~YI~~L~~ 163 (228)
T KOG4029|consen 117 ERQRVQSVNSAFAELRALLPTEPPQ-SKKLSKVETLRLATSYIRYLTK 163 (228)
T ss_pred hhhcccchhhhhHHHHhcCCCCCCc-ccccCcccchHHHHHHHHHHHH
Confidence 5566678999999999999998532 6678999999999999998764
No 23
>PF09602 PhaP_Bmeg: Polyhydroxyalkanoic acid inclusion protein (PhaP_Bmeg); InterPro: IPR011728 This entry describes a protein found in polyhydroxyalkanoic acid (PHA) gene regions and incorporated into PHA inclusions in Bacillus cereus and Bacillus megaterium. The role of the protein may include amino acid storage [].
Probab=57.23 E-value=55 Score=24.99 Aligned_cols=58 Identities=24% Similarity=0.288 Sum_probs=41.3
Q ss_pred hHHHHHHHHHHHhchhhhhhccccc-hHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 041198 20 DQIGDLVSKLQQLIPELRSRRSDKV-SAS-----KILQETCDYIRSLHREVDDLSDRLSELLAS 77 (93)
Q Consensus 20 dqI~dLvsKLQ~LLP~~~~r~~~~~-Sas-----kvLqETC~YIrsLhrEVddLSerLsqLl~s 77 (93)
|.|.-++-.|+..+|++-..-++-- ..- --.-.-|.||+.++.++.+|+-++.+|+-+
T Consensus 44 d~itk~veeLe~~~~q~~~~~s~~~~~~vk~L~k~~~~~l~d~inE~t~k~~El~~~i~el~~~ 107 (165)
T PF09602_consen 44 DWITKQVEELEKELKQFKREFSDLYEEYVKQLRKATGNSLNDSINEWTDKLNELSAKIQELLLS 107 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 4577788889999999843333211 111 234567999999999999999999887644
No 24
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=57.04 E-value=51 Score=21.32 Aligned_cols=33 Identities=27% Similarity=0.324 Sum_probs=28.1
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 041198 43 KVSASKILQETCDYIRSLHREVDDLSDRLSELL 75 (93)
Q Consensus 43 ~~SaskvLqETC~YIrsLhrEVddLSerLsqLl 75 (93)
+-++..=|+++|.-|..|+.|++.|..-|-...
T Consensus 35 Rd~~~~~l~~a~~e~~~Lk~E~e~L~~el~~~r 67 (69)
T PF14197_consen 35 RDSAERQLGDAYEENNKLKEENEALRKELEELR 67 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 448888899999999999999999988776543
No 25
>smart00533 MUTSd DNA-binding domain of DNA mismatch repair MUTS family.
Probab=56.94 E-value=57 Score=23.92 Aligned_cols=57 Identities=21% Similarity=0.312 Sum_probs=47.0
Q ss_pred CCCCCcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 041198 13 GVSRISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELL 75 (93)
Q Consensus 13 ~asrisddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl 75 (93)
+.-+++..++.+|..+++++.=++.... .+++++..+.|..-..++..+.+-+++|.
T Consensus 214 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~------~~i~~~l~~~i~~~~~~l~~~~~~i~~lD 270 (308)
T smart00533 214 NTERFTTPELKELENELLEAKEEIERLE------KEILRELLEKVLEYLEELRALAEALAELD 270 (308)
T ss_pred ccceeeCHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5678999999999999999988876433 47888888888888888888888887754
No 26
>PF13713 BRX_N: Transcription factor BRX N-terminal domain
Probab=55.62 E-value=15 Score=22.02 Aligned_cols=20 Identities=25% Similarity=0.541 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 041198 54 CDYIRSLHREVDDLSDRLSE 73 (93)
Q Consensus 54 C~YIrsLhrEVddLSerLsq 73 (93)
=.+|++|-.+++|++|+|+.
T Consensus 11 Ke~IKsLt~QlK~maekl~~ 30 (39)
T PF13713_consen 11 KEVIKSLTAQLKDMAEKLPG 30 (39)
T ss_pred HHHHHHHHHHHHHHHHhCch
Confidence 36899999999999999964
No 27
>PF05508 Ran-binding: RanGTP-binding protein; InterPro: IPR008812 The small Ras-like GTPase Ran plays an essential role in the transport of macromolecules in and out of the nucleus and has been implicated in spindle and nuclear envelope formation during mitosis in higher eukaryotes. The Saccharomyces cerevisiae ORF YGL164c encoding a novel RanGTP-binding protein, termed Yrb30p was identified. The protein competes with S. cerevisiae RanBP1 (Yrb1p) for binding to the GTP-bound form of S. cerevisiae Ran (Gsp1p) and is, like Yrb1p, able to form trimeric complexes with RanGTP and some of the karyopherins [].
Probab=53.83 E-value=31 Score=28.44 Aligned_cols=28 Identities=29% Similarity=0.496 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 041198 49 ILQETCDYIRSLHREVDDLSDRLSELLA 76 (93)
Q Consensus 49 vLqETC~YIrsLhrEVddLSerLsqLl~ 76 (93)
.|+-|...+++||+|++.+.++|.++-.
T Consensus 78 ~Lesal~L~~~L~~eI~~f~~~l~~~~~ 105 (302)
T PF05508_consen 78 SLESALPLTKDLRREIDSFDERLEEAAE 105 (302)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5899999999999999999999999887
No 28
>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=51.09 E-value=64 Score=22.83 Aligned_cols=29 Identities=24% Similarity=0.464 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 041198 51 QETCDYIRSLHREVDDLSDRLSELLASID 79 (93)
Q Consensus 51 qETC~YIrsLhrEVddLSerLsqLl~s~D 79 (93)
.|....|..|..|+..|.+||..|-....
T Consensus 112 ~el~~~i~~l~~e~~~l~~kL~~l~~~~~ 140 (169)
T PF07106_consen 112 EELREEIEELEEEIEELEEKLEKLRSGSK 140 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 46677899999999999999999887544
No 29
>PHA02571 a-gt.4 hypothetical protein; Provisional
Probab=50.51 E-value=44 Score=24.15 Aligned_cols=46 Identities=24% Similarity=0.395 Sum_probs=31.4
Q ss_pred CCCCcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHH
Q 041198 14 VSRISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREV 64 (93)
Q Consensus 14 asrisddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEV 64 (93)
..-++|.++.++++++|+=+-....+. |+|+|+---.=|++|++-.
T Consensus 8 ~~~~~d~~~ee~~~~~q~~~e~eA~kk-----A~K~lkKN~rEIkRL~~HA 53 (109)
T PHA02571 8 VEELTDEEVEELLSELQARNEAEAEKK-----AAKILKKNRREIKRLKKHA 53 (109)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHhHHHHHHHHHHH
Confidence 456888999999999998655443333 5666666666666665543
No 30
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=50.48 E-value=37 Score=24.24 Aligned_cols=21 Identities=33% Similarity=0.574 Sum_probs=11.4
Q ss_pred CcHhHHHHHHHHHHHhchhhh
Q 041198 17 ISYDQIGDLVSKLQQLIPELR 37 (93)
Q Consensus 17 isddqI~dLvsKLQ~LLP~~~ 37 (93)
++++.|.+|++-||.|+-++.
T Consensus 5 ~~~~~~~~l~~el~~L~d~lE 25 (104)
T COG4575 5 FTDDAIDQLLAELQELLDTLE 25 (104)
T ss_pred chhhhHHHHHHHHHHHHHHHH
Confidence 445555555555555555543
No 31
>PF04344 CheZ: Chemotaxis phosphatase, CheZ; InterPro: IPR007439 This family represents the bacterial chemotaxis phosphatase, CheZ. This protein forms a dimer characterised by a long four-helix bundle, composed of two helices from each monomer. CheZ dephosphorylates CheY in a reaction that is essential to maintain a continuous chemotactic response to environmental changes. It is thought that CheZ's conserved residue Gln 147 orientates a water molecule for nucleophilic attack at the CheY active site. ; GO: 0003824 catalytic activity, 0050920 regulation of chemotaxis, 0009288 bacterial-type flagellum; PDB: 1KMI_Z 2FMK_B 2PMC_F.
Probab=50.40 E-value=1.1e+02 Score=23.19 Aligned_cols=43 Identities=16% Similarity=0.358 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcHHHHHHH
Q 041198 47 SKILQETCDYIRSLHREVDDLSDRLSELLASIDSNSAEAAIIR 89 (93)
Q Consensus 47 skvLqETC~YIrsLhrEVddLSerLsqLl~s~D~ns~~a~iir 89 (93)
-.+..+|..|+..+..-.+.+.+.|.+.|...|.-+----+|+
T Consensus 96 ~~l~~~~~~~l~~~~~~~~~~~~~l~eIm~Aq~FQDLTGQ~Ik 138 (214)
T PF04344_consen 96 RELAHETDAFLQQVEENAQQLRAQLTEIMMAQDFQDLTGQRIK 138 (214)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence 3478889999999999999999999999888775443333343
No 32
>PF08227 DASH_Hsk3: DASH complex subunit Hsk3 like; InterPro: IPR013183 This is a family of fungal proteins of unknown function.
Probab=48.57 E-value=21 Score=21.87 Aligned_cols=33 Identities=24% Similarity=0.337 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHhhhcCCCcHHHHHHHHh
Q 041198 59 SLHREVDDLSDRLSELLASIDSNSAEAAIIRSL 91 (93)
Q Consensus 59 sLhrEVddLSerLsqLl~s~D~ns~~a~iirsL 91 (93)
.|+.++..|...|++.=.-+++.+.|++.||-|
T Consensus 6 ~L~~qL~qL~aNL~~t~~~l~~~s~Q~~~i~~L 38 (45)
T PF08227_consen 6 HLASQLAQLQANLADTENLLEMTSIQANSIRKL 38 (45)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 455556666666666555555666666666543
No 33
>PF10073 DUF2312: Uncharacterized protein conserved in bacteria (DUF2312); InterPro: IPR018753 This entry is represented by Azospirillum phage Cd, Gp10. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Members of this family of hypothetical bacterial proteins have no known function.
Probab=46.96 E-value=70 Score=21.54 Aligned_cols=47 Identities=21% Similarity=0.395 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcHHHHHHHHhh
Q 041198 46 ASKILQETCDYIRSLHREVDDLSDRLSELLASIDSNSAEAAIIRSLL 92 (93)
Q Consensus 46 askvLqETC~YIrsLhrEVddLSerLsqLl~s~D~ns~~a~iirsLL 92 (93)
|+.-|..-..-|-+|..|-+++++...++.+-.-.+.-+..++|..+
T Consensus 2 a~~~Lr~~ieRiErLEeEk~~i~~dikdVyaEAK~~GfD~K~lr~ii 48 (74)
T PF10073_consen 2 AAEQLRQFIERIERLEEEKKAISDDIKDVYAEAKGNGFDTKALRQII 48 (74)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence 45567777888999999999999999999988766666666666543
No 34
>smart00657 RPOL4c DNA-directed RNA-polymerase II subunit.
Probab=46.40 E-value=20 Score=24.55 Aligned_cols=20 Identities=30% Similarity=0.690 Sum_probs=17.9
Q ss_pred CCCcHhHHHHHHHHHHHhch
Q 041198 15 SRISYDQIGDLVSKLQQLIP 34 (93)
Q Consensus 15 srisddqI~dLvsKLQ~LLP 34 (93)
.|++|+|+.+++..+..+.|
T Consensus 97 ~r~~ee~l~~iL~~i~~~~~ 116 (118)
T smart00657 97 ERIDEEELEELLDDLSSLLP 116 (118)
T ss_pred ccCCHHHHHHHHHHHHHhcC
Confidence 57999999999999988876
No 35
>TIGR01639 P_fal_TIGR01639 Plasmodium falciparum uncharacterized domain TIGR01639. This model represents a conserved sequence region of about 60 amino acids found in over 40 predicted proteins of Plasmodium falciparum. It is not found elsewhere, including closely related species such as Plasmodium yoelii. No member of this family is characterized.
Probab=46.29 E-value=13 Score=23.20 Aligned_cols=22 Identities=14% Similarity=0.416 Sum_probs=18.8
Q ss_pred CCCcHhHHHHHHHHHHHhchhh
Q 041198 15 SRISYDQIGDLVSKLQQLIPEL 36 (93)
Q Consensus 15 srisddqI~dLvsKLQ~LLP~~ 36 (93)
..+|++||++++..|-.-+|.-
T Consensus 8 ~~lTeEEl~~~i~~L~~~~~~~ 29 (61)
T TIGR01639 8 KKLSKEELNELINSLDEIPNRN 29 (61)
T ss_pred HHccHHHHHHHHHhhcCCCCHH
Confidence 3589999999999998888754
No 36
>PF07303 Occludin_ELL: Occludin homology domain; InterPro: IPR010844 This represents a conserved region approximately 100 residues long within eukaryotic occludin proteins and the RNA polymerase II elongation factor ELL. Occludin is an integral membrane protein that localises to tight junctions [], while ELL is an elongation factor that can increase the catalytic rate of RNA polymerase II transcription by suppressing transient pausing by polymerase at multiple sites along the DNA []. This shared domain is thought to mediate protein interactions [].; PDB: 1WPA_A 3G7C_A 1XAW_A.
Probab=45.91 E-value=49 Score=22.64 Aligned_cols=40 Identities=33% Similarity=0.437 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhc---CCCcHHHHHHH
Q 041198 50 LQETCDYIRSLHREVDDLSDRLSELLASI---DSNSAEAAIIR 89 (93)
Q Consensus 50 LqETC~YIrsLhrEVddLSerLsqLl~s~---D~ns~~a~iir 89 (93)
.+..-.=-+.||.||++.+.++++|-.-+ .-++++-..|-
T Consensus 17 F~~~y~EYk~L~~~v~~v~~~f~~L~~~l~~l~~~s~ey~~i~ 59 (101)
T PF07303_consen 17 FNDDYDEYKELHAEVDAVSRRFQELDSELKRLPPGSQEYKRIA 59 (101)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS-TTSHHHHHHH
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCcHHHHHH
Confidence 33344445899999999999999975544 34666555443
No 37
>COG2882 FliJ Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]
Probab=45.29 E-value=1.1e+02 Score=22.58 Aligned_cols=58 Identities=22% Similarity=0.289 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 041198 21 QIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELLASID 79 (93)
Q Consensus 21 qI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~D 79 (93)
||-.|...=..+.-.++....+.+|++.+ +-.=.||-.|+-+|+.....++.+-..+|
T Consensus 38 qL~~l~~y~~ey~q~~~~k~~~G~s~~q~-~nyq~fI~~Le~~I~q~~~~~~~~~~~ve 95 (148)
T COG2882 38 QLKMLSGYRNEYEQNLNEKLKSGVSAAQW-QNYQQFISQLEVAIDQQQSQLSKLRKQVE 95 (148)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccccHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444344444444455667788888 88999999999999999999998877765
No 38
>PF11155 DUF2935: Domain of unknown function (DUF2935); InterPro: IPR021328 This family of proteins with unknown function appears to be restricted to Firmicutes. ; PDB: 3D19_B 3DBY_P.
Probab=44.56 E-value=69 Score=21.59 Aligned_cols=20 Identities=25% Similarity=0.439 Sum_probs=14.9
Q ss_pred cchHHHHHHHHHHHHHHHHH
Q 041198 43 KVSASKILQETCDYIRSLHR 62 (93)
Q Consensus 43 ~~SaskvLqETC~YIrsLhr 62 (93)
..=+--|+.|+|-|++-|++
T Consensus 105 P~l~~Hi~rEa~~yl~~L~~ 124 (124)
T PF11155_consen 105 PLLIDHIIREAEYYLRILNQ 124 (124)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHcC
Confidence 33466788999999988764
No 39
>PF13234 rRNA_proc-arch: rRNA-processing arch domain; PDB: 4A4K_E 4A4Z_A 2XGJ_B 3L9O_A.
Probab=44.20 E-value=1.1e+02 Score=23.05 Aligned_cols=57 Identities=23% Similarity=0.272 Sum_probs=31.9
Q ss_pred CCcHhHHHHHHHHHHHhchhhhhhccccc-hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041198 16 RISYDQIGDLVSKLQQLIPELRSRRSDKV-SASKILQETCDYIRSLHREVDDLSDRLSE 73 (93)
Q Consensus 16 risddqI~dLvsKLQ~LLP~~~~r~~~~~-SaskvLqETC~YIrsLhrEVddLSerLsq 73 (93)
+|.|.++.+++.|+++|...+..-.=... -..+.+ ..+.-=..|+.|++.|-..|++
T Consensus 210 kI~d~~~~e~~~k~~~Le~rl~~~~~~~~~~~~~~~-~~~~~k~~l~~~i~~Lk~~l~~ 267 (268)
T PF13234_consen 210 KIKDPEFVELVKKIEALEKRLSSHPLHKCPDFEEHY-ALYHEKAELQEEIKALKRQLSD 267 (268)
T ss_dssp ----HHHHHHHHHHHHHHHHHHHSCHCCSSSHHHHH-HHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCcHHHHHHHHHHHHHHHHHHhCCCCCCcCHHHHH-HHHHHHHHHHHHHHHHHHHHhc
Confidence 58889999999999999887754331111 122222 2333445677777777666653
No 40
>PRK14143 heat shock protein GrpE; Provisional
Probab=44.14 E-value=1.3e+02 Score=23.71 Aligned_cols=59 Identities=25% Similarity=0.370 Sum_probs=36.8
Q ss_pred cHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHhhhcC
Q 041198 18 SYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRL-----SELLASID 79 (93)
Q Consensus 18 sddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerL-----sqLl~s~D 79 (93)
.++++.+|-.+|..|--++..- +--..+..-|.-||.|+.+||.+++-..- ..||+-+|
T Consensus 65 ~~~~~~~l~~el~~l~~e~~el---kd~~lR~~AdfeN~RKR~~kE~e~~~~~a~~~~~~~lLpV~D 128 (238)
T PRK14143 65 NAARLAQLEQELESLKQELEEL---NSQYMRIAADFDNFRKRTSREQEDLRLQLKCNTLSEILPVVD 128 (238)
T ss_pred chhHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3445666555544433333211 11346788899999999999999876543 34666665
No 41
>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=43.19 E-value=65 Score=19.51 Aligned_cols=38 Identities=24% Similarity=0.410 Sum_probs=29.5
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 041198 42 DKVSASKILQETCDYIRSLHREVDDLSDRLSELLASID 79 (93)
Q Consensus 42 ~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~D 79 (93)
.+.+|.+.=+---.||..|+.+|+.|.....+|...++
T Consensus 13 NR~AAr~~R~RKk~~~~~Le~~~~~L~~en~~L~~~~~ 50 (64)
T PF00170_consen 13 NREAARRSRQRKKQYIEELEEKVEELESENEELKKELE 50 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35577777777778999999999999888888776554
No 42
>PHA03011 hypothetical protein; Provisional
Probab=42.44 E-value=76 Score=23.29 Aligned_cols=52 Identities=23% Similarity=0.406 Sum_probs=35.8
Q ss_pred HHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041198 23 GDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSEL 74 (93)
Q Consensus 23 ~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqL 74 (93)
.+|+.+--.|+.|-+.--+..-----+.||-...|-.|..|+|.|-|..+.+
T Consensus 67 deL~~qYN~L~dEYn~i~Ne~k~~~~iIQdn~d~I~~LraeIDkLK~niaN~ 118 (120)
T PHA03011 67 DELIAQYNELLDEYNLIENEIKDLEIIIQDNDDEIHFLRAEIDKLKENIANL 118 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHhcc
Confidence 3344444445555543334444666788999999999999999999887643
No 43
>smart00340 HALZ homeobox associated leucin zipper.
Probab=42.35 E-value=43 Score=20.90 Aligned_cols=20 Identities=35% Similarity=0.835 Sum_probs=13.2
Q ss_pred HHHHHHHHH----HHHHHHHHHHH
Q 041198 49 ILQETCDYI----RSLHREVDDLS 68 (93)
Q Consensus 49 vLqETC~YI----rsLhrEVddLS 68 (93)
.|+.-|.-+ ++||+||.+|-
T Consensus 9 ~LKrcce~LteeNrRL~ke~~eLr 32 (44)
T smart00340 9 LLKRCCESLTEENRRLQKEVQELR 32 (44)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455555544 57899988874
No 44
>PF06842 DUF1242: Protein of unknown function (DUF1242); InterPro: IPR009653 This family consists of a number of eukaryotic proteins of around 72 residues in length. The function of this family is unknown.
Probab=41.26 E-value=16 Score=21.64 Aligned_cols=11 Identities=64% Similarity=1.047 Sum_probs=8.7
Q ss_pred HHHHHHHHHHH
Q 041198 50 LQETCDYIRSL 60 (93)
Q Consensus 50 LqETC~YIrsL 60 (93)
+==||.|||+.
T Consensus 8 ~ICTCtYir~~ 18 (36)
T PF06842_consen 8 LICTCTYIRSI 18 (36)
T ss_pred HHHHhHhHHhH
Confidence 34599999986
No 45
>PF08606 Prp19: Prp19/Pso4-like; InterPro: IPR013915 This region is found specifically in PRP19-like protein. The region represented by this protein covers the sequence implicated in self-interaction and a coiled-coiled motif []. PRP19-like proteins form an oligomer that is necessary for spliceosome assembly [].
Probab=39.57 E-value=42 Score=22.46 Aligned_cols=23 Identities=35% Similarity=0.596 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 041198 52 ETCDYIRSLHREVDDLSDRLSEL 74 (93)
Q Consensus 52 ETC~YIrsLhrEVddLSerLsqL 74 (93)
-+|.-|-+|.+|-|++-+.|++|
T Consensus 47 AA~RViArl~kErd~ar~~l~~l 69 (70)
T PF08606_consen 47 AACRVIARLLKERDEAREALAEL 69 (70)
T ss_pred HHHHHHHHHHHhHHHHHHHHHhc
Confidence 37999999999999999999875
No 46
>PTZ00344 pyridoxal kinase; Provisional
Probab=38.79 E-value=1.7e+02 Score=22.22 Aligned_cols=75 Identities=19% Similarity=0.296 Sum_probs=47.2
Q ss_pred CCCCcHhHHHHHHHHHHHhch--hhhhhccccchHHHHHHHHHHHHHHHHHH-----H--H-------------HHHHHH
Q 041198 14 VSRISYDQIGDLVSKLQQLIP--ELRSRRSDKVSASKILQETCDYIRSLHRE-----V--D-------------DLSDRL 71 (93)
Q Consensus 14 asrisddqI~dLvsKLQ~LLP--~~~~r~~~~~SaskvLqETC~YIrsLhrE-----V--d-------------dLSerL 71 (93)
...++.++|.+++..+..+.- ...---+.-.+..++.++.+.+++.+++. | | ++-+.+
T Consensus 54 g~~i~~~~~~~~l~~l~~~~~~~~~~~v~sG~l~~~~~~~~i~~~l~~~~~~~~~~~vv~DPv~~~~g~l~~~~~~~~~~ 133 (296)
T PTZ00344 54 GHRLDLNELITLMDGLRANNLLSDYTYVLTGYINSADILREVLATVKEIKELRPKLIFLCDPVMGDDGKLYVKEEVVDAY 133 (296)
T ss_pred CeeCCHHHHHHHHHHHHhcCCcccCCEEEECCCCCHHHHHHHHHHHHHHHHhCCCceEEECCccccCCceEeCHHHHHHH
Confidence 467999999999999988532 22211122334578888889999876543 2 3 344556
Q ss_pred HHHhhhcCC---CcHHHHHH
Q 041198 72 SELLASIDS---NSAEAAII 88 (93)
Q Consensus 72 sqLl~s~D~---ns~~a~ii 88 (93)
.+++.-.|+ |-.+++.+
T Consensus 134 ~~ll~~~dii~pN~~E~~~L 153 (296)
T PTZ00344 134 RELIPYADVITPNQFEASLL 153 (296)
T ss_pred HHHhhhCCEEeCCHHHHHHH
Confidence 667666775 55555443
No 47
>PF09665 RE_Alw26IDE: Type II restriction endonuclease (RE_Alw26IDE); InterPro: IPR014328 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry represents type II restriction endonucleases of the Alw26I/Eco31I/Esp3I family [], whose recognition sequences are 5'-GTCTC-3' (Alw26I), 5'-GGTCTC-3' (Eco31I) and 5'-CGTCTC-3' (Esp3I).
Probab=38.72 E-value=1.1e+02 Score=27.31 Aligned_cols=69 Identities=26% Similarity=0.415 Sum_probs=50.3
Q ss_pred CCCCCcHhHHHHHHHHHHHhchhhhhhccc---cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcHHHHHHH
Q 041198 13 GVSRISYDQIGDLVSKLQQLIPELRSRRSD---KVSASKILQETCDYIRSLHREVDDLSDRLSELLASIDSNSAEAAIIR 89 (93)
Q Consensus 13 ~asrisddqI~dLvsKLQ~LLP~~~~r~~~---~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~D~ns~~a~iir 89 (93)
+.-||-=+.+.|-++| .+|+.- -.....+++|+|.-+.++-.++..|-|.|++-+.+ +++.++.||
T Consensus 407 R~iRIAFesL~~Y~~K--------EnRn~~~v~~~~~~~~i~~~~~~ls~~~~~~~~lne~l~~~~~~---~~~~~~~~~ 475 (511)
T PF09665_consen 407 RRIRIAFESLKDYNSK--------ENRNALLVDTQNEEAVISEIVQNLSSLEEESRKLNEKLSDKISS---ESESEEELR 475 (511)
T ss_pred hHHHHHHHHHHHHHhh--------hcccchhcccHhHHHHHHHHHHHhhcchHHHHHHHHHHHHhhhc---ccchHHHHH
Confidence 3456777888888888 344433 34778999999999999999999999998663322 334577777
Q ss_pred Hhh
Q 041198 90 SLL 92 (93)
Q Consensus 90 sLL 92 (93)
+|+
T Consensus 476 ~l~ 478 (511)
T PF09665_consen 476 SLV 478 (511)
T ss_pred HHH
Confidence 775
No 48
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=37.49 E-value=37 Score=20.34 Aligned_cols=19 Identities=37% Similarity=0.621 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 041198 56 YIRSLHREVDDLSDRLSEL 74 (93)
Q Consensus 56 YIrsLhrEVddLSerLsqL 74 (93)
.++++++|++++-..+.+|
T Consensus 49 ~~~~~~k~l~~le~e~~~l 67 (68)
T PF06305_consen 49 RIRRLRKELKKLEKELEQL 67 (68)
T ss_pred HHHHHHHHHHHHHHHHHhc
Confidence 4677888888877776654
No 49
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=37.38 E-value=84 Score=26.06 Aligned_cols=27 Identities=19% Similarity=0.409 Sum_probs=21.7
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHH
Q 041198 41 SDKVSASKILQETCDYIRSLHREVDDL 67 (93)
Q Consensus 41 ~~~~SaskvLqETC~YIrsLhrEVddL 67 (93)
|-|...-+||.-++.||.+||+=+.++
T Consensus 149 NQRLPKVEILRsAI~YIE~Lq~LL~~~ 175 (284)
T KOG3960|consen 149 NQRLPKVEILRSAIRYIERLQALLQEQ 175 (284)
T ss_pred cccccHHHHHHHHHHHHHHHHHHHHHh
Confidence 346799999999999999998654444
No 50
>COG3880 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]
Probab=37.37 E-value=41 Score=26.07 Aligned_cols=30 Identities=30% Similarity=0.464 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHhhhcCCCcHHHHHHHH
Q 041198 59 SLHREVDDLSDRLSELLASIDSNSAEAAIIRS 90 (93)
Q Consensus 59 sLhrEVddLSerLsqLl~s~D~ns~~a~iirs 90 (93)
...++++.|-|.|.+++..=|- .+||+||-
T Consensus 133 ~~~~~I~~L~e~Lq~~i~~Eef--EeAA~iRD 162 (176)
T COG3880 133 NPKRKIIALKEALQDLIEREEF--EEAAVIRD 162 (176)
T ss_pred cHHHHHHHHHHHHHHHHHHHHH--HHHHHHHH
Confidence 5678999999999999988776 88888874
No 51
>cd04779 HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). 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 substrates.
Probab=36.49 E-value=1.5e+02 Score=20.90 Aligned_cols=47 Identities=21% Similarity=0.273 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh------hcCCCcHHHHHHHHhh
Q 041198 46 ASKILQETCDYIRSLHREVDDLSDRLSELLA------SIDSNSAEAAIIRSLL 92 (93)
Q Consensus 46 askvLqETC~YIrsLhrEVddLSerLsqLl~------s~D~ns~~a~iirsLL 92 (93)
....+++.+..|+.|+.....|.+.+.+|-. +.++....+++|.||.
T Consensus 79 ~~~~~~~l~~~i~~Le~~l~~L~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 131 (134)
T cd04779 79 VAQEVQLVCDQIDGLEHRLKQLKPIASQTDRAQRMKMTKELSQQVLTLIQSLT 131 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHhHHHHHHHH
Confidence 4566777888888888888877777766632 2245567788888874
No 52
>PRK05014 hscB co-chaperone HscB; Provisional
Probab=35.88 E-value=1.7e+02 Score=21.39 Aligned_cols=27 Identities=22% Similarity=0.374 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041198 46 ASKILQETCDYIRSLHREVDDLSDRLS 72 (93)
Q Consensus 46 askvLqETC~YIrsLhrEVddLSerLs 72 (93)
.++.+=--.-|+.+|+.||+...|+|.
T Consensus 144 ~A~~~~~~Lky~~kl~~ei~~~~~~l~ 170 (171)
T PRK05014 144 AAADTVRKLKFLDKLRSEVEQLEEKLL 170 (171)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 333333445799999999999988874
No 53
>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=35.78 E-value=1.1e+02 Score=18.92 Aligned_cols=41 Identities=22% Similarity=0.425 Sum_probs=21.7
Q ss_pred hHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHH
Q 041198 20 DQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDD 66 (93)
Q Consensus 20 dqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVdd 66 (93)
..+.+++.+|.+++. ..+-..|...+. -..|+.+|+.+++.
T Consensus 38 ~~~~~~~~~l~~~f~-----~~d~~~A~~~~~-kLky~~kl~~~ik~ 78 (78)
T PF07743_consen 38 ERIKELIKELAEAFD-----AKDWEEAKEALR-KLKYLQKLLEEIKQ 78 (78)
T ss_dssp HHHHHHHHHHHHHHH-----TT-HHHHHHHHH-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHc-----cCcHHHHHHHHH-HHHHHHHHHHHhcC
Confidence 344555555555551 112223333333 35899999888863
No 54
>PRK12729 fliE flagellar hook-basal body protein FliE; Provisional
Probab=34.89 E-value=94 Score=22.79 Aligned_cols=32 Identities=19% Similarity=0.261 Sum_probs=28.3
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041198 42 DKVSASKILQETCDYIRSLHREVDDLSDRLSE 73 (93)
Q Consensus 42 ~~~SaskvLqETC~YIrsLhrEVddLSerLsq 73 (93)
..+|-+.+|+++.+-+..+|.+.|++.+.++.
T Consensus 54 ~~~sF~d~Lk~Al~~VN~~Q~~Ad~~~~~~~~ 85 (127)
T PRK12729 54 VAESFSEAMKNALTSVNDLQVEADELTQKMVF 85 (127)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45689999999999999999999999888754
No 55
>PF04802 SMK-1: Component of IIS longevity pathway SMK-1; InterPro: IPR006887 This is a conserved region which characterises a number of eukaryotic proteins of unknown function.
Probab=34.27 E-value=35 Score=25.78 Aligned_cols=21 Identities=24% Similarity=0.513 Sum_probs=17.9
Q ss_pred cchHHHHHHHHHHHHHHHHHH
Q 041198 43 KVSASKILQETCDYIRSLHRE 63 (93)
Q Consensus 43 ~~SaskvLqETC~YIrsLhrE 63 (93)
|.-..+.|+|-|+.-++||-.
T Consensus 164 r~d~v~fL~e~c~~ak~lq~~ 184 (193)
T PF04802_consen 164 RRDGVKFLHEFCSLAKNLQPQ 184 (193)
T ss_pred HHHHHHHHHHHHHHHHhcCcc
Confidence 347899999999999999754
No 56
>PRK14148 heat shock protein GrpE; Provisional
Probab=34.22 E-value=2.1e+02 Score=21.93 Aligned_cols=34 Identities=26% Similarity=0.251 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHhhhcC
Q 041198 46 ASKILQETCDYIRSLHREVDDLSDRL-----SELLASID 79 (93)
Q Consensus 46 askvLqETC~YIrsLhrEVddLSerL-----sqLl~s~D 79 (93)
-.+.+-|.=||-|+.++|++++-..- ..||+-+|
T Consensus 63 ~lR~~Ae~eN~rKR~~rE~e~~~~~a~~~~~~~LLpV~D 101 (195)
T PRK14148 63 ALRAKAEMENIRKRAERDVSNARKFGIEKFAKELLPVID 101 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHh
Confidence 36788899999999999999876543 33666555
No 57
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=34.02 E-value=40 Score=31.89 Aligned_cols=51 Identities=25% Similarity=0.400 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 041198 21 QIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELL 75 (93)
Q Consensus 21 qI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl 75 (93)
-|||-|-.|++++|.....- .++.||--+.+||+-|+.+--+|-+-.+++.
T Consensus 290 SINDKI~eLk~lV~g~~aKl----~kSavLr~ai~~i~dl~~~nq~lk~~~~~l~ 340 (953)
T KOG2588|consen 290 SINDKIIELKDLVPGTEAKL----NKSAVLRKAIDYIEDLQGYNQKLKLENASLR 340 (953)
T ss_pred chhHHHHHHHHhcCccHhhh----hhhhhHHHHHHHHHHhhccccccchhhhhhh
Confidence 48999999999999875433 7888999999999999987776655555544
No 58
>TIGR02613 mob_myst_B mobile mystery protein B. Members of this protein family, which we designate mobile mystery protein B, are found in mobization-related contexts more often than not, including within a CRISPR-associated gene region in Geobacter sulfurreducens PCA, and on plasmids in Agrobacterium tumefaciens and Coxiella burnetii, always together with mobile mystery protein A (TIGR02612), a member of the family of helix-turn-helix DNA binding proteins (pfam01381). This protein is encoded by the downstream member of the gene pair and belongs to the Fic protein family (pfam02661), where Fic (filamentation induced by cAMP) is a regulator of cell division. The characteristics of having a two-gene operon in a varied context and often on plasmids, with one member affecting cell division and the other able to bind DNA, suggests similarity to addiction modules.
Probab=33.79 E-value=66 Score=23.52 Aligned_cols=16 Identities=6% Similarity=0.223 Sum_probs=13.0
Q ss_pred CCCCcHhHHHHHHHHH
Q 041198 14 VSRISYDQIGDLVSKL 29 (93)
Q Consensus 14 asrisddqI~dLvsKL 29 (93)
+.++|.+|+.+|++.-
T Consensus 1 ~~~~~~~~~~~l~~~~ 16 (186)
T TIGR02613 1 ATPLDPEELEGLLPGH 16 (186)
T ss_pred CCCCCHHHHHHHhhcC
Confidence 3578999999998883
No 59
>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=33.56 E-value=88 Score=21.61 Aligned_cols=43 Identities=23% Similarity=0.346 Sum_probs=26.4
Q ss_pred CCcHhHHHHHHHHHHHhc-hhhhh----hccccchHHHHHHHHHHHHH
Q 041198 16 RISYDQIGDLVSKLQQLI-PELRS----RRSDKVSASKILQETCDYIR 58 (93)
Q Consensus 16 risddqI~dLvsKLQ~LL-P~~~~----r~~~~~SaskvLqETC~YIr 58 (93)
.|++++|.+|-.||++-= |.--. +.-..+.-...|++.|.|=+
T Consensus 6 ~v~~~~l~~l~~rl~~~r~p~~~~~~~~~~w~~G~~~~~l~~L~~yW~ 53 (112)
T PF06441_consen 6 HVPDEELDDLRQRLRATRLPDEPPEPGQEDWDYGTPLDWLKELVDYWR 53 (112)
T ss_dssp ---HHHHHHHHHHHHHS------TGGG-TT-TTSS-HHHHHHHHHHHH
T ss_pred ECCHHHHHHHHHHHhccCCCCCCcCCCccccccCCCHHHHHHHHHHHh
Confidence 489999999999998753 43321 11345567888999999976
No 60
>PRK14145 heat shock protein GrpE; Provisional
Probab=33.41 E-value=2.2e+02 Score=21.85 Aligned_cols=60 Identities=27% Similarity=0.293 Sum_probs=38.5
Q ss_pred CcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHhhhcC
Q 041198 17 ISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLS-----ELLASID 79 (93)
Q Consensus 17 isddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLs-----qLl~s~D 79 (93)
-+..++.+|-.+|..+=-++..- +-..-+..-|.=||-|+..+|.+++.+.=. .||+-+|
T Consensus 42 ~~~~e~~~l~~~l~~le~e~~el---~d~~lR~~AEfeN~rkR~~kE~e~~~~~a~e~~~~~LLpV~D 106 (196)
T PRK14145 42 QTVDEIEELKQKLQQKEVEAQEY---LDIAQRLKAEFENYRKRTEKEKSEMVEYGKEQVILELLPVMD 106 (196)
T ss_pred CchhHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHh
Confidence 45566666666655543333211 124467888999999999999998866533 3666555
No 61
>PF14282 FlxA: FlxA-like protein
Probab=33.20 E-value=1.2e+02 Score=20.51 Aligned_cols=55 Identities=22% Similarity=0.312 Sum_probs=36.6
Q ss_pred HhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 041198 19 YDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELLA 76 (93)
Q Consensus 19 ddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~ 76 (93)
+.+|..|=.+++.|=.++..-..+.....+.-+ .-+.-|+.++..|---|++|..
T Consensus 18 ~~~I~~L~~Qi~~Lq~ql~~l~~~~~~~~e~k~---~q~q~Lq~QI~~LqaQI~qlq~ 72 (106)
T PF14282_consen 18 DSQIEQLQKQIKQLQEQLQELSQDSDLDAEQKQ---QQIQLLQAQIQQLQAQIAQLQS 72 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcccCCCHHHHH---HHHHHHHHHHHHHHHHHHHHHH
Confidence 888888888888888888655543332333322 3466777888888777777654
No 62
>KOG3863 consensus bZIP transcription factor NRF1 [Transcription]
Probab=32.88 E-value=1.1e+02 Score=27.56 Aligned_cols=61 Identities=31% Similarity=0.487 Sum_probs=46.7
Q ss_pred hHHHHHHHHHH------HhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCC
Q 041198 20 DQIGDLVSKLQ------QLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELLASIDS 80 (93)
Q Consensus 20 dqI~dLvsKLQ------~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~D~ 80 (93)
+..|++++|.+ +|+-.+++|...|++|..-=+--..-|-+|..||+.|-.+=.+||.-=|.
T Consensus 470 ~dFne~ls~~~lte~QLslIrDIRRRgKNkvAAQnCRKRKLd~I~nLE~ev~~l~~eKeqLl~Er~~ 536 (604)
T KOG3863|consen 470 DDFNEMLSKYKLTEEQLSLIRDIRRRGKNKVAAQNCRKRKLDCILNLEDEVEKLQKEKEQLLRERDE 536 (604)
T ss_pred HHHHHHHHhcccCHHHHHHhhccccccccchhccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44577777654 56667777777899888776777778999999999999888888876554
No 63
>TIGR03843 conserved hypothetical protein. This model represents a protein family largely restricted to the Actinobacteria (high-GC Gram-positives), although it is also found in the Chloroflexi. Distant similarity to the phosphatidylinositol 3- and 4-kinase is suggested by the matching of some members to pfam00454.
Probab=32.50 E-value=53 Score=26.64 Aligned_cols=28 Identities=29% Similarity=0.389 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHhhhc
Q 041198 51 QETCDYIRSLHREV-DDLSDRLSELLASI 78 (93)
Q Consensus 51 qETC~YIrsLhrEV-ddLSerLsqLl~s~ 78 (93)
.|+..||++|-.|. .+|.++|++||..-
T Consensus 192 ~e~l~~i~~L~~~l~~~l~~~L~~llt~~ 220 (253)
T TIGR03843 192 AELLADLARLRDDLDGDLGRELAELLTPE 220 (253)
T ss_pred HHHHHHHHHHHHhhcChHHHHHHHhCCHH
Confidence 57888999998776 36788888887653
No 64
>PRK14156 heat shock protein GrpE; Provisional
Probab=32.50 E-value=2.2e+02 Score=21.48 Aligned_cols=35 Identities=20% Similarity=0.210 Sum_probs=26.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHhhhcC
Q 041198 45 SASKILQETCDYIRSLHREVDDLSDR-----LSELLASID 79 (93)
Q Consensus 45 SaskvLqETC~YIrsLhrEVddLSer-----LsqLl~s~D 79 (93)
--.+.+-|-=||-|+.++|.++.... +..||+-+|
T Consensus 49 ~~lR~~AEfeN~rKR~~rE~e~~~~~a~~~~~~~LLpVlD 88 (177)
T PRK14156 49 KYLRAHAEMQNIQRRANEERQQLQRYRSQDLAKAILPSLD 88 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHh
Confidence 34677889999999999999986544 334666655
No 65
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=32.45 E-value=1.4e+02 Score=28.73 Aligned_cols=55 Identities=25% Similarity=0.366 Sum_probs=38.4
Q ss_pred CCcHhHHHHHHHHHHHhchhhhhhccccchHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 041198 16 RISYDQIGDLVSKLQQLIPELRSRRSDKVSASKI-LQETCDYIRSLHREVDDLSDRLSELLASI 78 (93)
Q Consensus 16 risddqI~dLvsKLQ~LLP~~~~r~~~~~Saskv-LqETC~YIrsLhrEVddLSerLsqLl~s~ 78 (93)
...+++|.++..-|+++.-+. ...+. ..|.||+|+.+..+||.|-..++.+=+.+
T Consensus 333 ~~~d~Ei~~~r~~~~~~~re~--------~~~~~~~~~~~n~i~~~k~~~d~l~k~I~~~~~~~ 388 (1074)
T KOG0250|consen 333 DAQDEEIEEARKDLDDLRREV--------NDLKEEIREIENSIRKLKKEVDRLEKQIADLEKQT 388 (1074)
T ss_pred hhhhHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666666666666654433 22232 34899999999999999999998876665
No 66
>PRK12525 RNA polymerase sigma factor; Provisional
Probab=32.35 E-value=1e+02 Score=20.94 Aligned_cols=14 Identities=7% Similarity=0.043 Sum_probs=6.9
Q ss_pred cHhHHHHHHHHHHH
Q 041198 18 SYDQIGDLVSKLQQ 31 (93)
Q Consensus 18 sddqI~dLvsKLQ~ 31 (93)
.+|=+.|.+-++-.
T Consensus 36 aeDlvQevf~~l~~ 49 (168)
T PRK12525 36 AEDIASETFLQVLA 49 (168)
T ss_pred HHHHHHHHHHHHHh
Confidence 34445555555544
No 67
>PRK13844 recombination protein RecR; Provisional
Probab=31.33 E-value=1.5e+02 Score=23.02 Aligned_cols=56 Identities=14% Similarity=0.289 Sum_probs=37.1
Q ss_pred CCCCcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 041198 14 VSRISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELLASI 78 (93)
Q Consensus 14 asrisddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~ 78 (93)
+++|-...|.+||..|.. ||.+.++. |.|+- ..-++.=..+++.|++.|.++...+
T Consensus 2 ~~~~~~~~~~~LI~~l~~-LPGIG~Ks-----A~Rla---~~lL~~~~~~~~~la~~i~~~~~~i 57 (200)
T PRK13844 2 TSKIFSPKISAVIESLRK-LPTIGKKS-----SQRLA---LYLLDKSPETAIAIANSLLDATANI 57 (200)
T ss_pred CcccChHHHHHHHHHHHH-CCCCCHHH-----HHHHH---HHHHcCCHHHHHHHHHHHHHHHHhC
Confidence 356888899999999986 69997765 44432 2222333456777777777766554
No 68
>PF06050 HGD-D: 2-hydroxyglutaryl-CoA dehydratase, D-component ; InterPro: IPR010327 Degradation of glutamate via the hydroxyglutarate pathway involves the syn-elimination of water from 2-hydroxyglutaryl-CoA. This anaerobic process is catalysed by 2-hydroxyglutaryl-CoA dehydratase, an enzyme with two components (A and D) that reversibly associate during reaction cycles. This component contains one non-reducible [4Fe-4S]2+ cluster and a reduced riboflavin 5'-monophosphate [].; PDB: 3O3O_B 3O3N_D 3O3M_D.
Probab=31.20 E-value=2.1e+02 Score=21.40 Aligned_cols=50 Identities=18% Similarity=0.347 Sum_probs=33.5
Q ss_pred HhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHH
Q 041198 19 YDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSD 69 (93)
Q Consensus 19 ddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSe 69 (93)
++-+.-+...|+.|+|.+.+..+.+....++ .+.|.......+.+.++.+
T Consensus 98 ~~~~~y~~~ql~~li~~Le~~~G~k~~~~~L-~~~~~~~~~~~~~~~~~~~ 147 (349)
T PF06050_consen 98 EESVDYLAEQLKDLIPFLEEITGRKIDEDKL-REAIELYNEARELLREIYE 147 (349)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHTS---HHHH-HHHHHHHHHHHHHHHHHHH
T ss_pred chhHHHHHHHHHHHHHHHHHhcCCcccHHHH-HHHHHhhhhchHHHHHHHH
Confidence 3667778888999999998888888877776 7777666555544444433
No 69
>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=31.18 E-value=1.6e+02 Score=19.43 Aligned_cols=57 Identities=18% Similarity=0.219 Sum_probs=34.9
Q ss_pred hHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 041198 20 DQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELLAS 77 (93)
Q Consensus 20 dqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~s 77 (93)
+++..|....+.....+.......+++. -+...=+||..|...++..-..+..+=..
T Consensus 34 ~~l~~l~~~~~~~~~~~~~~~~~g~~~~-~l~~~~~f~~~l~~~i~~q~~~l~~~~~~ 90 (141)
T TIGR02473 34 TQLQQLIKYREEYEQQALEKVGAGTSAL-ELSNYQRFIRQLDQRIQQQQQELALLQQE 90 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555544433332334444 46677789999988888887777765444
No 70
>PRK14139 heat shock protein GrpE; Provisional
Probab=31.17 E-value=2.4e+02 Score=21.45 Aligned_cols=62 Identities=18% Similarity=0.097 Sum_probs=39.9
Q ss_pred CCCcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHhhhcC
Q 041198 15 SRISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRL-----SELLASID 79 (93)
Q Consensus 15 srisddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerL-----sqLl~s~D 79 (93)
..-.++++.++-.+|..|--++..-. ----+..-|-=||-|+.++|.++....= -.||+-+|
T Consensus 27 ~~~~~~e~~~l~~~l~~le~e~~elk---d~~lR~~AefeN~rKR~~kE~e~~~~~a~~~~~~~LLpv~D 93 (185)
T PRK14139 27 AAAAEDAAPALEAELAEAEAKAAELQ---DSFLRAKAETENVRRRAQEDVAKAHKFAIESFAESLLPVKD 93 (185)
T ss_pred ccccchhHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHh
Confidence 34556777777666655544443221 1346778899999999999999876543 33555554
No 71
>cd07135 ALDH_F14-YMR110C Saccharomyces cerevisiae aldehyde dehydrogenase family 14 and related proteins. Aldehyde dehydrogenase family 14 (ALDH14), isolated mainly from the mitochondrial outer membrane of Saccharomyces cerevisiae (YMR110C) and most closely related to the plant and animal ALDHs and fatty ALDHs family 3 members, and similar fungal sequences, are present in this CD.
Probab=30.80 E-value=2e+02 Score=23.44 Aligned_cols=50 Identities=20% Similarity=0.266 Sum_probs=35.4
Q ss_pred cHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 041198 18 SYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELLA 76 (93)
Q Consensus 18 sddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~ 76 (93)
+.+||.+.|..-++-.|..+... .+|=..+++.++..+.+-.|.|++++.
T Consensus 3 ~~~~v~~av~~A~~a~~~w~~~~---------~~~R~~~L~~~a~~l~~~~~~l~~~~~ 52 (436)
T cd07135 3 PLDEIDSIHSRLRATFRSGKTKD---------LEYRLWQLKQLYWAVKDNEEAIVEALK 52 (436)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCC---------HHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 56888888888888877665433 334466777777777777777777653
No 72
>COG1400 SEC65 Signal recognition particle 19 kDa protein [Intracellular trafficking and secretion]
Probab=30.54 E-value=1.2e+02 Score=21.15 Aligned_cols=47 Identities=19% Similarity=0.239 Sum_probs=33.9
Q ss_pred CCCCcHhHHHHHHHHHHHhc---hhhh-hhc----------cccchHHHHHHHHHHHHHHH
Q 041198 14 VSRISYDQIGDLVSKLQQLI---PELR-SRR----------SDKVSASKILQETCDYIRSL 60 (93)
Q Consensus 14 asrisddqI~dLvsKLQ~LL---P~~~-~r~----------~~~~SaskvLqETC~YIrsL 60 (93)
..+++.++|.+-+.+|.=-- |+.. .+. -+..+.+++|+.++.+|+..
T Consensus 29 V~~P~~~ei~~a~~~LGl~~~v~~dk~yPr~~w~~~g~vive~~~~K~~~lk~ia~~lr~~ 89 (93)
T COG1400 29 VENPSLEEIAEALRELGLKPKVERDKKYPRLWWEISGRVIVESNGKKSKLLKAIAAKLREK 89 (93)
T ss_pred ccCCCHHHHHHHHHHcCCCeeechhhcCCCchhhhCceEEEecCccHhHHHHHHHHHHHHh
Confidence 57889999999999886433 3332 110 22348899999999999987
No 73
>PF10191 COG7: Golgi complex component 7 (COG7); InterPro: IPR019335 The conserved oligomeric Golgi (COG) complex is an eight-subunit (Cog1-8) peripheral Golgi protein involved in membrane trafficking and glycoconjugate synthesis []. COG7 is required for normal Golgi morphology and trafficking. Mutation in COG7 causes a congenital disorder of glycosylation [].
Probab=30.46 E-value=2.1e+02 Score=25.72 Aligned_cols=59 Identities=20% Similarity=0.300 Sum_probs=42.4
Q ss_pred HhHHHHHHHHHHHhchhhhhhccccchHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 041198 19 YDQIGDLVSKLQQLIPELRSRRSDKVSASKILQ---ETCDYIRSLHREVDDLSDRLSELLASID 79 (93)
Q Consensus 19 ddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLq---ETC~YIrsLhrEVddLSerLsqLl~s~D 79 (93)
|.-+.+|+.|||-..-+++..=- -....+++ .++.-|..++.|+..|-+++..+...++
T Consensus 33 d~~ls~l~~kLql~~qe~~~~le--~~~~q~l~~~Pr~~~ev~~l~~ea~~L~~~~~~v~~~~~ 94 (766)
T PF10191_consen 33 DAHLSSLVMKLQLYSQEVNASLE--ETSQQALQRVPRVLREVDRLRQEAASLQEQMASVQEEIK 94 (766)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44699999999999888862210 02222332 5566688999999999999999888765
No 74
>cd07092 ALDH_ABALDH-YdcW Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like. NAD+-dependent, tetrameric, gamma-aminobutyraldehyde dehydrogenase (ABALDH), YdcW of Escherichia coli K12, catalyzes the oxidation of gamma-aminobutyraldehyde to gamma-aminobutyric acid. ABALDH can also oxidize n-alkyl medium-chain aldehydes, but with a lower catalytic efficiency.
Probab=30.10 E-value=2.4e+02 Score=22.57 Aligned_cols=52 Identities=15% Similarity=0.229 Sum_probs=34.0
Q ss_pred CCCcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 041198 15 SRISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELL 75 (93)
Q Consensus 15 srisddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl 75 (93)
...+.++|.+.|.+.++-.+..+... .++=+.+++.+...+.+-.|.|++++
T Consensus 14 ~~~~~~~v~~av~~a~~a~~~w~~~~---------~~~R~~~L~~~~~~l~~~~~~l~~~~ 65 (450)
T cd07092 14 PDASAADVDAAVAAAHAAFPSWRRTT---------PAERSKALLKLADAIEENAEELAALE 65 (450)
T ss_pred eCCCHHHHHHHHHHHHHHHHHHhcCC---------HHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 44678999999999999888775443 23334555555555555555555543
No 75
>smart00099 btg1 tob/btg1 family. The tob/btg1 is a family of proteins that inhibit cell proliferation.
Probab=29.92 E-value=1.1e+02 Score=21.61 Aligned_cols=27 Identities=30% Similarity=0.593 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHH--------HHHHHHHHHHHHHhh
Q 041198 50 LQETCDYIRSLH--------REVDDLSDRLSELLA 76 (93)
Q Consensus 50 LqETC~YIrsLh--------rEVddLSerLsqLl~ 76 (93)
+++++|||-+|= +.|+..++.|..+|.
T Consensus 5 I~~av~Fl~~~l~~~~~l~~~~v~~F~~~L~~~L~ 39 (108)
T smart00099 5 IAAAVNFITSLLRKHNKLSKRRVEIFAEKLTRLLK 39 (108)
T ss_pred HHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence 456778877775 678888888888664
No 76
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=29.38 E-value=56 Score=22.13 Aligned_cols=20 Identities=20% Similarity=0.526 Sum_probs=16.5
Q ss_pred CCCcHhHHHHHHHHHHHhch
Q 041198 15 SRISYDQIGDLVSKLQQLIP 34 (93)
Q Consensus 15 srisddqI~dLvsKLQ~LLP 34 (93)
..++++|+..+..-|+.++|
T Consensus 125 ~~ls~ee~~~l~~~L~ki~~ 144 (144)
T PRK11512 125 KNLTADEVATLEHLLKKVLP 144 (144)
T ss_pred ccCCHHHHHHHHHHHHHHcC
Confidence 46888888888888888887
No 77
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=29.38 E-value=1.4e+02 Score=21.74 Aligned_cols=39 Identities=18% Similarity=0.261 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhhcCCCcHHH
Q 041198 47 SKILQETCDYIRSLHREVDDLSDRLSE-LLASIDSNSAEA 85 (93)
Q Consensus 47 skvLqETC~YIrsLhrEVddLSerLsq-Ll~s~D~ns~~a 85 (93)
.++-++--..++.|..++++++..+.+ |+.++|-+....
T Consensus 134 ~~I~~~k~~a~~~l~~~a~~lA~~i~~kL~~~~~~~~~~~ 173 (181)
T PRK13454 134 KRIAEIRAGALESVEEVAKDTAEALVAALGGKADAAAVDA 173 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHHHH
Confidence 556666667788999999999999866 777765444433
No 78
>KOG0810 consensus SNARE protein Syntaxin 1 and related proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=29.05 E-value=2.4e+02 Score=22.86 Aligned_cols=49 Identities=20% Similarity=0.317 Sum_probs=34.7
Q ss_pred CCCcHhHHHHHHH------HHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041198 15 SRISYDQIGDLVS------KLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSEL 74 (93)
Q Consensus 15 srisddqI~dLvs------KLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqL 74 (93)
...+||+|.++++ ++|.+++.. ..-+.|.+=|+.=|.||.+|-.-+.+|
T Consensus 164 ~~~~de~ie~~ie~g~~~~f~~~~i~~~-----------~~~~~~l~Eiq~Rh~~ik~LEksi~EL 218 (297)
T KOG0810|consen 164 EETTDEEIEEMIESGGSEVFTQKAIQDR-----------GQAKQTLAEIQERHDEIKKLEKSIREL 218 (297)
T ss_pred CcCChHHHHHHHHCCChHHHHHHHHHHh-----------hhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4689999999986 566666622 122466777788888888887777665
No 79
>PLN03227 serine palmitoyltransferase-like protein; Provisional
Probab=28.87 E-value=65 Score=25.54 Aligned_cols=18 Identities=17% Similarity=0.364 Sum_probs=16.2
Q ss_pred cHhHHHHHHHHHHHhchh
Q 041198 18 SYDQIGDLVSKLQQLIPE 35 (93)
Q Consensus 18 sddqI~dLvsKLQ~LLP~ 35 (93)
|+|||.+++..|.+.+.+
T Consensus 365 t~eei~~~~~~l~~~~~~ 382 (392)
T PLN03227 365 TREDIDKLLTVLGEAVEA 382 (392)
T ss_pred CHHHHHHHHHHHHHHHHH
Confidence 999999999999998754
No 80
>TIGR03791 TTQ_mauG tryptophan tryptophylquinone biosynthesis enzyme MauG. Members of this protein family are the tryptophan tryptophylquinone biosynthesis (TTQ) enzyme MauG, as found in Methylobacterium extorquens and related species. This protein is required to complete the maturation of the TTQ cofactor in the methylamine dehydrogenase light (beta) chain.
Probab=28.81 E-value=46 Score=26.49 Aligned_cols=19 Identities=21% Similarity=0.274 Sum_probs=16.8
Q ss_pred CCcHhHHHHHHHHHHHhch
Q 041198 16 RISYDQIGDLVSKLQQLIP 34 (93)
Q Consensus 16 risddqI~dLvsKLQ~LLP 34 (93)
.+|++||.+||..|..|=-
T Consensus 262 ~Lt~~E~~dLvaFL~tLt~ 280 (291)
T TIGR03791 262 ELSEREREDLIAFIETLDA 280 (291)
T ss_pred CCCHHHHHHHHHHHHhcCC
Confidence 6899999999999998743
No 81
>PF02049 FliE: Flagellar hook-basal body complex protein FliE; InterPro: IPR001624 Four genes from the major Bacillus subtilis chemotaxis locus have been shown to encode proteins that are similar to the Salmonella typhimurium FlgB, FlgC, FlgG and FliF proteins; a further gene product is similar to the Escherichia coli FliE protein []. All of these proteins are thought to form part of the hook-basal body complex of the bacterial flagella []. The FlgB, FlgC and FlgG proteins are components of the proximal and distal rods; FliF forms the M-ring that anchors the rod assembly to the membrane; but the role of FliE has not yet been determined []. The similarity between the proteins in these two organisms suggests that the structures of the M-ring and the rod may be similar []. Nevertheless, some differences in size and amino acid composition between some of the homologues suggest the basal body proteins may be organised slightly differently within B. subtilis []. From gel electrophoresis and autoradiography of 35S-labelled S. typhimurium hook-basal body complexes and the deduced number of sulphur-containing residues in FliE, the stoichiometry of the protein in the hook-basal body complex has been estimated to be about nine subunits []. FliE does not undergo cleavage of a signal peptide, nor does it show any similarity to the axial components like the rod or hook proteins, which are thought to be exported by the flagellum-specific export pathway []. On this evidence, it has been suggested that FliE may be in the vicinity of the MS ring, perhaps acting as an adaptor protein between ring and rod substructures [].; GO: 0003774 motor activity, 0005198 structural molecule activity, 0001539 ciliary or flagellar motility, 0009288 bacterial-type flagellum
Probab=28.67 E-value=1.6e+02 Score=19.43 Aligned_cols=32 Identities=16% Similarity=0.346 Sum_probs=28.3
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041198 41 SDKVSASKILQETCDYIRSLHREVDDLSDRLS 72 (93)
Q Consensus 41 ~~~~SaskvLqETC~YIrsLhrEVddLSerLs 72 (93)
....+-+.+|+.+.+-+...+.+.+++.+.+.
T Consensus 22 ~~~~~F~~~l~~al~~vn~~q~~a~~~~~~~~ 53 (96)
T PF02049_consen 22 AGGASFSDVLKNALDEVNQTQQQADQMAQAFA 53 (96)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45669999999999999999999999987765
No 82
>cd00179 SynN Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may be identified by a specific member of the syntaxin family; syntaxins contain a moderately well conserved amino-terminal domain, called Habc, whose structure is an antiparallel three-helix bundle; a linker of about 30 amino acids connects this to the carboxy-terminal region, designated H3 (t_SNARE), of the syntaxin cytoplasmic domain; the highly conserved H3 region forms a single, long alpha-helix when it is part of the core SNARE complex and anchors the protein on the cytoplasmic surface of cellular membranes; H3 is not included in defining this domain
Probab=28.66 E-value=1.8e+02 Score=19.41 Aligned_cols=54 Identities=24% Similarity=0.323 Sum_probs=29.5
Q ss_pred hHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041198 20 DQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSE 73 (93)
Q Consensus 20 dqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsq 73 (93)
.+|+..|..|+.+.-.+......-....+-|.+....|+.+.+++..+=+.|.+
T Consensus 16 ~~i~~~v~~l~~l~~~~~t~~~~~~~~~~~l~~~~~~~~~~~~~ik~~lk~l~~ 69 (151)
T cd00179 16 DKISEDVEELQKLHSQLLTAPDADPELKQELESLVQEIKKLAKEIKGKLKELEE 69 (151)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456777777777776664333211134455555555555555555555444444
No 83
>PRK14162 heat shock protein GrpE; Provisional
Probab=28.60 E-value=2.7e+02 Score=21.29 Aligned_cols=35 Identities=14% Similarity=0.161 Sum_probs=26.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHhhhcC
Q 041198 45 SASKILQETCDYIRSLHREVDDLSDR-----LSELLASID 79 (93)
Q Consensus 45 SaskvLqETC~YIrsLhrEVddLSer-----LsqLl~s~D 79 (93)
-..+.+-|.=||-|+..+|.+++... +..||+-+|
T Consensus 61 ~~lR~~AEfeN~rkR~~kE~e~~~~~a~~~~~~~LLpV~D 100 (194)
T PRK14162 61 KYLRSQAEIQNMQNRYAKERAQLIKYESQSLAKDVLPAMD 100 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHh
Confidence 34678889999999999999987765 333665555
No 84
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=28.35 E-value=2.2e+02 Score=24.50 Aligned_cols=16 Identities=25% Similarity=0.688 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHhchhh
Q 041198 21 QIGDLVSKLQQLIPEL 36 (93)
Q Consensus 21 qI~dLvsKLQ~LLP~~ 36 (93)
++++.+.+|++..|..
T Consensus 54 ~~~~~l~~L~~~~~~~ 69 (646)
T PRK05771 54 KLSEALDKLRSYLPKL 69 (646)
T ss_pred HHHHHHHHHHHhcccc
Confidence 4666677777776654
No 85
>PRK13694 hypothetical protein; Provisional
Probab=28.34 E-value=2.1e+02 Score=19.85 Aligned_cols=48 Identities=19% Similarity=0.355 Sum_probs=38.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcHHHHHHHHhh
Q 041198 45 SASKILQETCDYIRSLHREVDDLSDRLSELLASIDSNSAEAAIIRSLL 92 (93)
Q Consensus 45 SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~D~ns~~a~iirsLL 92 (93)
-|+.-|.--..-|.+|..|-+++++...++.+-.-.+.-+..++|..+
T Consensus 9 va~~~Lr~fIERIERLEeEkk~i~~dikdVyaEAK~~GfD~K~~r~ii 56 (83)
T PRK13694 9 VAKEQLRAFIERIERLEEEKKTISDDIKDVYAEAKGNGFDVKALKTII 56 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcHHHHHHHH
Confidence 466778888888999999999999999999988766666666666543
No 86
>PF08663 HalX: HalX domain; InterPro: IPR013971 HalX is a protein of unknown function, previously mis-annotated as HoxA-like transcriptional regulator. It is C-terminal to a CheY-like superfamily domain and suggests a role as a response regulator.
Probab=28.29 E-value=1.1e+02 Score=19.96 Aligned_cols=24 Identities=21% Similarity=0.512 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhcCCC
Q 041198 58 RSLHREVDDLSDRLSELLASIDSN 81 (93)
Q Consensus 58 rsLhrEVddLSerLsqLl~s~D~n 81 (93)
..|..++++|...|-+.++.+|.+
T Consensus 39 ~eL~~ri~~lr~~ld~~~~~~d~~ 62 (71)
T PF08663_consen 39 QELEDRIEELRAELDDTLDEFDDD 62 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHhcchh
Confidence 456777777777777777777755
No 87
>cd05134 RasGAP_RASA3 RASA3 (or GAP1_IP4BP) is a member of the GAP1 family and has been shown to specifically bind 1,3,4,5-tetrakisphosphate (IP4). Thus, RASA3 may function as an IP4 receptor. The members of GAP1 family are characterized by a conserved domain structure comprising N-terminal tandem C2 domains, a highly conserved central RasGAP domain, and a C-terminal pleckstrin-homology domain that is associated with a Bruton's tyrosine kinase motif. Purified RASA3 stimulates GAP activity on Ras with about a five-fold lower potency than p120RasGAP, but shows no GAP-stimulating activity at all against Rac or Rab3A.
Probab=28.26 E-value=76 Score=25.83 Aligned_cols=45 Identities=24% Similarity=0.310 Sum_probs=31.5
Q ss_pred HHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 041198 28 KLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELLASID 79 (93)
Q Consensus 28 KLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~D 79 (93)
-|+.||=+.-.-..-.+|++-+|.|.|. |+++|+--|-.++...+
T Consensus 5 ~l~~ll~~s~~~~p~~~s~~~~l~~v~~-------~~~elA~~Lv~if~~~~ 49 (310)
T cd05134 5 PLRDLLLKSADVEPVSASAAHILGEVCR-------EKQEAAIPLVRLFLHYG 49 (310)
T ss_pred HHHHHHHhCcccCCcchhHHHHHHHhCc-------cHHHHHHHHHHHHHhcC
Confidence 3566665553222233789999999998 67888888888777654
No 88
>PF02888 CaMBD: Calmodulin binding domain; InterPro: IPR004178 Small-conductance Ca2+-activated K+ channels (SK channels) are independent of voltage and gated solely by intracellular Ca2+. These membrane channels are heteromeric complexes that comprise pore-forming alpha-subunits and the Ca2+-binding protein calmodulin (CaM) []. CaM binds to the SK channel through this the CaM-binding domain (CaMBD), which is located in an intracellular region of the alpha-subunit immediately carboxy-terminal to the pore. Channel opening is triggered when Ca2+ binds the EF hands in the N-lobe of CaM. The structure of this domain complexed with CaM is known []. This domain forms an elongated dimer with a CaM molecule bound at each end; each CaM wraps around three alpha-helices, two from one CaMBD subunit and one from the other.; GO: 0005516 calmodulin binding, 0015269 calcium-activated potassium channel activity, 0006813 potassium ion transport, 0016021 integral to membrane; PDB: 1G4Y_B 1QX7_D 3SJQ_D 2PNV_A 1KKD_A.
Probab=28.17 E-value=33 Score=23.27 Aligned_cols=17 Identities=29% Similarity=0.338 Sum_probs=12.9
Q ss_pred cchHHHHHHHHHHHHHH
Q 041198 43 KVSASKILQETCDYIRS 59 (93)
Q Consensus 43 ~~SaskvLqETC~YIrs 59 (93)
|-+||.|||||--.-+-
T Consensus 9 K~aAAnVLretWliyK~ 25 (77)
T PF02888_consen 9 KNAAANVLRETWLIYKH 25 (77)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 34899999999765543
No 89
>TIGR02603 CxxCH_TIGR02603 putative heme-binding domain, Pirellula/Verrucomicrobium type. This model represents a domain limited to very few species but expanded into large paralogous families in some species that conain it. We find it in over 20 copies each in Pirellula sp. strain 1 (phylum Planctomycetes) and Verrucomicrobium spinosum DSM 4136 (phylum Verrucomicrobia), and no matches above trusted cutoff an any other species so far. This domain, about 140 amino acids long, contains an absolutely conserved motif CxxCH, the cytochrome c family heme-binding site signature (PS00190).
Probab=28.14 E-value=49 Score=22.75 Aligned_cols=18 Identities=33% Similarity=0.477 Sum_probs=15.8
Q ss_pred CCCcHhHHHHHHHHHHHh
Q 041198 15 SRISYDQIGDLVSKLQQL 32 (93)
Q Consensus 15 srisddqI~dLvsKLQ~L 32 (93)
..+|++||.||+..|+.|
T Consensus 116 ~~Lt~~e~~dL~aYL~s~ 133 (133)
T TIGR02603 116 MGLSDQDLADLVAYLKSL 133 (133)
T ss_pred ccCCHHHHHHHHHHHhhC
Confidence 579999999999999864
No 90
>PF10044 Ret_tiss: Retinal tissue protein; InterPro: IPR018737 Rtp is a family of proteins of approximately 112 amino acids in length which is conserved from nematodes to humans. The proposed tertiary structure is of almost entirely alpha helix interrupted only by loops located at proline residues. Three sites in the protein sequence reveal two types of possible post-translation modification. A serine residue, at position 41, is a candidate for protein kinase C phosphorylation. Glycine residues at position 69 and 91 are probable sites for acetylation by covalent amide linkage of myristate via N-myristoyl transferase. Rtp is differentially expressed in the trout retina between parr and smolt developmental stages (smoltification). It is likely to be a house-keeping protein [].
Probab=28.07 E-value=55 Score=22.78 Aligned_cols=18 Identities=22% Similarity=0.233 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 041198 53 TCDYIRSLHREVDDLSDR 70 (93)
Q Consensus 53 TC~YIrsLhrEVddLSer 70 (93)
-..|||.||.++=.|+-+
T Consensus 63 L~~~Ik~L~~~aYqLGl~ 80 (95)
T PF10044_consen 63 LIEKIKKLQDEAYQLGLE 80 (95)
T ss_pred HHHHHHHHHHHHHHHhHH
Confidence 346788888887776643
No 91
>PRK14011 prefoldin subunit alpha; Provisional
Probab=28.03 E-value=1.2e+02 Score=22.14 Aligned_cols=25 Identities=24% Similarity=0.395 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 041198 50 LQETCDYIRSLHREVDDLSDRLSEL 74 (93)
Q Consensus 50 LqETC~YIrsLhrEVddLSerLsqL 74 (93)
||+-..|+..++.|++.|+..+..|
T Consensus 5 lq~~~~~l~~~~~qie~L~~si~~L 29 (144)
T PRK14011 5 LQNQFMALEVYNQQVQKLQEELSSI 29 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556667777777777777776664
No 92
>PF01166 TSC22: TSC-22/dip/bun family; InterPro: IPR000580 Several eukaryotic proteins are evolutionary related and are thought to be involved in transcriptional regulation. These proteins are highly similar in a region of about 50 residues that include a conserved leucine-zipper domain most probably involved in homo- or hetero-dimerisation. Proteins containing this signature include: Vertebrate protein TSC-22 [], a transcriptional regulator which seems to act on C-type natriuretic peptide (CNP) promoter. Mammalian protein DIP (DSIP-immunoreactive peptide) [], a protein whose function is not yet known. Drosophila protein bunched [] (gene bun) (also known as shortsighted), a probable transcription factor required for peripheral nervous system morphogenesis, eye development and oogenesis. Caenorhabditis elegans hypothetical protein T18D3.7. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1DIP_B.
Probab=27.94 E-value=36 Score=22.28 Aligned_cols=30 Identities=20% Similarity=0.348 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHhhhcCCCcHHHHHHHH
Q 041198 61 HREVDDLSDRLSELLASIDSNSAEAAIIRS 90 (93)
Q Consensus 61 hrEVddLSerLsqLl~s~D~ns~~a~iirs 90 (93)
+.|||-|-+++++|.+...-=-.+-.++|+
T Consensus 13 rEEVevLK~~I~eL~~~n~~Le~EN~~Lk~ 42 (59)
T PF01166_consen 13 REEVEVLKEQIAELEERNSQLEEENNLLKQ 42 (59)
T ss_dssp TTSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 578888888888888765432333444443
No 93
>cd07149 ALDH_y4uC Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1. Uncharacterized aldehyde dehydrogenase (ORF name y4uC) with sequence similarity to the moss Tortula ruralis aldehyde dehydrogenase ALDH21A1 (RNP123) believed to play an important role in the detoxification of aldehydes generated in response to desiccation- and salinity-stress, and similar sequences are included in this CD.
Probab=27.92 E-value=2.8e+02 Score=22.08 Aligned_cols=25 Identities=12% Similarity=0.154 Sum_probs=20.0
Q ss_pred CCCcHhHHHHHHHHHHHhchhhhhh
Q 041198 15 SRISYDQIGDLVSKLQQLIPELRSR 39 (93)
Q Consensus 15 srisddqI~dLvsKLQ~LLP~~~~r 39 (93)
...+.+++.+.|.+.++-.+..+..
T Consensus 16 ~~~~~~~v~~av~~A~~A~~~w~~~ 40 (453)
T cd07149 16 PVASEEDVEKAIAAAKEGAKEMKSL 40 (453)
T ss_pred eCCCHHHHHHHHHHHHHHHHHHhcC
Confidence 4457899999999999988877544
No 94
>KOG3923 consensus D-aspartate oxidase [Amino acid transport and metabolism]
Probab=27.60 E-value=41 Score=28.44 Aligned_cols=24 Identities=25% Similarity=0.375 Sum_probs=22.3
Q ss_pred CCCcHhHHHHHHHHHHHhchhhhh
Q 041198 15 SRISYDQIGDLVSKLQQLIPELRS 38 (93)
Q Consensus 15 srisddqI~dLvsKLQ~LLP~~~~ 38 (93)
..|+++..+|.+++-++|.|.++.
T Consensus 252 ~ei~~~D~~dIl~rc~aL~P~l~~ 275 (342)
T KOG3923|consen 252 LEITDEDRRDILERCCALEPSLRH 275 (342)
T ss_pred CcCChhhHHHHHHHHHHhCccccc
Confidence 679999999999999999999975
No 95
>PF08453 Peptidase_M9_N: Peptidase family M9 N-terminal; InterPro: IPR013661 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This domain is found in microbial collagenase metalloproteases to the N terminus of IPR013510 from INTERPRO. Proteins containing this domain belong tp MEROPS peptidase family M9, subfamilies M9A and M9B (microbial collagenase, clan MA(E)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA and the predicted active site residues for members of this family and thermolysin occur in the motif HEXXH []. Microbial collagenases have been identified from bacteria of both the Vibrio and Clostridium genuses. Collagenase is used during bacterial attack to degrade the collagen barrier of the host during invasion. Vibrio bacteria are non-pathogenic, and are sometimes used in hospitals to remove dead tissue from burns and ulcers. Clostridium histolyticum is a pathogen that causes gas gangrene; nevertheless, the isolated collagenase has been used to treat bed sores. Collagen cleavage occurs at an Xaa+Gly in Vibrio bacteria and at Yaa+Gly bonds in Clostridium collagenases. Analysis of the primary structure of the gene product from Clostridium perfringens has revealed that the enzyme is produced with a stretch of 86 residues that contain a putative signal sequence []. Within this stretch is found PLGP, an amino acid sequence typical of collagenase substrates. This sequence may thus be implicated in self-processing of the collagenase [].; GO: 0004252 serine-type endopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis, 0005576 extracellular region; PDB: 2Y3U_A 2Y6I_A 2Y50_A.
Probab=27.43 E-value=1.1e+02 Score=22.66 Aligned_cols=75 Identities=16% Similarity=0.286 Sum_probs=46.9
Q ss_pred CcHhHHHHHHHHHHHhchhhhhhccccc-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hh----------cCCCcHH
Q 041198 17 ISYDQIGDLVSKLQQLIPELRSRRSDKV-SASKILQETCDYIRSLHREVDDLSDRLSELL-AS----------IDSNSAE 84 (93)
Q Consensus 17 isddqI~dLvsKLQ~LLP~~~~r~~~~~-SaskvLqETC~YIrsLhrEVddLSerLsqLl-~s----------~D~ns~~ 84 (93)
++++.|..++..|.++.+.-....+... .-..+| -+-=|++-=|.||.++++.+++-+ +. .|.+..|
T Consensus 41 ~se~~m~~Va~~l~~~a~~Y~g~~~~~i~~L~e~L-RAgyYv~~y~~~l~~~~~~~~~~~~~al~af~~np~~~~~t~~q 119 (190)
T PF08453_consen 41 FSEANMQAVANALAQLAAQYTGDDAKGIENLVEFL-RAGYYVQYYNDELGYYSSALSQAVRPALDAFFANPNFFDGTDEQ 119 (190)
T ss_dssp H-HHHHHHHHHHHHHHHHH--SS--TTHHHHHHHH-HHHHHHHHHSTTSCCCTSHHHHGGHHHHHHHHHSTTGSS-SHHH
T ss_pred hHHHHHHHHHHHHHHHHhhCCCCchhhHHHHHHHH-HHHHHHhhcccccccccHHHHHHHHHHHHHHHhCchhhhcchhH
Confidence 6788899999999998888765553222 222222 234477778899988888887722 22 2557788
Q ss_pred HHHHHHhh
Q 041198 85 AAIIRSLL 92 (93)
Q Consensus 85 a~iirsLL 92 (93)
..++.+++
T Consensus 120 ~~vl~e~~ 127 (190)
T PF08453_consen 120 GKVLKELG 127 (190)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 88888764
No 96
>PRK00294 hscB co-chaperone HscB; Provisional
Probab=27.14 E-value=2.6e+02 Score=20.66 Aligned_cols=19 Identities=32% Similarity=0.634 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 041198 54 CDYIRSLHREVDDLSDRLS 72 (93)
Q Consensus 54 C~YIrsLhrEVddLSerLs 72 (93)
.-|+.+|+.||+.+.|.|.
T Consensus 154 l~f~~kl~~ei~~~~~~l~ 172 (173)
T PRK00294 154 MQFLDKLAQEVRQLEERLD 172 (173)
T ss_pred HHHHHHHHHHHHHHHHHhh
Confidence 5688888888888877763
No 97
>PHA01735 hypothetical protein
Probab=27.01 E-value=1.3e+02 Score=20.55 Aligned_cols=40 Identities=30% Similarity=0.596 Sum_probs=24.5
Q ss_pred CCCcHhHHHHHHHHHHHhch-hh-hhhccccchHHHHHHHHHHHHHH
Q 041198 15 SRISYDQIGDLVSKLQQLIP-EL-RSRRSDKVSASKILQETCDYIRS 59 (93)
Q Consensus 15 srisddqI~dLvsKLQ~LLP-~~-~~r~~~~~SaskvLqETC~YIrs 59 (93)
+|-++||+++| .++|- |+ ++..+..+.++ =|.-+|.|+++
T Consensus 3 krA~ee~fs~L----H~~lt~El~~RiksgeATta-DL~AA~d~Lk~ 44 (76)
T PHA01735 3 KRATEEQFDEL----HQLLTNELLSRIKSGEATTA-DLRAACDWLKS 44 (76)
T ss_pred ccchHHHHHHH----HHHHHHHHHHHHhcCcccHH-HHHHHHHHHHH
Confidence 56778887765 44444 34 23334444444 47889999886
No 98
>cd07093 ALDH_F8_HMSADH Human aldehyde dehydrogenase family 8 member A1-like. In humans, the aldehyde dehydrogenase family 8 member A1 (ALDH8A1) protein functions to convert 9-cis-retinal to 9-cis-retinoic acid and has a preference for NAD+. Also included in this CD is the 2-hydroxymuconic semialdehyde dehydrogenase (HMSADH) which catalyzes the conversion of 2-hydroxymuconic semialdehyde to 4-oxalocrotonate, a step in the meta cleavage pathway of aromatic hydrocarbons in bacteria. Such HMSADHs seen here are: XylG of the TOL plasmid pWW0 of Pseudomonas putida, TomC of Burkholderia cepacia G4, and AphC of Comamonas testosterone.
Probab=27.01 E-value=3.3e+02 Score=21.81 Aligned_cols=52 Identities=12% Similarity=0.144 Sum_probs=33.2
Q ss_pred CCCcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 041198 15 SRISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELL 75 (93)
Q Consensus 15 srisddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl 75 (93)
...+.++|.+.|.+.++-.+..+... .++=+.+++.+...+.+=.+.|++++
T Consensus 14 ~~~~~~~v~~av~~A~~A~~~w~~~~---------~~~R~~~L~~~a~~l~~~~~ela~~~ 65 (455)
T cd07093 14 PEGGAAEVDAAVAAAKEAFPGWSRMS---------PAERARILHKVADLIEARADELALLE 65 (455)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHhhCC---------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55788999999999999888876544 22334445555555544445554433
No 99
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=26.99 E-value=2.3e+02 Score=19.88 Aligned_cols=48 Identities=17% Similarity=0.352 Sum_probs=35.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH-Hhhh-cCCCcHHHHHHHHhh
Q 041198 45 SASKILQETCDYIRSLHREVDDLSDRLSE-LLAS-IDSNSAEAAIIRSLL 92 (93)
Q Consensus 45 SaskvLqETC~YIrsLhrEVddLSerLsq-Ll~s-~D~ns~~a~iirsLL 92 (93)
....+-+|--..+..|+.||.+++--+++ +|.. +|-.+.+..+|...+
T Consensus 109 a~~~i~~ek~~a~~~l~~~i~~la~~~a~kil~~~l~~~~~~~~lid~~i 158 (164)
T PRK14471 109 AKASIESEKNAAMAEIKNQVANLSVEIAEKVLRKELSNKEKQHKLVEKML 158 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcHhHHHHHHHHHH
Confidence 34556777788889999999999999988 4443 544356777777654
No 100
>PF10474 DUF2451: Protein of unknown function C-terminus (DUF2451); InterPro: IPR019514 This protein is found in eukaryotes but its function is not known. The N-terminal domain of some members is PF10475 from PFAM (DUF2450).
Probab=26.84 E-value=1.5e+02 Score=22.80 Aligned_cols=32 Identities=22% Similarity=0.361 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcH
Q 041198 52 ETCDYIRSLHREVDDLSDRLSELLASIDSNSA 83 (93)
Q Consensus 52 ETC~YIrsLhrEVddLSerLsqLl~s~D~ns~ 83 (93)
+--.||..|.+|+..+++||.++-....++.+
T Consensus 89 qhs~YVd~l~~~~~~f~~rL~~i~~~~~i~~~ 120 (234)
T PF10474_consen 89 QHSSYVDQLVQEFQQFSERLDEISKQGPIPPE 120 (234)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHhcCCCCHH
Confidence 34579999999999999999998888877655
No 101
>COG0598 CorA Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]
Probab=26.78 E-value=3.1e+02 Score=21.40 Aligned_cols=45 Identities=24% Similarity=0.383 Sum_probs=33.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC--CCcHHHHHHH
Q 041198 45 SASKILQETCDYIRSLHREVDDLSDRLSELLASID--SNSAEAAIIR 89 (93)
Q Consensus 45 SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~D--~ns~~a~iir 89 (93)
.....+++.-.++.++-..++-++++|+.|++... +|..+-+++.
T Consensus 217 ~~~~~l~dv~~~~~~~~~~~~~~~~~l~~l~d~~~s~is~~~N~imk 263 (322)
T COG0598 217 EDREYLRDVLDHLTQLIEMLEALRERLSSLLDAYLSLINNNQNEIMK 263 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667788888888888888888899998888765 2555555554
No 102
>cd07152 ALDH_BenzADH NAD-dependent benzaldehyde dehydrogenase II-like. NAD-dependent, benzaldehyde dehydrogenase II (XylC, BenzADH, EC=1.2.1.28) is involved in the oxidation of benzyl alcohol to benzoate. In Acinetobacter calcoaceticus, this process is carried out by the chromosomally encoded, benzyl alcohol dehydrogenase (xylB) and benzaldehyde dehydrogenase II (xylC) enzymes; whereas in Pseudomonas putida they are encoded by TOL plasmids.
Probab=26.26 E-value=3.1e+02 Score=22.05 Aligned_cols=50 Identities=6% Similarity=0.110 Sum_probs=31.5
Q ss_pred CCcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041198 16 RISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSEL 74 (93)
Q Consensus 16 risddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqL 74 (93)
.-+.++|.+.|.+-++-.|+.++.. ..+=+.|++.+...+.+-.+.|+++
T Consensus 9 ~~~~~~v~~av~~A~~A~~~w~~~~---------~~~R~~~L~~~a~~l~~~~~ela~~ 58 (443)
T cd07152 9 VADAADVDRAAARAAAAQRAWAATP---------PRERAAVLRRAADLLEEHADEIADW 58 (443)
T ss_pred CCCHHHHHHHHHHHHHHHHHHhcCC---------HHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 4578999999999999888775543 1233444555555554555555544
No 103
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=26.25 E-value=1.9e+02 Score=18.75 Aligned_cols=37 Identities=16% Similarity=0.293 Sum_probs=21.9
Q ss_pred hHHHHHHHHHHHhchhhhhhccc-cchHHHHHHHHHHH
Q 041198 20 DQIGDLVSKLQQLIPELRSRRSD-KVSASKILQETCDY 56 (93)
Q Consensus 20 dqI~dLvsKLQ~LLP~~~~r~~~-~~SaskvLqETC~Y 56 (93)
.-|.|+..++...+|..+.-+.+ ....-.+++.+++.
T Consensus 6 ~~~d~~~~~~~~~~~~~~~~~~e~e~~~r~~l~~~l~k 43 (79)
T PF04380_consen 6 KIFDDLAKQISEALPAAQGPREEIEKNIRARLQSALSK 43 (79)
T ss_pred hHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHH
Confidence 45778888888888876433321 22344455655554
No 104
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=26.01 E-value=1.6e+02 Score=20.76 Aligned_cols=60 Identities=28% Similarity=0.391 Sum_probs=28.2
Q ss_pred CcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHH----HHHHHHHHHHH-Hhhhc
Q 041198 17 ISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHR----EVDDLSDRLSE-LLASI 78 (93)
Q Consensus 17 isddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhr----EVddLSerLsq-Ll~s~ 78 (93)
+..+...+++..|+++++.+...-++ .-++|.+++|..|..|-. +++...+.+-. |+..+
T Consensus 39 ~~~~~~~~~~~~l~~~~~~i~~~l~d--~Rs~v~~~A~~~l~~l~~~l~~~~~~~~~~~l~~Ll~~~ 103 (228)
T PF12348_consen 39 APEDFPPDFVECLRQLLDAIIKQLSD--LRSKVSKTACQLLSDLARQLGSHFEPYADILLPPLLKKL 103 (228)
T ss_dssp B-----HHHHHHHH---HHHHH-S-H--H---HHHHHHHHHHHHHHHHGGGGHHHHHHHHHHHHHGG
T ss_pred CccccHHHHHHHHHHhHHHHHHHHhh--hHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHHHHH
Confidence 34567778888888666666432222 225688899988776644 44444444333 44443
No 105
>TIGR01280 xseB exodeoxyribonuclease VII, small subunit. This protein is the small subunit for exodeoxyribonuclease VII. Exodeoxyribonuclease VII is made of a complex of four small subunits to one large subunit. The complex degrades single-stranded DNA into large acid-insoluble oligonucleotides. These nucleotides are then degraded further into acid-soluble oligonucleotides.
Probab=25.93 E-value=1.8e+02 Score=18.46 Aligned_cols=57 Identities=19% Similarity=0.300 Sum_probs=44.2
Q ss_pred HHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 041198 23 GDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELLASID 79 (93)
Q Consensus 23 ~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~D 79 (93)
.+-+.+|..++-.+..-.-+=--+-+..++...+++..+...++.-.++..|++.-+
T Consensus 4 Ee~l~~Le~Iv~~LE~~~l~Leesl~lyeeG~~L~k~c~~~L~~ae~kv~~l~~~~~ 60 (67)
T TIGR01280 4 EEALSELEQIVQKLESGDLALEEALNLFERGMALARRCEKKLAQAEQRVRKLLKEDD 60 (67)
T ss_pred HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 456677777777775444333367788999999999999999999999999887654
No 106
>cd02062 Nitro_FMN_reductase Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are described as NAD(P)H:FMN oxidoreductases, oxygen-insensitive nitroreductase, flavin reductase P, dihydropteridine reductase, NADH oxidase or NADH dehydrogenase.
Probab=25.87 E-value=1.1e+02 Score=19.09 Aligned_cols=27 Identities=4% Similarity=0.080 Sum_probs=19.7
Q ss_pred CCCCCcHhHHHHHHHHHHHhchhhhhhc
Q 041198 13 GVSRISYDQIGDLVSKLQQLIPELRSRR 40 (93)
Q Consensus 13 ~asrisddqI~dLvsKLQ~LLP~~~~r~ 40 (93)
....|++++|.+++.-.+ ..|...++.
T Consensus 11 ~~~~i~~~~l~~l~~~~~-~aPs~~n~q 37 (122)
T cd02062 11 TDEPVPEEVLEKILEAAR-YAPSGGNLQ 37 (122)
T ss_pred CCCCCCHHHHHHHHHHHH-hCCCcCCCC
Confidence 346899999999998765 557765444
No 107
>cd01173 pyridoxal_pyridoxamine_kinase Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and require its precursors in the form of vitamin B6 (pyridoxal, pyridoxine, and pyridoxamine) from their diet. Pyridoxal kinase encoding genes are also found in many other species including yeast and bacteria.
Probab=25.82 E-value=2.6e+02 Score=20.18 Aligned_cols=49 Identities=14% Similarity=0.229 Sum_probs=30.3
Q ss_pred CCCCcHhHHHHHHHHHHHhc--hhhhhhccccchHHHHHHHHHHHHHHHHH
Q 041198 14 VSRISYDQIGDLVSKLQQLI--PELRSRRSDKVSASKILQETCDYIRSLHR 62 (93)
Q Consensus 14 asrisddqI~dLvsKLQ~LL--P~~~~r~~~~~SaskvLqETC~YIrsLhr 62 (93)
...++++++.+++..+..+. .+..---..-.+.....+..+.+++..+.
T Consensus 49 ~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~G~l~~~~~~~~~~~~l~~~~~ 99 (254)
T cd01173 49 GFVLSAEELEDLLEGLEALGLLLEYDAVLTGYLGSAEQVEAVAEIVKRLKE 99 (254)
T ss_pred CeecCHHHHHHHHHHHHHcCCcccCCEEEEecCCCHHHHHHHHHHHHHHHH
Confidence 46689999999999999875 33322112222334555666666666554
No 108
>PRK14552 C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional
Probab=25.50 E-value=1.3e+02 Score=25.29 Aligned_cols=34 Identities=15% Similarity=0.283 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCC
Q 041198 47 SKILQETCDYIRSLHREVDDLSDRLSELLASIDS 80 (93)
Q Consensus 47 skvLqETC~YIrsLhrEVddLSerLsqLl~s~D~ 80 (93)
...+++.|+-|..|+.+.+.|.+.+...|..+..
T Consensus 231 l~~I~~~a~~I~~L~e~R~~L~~yI~~~M~~iAP 264 (414)
T PRK14552 231 LEAIKKLANEILDLYKLREELEDYLETVMKEVAP 264 (414)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 3578889999999999999999999999988764
No 109
>PRK14340 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=25.30 E-value=1.1e+02 Score=25.17 Aligned_cols=45 Identities=7% Similarity=0.066 Sum_probs=36.3
Q ss_pred CcHhHHHHHHHHHHHhchhhhhhc----cccchHHHHHHHHHHHHHHHH
Q 041198 17 ISYDQIGDLVSKLQQLIPELRSRR----SDKVSASKILQETCDYIRSLH 61 (93)
Q Consensus 17 isddqI~dLvsKLQ~LLP~~~~r~----~~~~SaskvLqETC~YIrsLh 61 (93)
.|-+++.++|.++++.+|.+.-.. +-..=+-+-.++|+++++.+.
T Consensus 280 ~t~~~~~~~v~~lr~~~pgi~i~td~IvGfPgET~edf~~tl~~~~~~~ 328 (445)
T PRK14340 280 HTIEEYLEKIALIRSAIPGVTLSTDLIAGFCGETEEDHRATLSLMEEVR 328 (445)
T ss_pred CCHHHHHHHHHHHHHhCCCCEEeccEEEECCCCCHHHHHHHHHHHHhcC
Confidence 688999999999999999986433 334457788999999998874
No 110
>PF06657 Cep57_MT_bd: Centrosome microtubule-binding domain of Cep57; InterPro: IPR010597 This entry is thought to represent a centrosomal protein of 57 kDa (Cep57-related protein). It is required for spindle microtubule attachment to both kinetochores and centrosomes and functions to tether minus-ends of spindle microtubules to centrosomes. It may act by forming ring-like structures around microtubules, or by serving as a cross-linker or scaffold at the attachment site [].
Probab=25.25 E-value=1.7e+02 Score=19.18 Aligned_cols=15 Identities=27% Similarity=0.341 Sum_probs=6.8
Q ss_pred HHHHHHHHHHHHHHH
Q 041198 60 LHREVDDLSDRLSEL 74 (93)
Q Consensus 60 LhrEVddLSerLsqL 74 (93)
|+.|++-++..+.+|
T Consensus 22 LqDE~~hm~~e~~~L 36 (79)
T PF06657_consen 22 LQDEFGHMKMEHQEL 36 (79)
T ss_pred HHHHHHHHHHHHHHH
Confidence 444444444444444
No 111
>cd04881 ACT_HSDH-Hom ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains. The ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) encoded by the hom gene of Bacillus subtilis and other related sequences. HSDH reduces aspartate semi-aldehyde to the amino acid homoserine, one that is required for the biosynthesis of Met, Thr, and Ile from Asp. Neither the enzyme nor the aspartate pathway is found in the animal kingdom. This mostly bacterial HSDH group has a C-terminal ACT domain and is believed to be involved in enzyme regulation. A C-terminal deletion in the Corynebacterium glutamicum HSDH abolished allosteric inhibition by L-threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=25.14 E-value=66 Score=18.13 Aligned_cols=17 Identities=12% Similarity=0.255 Sum_probs=14.5
Q ss_pred CCcHhHHHHHHHHHHHh
Q 041198 16 RISYDQIGDLVSKLQQL 32 (93)
Q Consensus 16 risddqI~dLvsKLQ~L 32 (93)
..+.+++.+++.+|+++
T Consensus 50 ~~~~~~l~~~i~~L~~~ 66 (79)
T cd04881 50 ETSEAALNAALAEIEAL 66 (79)
T ss_pred cCCHHHHHHHHHHHHcC
Confidence 45789999999999974
No 112
>PF09840 DUF2067: Uncharacterized protein conserved in archaea (DUF2067); InterPro: IPR019202 This family of archaeal proteins, have no known function.
Probab=25.08 E-value=1.6e+02 Score=22.30 Aligned_cols=49 Identities=14% Similarity=0.335 Sum_probs=36.4
Q ss_pred cHhHHHHHHHHHHHhchhhh---hhccccc-----hHHHHHHHHHHHHHHHHHHHHH
Q 041198 18 SYDQIGDLVSKLQQLIPELR---SRRSDKV-----SASKILQETCDYIRSLHREVDD 66 (93)
Q Consensus 18 sddqI~dLvsKLQ~LLP~~~---~r~~~~~-----SaskvLqETC~YIrsLhrEVdd 66 (93)
+++++-+++.+|+..++... ..++.++ ..-+-+.|+...|++++++|..
T Consensus 7 ~~~E~~~fle~l~~~~~~~~~~v~~k~n~l~I~i~G~~~eike~~~~Ik~~~~~vr~ 63 (190)
T PF09840_consen 7 DDEECEEFLERLSKMVKSIYIYVEVKGNSLKIEIQGYEKEIKEAIRRIKELVRRVRS 63 (190)
T ss_pred ChHHHHHHHHHHHhhccCcEEEEEEeCCEEEEEEecChHHHHHHHHHHHHHHHHHHH
Confidence 57899999999999966552 2222222 4455799999999999999876
No 113
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=25.07 E-value=1.7e+02 Score=17.78 Aligned_cols=61 Identities=20% Similarity=0.162 Sum_probs=34.5
Q ss_pred CCCCcHhHHHHHHHHHHHhchhhhhhccc------cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041198 14 VSRISYDQIGDLVSKLQQLIPELRSRRSD------KVSASKILQETCDYIRSLHREVDDLSDRLSEL 74 (93)
Q Consensus 14 asrisddqI~dLvsKLQ~LLP~~~~r~~~------~~SaskvLqETC~YIrsLhrEVddLSerLsqL 74 (93)
++++|.+|..-||..+..--+-+....++ +--+..-+.+.+|-+-.=+|.++.|-.....+
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nl 68 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNL 68 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Confidence 57899999999999887765555443322 22333333333333322255556555554443
No 114
>PHA02414 hypothetical protein
Probab=24.98 E-value=2.8e+02 Score=20.20 Aligned_cols=20 Identities=25% Similarity=0.423 Sum_probs=16.4
Q ss_pred cHhHHHHHHHHHHHhchhhh
Q 041198 18 SYDQIGDLVSKLQQLIPELR 37 (93)
Q Consensus 18 sddqI~dLvsKLQ~LLP~~~ 37 (93)
-|.|||+||++++.|=.-+.
T Consensus 2 ~D~~in~Lv~~v~~ledKiQ 21 (111)
T PHA02414 2 MDKEINNLVSQVETLEDKIQ 21 (111)
T ss_pred cchHHHHHHHHHHHHHHHHh
Confidence 37799999999999876664
No 115
>PF07739 TipAS: TipAS antibiotic-recognition domain; InterPro: IPR012925 TipAL is a bacterial transcriptional regulator of the MerR family. The tipA gene can be expressed as a long form, TipAL, and a short form, TipAS, which constitutes the C-terminal part of TipAL. TipAS forms the antibiotic-recognition domain []. This domain, which has an alpha-helical globin-like fold, is also found at the C terminus of other MerR family transcription factors, including Mta, a central regulator of multidrug resistance in Bacillus subtilis [], and SkgA from Caulobacter crescentus []. ; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 1NY9_A 3HH0_A 3QAO_A.
Probab=24.85 E-value=1.2e+02 Score=19.39 Aligned_cols=21 Identities=24% Similarity=0.401 Sum_probs=7.6
Q ss_pred CcHhHHHHHHHHHHHhchhhh
Q 041198 17 ISYDQIGDLVSKLQQLIPELR 37 (93)
Q Consensus 17 isddqI~dLvsKLQ~LLP~~~ 37 (93)
++.++..++....++|+..+.
T Consensus 25 l~~~~~~~~~~~~~~l~~~l~ 45 (118)
T PF07739_consen 25 LSKEEWQELQKEWDELFAELA 45 (118)
T ss_dssp --------TTHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHHH
Confidence 555555555555555555554
No 116
>PRK14141 heat shock protein GrpE; Provisional
Probab=24.82 E-value=3.1e+02 Score=21.24 Aligned_cols=52 Identities=19% Similarity=0.236 Sum_probs=34.4
Q ss_pred HHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHhhhcC
Q 041198 22 IGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDR-----LSELLASID 79 (93)
Q Consensus 22 I~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSer-----LsqLl~s~D 79 (93)
..+-+.+|++-+.++.. -..+..-|-=||-|+.++|++++-.. +..||+-+|
T Consensus 36 ~~~~i~~le~e~~elkd------~~lR~~Ae~eN~RKR~~kE~e~~~~~a~~~~~~dLLpViD 92 (209)
T PRK14141 36 EPDPLEALKAENAELKD------RMLRLAAEMENLRKRTQRDVADARAYGIAGFARDMLSVSD 92 (209)
T ss_pred hHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHh
Confidence 33344556665555532 23677889999999999999987654 333666665
No 117
>PF04350 PilO: Pilus assembly protein, PilO; PDB: 2RJZ_B.
Probab=24.73 E-value=2.1e+02 Score=18.81 Aligned_cols=35 Identities=20% Similarity=0.509 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcCCCcHHHHHHHHh
Q 041198 57 IRSLHREVDDLSDRLSELLASIDSNSAEAAIIRSL 91 (93)
Q Consensus 57 IrsLhrEVddLSerLsqLl~s~D~ns~~a~iirsL 91 (93)
+..++.+++.+..+|..+...+-......++|..|
T Consensus 25 l~~~~~~~~~~~~~l~~~~~~lP~~~~~~~ll~~l 59 (144)
T PF04350_consen 25 LEELKKQLEQLEQQLEELLKKLPAEEEIPSLLEDL 59 (144)
T ss_dssp HHHHHHHHHHHHHHHHHHHHCTTGGGHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCchhHHHHHHHH
Confidence 44677888888888888887775555566666554
No 118
>PRK15326 type III secretion system needle complex protein PrgI; Provisional
Probab=24.69 E-value=86 Score=21.38 Aligned_cols=33 Identities=18% Similarity=0.274 Sum_probs=22.8
Q ss_pred HHHHHHHhchhhhhhccccchHHHHHHHHHHHH
Q 041198 25 LVSKLQQLIPELRSRRSDKVSASKILQETCDYI 57 (93)
Q Consensus 25 LvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YI 57 (93)
++-++|+++-+.+--|+-+.++.|.++.++.=|
T Consensus 43 ~LA~~Qa~l~eyn~~RNaQSn~iKa~KD~~~aI 75 (80)
T PRK15326 43 LLAAYQSKLSEYNLYRNAQSNTVKVFKDIDAAI 75 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455677777777766666777777777776543
No 119
>CHL00123 rps6 ribosomal protein S6; Validated
Probab=24.65 E-value=77 Score=21.15 Aligned_cols=23 Identities=4% Similarity=0.215 Sum_probs=20.2
Q ss_pred CCCcHhHHHHHHHHHHHhchhhh
Q 041198 15 SRISYDQIGDLVSKLQQLIPELR 37 (93)
Q Consensus 15 srisddqI~dLvsKLQ~LLP~~~ 37 (93)
+.++++++.+++.++++++-+.+
T Consensus 16 p~l~e~~~~~~~~~~~~~i~~~g 38 (97)
T CHL00123 16 PDLNEEELLKWIENYKKLLRKRG 38 (97)
T ss_pred CCCCHHHHHHHHHHHHHHHHHCC
Confidence 55899999999999999998764
No 120
>cd07138 ALDH_CddD_SSP0762 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like. The 6-oxolauric acid dehydrogenase (CddD) from Rhodococcus ruber SC1 which converts 6-oxolauric acid to dodecanedioic acid, and the aldehyde dehydrogenase (locus SSP0762) from Staphylococcus saprophyticus subsp. saprophyticus ATCC 15305 and other similar sequences, are included in this CD.
Probab=24.64 E-value=3.3e+02 Score=22.10 Aligned_cols=52 Identities=10% Similarity=0.224 Sum_probs=34.4
Q ss_pred CCCcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 041198 15 SRISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELL 75 (93)
Q Consensus 15 srisddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl 75 (93)
...+.++|.+.|.+-++-.+..+... .+|=+.+++.+...+.+-.|.|++++
T Consensus 31 ~~~~~~~v~~av~~A~~A~~~w~~~~---------~~~R~~~L~~~a~~l~~~~~~la~~~ 82 (466)
T cd07138 31 PLGTAADVDRAVAAARRAFPAWSATS---------VEERAALLERIAEAYEARADELAQAI 82 (466)
T ss_pred eCCCHHHHHHHHHHHHHHHHHHhhCC---------HHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 44678999999999999988775543 23334555555555555556666654
No 121
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=24.28 E-value=1.9e+02 Score=18.85 Aligned_cols=23 Identities=26% Similarity=0.413 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 041198 51 QETCDYIRSLHREVDDLSDRLSE 73 (93)
Q Consensus 51 qETC~YIrsLhrEVddLSerLsq 73 (93)
+-+..-|.-|++||+.|-+.-.+
T Consensus 14 ~~aveti~~Lq~e~eeLke~n~~ 36 (72)
T PF06005_consen 14 QQAVETIALLQMENEELKEKNNE 36 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 44566677788888888876333
No 122
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=24.27 E-value=2.6e+02 Score=20.10 Aligned_cols=52 Identities=29% Similarity=0.420 Sum_probs=33.9
Q ss_pred hHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCC
Q 041198 20 DQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELLASIDS 80 (93)
Q Consensus 20 dqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~D~ 80 (93)
.+-.+|-..++++.-|.+... +.. |=-.|.| |+|++|.|.+.|.++=.....
T Consensus 40 ~~~~~l~~Ei~~l~~E~~~iS-----~qD---eFAkwaK-l~Rk~~kl~~el~~~~~~~~~ 91 (161)
T PF04420_consen 40 KEQRQLRKEILQLKRELNAIS-----AQD---EFAKWAK-LNRKLDKLEEELEKLNKSLSS 91 (161)
T ss_dssp HHHHHHHHHHHHHHHHHTTS------TTT---SHHHHHH-HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHcCC-----cHH---HHHHHHH-HHHHHHHHHHHHHHHHHHHHH
Confidence 445566666666666665443 111 4455666 899999999999987666543
No 123
>cd05128 RasGAP_GAP1_like The GAP1 family of Ras GTPase-activating proteins includes GAP1(m) (or RASA2), GAP1_IP4BP (or RASA3), Ca2+ -promoted Ras inactivator (CAPRI, or RASAL4), and Ras GTPase activating-like proteins (RASAL) or RASAL1. The members are characterized by a conserved domain structure comprising N-terminal tandem C2 domains, a highly conserved central RasGAP domain, and a C-terminal pleckstrin homology domain that is associated with a Bruton's tyrosine kinase motif. While this domain structure is conserved, a small change in the function of each individual domain and the interaction between domains has a marked effect on the regulation of each protein.
Probab=24.21 E-value=1.1e+02 Score=24.62 Aligned_cols=32 Identities=31% Similarity=0.423 Sum_probs=24.9
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 041198 42 DKVSASKILQETCDYIRSLHREVDDLSDRLSELLASID 79 (93)
Q Consensus 42 ~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~D 79 (93)
-.+|++.+|.|.|. .+.+++++.|-.++...+
T Consensus 19 ~~~s~~~~l~~v~~------~~~~~~a~~Lv~if~~~g 50 (315)
T cd05128 19 ISASAAAILEEVCR------EERQDVAVPLVKLFLGQG 50 (315)
T ss_pred CChhHHHHHHHhCc------HHHHHHHHHHHHHHHHhh
Confidence 34689999999997 577888888877766544
No 124
>PRK05756 pyridoxamine kinase; Validated
Probab=24.19 E-value=3.1e+02 Score=20.49 Aligned_cols=50 Identities=10% Similarity=0.157 Sum_probs=31.0
Q ss_pred CCCCcHhHHHHHHHHHHHh--chhhhhhccccchHHHHHHHHHHHHHHHHHH
Q 041198 14 VSRISYDQIGDLVSKLQQL--IPELRSRRSDKVSASKILQETCDYIRSLHRE 63 (93)
Q Consensus 14 asrisddqI~dLvsKLQ~L--LP~~~~r~~~~~SaskvLqETC~YIrsLhrE 63 (93)
...++++||.+++..++.+ +.+..---..-.......+..+++|+.++..
T Consensus 51 g~~~~~~~~~~~~~~~~~~~~l~~~~~v~~G~l~~~~~~~~v~~~i~~~k~~ 102 (286)
T PRK05756 51 GCVMPPSHLTEIVQGIADIGWLGECDAVLSGYLGSAEQGEAILDAVRRVKAA 102 (286)
T ss_pred CeeCCHHHHHHHHHHHHhcCccccCCEEEECCCCCHHHHHHHHHHHHHHHHh
Confidence 3567889999999998774 3333211112223456677777778777643
No 125
>PF03874 RNA_pol_Rpb4: RNA polymerase Rpb4; InterPro: IPR005574 The eukaryotic RNA polymerase subunits RPB4 and RPB7 form a heterodimer that reversibly associates with the RNA polymerase II core. Archaeal cells contain a single RNAP made up of about 12 subunits, displaying considerable homology to the eukaryotic RNAPII subunits. The RPB4 and RPB7 homologs are called subunits F and E, respectively, and have been shown to form a stable heterodimer. While the RPB7 homologue is reasonably well conserved, the similarity between the eukaryotic RPB4 and the archaeal F subunit is barely detectable [].; GO: 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3AYH_A 3H3V_E 4A3C_D 3PO3_D 3HOX_D 2R92_D 3HOU_D 1Y77_D 2R7Z_D 3QT1_D ....
Probab=24.13 E-value=89 Score=20.58 Aligned_cols=19 Identities=16% Similarity=0.357 Sum_probs=15.2
Q ss_pred CCCCcHhHHHHHHHHHHHh
Q 041198 14 VSRISYDQIGDLVSKLQQL 32 (93)
Q Consensus 14 asrisddqI~dLvsKLQ~L 32 (93)
..|++|++|.+++.-++.+
T Consensus 98 ~~r~~ee~l~~iL~~v~~~ 116 (117)
T PF03874_consen 98 ESRFSEEDLEEILDLVSKY 116 (117)
T ss_dssp TTTSTHHHHHHHHHHHHHH
T ss_pred ccCCCHHHHHHHHHHHHHh
Confidence 3589999999998877653
No 126
>PF09346 SMI1_KNR4: SMI1 / KNR4 family (SUKH-1); InterPro: IPR018958 Proteins in this family are involved in the regulation of 1,3-beta-glucan synthase activity and cell-wall formation [, ]. Yeast members of this family are involved in the regulation of cell wall assembly. Saccharomyces cerevisiae (Baker's yeast) protein KNR4 (SMI1) has a regulatory role in chitin deposition and in cell wall assembly []. It was originally identified as a regulator of chitin synthase expression (acting as a repressor) [] and of 1,3-beta-glucan synthase levels []. It was shown to localise in patches at presumptive bud sites in unbudded cells and at the incipient bud site during bud emergence []. KNR4 is believed to connect the PKC1-SLT2 MAPK pathway with cell proliferation. It has been shown to interact with BCK2, a gene involved in cell cycle progression in S. cerevisiae (forming a complex) to allow PKC1 to coordinate the cell cycle (cell proliferation) with cell wall integrity [, ]. PKC1 plays an essential role in cell wall integrity and cell proliferation through a bifurcated PKC1/mitogen-activated protein (MAP) kinase pathway. KNR4 also interacts with the tyrosine-tRNA synthetase protein encoded by TYS1 and is involved in sporulation process []. Note: previously reported evidence that KNR4 may interact with nuclear matrix-association region [] may be due to an artefact [].; PDB: 3D5P_A 2ICG_A.
Probab=24.13 E-value=48 Score=20.35 Aligned_cols=21 Identities=24% Similarity=0.336 Sum_probs=13.9
Q ss_pred CCcHhHHHHHHHHHHHhchhh
Q 041198 16 RISYDQIGDLVSKLQQLIPEL 36 (93)
Q Consensus 16 risddqI~dLvsKLQ~LLP~~ 36 (93)
.+|+++|.++=++|+--||+.
T Consensus 1 p~t~~~I~~~E~~lg~~LP~~ 21 (130)
T PF09346_consen 1 PATEEEIQELEEKLGVRLPDD 21 (130)
T ss_dssp ---HHHHHHHHHHHTS---HH
T ss_pred CCCHHHHHHHHHHhCCCCcHH
Confidence 378999999999999999975
No 127
>COG5499 Predicted transcription regulator containing HTH domain [Transcription]
Probab=24.12 E-value=84 Score=23.15 Aligned_cols=25 Identities=32% Similarity=0.425 Sum_probs=19.6
Q ss_pred cccchHHHHHH----HHHHHHHHHHHHHH
Q 041198 41 SDKVSASKILQ----ETCDYIRSLHREVD 65 (93)
Q Consensus 41 ~~~~SaskvLq----ETC~YIrsLhrEVd 65 (93)
++|.-++.||. =|.++||.||+|..
T Consensus 84 GSks~vS~iL~~rraLTle~ikkL~q~~g 112 (120)
T COG5499 84 GSKSRVSNILSGRRALTLEHIKKLHQRFG 112 (120)
T ss_pred CchHHHHHHHhhhhHhhHHHHHHHHHHhC
Confidence 45557788885 49999999999864
No 128
>PF08640 U3_assoc_6: U3 small nucleolar RNA-associated protein 6; InterPro: IPR013949 This entry represents U3 nucleolar RNA-associated proteins which are involved in nucleolar processing of pre-18S ribosomal RNA [].
Probab=23.92 E-value=1.2e+02 Score=20.02 Aligned_cols=26 Identities=19% Similarity=0.319 Sum_probs=21.1
Q ss_pred CCCcHhHHHHHHHHHHHhchhhhhhc
Q 041198 15 SRISYDQIGDLVSKLQQLIPELRSRR 40 (93)
Q Consensus 15 srisddqI~dLvsKLQ~LLP~~~~r~ 40 (93)
.=||.+||.+.|.|-+.+==-+..+.
T Consensus 15 ~lFt~~EI~~IvkkR~~fEy~L~rr~ 40 (83)
T PF08640_consen 15 GLFTKEEIREIVKKRRDFEYKLQRRG 40 (83)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHcCC
Confidence 34899999999999998876665555
No 129
>PF09373 PMBR: Pseudomurein-binding repeat; InterPro: IPR018975 Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) is a methanogenic Gram-positive microorganism with a cell wall consisting of pseudomurein. This repeat specifically binds to pseudomurein. This repeat is found at the N terminus of PeiW and PeiP which are pseudomurein binding phage proteins.
Probab=23.88 E-value=1e+02 Score=17.03 Aligned_cols=20 Identities=20% Similarity=0.328 Sum_probs=17.2
Q ss_pred CCCCcHhHHHHHHHHHHHhc
Q 041198 14 VSRISYDQIGDLVSKLQQLI 33 (93)
Q Consensus 14 asrisddqI~dLvsKLQ~LL 33 (93)
+..|+-+|+-|..++..++.
T Consensus 2 ~~~i~~~~~~d~a~rv~~f~ 21 (33)
T PF09373_consen 2 SGTISKEEYLDMASRVNNFY 21 (33)
T ss_pred CceecHHHHHHHHHHHHHHH
Confidence 46799999999999998874
No 130
>PF04912 Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamitin is a subunit of the microtubule-dependent motor complex, it is also implicated in cell adhesion by binding to macrophage-enriched myristoylated alanine-rice C kinase substrate (MacMARCKS) []. It is also thought to modulate cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organisation during mitosis. Dynamitin is also involved in anchoring microtubules to centrosomes and may play a role in synapse formation during brain development []. ; GO: 0007017 microtubule-based process, 0005869 dynactin complex
Probab=23.64 E-value=3.8e+02 Score=21.64 Aligned_cols=23 Identities=39% Similarity=0.580 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhh
Q 041198 55 DYIRSLHREVDDLSDRLSELLAS 77 (93)
Q Consensus 55 ~YIrsLhrEVddLSerLsqLl~s 77 (93)
..++.||.++-+.+.+|.+|-..
T Consensus 322 ~tL~~lH~~a~~~~~~l~~le~~ 344 (388)
T PF04912_consen 322 KTLKSLHEEAAEFSQTLSELESQ 344 (388)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34666777777777777666544
No 131
>PRK05399 DNA mismatch repair protein MutS; Provisional
Probab=23.40 E-value=2.5e+02 Score=25.48 Aligned_cols=57 Identities=14% Similarity=0.166 Sum_probs=43.1
Q ss_pred CCCCCcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 041198 13 GVSRISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELL 75 (93)
Q Consensus 13 ~asrisddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl 75 (93)
+..+++..++.+|..++..+--++... .-++++|-++.|..-..++..+++-+++|.
T Consensus 496 ~~~rf~t~~l~~l~~~l~~~~~~~~~~------e~~i~~~l~~~i~~~~~~l~~~~~~la~lD 552 (854)
T PRK05399 496 NAERYITPELKELEDKILSAEEKALAL------EYELFEELREEVAEHIERLQKLAKALAELD 552 (854)
T ss_pred CeEEEECHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567888888999999988877665433 256788888888887777877777777754
No 132
>PF13442 Cytochrome_CBB3: Cytochrome C oxidase, cbb3-type, subunit III ; PDB: 1KB0_A 2DGE_D 2CE1_A 2CE0_A 2V07_A 1W2L_A 2ZOO_A 2ZBO_G 1DVV_A 2EXV_A ....
Probab=23.38 E-value=81 Score=18.47 Aligned_cols=15 Identities=20% Similarity=0.386 Sum_probs=12.4
Q ss_pred CCCcHhHHHHHHHHH
Q 041198 15 SRISYDQIGDLVSKL 29 (93)
Q Consensus 15 srisddqI~dLvsKL 29 (93)
..+||+||.+|+..|
T Consensus 53 ~~ls~~e~~~l~~yi 67 (67)
T PF13442_consen 53 GQLSDEEIEALAAYI 67 (67)
T ss_dssp TTSTHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHC
Confidence 379999999998754
No 133
>TIGR01070 mutS1 DNA mismatch repair protein MutS.
Probab=23.12 E-value=2.8e+02 Score=25.25 Aligned_cols=57 Identities=11% Similarity=0.186 Sum_probs=43.1
Q ss_pred CCCCCcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 041198 13 GVSRISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELL 75 (93)
Q Consensus 13 ~asrisddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl 75 (93)
++.+++..++.++-.++..+--++...- -++++|-++.|..-..++..+++.+++|.
T Consensus 482 ~~~rf~tpel~~l~~~l~~~~~~~~~~e------~~i~~~L~~~i~~~~~~l~~~~~~la~lD 538 (840)
T TIGR01070 482 NAERYITPELKEKEDKVLEAEGKILALE------KELFEELRELLKKYLEALQEAARALAELD 538 (840)
T ss_pred CceEEcCHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788888889999999888766654332 46888888888877777887887777753
No 134
>PF03147 FDX-ACB: Ferredoxin-fold anticodon binding domain; InterPro: IPR005121 Aminoacyl-tRNA synthetases (aaRSs) play a crucial role in the translation of the genetic code by means of covalent attachment of amino acids to their cognate tRNAs. Phenylalanine-tRNA synthetase (PheRS) is known to be among the most complex enzymes of the aaRS family. Bacterial and mitochondrial PheRSs share a ferredoxin-fold anticodon binding (FDX-ACB) domain, which represents a canonical double split alpha+beta motif having no insertions. The FDX-ACB domain displays a typical RNA recognition fold (RRM) (see PDOC00030 from PROSITEDOC) formed by the four-stranded antiparallel beta sheet, with two helices packed against it [, , , , ].; GO: 0000049 tRNA binding, 0000287 magnesium ion binding, 0004826 phenylalanine-tRNA ligase activity, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation, 0008033 tRNA processing; PDB: 1JJC_B 1EIY_B 1PYS_B 3HFZ_B 3TEH_B 3PCO_D 2RHS_D 2RHQ_B 2AKW_B 1B70_B ....
Probab=23.12 E-value=78 Score=20.38 Aligned_cols=22 Identities=5% Similarity=0.274 Sum_probs=15.7
Q ss_pred CCCCcHhHHHHHHHHHHHhchh
Q 041198 14 VSRISYDQIGDLVSKLQQLIPE 35 (93)
Q Consensus 14 asrisddqI~dLvsKLQ~LLP~ 35 (93)
..-+|+++|++++.++...|.+
T Consensus 66 ~~TLt~~ev~~~~~~i~~~l~~ 87 (94)
T PF03147_consen 66 DRTLTDEEVNEIHDKIIKALEK 87 (94)
T ss_dssp SS---HHHHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHH
Confidence 3459999999999999887754
No 135
>PRK04163 exosome complex RNA-binding protein Rrp4; Provisional
Probab=22.93 E-value=1.2e+02 Score=23.03 Aligned_cols=33 Identities=24% Similarity=0.409 Sum_probs=28.2
Q ss_pred hHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHhhh
Q 041198 45 SASKILQETCDYIRSLHRE--VDDLSDRLSELLAS 77 (93)
Q Consensus 45 SaskvLqETC~YIrsLhrE--VddLSerLsqLl~s 77 (93)
...+-+++++++|+.+++| +.+|.++..++|+.
T Consensus 191 ~~~~~~~~a~~~I~~~e~~~~~~~l~~~v~~~~~~ 225 (235)
T PRK04163 191 PDEEDEEIAIEAIKKIEREAHTSGLTDRIKEFLEE 225 (235)
T ss_pred CCHHHHHHHHHHHHHHHhhhhccChHHHHHHHHHH
Confidence 5667899999999999988 46899999998864
No 136
>PF10076 DUF2313: Uncharacterized protein conserved in bacteria (DUF2313); InterPro: IPR018755 Members of this family of proteins comprise various hypothetical and putative bacteriophage tail proteins, including Gp48 from Bacteriophage Mu and other Mu-like prophages such as FluMu.
Probab=22.90 E-value=2.8e+02 Score=19.66 Aligned_cols=50 Identities=26% Similarity=0.325 Sum_probs=33.6
Q ss_pred HHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcHH
Q 041198 28 KLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELLASIDSNSAE 84 (93)
Q Consensus 28 KLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~D~ns~~ 84 (93)
.|.++||..-.-...+ + ++++. ++....|.|.+-++..+|+..+++.++.
T Consensus 2 ~L~~~LP~~~~~~~~~-~---~~~~l---~~a~~~el~~~~~~~~~l~~e~f~~Tat 51 (179)
T PF10076_consen 2 ELLELLPPGYAWSREP-S---EFQAL---LEAEGPELDRLDDRADDLLDEQFPSTAT 51 (179)
T ss_pred hHHHhCCCccccccch-H---HHHHH---HHHHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence 5788999985443222 2 23332 3456788999999999999888875544
No 137
>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]
Probab=22.90 E-value=58 Score=27.90 Aligned_cols=15 Identities=53% Similarity=0.800 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHH
Q 041198 59 SLHREVDDLSDRLSE 73 (93)
Q Consensus 59 sLhrEVddLSerLsq 73 (93)
-|..|||||.||||+
T Consensus 371 ~~e~q~~dlae~lae 385 (388)
T COG5238 371 LLEVQVDDLAERLAE 385 (388)
T ss_pred HHHHhHHHHHHHHhh
Confidence 367899999999986
No 138
>PF13935 Ead_Ea22: Ead/Ea22-like protein
Probab=22.70 E-value=2.8e+02 Score=19.48 Aligned_cols=24 Identities=25% Similarity=0.454 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 041198 51 QETCDYIRSLHREVDDLSDRLSEL 74 (93)
Q Consensus 51 qETC~YIrsLhrEVddLSerLsqL 74 (93)
.+++.+=-.....+.|+++|+++|
T Consensus 115 ~~~~~~~~~~e~~~~~~~~riaEl 138 (139)
T PF13935_consen 115 AELAEQAEAYEGEIADYAKRIAEL 138 (139)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHhc
Confidence 455666667788889999999887
No 139
>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family. Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.
Probab=22.66 E-value=4.2e+02 Score=24.11 Aligned_cols=14 Identities=21% Similarity=0.517 Sum_probs=12.5
Q ss_pred hHHHHHHHHHHHHH
Q 041198 45 SASKILQETCDYIR 58 (93)
Q Consensus 45 SaskvLqETC~YIr 58 (93)
.|-.+|.|+|..++
T Consensus 398 KAIdlldea~a~~~ 411 (852)
T TIGR03345 398 KAVSLLDTACARVA 411 (852)
T ss_pred HHHHHHHHHHHHHH
Confidence 78999999999776
No 140
>TIGR01140 L_thr_O3P_dcar L-threonine-O-3-phosphate decarboxylase. This family contains pyridoxal phosphate-binding class II aminotransferases (see PFAM:PF00222) closely related to, yet distinct from, histidinol-phosphate aminotransferase (HisC). It is found in cobalamin biosynthesis operons in Salmonella typhimurium and Bacillus halodurans (each of which also has HisC) and has been shown to have L-threonine-O-3-phosphate decarboxylase activity in Salmonella. Although the gene symbol cobD was assigned in Salmonella, cobD in other contexts refers to a different cobalamin biosynthesis enzyme, modeled by pfam03186 and called cbiB in Salmonella.
Probab=22.62 E-value=2.2e+02 Score=21.44 Aligned_cols=54 Identities=15% Similarity=0.263 Sum_probs=33.7
Q ss_pred HHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 041198 25 LVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELLASID 79 (93)
Q Consensus 25 LvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~D 79 (93)
++.+++.+.+...--.-....+.++|+ ...|++..++.+.++-+.|-+.|..++
T Consensus 212 ~~~~l~~~~~~~~~s~~~q~~~~~~l~-~~~~~~~~~~~~~~~~~~l~~~L~~~~ 265 (330)
T TIGR01140 212 LLARLREALGPWTVNGPARAAGRAALA-DTAWQAATRARLAAERARLAALLARLG 265 (330)
T ss_pred HHHHHHhcCCCCCchHHHHHHHHHHHh-chHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 455555555433211112334556665 357888888899999998888887765
No 141
>PF15112 DUF4559: Domain of unknown function (DUF4559)
Probab=22.47 E-value=4e+02 Score=22.27 Aligned_cols=66 Identities=23% Similarity=0.312 Sum_probs=42.8
Q ss_pred CCCCcHhHHHHHHHHHHHhchhhhhhccccchHH---HHH--------------------HHH-HHHHHHHHHHHHHHHH
Q 041198 14 VSRISYDQIGDLVSKLQQLIPELRSRRSDKVSAS---KIL--------------------QET-CDYIRSLHREVDDLSD 69 (93)
Q Consensus 14 asrisddqI~dLvsKLQ~LLP~~~~r~~~~~Sas---kvL--------------------qET-C~YIrsLhrEVddLSe 69 (93)
--++++.++++-+.|+|.|+-+...-..-..... ++| -++ -++=.-++.|+..|-|
T Consensus 157 emkvs~~wm~~~~~~i~nll~~f~~ipe~~~a~~~Ie~ll~~d~~v~~~~~d~~Dg~~~~~~~~~~~~~i~e~e~e~Lke 236 (307)
T PF15112_consen 157 EMKVSSQWMRDFQMKIQNLLNEFRNIPEIVAAGSRIEQLLTSDWAVHIPEEDQRDGCESETDVYLSESQILEIEMELLKE 236 (307)
T ss_pred ccccCHHHHHHHHHHHHHHHHHhccChHHHHHHHHHHHHHhhhhhhcCchhhccchhhhccchhhhHHHHHHHHHHHHHH
Confidence 4569999999999999999865542221111111 122 111 2334568999999999
Q ss_pred HHHHHhhhcC
Q 041198 70 RLSELLASID 79 (93)
Q Consensus 70 rLsqLl~s~D 79 (93)
+|-+|+....
T Consensus 237 ~lqel~~~~e 246 (307)
T PF15112_consen 237 KLQELYLQAE 246 (307)
T ss_pred HHHHHHHHHh
Confidence 9999966553
No 142
>TIGR00986 3a0801s05tom22 mitochondrial import receptor subunit Tom22. translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family is specific for the Tom22 proteins.
Probab=22.45 E-value=1.6e+02 Score=22.17 Aligned_cols=38 Identities=13% Similarity=0.253 Sum_probs=28.2
Q ss_pred cHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHH
Q 041198 18 SYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSL 60 (93)
Q Consensus 18 sddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsL 60 (93)
.+|-|-|.+.-|...+|+.-+ + .++....-|+++++++
T Consensus 47 e~ETl~ERi~ALkDm~Pp~~R-~----~i~~~~s~t~s~~ks~ 84 (145)
T TIGR00986 47 EEETFTDRIYALKDIVPPTTR-G----WIYHKYSTTTNFVKST 84 (145)
T ss_pred ccCcHHHHHHHHHhhCCHHHH-H----HHHHHHHHHHHHHHHH
Confidence 346799999999999999843 3 4566666677777765
No 143
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.42 E-value=1.7e+02 Score=20.18 Aligned_cols=26 Identities=27% Similarity=0.454 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 041198 50 LQETCDYIRSLHREVDDLSDRLSELL 75 (93)
Q Consensus 50 LqETC~YIrsLhrEVddLSerLsqLl 75 (93)
.|-+..-|.=||.||+.|-|.=..|-
T Consensus 13 iqqAvdTI~LLQmEieELKEknn~l~ 38 (79)
T COG3074 13 VQQAIDTITLLQMEIEELKEKNNSLS 38 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHhH
Confidence 36678888999999999988766553
No 144
>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]
Probab=22.33 E-value=4.2e+02 Score=23.47 Aligned_cols=46 Identities=30% Similarity=0.167 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc-----CCCcHHHHHHHHhh
Q 041198 47 SKILQETCDYIRSLHREVDDLSDRLSELLASI-----DSNSAEAAIIRSLL 92 (93)
Q Consensus 47 skvLqETC~YIrsLhrEVddLSerLsqLl~s~-----D~ns~~a~iirsLL 92 (93)
-+.+|++=.-|++||.|.++|-|++.+.-++. |+-..+..-||++.
T Consensus 47 ~a~~~~~E~~l~~Lq~e~~~l~e~~v~~~a~~~~~t~~~~~~en~~~r~~~ 97 (459)
T KOG0288|consen 47 KAKLQEKELELNRLQEENTQLNEERVREEATEKTLTVDVLIAENLRIRSLN 97 (459)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34678999999999999999998887754443 44455666666653
No 145
>COG1269 NtpI Archaeal/vacuolar-type H+-ATPase subunit I [Energy production and conversion]
Probab=22.30 E-value=2e+02 Score=25.33 Aligned_cols=61 Identities=18% Similarity=0.309 Sum_probs=36.8
Q ss_pred hHHHHHHHHHHHhc------hhh-hhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCC
Q 041198 20 DQIGDLVSKLQQLI------PEL-RSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELLASIDS 80 (93)
Q Consensus 20 dqI~dLvsKLQ~LL------P~~-~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~D~ 80 (93)
+++.+.+.+++.++ |+. .+..+...+..++.|++-.|.-.+..++..+.++++++....+.
T Consensus 64 ~~~~~~l~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ee~~~~~~~~~~~l~~~~~~ 131 (660)
T COG1269 64 SEVLDYLRSVKGLEGRLFILPEEVEKLEAELKSLEEVIKPAEKFSSEVEELTRKLEERLSELDEELED 131 (660)
T ss_pred hHHHHHHHHHHHHhhhhhcccccchhHHHhhhhHHHHHHHHHHHHHhhhHHHHhHHHHHHHHhhhHHH
Confidence 57777777777743 333 23333333555555666666666666777777777777666543
No 146
>PRK10325 heat shock protein GrpE; Provisional
Probab=22.30 E-value=3.5e+02 Score=20.45 Aligned_cols=55 Identities=18% Similarity=0.239 Sum_probs=35.2
Q ss_pred HhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHhhhcC
Q 041198 19 YDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRL-----SELLASID 79 (93)
Q Consensus 19 ddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerL-----sqLl~s~D 79 (93)
+.+|.+|-.++..+.-.. +----++.-|-=||-|+.++|++++...- ..||+-+|
T Consensus 41 ~~~~~~l~~~~~e~~~~~------~d~~lR~~Ae~eN~rkR~~ke~~~~~~~a~~~~~~~lLpv~D 100 (197)
T PRK10325 41 DEKIANLEAQLAEAQTRE------RDGILRVKAEMENLRRRTELDIEKAHKFALEKFINELLPVID 100 (197)
T ss_pred HHHHHHHHHHHHHHHhhh------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHh
Confidence 344666665555542111 11346788899999999999999886543 33665555
No 147
>PRK12728 fliE flagellar hook-basal body protein FliE; Provisional
Probab=22.28 E-value=2.4e+02 Score=19.43 Aligned_cols=31 Identities=26% Similarity=0.395 Sum_probs=27.2
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041198 42 DKVSASKILQETCDYIRSLHREVDDLSDRLS 72 (93)
Q Consensus 42 ~~~SaskvLqETC~YIrsLhrEVddLSerLs 72 (93)
...+-+.+|.++.+.+..+|.+.|++++.++
T Consensus 29 ~~~sF~~~L~~ai~~vn~~q~~a~~~~~~~~ 59 (102)
T PRK12728 29 AQKSFSDFLKEALNKVNELQVEADNSTEKLV 59 (102)
T ss_pred CccCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3457899999999999999999999998763
No 148
>PF04124 Dor1: Dor1-like family ; InterPro: IPR007255 Dor1 is involved in vesicle targeting to the yeast Golgi apparatus and complexes with a number of other trafficking proteins, which include Sec34 and Sec35 [].
Probab=22.27 E-value=3.3e+02 Score=21.44 Aligned_cols=34 Identities=26% Similarity=0.442 Sum_probs=22.7
Q ss_pred HHHHHHHHHHH-HHHHHHHHhhhcCCCcHHHHHHH
Q 041198 56 YIRSLHREVDD-LSDRLSELLASIDSNSAEAAIIR 89 (93)
Q Consensus 56 YIrsLhrEVdd-LSerLsqLl~s~D~ns~~a~iir 89 (93)
=|+++..||++ +..-|.+|+..+..+=..+++||
T Consensus 144 lv~~i~~ev~~~~~~ml~~Li~~L~~~l~l~~~ik 178 (338)
T PF04124_consen 144 LVKSIAQEVEAALQQMLSQLINQLRTPLKLPACIK 178 (338)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHcCcccHHHHHH
Confidence 45667778854 44556668888777666677665
No 149
>PF04688 Phage_holin: Phage lysis protein, holin; InterPro: IPR006479 This entry represents the Bacteriophage SP-beta, BhlB, holin protein. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This protein family represent one of a large number of mutually dissimilar families of phage holins. It is thought that the temporal precision of holin-mediated lysis may occur through the build-up of a holin oligomer which causes the lysis [].
Probab=22.20 E-value=69 Score=19.47 Aligned_cols=17 Identities=29% Similarity=0.442 Sum_probs=13.0
Q ss_pred CCcHhHHHHHHHHHHHh
Q 041198 16 RISYDQIGDLVSKLQQL 32 (93)
Q Consensus 16 risddqI~dLvsKLQ~L 32 (93)
.|+||||+.+++-+=-.
T Consensus 6 pi~e~~i~~~~s~v~t~ 22 (47)
T PF04688_consen 6 PIDEEQINQLISAVFTI 22 (47)
T ss_pred CcCHHHHHHHHHHHHHH
Confidence 58999999998655433
No 150
>PF08766 DEK_C: DEK C terminal domain; InterPro: IPR014876 DEK is a chromatin associated protein that is linked with cancers and autoimmune disease. This domain is found at the C-terminal of DEK and is of clinical importance since it can reverse the characteristic abnormal DNA-mutagen sensitivity in fibroblasts from ataxia-telangiectasia (A-T) patients []. The structure of this domain shows it to be homologous to the E2F/DP transcription factor family []. This domain is also found in chitin synthase proteins like Q8TF96 from SWISSPROT, and in protein phosphatases such as Q6NN85 from SWISSPROT. ; PDB: 1Q1V_A.
Probab=22.16 E-value=1.5e+02 Score=17.60 Aligned_cols=26 Identities=15% Similarity=0.376 Sum_probs=14.1
Q ss_pred HHHHHHHHHhhhcCCCcHHHHHHHHh
Q 041198 66 DLSDRLSELLASIDSNSAEAAIIRSL 91 (93)
Q Consensus 66 dLSerLsqLl~s~D~ns~~a~iirsL 91 (93)
++.+.+.++|.+.|++..-..-||..
T Consensus 4 ~i~~~i~~iL~~~dl~~vT~k~vr~~ 29 (54)
T PF08766_consen 4 EIREAIREILREADLDTVTKKQVREQ 29 (54)
T ss_dssp HHHHHHHHHHTTS-GGG--HHHHHHH
T ss_pred HHHHHHHHHHHhCCHhHhhHHHHHHH
Confidence 45566667777777766555555543
No 151
>KOG4438 consensus Centromere-associated protein NUF2 [Cell cycle control, cell division, chromosome partitioning]
Probab=22.02 E-value=5.3e+02 Score=22.76 Aligned_cols=35 Identities=23% Similarity=0.378 Sum_probs=29.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 041198 45 SASKILQETCDYIRSLHREVDDLSDRLSELLASID 79 (93)
Q Consensus 45 SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~D 79 (93)
-.+++|+|+.+....++.|+.++-..++...-..|
T Consensus 269 ~K~~iL~ekv~~~qti~~e~~~~lk~i~~~~~e~d 303 (446)
T KOG4438|consen 269 EKAKILEEKVTNLQTIEKELKALLKKISSDGVEYD 303 (446)
T ss_pred HHHHHHHhHhHHHHHHHHHHHHHHHHHHHhhhhhh
Confidence 67899999999999999999999988888764333
No 152
>PF09763 Sec3_C: Exocyst complex component Sec3; InterPro: IPR019160 The exocyst complex is composed of 8 subunits: Exoc1, Exoc2, Exoc3, Exoc4, Exoc5, Exoc6, Exoc7 and Exoc8. This entry represents the subunit Exoc1 (Sec3). Sec3 binds to the C-terminal cytoplasmic domain of GLYT1 (glycine transporter protein 1). Sec3 is the exocyst component that is closest to the plasma membrane docking site and it serves as a spatial landmark in the plasma membrane for incoming secretory vesicles. Sec3 is recruited to the sites of polarised membrane growth through its interaction with Rho1p, a small GTP-binding protein.
Probab=21.88 E-value=3.5e+02 Score=23.43 Aligned_cols=73 Identities=19% Similarity=0.248 Sum_probs=0.0
Q ss_pred cHhHHHHHHHHHHHhchhhhhhc---cccchHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHhhhcCCCcHHHHH
Q 041198 18 SYDQIGDLVSKLQQLIPELRSRR---SDKVSASKILQETCDYIRSLHREV-------DDLSDRLSELLASIDSNSAEAAI 87 (93)
Q Consensus 18 sddqI~dLvsKLQ~LLP~~~~r~---~~~~SaskvLqETC~YIrsLhrEV-------ddLSerLsqLl~s~D~ns~~a~i 87 (93)
+++++++++..|...+-++..-. ..-----+-+.+.+.||.+-++-+ .-|-+-|.+||.++|++...-..
T Consensus 28 s~~~v~~l~~~ld~a~~e~d~le~~l~~y~~~L~~~~~di~~IE~qn~~Lqvq~~N~k~L~~eL~~Ll~~l~i~~~~l~~ 107 (701)
T PF09763_consen 28 SEKQVNSLMEYLDEALAECDELESWLSLYDVELNSVRDDIEYIESQNNGLQVQSANQKLLLNELENLLDTLSIPEEHLEA 107 (701)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCchhhHHHHHHHHHHHHHHHHHhcCCCHHHHHH
Q ss_pred HHH
Q 041198 88 IRS 90 (93)
Q Consensus 88 irs 90 (93)
|++
T Consensus 108 L~~ 110 (701)
T PF09763_consen 108 LRN 110 (701)
T ss_pred Hhc
No 153
>KOG0810 consensus SNARE protein Syntaxin 1 and related proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.79 E-value=1.9e+02 Score=23.43 Aligned_cols=60 Identities=18% Similarity=0.284 Sum_probs=48.0
Q ss_pred hHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 041198 20 DQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELLASID 79 (93)
Q Consensus 20 dqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~D 79 (93)
++|.+-+.+|-..+-.+.+-.+.-.++..-.+++++-+.++-.++.-.+..+-..|..++
T Consensus 43 e~Ir~~i~~l~~~~~~l~~~hs~~l~~~~~~~~~k~~l~~~~~~~~~~a~~Ik~kL~~~e 102 (297)
T KOG0810|consen 43 EEIRDDIEKLDEDVEKLQKLHSKSLHSPNADKELKRKLESLVDEIRRRARKIKTKLKALE 102 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhHhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888888888888887666666788888899999998888888888887777766654
No 154
>PRK00790 fliE flagellar hook-basal body protein FliE; Reviewed
Probab=21.77 E-value=2.4e+02 Score=19.80 Aligned_cols=32 Identities=9% Similarity=0.008 Sum_probs=28.2
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041198 41 SDKVSASKILQETCDYIRSLHREVDDLSDRLS 72 (93)
Q Consensus 41 ~~~~SaskvLqETC~YIrsLhrEVddLSerLs 72 (93)
.+.++-+.+|+++.+-+...+++.+++...+.
T Consensus 36 ~~~~sF~~~L~~ai~~vn~~q~~a~~~~~~~~ 67 (109)
T PRK00790 36 APGASFASVLGQMAGDAVQTLKAAEATSIQAI 67 (109)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45568999999999999999999999988865
No 155
>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=21.64 E-value=98 Score=19.44 Aligned_cols=31 Identities=32% Similarity=0.654 Sum_probs=12.3
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 041198 42 DKVSASKILQETCDYIRSLHREVDDLSDRLSELL 75 (93)
Q Consensus 42 ~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl 75 (93)
++.-|-.+|||.-.+|. ..|+|+-+.+++|=
T Consensus 2 d~~EAkelLqe~~d~IE---qkiedid~qIaeLe 32 (46)
T PF08946_consen 2 DRAEAKELLQEHYDNIE---QKIEDIDEQIAELE 32 (46)
T ss_dssp -------------THHH---HHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHhHH---HhHHHHHHHHHHHH
Confidence 44567789999988874 56777777776653
No 156
>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=21.56 E-value=2.7e+02 Score=18.86 Aligned_cols=66 Identities=20% Similarity=0.221 Sum_probs=39.6
Q ss_pred CCCCCcHhHHHHH--HHHHHHh---chhhhh----hccc---cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 041198 13 GVSRISYDQIGDL--VSKLQQL---IPELRS----RRSD---KVSASKILQETCDYIRSLHREVDDLSDRLSELLASI 78 (93)
Q Consensus 13 ~asrisddqI~dL--vsKLQ~L---LP~~~~----r~~~---~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~ 78 (93)
|-.-+++++|..| |.+|+++ |.++.. .... .....++++..-+.+..|+.+..+|.+.+..|-..+
T Consensus 33 gyR~Y~~~~l~~l~~I~~lr~~G~~L~~I~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~L~~~~ 110 (118)
T cd04776 33 QTRVYSRRDRARLKLILRGKRLGFSLEEIRELLDLYDPPGGNRKQLEKMLEKIEKRRAELEQQRRDIDAALAELDAAE 110 (118)
T ss_pred CccccCHHHHHHHHHHHHHHHCCCCHHHHHHHHHhhccCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455788887766 4555554 222211 1111 112245667788889999999988888887765543
No 157
>PF06188 HrpE: HrpE/YscL/FliH and V-type ATPase subunit E; InterPro: IPR009335 This family consists of several bacterial HrpE proteins, which are believed to function on the type III secretion system, specifically the secretion of HrpZ (harpinPss) []. This family also includes V-type proton ATPase subunit E proteins. This subunit appears to form a tight interaction with subunit G in the F0 complex. Subunits E and G may act together as stators to prevent certain subunits from rotating with the central rotary element []. PF01991 from PFAM also contains V-type ATPase subunit E proteins. There is an evolutionary link between type III secretion systems and membrane-associated proton translocating ATPases [].
Probab=21.53 E-value=3.5e+02 Score=20.08 Aligned_cols=48 Identities=21% Similarity=0.365 Sum_probs=29.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHhhhcCCCcHHHHHHHHhh
Q 041198 45 SASKILQETCDYIRSLHREVDDLSD------------RLSELLASIDSNSAEAAIIRSLL 92 (93)
Q Consensus 45 SaskvLqETC~YIrsLhrEVddLSe------------rLsqLl~s~D~ns~~a~iirsLL 92 (93)
....+.|..+.++..++.+-+.+-. -|..||+.++-.-.-.+++|.|+
T Consensus 65 a~~~~~q~a~~ll~~~~~~~e~l~~~l~~~~~~ll~~al~~lL~e~~~~qrv~aLlr~l~ 124 (191)
T PF06188_consen 65 AEAQFWQQANALLQEWQQQREQLLQQLEEQAEELLSQALERLLDETPDQQRVAALLRQLL 124 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence 4556677788888888877666543 44456666654333445666554
No 158
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=21.42 E-value=1.9e+02 Score=19.77 Aligned_cols=29 Identities=24% Similarity=0.442 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 041198 50 LQETCDYIRSLHREVDDLSDRLSELLASI 78 (93)
Q Consensus 50 LqETC~YIrsLhrEVddLSerLsqLl~s~ 78 (93)
.|.|..-|--|+.||+.|-|.=.+|-.-.
T Consensus 13 IqqAvdtI~LLqmEieELKekn~~L~~e~ 41 (79)
T PRK15422 13 VQQAIDTITLLQMEIEELKEKNNSLSQEV 41 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47788889999999999998755555443
No 159
>PF15450 DUF4631: Domain of unknown function (DUF4631)
Probab=21.39 E-value=3.7e+02 Score=24.16 Aligned_cols=65 Identities=23% Similarity=0.358 Sum_probs=50.7
Q ss_pred CCcHhHHHHHHHHHHHhchhhhhhc--cc--cchHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHhhhcCC
Q 041198 16 RISYDQIGDLVSKLQQLIPELRSRR--SD--KVSASKILQETCD----YIRSLHREVDDLSDRLSELLASIDS 80 (93)
Q Consensus 16 risddqI~dLvsKLQ~LLP~~~~r~--~~--~~SaskvLqETC~----YIrsLhrEVddLSerLsqLl~s~D~ 80 (93)
...+.+|.||=.+||--|-.++... +. ..+...+|||--+ -+..|-+.|.||++++..|=..+|+
T Consensus 304 ~~e~sk~eeL~~~L~~~lea~q~agkla~Qe~~~~ld~LqEksqile~sv~~l~~~lkDLd~~~~aLs~rld~ 376 (531)
T PF15450_consen 304 KLEESKAEELATKLQENLEAMQLAGKLAQQETQSELDLLQEKSQILEDSVAELMRQLKDLDDHILALSWRLDL 376 (531)
T ss_pred HHHHhhHHHHHHHHHHHHHHHHHhhhhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhH
Confidence 4567789999999999998886443 22 2377788887654 4688999999999999998877775
No 160
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=21.02 E-value=3.2e+02 Score=19.47 Aligned_cols=47 Identities=13% Similarity=0.232 Sum_probs=34.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH-Hhhh-cCCCcHHHHHHHHhh
Q 041198 45 SASKILQETCDYIRSLHREVDDLSDRLSE-LLAS-IDSNSAEAAIIRSLL 92 (93)
Q Consensus 45 SaskvLqETC~YIrsLhrEVddLSerLsq-Ll~s-~D~ns~~a~iirsLL 92 (93)
.-..+-+|.=..++.|+.||-+|+-.++. +|.. +|. ..+..+|...+
T Consensus 117 a~~~ie~e~~~a~~el~~ei~~lA~~~a~kil~~~l~~-~~~~~lid~~i 165 (173)
T PRK13460 117 AVKEIELAKGKALSQLQNQIVEMTITIASKVLEKQLKK-EDYKAFIETEL 165 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCH-HHHHHHHHHHH
Confidence 44567788888999999999999999988 4443 333 35566666543
No 161
>PRK10534 L-threonine aldolase; Provisional
Probab=20.93 E-value=3e+02 Score=20.38 Aligned_cols=58 Identities=10% Similarity=0.109 Sum_probs=32.8
Q ss_pred CcHhHHHHHHHHHHHhch-hhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041198 17 ISYDQIGDLVSKLQQLIP-ELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSEL 74 (93)
Q Consensus 17 isddqI~dLvsKLQ~LLP-~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqL 74 (93)
+.++++.+.+.+++...+ ..+........+...|++...|++...++.+.|-+.|.++
T Consensus 208 ~~~~~~i~~~~~~~~~~~~~~~~~~~~~a~~~~~l~~~~~~~~~~~~~r~~l~~~L~~~ 266 (333)
T PRK10534 208 VGNRDYIKRARRWRKMTGGGMRQAGILAAAGLYALKHNVARLQEDHDNAAWLAEQLREA 266 (333)
T ss_pred EcCHHHHHHHHHHHHHhCCchhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhC
Confidence 346667666666665321 1111111122334457765678888777888888888774
No 162
>PRK14335 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=20.74 E-value=1.5e+02 Score=24.41 Aligned_cols=46 Identities=20% Similarity=0.252 Sum_probs=35.8
Q ss_pred CCcHhHHHHHHHHHHHhchhhhhhc----cccchHHHHHHHHHHHHHHHH
Q 041198 16 RISYDQIGDLVSKLQQLIPELRSRR----SDKVSASKILQETCDYIRSLH 61 (93)
Q Consensus 16 risddqI~dLvsKLQ~LLP~~~~r~----~~~~SaskvLqETC~YIrsLh 61 (93)
..|-+++.+.+.++++.+|.+.-.. +-..=.-+-.++|+++|+.+.
T Consensus 289 ~~t~e~~~~~v~~ir~~~pgi~i~~d~IvGfPgET~edf~~Tl~~i~~l~ 338 (455)
T PRK14335 289 SYTREHYLSLVGKLKASIPNVALSTDILIGFPGETEEDFEQTLDLMREVE 338 (455)
T ss_pred CCCHHHHHHHHHHHHHhCCCCEEEEEEEEeCCCCCHHHHHHHHHHHHhcC
Confidence 3788999999999999999985332 334457788999999998874
No 163
>TIGR03872 cytochrome_MoxG cytochrome c(L), periplasmic. This model describes a periplasmic c-type cytochrome that serves as the primary electron acceptor for the quinoprotein methanol dehydrogenase, a PQQ enzyme. The member from Paracoccus denitrificans is also characterized as an electron acceptor for methylamine dehydrogenase, a tryptophan tryptophylquinone enzyme. This protein is called cytochrome c(L) in methylotrophic bacteria such Methylobacterium extorquens, but c551i in Paracoccus denitrificans.
Probab=20.66 E-value=1e+02 Score=21.81 Aligned_cols=19 Identities=11% Similarity=0.366 Sum_probs=16.3
Q ss_pred CCCCcHhHHHHHHHHHHHh
Q 041198 14 VSRISYDQIGDLVSKLQQL 32 (93)
Q Consensus 14 asrisddqI~dLvsKLQ~L 32 (93)
+..++++||.+|+..|+.+
T Consensus 103 ~~~LsdeeI~aLaaYI~sl 121 (133)
T TIGR03872 103 YGNLTLDEMLQIMAWIRHL 121 (133)
T ss_pred ccCCCHHHHHHHHHHHHHh
Confidence 3569999999999998876
No 164
>PF06210 DUF1003: Protein of unknown function (DUF1003); InterPro: IPR010406 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=20.62 E-value=1.1e+02 Score=21.29 Aligned_cols=30 Identities=37% Similarity=0.489 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 041198 49 ILQETCDYIRSLHREVDDLSDRLSELLASI 78 (93)
Q Consensus 49 vLqETC~YIrsLhrEVddLSerLsqLl~s~ 78 (93)
|=..+---|..||+++|.+.+.+.+.+...
T Consensus 74 inl~ae~ei~~l~~~l~~l~~~~~~~~~~~ 103 (108)
T PF06210_consen 74 INLKAEQEIERLHRKLDALREKLGELLERD 103 (108)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 333455568889999999999888876553
No 165
>PRK13473 gamma-aminobutyraldehyde dehydrogenase; Provisional
Probab=20.59 E-value=4.7e+02 Score=21.28 Aligned_cols=24 Identities=21% Similarity=0.261 Sum_probs=19.6
Q ss_pred CCCcHhHHHHHHHHHHHhchhhhh
Q 041198 15 SRISYDQIGDLVSKLQQLIPELRS 38 (93)
Q Consensus 15 srisddqI~dLvsKLQ~LLP~~~~ 38 (93)
..-+.+||...|.+.++-.|..+.
T Consensus 34 ~~~~~~~v~~av~~A~~a~~~w~~ 57 (475)
T PRK13473 34 AEASAAQVDAAVAAADAAFPEWSQ 57 (475)
T ss_pred eCCCHHHHHHHHHHHHHHHHHHhc
Confidence 446789999999999998887754
No 166
>COG0621 MiaB 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]
Probab=20.55 E-value=1.4e+02 Score=25.46 Aligned_cols=45 Identities=13% Similarity=0.231 Sum_probs=37.6
Q ss_pred CCcHhHHHHHHHHHHHhchhhhhhc----cccchHHHHHHHHHHHHHHH
Q 041198 16 RISYDQIGDLVSKLQQLIPELRSRR----SDKVSASKILQETCDYIRSL 60 (93)
Q Consensus 16 risddqI~dLvsKLQ~LLP~~~~r~----~~~~SaskvLqETC~YIrsL 60 (93)
+-|-++.-++|.|+.+..|++.-++ +-..=+-.-.|+||..|+..
T Consensus 276 ~yt~e~~~~~i~k~R~~~Pd~~i~tDiIVGFPgETeedFe~tl~lv~e~ 324 (437)
T COG0621 276 GYTVEEYLEIIEKLRAARPDIAISTDIIVGFPGETEEDFEETLDLVEEV 324 (437)
T ss_pred CcCHHHHHHHHHHHHHhCCCceEeccEEEECCCCCHHHHHHHHHHHHHh
Confidence 3688999999999999999997555 44567788899999999865
No 167
>PRK12381 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional
Probab=20.53 E-value=1e+02 Score=24.30 Aligned_cols=25 Identities=20% Similarity=0.248 Sum_probs=20.6
Q ss_pred CCcHhHHHHHHHHHHHhchhhhhhc
Q 041198 16 RISYDQIGDLVSKLQQLIPELRSRR 40 (93)
Q Consensus 16 risddqI~dLvsKLQ~LLP~~~~r~ 40 (93)
-+|+++|.+++..|.+.+-++..+.
T Consensus 380 ~~t~~~i~~~~~~l~~~l~~~~~~~ 404 (406)
T PRK12381 380 NISEEEITTGLDRFARACERFVSRG 404 (406)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHhcc
Confidence 4899999999999999887765443
No 168
>PRK14163 heat shock protein GrpE; Provisional
Probab=20.48 E-value=4.2e+02 Score=20.69 Aligned_cols=34 Identities=29% Similarity=0.448 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHhhhcC
Q 041198 46 ASKILQETCDYIRSLHREVDDLSDR-----LSELLASID 79 (93)
Q Consensus 46 askvLqETC~YIrsLhrEVddLSer-----LsqLl~s~D 79 (93)
--+..-|.=||-|+.++|+++.-.. +..||+.+|
T Consensus 63 ~lR~~AEfeN~rkR~~kE~e~~~~~a~~~~~~~LLpVlD 101 (214)
T PRK14163 63 LQRLQAEYQNYRRRVERDRVTVKEIAVANLLSELLPVLD 101 (214)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHh
Confidence 3577889999999999999987654 344666665
No 169
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=20.43 E-value=3.3e+02 Score=19.47 Aligned_cols=46 Identities=22% Similarity=0.333 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-Hhh-hcCCCcHHHHHHHHhh
Q 041198 46 ASKILQETCDYIRSLHREVDDLSDRLSE-LLA-SIDSNSAEAAIIRSLL 92 (93)
Q Consensus 46 askvLqETC~YIrsLhrEVddLSerLsq-Ll~-s~D~ns~~a~iirsLL 92 (93)
-..+-+|.=..++.|+.||.+|+-.+++ +|. .+|- ..+..+|...+
T Consensus 120 ~~~I~~ek~~a~~~l~~ei~~lA~~~a~kll~~~l~~-~~~~~lI~~~i 167 (173)
T PRK13453 120 QSEINSQKERAIADINNQVSELSVLIASKVLRKEISE-QDQKALVDKYL 167 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHcCH-HHHHHHHHHHH
Confidence 4466777788899999999999999988 433 3332 45666766544
No 170
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=20.41 E-value=2.4e+02 Score=17.86 Aligned_cols=16 Identities=13% Similarity=0.410 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHhchhh
Q 041198 21 QIGDLVSKLQQLIPEL 36 (93)
Q Consensus 21 qI~dLvsKLQ~LLP~~ 36 (93)
+++..+.+++.=+.++
T Consensus 30 ~~~~ti~~l~~~~~~i 45 (90)
T PF06103_consen 30 EVNKTIDTLQEQVDPI 45 (90)
T ss_pred HHHHHHHHHHHhHHHH
Confidence 3444444444433333
No 171
>KOG3232 consensus Vacuolar assembly/sorting protein DID2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.36 E-value=66 Score=25.47 Aligned_cols=11 Identities=55% Similarity=0.830 Sum_probs=9.7
Q ss_pred HHHHHHHHHHh
Q 041198 65 DDLSDRLSELL 75 (93)
Q Consensus 65 ddLSerLsqLl 75 (93)
|||++||+.|=
T Consensus 191 d~L~qRLaaLR 201 (203)
T KOG3232|consen 191 DDLTQRLAALR 201 (203)
T ss_pred hHHHHHHHHHh
Confidence 99999999873
No 172
>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.
Probab=20.34 E-value=2.5e+02 Score=18.04 Aligned_cols=18 Identities=22% Similarity=0.311 Sum_probs=13.9
Q ss_pred cHhHHHHHHHHHHHhchh
Q 041198 18 SYDQIGDLVSKLQQLIPE 35 (93)
Q Consensus 18 sddqI~dLvsKLQ~LLP~ 35 (93)
.|++|..||..-+.|--.
T Consensus 10 KDe~Ia~L~eEGekLSk~ 27 (74)
T PF12329_consen 10 KDEQIAQLMEEGEKLSKK 27 (74)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 489999999888777443
No 173
>cd07086 ALDH_F7_AASADH-like NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase and related proteins. ALDH subfamily which includes the NAD+-dependent, alpha-aminoadipic semialdehyde dehydrogenase (AASADH, EC=1.2.1.31), also known as Antiquitin-1, ALDH7A1, ALDH7B or delta-1-piperideine-6-carboxylate dehydrogenase (P6CDH), and other similar sequences, such as the uncharacterized aldehyde dehydrogenase of Candidatus kuenenia AldH (locus CAJ73105).
Probab=20.34 E-value=4.4e+02 Score=21.57 Aligned_cols=26 Identities=15% Similarity=0.119 Sum_probs=20.6
Q ss_pred CCCcHhHHHHHHHHHHHhchhhhhhc
Q 041198 15 SRISYDQIGDLVSKLQQLIPELRSRR 40 (93)
Q Consensus 15 srisddqI~dLvsKLQ~LLP~~~~r~ 40 (93)
...+.++|.+.|.+.++-.+..+...
T Consensus 30 ~~~~~~~v~~av~~A~~A~~~w~~~~ 55 (478)
T cd07086 30 FPASPEDVEAAVAAAREAFKEWRKVP 55 (478)
T ss_pred eCCCHHHHHHHHHHHHHHHHHHhcCC
Confidence 45688999999999999888775443
No 174
>PF04399 Glutaredoxin2_C: Glutaredoxin 2, C terminal domain; InterPro: IPR007494 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. Unlike other glutaredoxins, glutaredoxin 2 (Grx2) cannot reduce ribonucleotide reductase. Grx2 has significantly higher catalytic activity in the reduction of mixed disulphides with glutathione (GSH) compared with other glutaredoxins. The active site residues (Cys9-Pro10-Tyr11-Cys12, in Escherichia coli Grx2, P39811 from SWISSPROT), which are found at the interface between the N- and C-terminal domains are identical to other glutaredoxins, but there is no other similarity between glutaredoxin 2 and other glutaredoxins. Grx2 is structurally similar to glutathione-S-transferases (GST), but there is no obvious sequence similarity. The inter-domain contacts are mainly hydrophobic, suggesting that the two domains are unlikely to be stable on their own. Both domains are needed for correct folding and activity of Grx2. It is thought that the primary function of Grx2 is to catalyse reversible glutathionylation of proteins with GSH in cellular redox regulation including the response to oxidative stress. The N-terminal domain is IPR004045 from INTERPRO.; PDB: 1G7O_A 3IR4_A.
Probab=20.32 E-value=1.1e+02 Score=22.00 Aligned_cols=29 Identities=24% Similarity=0.374 Sum_probs=22.9
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 041198 44 VSASKILQETCDYIRSLHREVDDLSDRLS 72 (93)
Q Consensus 44 ~SaskvLqETC~YIrsLhrEVddLSerLs 72 (93)
++-...|++|=.||..++.-.++|...|.
T Consensus 48 g~F~~~l~~t~~~i~~l~~~L~~Le~ll~ 76 (132)
T PF04399_consen 48 GSFEELLAKTPELIAELNADLEELEPLLA 76 (132)
T ss_dssp THHHHHHHCHHHHHHHHHHHHHHHHHH-S
T ss_pred CCHHHHHHcCHHHHHHHHHHHHHHHHHhc
Confidence 37889999999999999888877655443
No 175
>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein. This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.
Probab=20.29 E-value=1.2e+02 Score=20.96 Aligned_cols=16 Identities=25% Similarity=0.540 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHhhh
Q 041198 62 REVDDLSDRLSELLAS 77 (93)
Q Consensus 62 rEVddLSerLsqLl~s 77 (93)
.||+.|.+|+.+|=+.
T Consensus 96 ~ev~~L~~RI~~Le~~ 111 (118)
T TIGR01837 96 EEIEALSAKIEQLAVQ 111 (118)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 6777777777776544
No 176
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....
Probab=20.26 E-value=92 Score=24.88 Aligned_cols=21 Identities=19% Similarity=0.716 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 041198 49 ILQETCDYIRSLHREVDDLSD 69 (93)
Q Consensus 49 vLqETC~YIrsLhrEVddLSe 69 (93)
|..-||-|++.+|+.|.++++
T Consensus 89 viDaTCP~V~k~~~~v~~~~~ 109 (281)
T PF02401_consen 89 VIDATCPFVKKIHKIVRKYAK 109 (281)
T ss_dssp EEE---HHHHHHHHHHHHHHH
T ss_pred EEECCChhHHHHHHHHHHHHh
Confidence 344599999999999999875
No 177
>KOG1107 consensus Membrane coat complex Retromer, subunit VPS35 [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.19 E-value=2e+02 Score=26.85 Aligned_cols=49 Identities=20% Similarity=0.318 Sum_probs=38.5
Q ss_pred CCCCCcHhHHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHH
Q 041198 13 GVSRISYDQIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHRE 63 (93)
Q Consensus 13 ~asrisddqI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrE 63 (93)
+-..||-+-|+.||.+.+.=+|.+... +..-.+++.+-+|.+|| .+.+|
T Consensus 697 ~n~~iti~~I~~LI~lik~n~~~l~~s-~~~d~~~~~~~ntl~~l-~l~~e 745 (760)
T KOG1107|consen 697 GNDGITIKHIESLIKLIKTNAKSLKSS-NEADLSESFLSNTLETL-ELIKE 745 (760)
T ss_pred CCCcccHHHHHHHHHHHHhhhhhcccc-chhhhhhhHHHHHHHHH-HHHhc
Confidence 345699999999999999988877322 22347899999999999 77776
No 178
>PF01544 CorA: CorA-like Mg2+ transporter protein; InterPro: IPR002523 The CorA transport system is the primary Mg2+ influx system of Salmonella typhimurium and Escherichia coli [, ]. CorA is virtually ubiquitous in the Bacteria and Archaea. There are also eukaryotic relatives of this protein. Transporter ZntB mediates efflux of zinc ions [].; GO: 0046873 metal ion transmembrane transporter activity, 0030001 metal ion transport, 0055085 transmembrane transport, 0016020 membrane; PDB: 2HN1_A 3NWI_D 3NVO_B 3CK6_A 2IUB_E 2BBJ_E 2HN2_A 2BBH_A.
Probab=20.19 E-value=3.4e+02 Score=19.49 Aligned_cols=34 Identities=24% Similarity=0.343 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 041198 46 ASKILQETCDYIRSLHREVDDLSDRLSELLASID 79 (93)
Q Consensus 46 askvLqETC~YIrsLhrEVddLSerLsqLl~s~D 79 (93)
....+++.+..+.++.+.++.+.+++..+.+...
T Consensus 190 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 223 (292)
T PF01544_consen 190 DKEYLRDLLDRIERLLERAESLRERLESLQDLYQ 223 (292)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456899999999999999999999998877654
No 179
>PRK00977 exodeoxyribonuclease VII small subunit; Provisional
Probab=20.14 E-value=2.7e+02 Score=18.27 Aligned_cols=59 Identities=12% Similarity=0.241 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHhchhhhhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 041198 21 QIGDLVSKLQQLIPELRSRRSDKVSASKILQETCDYIRSLHREVDDLSDRLSELLASID 79 (93)
Q Consensus 21 qI~dLvsKLQ~LLP~~~~r~~~~~SaskvLqETC~YIrsLhrEVddLSerLsqLl~s~D 79 (93)
-+.+-+.+|..++-.+..-.-+=--+-+..++...+++..+..+++.-.++..|+..-+
T Consensus 11 sfEea~~~LEeIv~~LE~~~l~Lees~~lyeeg~~L~k~C~~~L~~ae~ki~~l~~~~~ 69 (80)
T PRK00977 11 SFEEALAELEEIVTRLESGDLPLEESLAAFERGVALARQCQKKLQQAEQRVEKLLDEDG 69 (80)
T ss_pred CHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 35667888888887776544333467788999999999999999999999999977543
No 180
>PRK03578 hscB co-chaperone HscB; Provisional
Probab=20.07 E-value=3.7e+02 Score=19.83 Aligned_cols=20 Identities=25% Similarity=0.416 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 041198 53 TCDYIRSLHREVDDLSDRLS 72 (93)
Q Consensus 53 TC~YIrsLhrEVddLSerLs 72 (93)
-..||.+|+.||+..-+.|.
T Consensus 156 kL~y~~kl~~ei~~~~~~l~ 175 (176)
T PRK03578 156 QLMFIEKLAQEIGAAIERLE 175 (176)
T ss_pred HHHHHHHHHHHHHHHHHHhh
Confidence 35699999999998887764
No 181
>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind
Probab=20.03 E-value=2.4e+02 Score=17.72 Aligned_cols=28 Identities=32% Similarity=0.474 Sum_probs=15.8
Q ss_pred HHHHhchhhhhhccccchHHHHHHHHHH
Q 041198 28 KLQQLIPELRSRRSDKVSASKILQETCD 55 (93)
Q Consensus 28 KLQ~LLP~~~~r~~~~~SaskvLqETC~ 55 (93)
+|++|++++.....=...|...|+|..+
T Consensus 6 ~l~~lv~~id~~~~~~~da~~~l~~~~e 33 (72)
T cd07981 6 KLQELLKEIDPREQLDPDVEELLLEIAD 33 (72)
T ss_pred HHHHHHHhhCCCCCcCHHHHHHHHHHHH
Confidence 5666777665432223366666666553
Done!