Query 048534
Match_columns 91
No_of_seqs 44 out of 46
Neff 2.5
Searched_HMMs 46136
Date Fri Mar 29 10:23:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048534.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048534hhsearch_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 2.1E-53 4.5E-58 293.4 10.4 91 1-91 1-93 (93)
2 smart00353 HLH helix loop heli 98.6 1.9E-07 4E-12 54.3 5.2 44 19-64 9-52 (53)
3 cd00083 HLH Helix-loop-helix d 98.5 3.8E-07 8.2E-12 53.5 5.0 44 19-64 17-60 (60)
4 PF00010 HLH: Helix-loop-helix 98.4 5.1E-07 1.1E-11 53.5 5.0 42 19-60 14-55 (55)
5 KOG1319 bHLHZip transcription 96.0 0.02 4.3E-07 45.3 5.7 58 19-76 75-134 (229)
6 KOG1318 Helix loop helix trans 95.3 0.03 6.6E-07 47.0 4.9 52 19-71 246-297 (411)
7 PF07606 DUF1569: Protein of u 80.2 3.9 8.4E-05 29.0 4.4 47 1-57 1-47 (152)
8 KOG4304 Transcriptional repres 76.4 5.5 0.00012 31.2 4.5 45 19-63 45-92 (250)
9 KOG0561 bHLH transcription fac 75.0 4.7 0.0001 34.1 4.0 41 21-64 75-115 (373)
10 PF15370 DUF4598: Domain of un 74.7 1.2 2.7E-05 31.2 0.5 17 23-39 1-17 (112)
11 smart00338 BRLZ basic region l 73.0 18 0.00038 21.9 5.3 50 40-89 12-63 (65)
12 PF15233 SYCE1: Synaptonemal c 69.3 15 0.00033 27.3 5.2 45 18-69 5-49 (134)
13 PF00034 Cytochrom_C: Cytochro 69.1 6.2 0.00014 22.6 2.6 17 15-31 74-90 (91)
14 PF06103 DUF948: Bacterial pro 64.2 25 0.00054 22.4 4.9 35 45-79 24-58 (90)
15 PF09602 PhaP_Bmeg: Polyhydrox 61.6 38 0.00083 25.7 6.2 59 19-77 44-108 (165)
16 PF04344 CheZ: Chemotaxis phos 59.8 62 0.0013 24.4 7.0 34 46-79 96-129 (214)
17 PF14197 Cep57_CLD_2: Centroso 59.1 46 0.00099 21.4 5.9 34 41-74 34-67 (69)
18 PF07303 Occludin_ELL: Occludi 58.9 11 0.00025 25.7 2.7 24 55-78 23-46 (101)
19 PF08826 DMPK_coil: DMPK coile 55.9 26 0.00056 22.4 3.9 44 30-73 15-58 (61)
20 smart00657 RPOL4c DNA-directed 55.7 12 0.00027 25.5 2.5 21 14-34 97-117 (118)
21 PF10393 Matrilin_ccoil: Trime 55.6 25 0.00053 21.7 3.6 23 51-73 20-42 (47)
22 smart00533 MUTSd DNA-binding d 55.3 57 0.0012 23.7 6.0 57 10-72 212-268 (308)
23 PF02179 BAG: BAG domain; Int 54.1 21 0.00047 22.4 3.3 44 20-79 1-45 (76)
24 PHA02571 a-gt.4 hypothetical p 53.8 33 0.00071 24.7 4.5 45 13-62 8-52 (109)
25 COG2882 FliJ Flagellar biosynt 52.7 62 0.0014 23.9 5.9 59 20-79 38-96 (148)
26 PF08606 Prp19: Prp19/Pso4-lik 52.5 20 0.00043 23.9 3.0 22 52-73 48-69 (70)
27 PF06842 DUF1242: Protein of u 52.3 8.2 0.00018 22.8 1.0 11 49-59 8-18 (36)
28 TIGR01639 P_fal_TIGR01639 Plas 52.0 10 0.00022 23.6 1.5 22 14-35 8-29 (61)
29 PF13713 BRX_N: Transcription 50.3 13 0.00029 22.2 1.7 19 54-72 12-30 (39)
30 KOG3863 bZIP transcription fac 49.8 44 0.00096 29.9 5.5 61 19-79 470-536 (604)
31 PF13234 rRNA_proc-arch: rRNA- 48.6 79 0.0017 23.7 6.0 58 15-72 210-267 (268)
32 PF15483 DUF4641: Domain of un 48.4 14 0.00029 32.1 2.1 26 52-77 416-441 (445)
33 smart00340 HALZ homeobox assoc 48.3 30 0.00065 21.6 3.1 21 47-67 8-32 (44)
34 PLN03227 serine palmitoyltrans 47.1 22 0.00049 27.9 3.0 18 17-34 365-382 (392)
35 PF05508 Ran-binding: RanGTP-b 46.0 50 0.0011 27.1 4.9 28 48-75 78-105 (302)
36 PF04282 DUF438: Family of unk 45.6 38 0.00083 22.3 3.5 28 54-81 4-33 (71)
37 PF06441 EHN: Epoxide hydrolas 44.3 58 0.0013 22.4 4.4 43 15-57 6-53 (112)
38 cd05134 RasGAP_RASA3 RASA3 (or 44.0 43 0.00093 27.1 4.3 45 28-79 6-50 (310)
39 PRK00253 fliE flagellar hook-b 42.9 1.1E+02 0.0024 21.1 6.7 53 19-71 5-64 (108)
40 KOG4603 TBP-1 interacting prot 42.6 42 0.00091 26.5 3.9 25 55-79 124-148 (201)
41 COG3880 Modulator of heat shoc 42.3 32 0.00068 26.6 3.1 30 58-87 133-162 (176)
42 PF13873 Myb_DNA-bind_5: Myb/S 41.7 80 0.0017 19.1 4.5 62 13-74 2-69 (78)
43 TIGR03843 conserved hypothetic 41.3 47 0.001 26.9 4.0 30 50-79 192-222 (253)
44 COG4575 ElaB Uncharacterized c 41.1 62 0.0013 23.0 4.2 21 16-36 5-25 (104)
45 PHA03011 hypothetical protein; 38.9 82 0.0018 23.1 4.7 52 22-73 67-118 (120)
46 PF06719 AraC_N: AraC-type tra 38.1 61 0.0013 22.5 3.8 52 15-78 78-129 (155)
47 PF04688 Phage_holin: Phage ly 38.1 26 0.00057 21.3 1.7 20 14-33 5-24 (47)
48 PHA02414 hypothetical protein 38.0 1.6E+02 0.0034 21.4 6.0 47 17-63 2-52 (111)
49 PRK13702 replication protein; 37.9 1.4E+02 0.003 20.7 6.1 51 40-90 21-76 (85)
50 TIGR02613 mob_myst_B mobile my 37.8 48 0.001 24.1 3.4 15 14-28 2-16 (186)
51 CHL00123 rps6 ribosomal protei 37.2 38 0.00082 22.5 2.5 23 14-36 16-38 (97)
52 PRK12525 RNA polymerase sigma 37.2 75 0.0016 21.5 4.0 14 17-30 36-49 (168)
53 KOG4029 Transcription factor H 36.9 35 0.00077 25.3 2.6 43 18-61 121-163 (228)
54 PF06305 DUF1049: Protein of u 36.4 39 0.00085 20.1 2.3 19 55-73 49-67 (68)
55 cd02062 Nitro_FMN_reductase Pr 36.2 61 0.0013 20.1 3.3 37 1-39 1-37 (122)
56 PF15112 DUF4559: Domain of un 36.2 1.6E+02 0.0035 24.4 6.5 65 13-77 157-245 (307)
57 PF07106 TBPIP: Tat binding pr 35.6 1.4E+02 0.0029 21.0 5.3 30 50-79 112-141 (169)
58 PF09346 SMI1_KNR4: SMI1 / KNR 35.3 24 0.00053 21.5 1.3 21 15-35 1-21 (130)
59 PF09665 RE_Alw26IDE: Type II 34.8 93 0.002 27.6 5.1 69 11-89 406-478 (511)
60 PRK05014 hscB co-chaperone Hsc 34.8 1.8E+02 0.0039 21.1 6.0 19 53-71 152-170 (171)
61 PF07743 HSCB_C: HSCB C-termin 33.8 1.2E+02 0.0025 18.7 5.3 40 20-65 39-78 (78)
62 KOG3923 D-aspartate oxidase [A 33.6 29 0.00063 29.2 1.9 25 13-37 251-275 (342)
63 PRK12381 bifunctional succinyl 33.5 45 0.00097 26.1 2.8 27 14-40 379-405 (406)
64 PF06013 WXG100: Proteins of 1 33.2 99 0.0021 17.7 7.1 57 20-76 22-80 (86)
65 PF12348 CLASP_N: CLASP N term 33.1 91 0.002 21.8 4.1 55 16-72 39-97 (228)
66 cd05128 RasGAP_GAP1_like The G 33.0 64 0.0014 25.8 3.6 46 28-79 6-51 (315)
67 PF01865 PhoU_div: Protein of 32.8 1.6E+02 0.0035 20.9 5.3 25 51-75 149-174 (214)
68 PF01166 TSC22: TSC-22/dip/bun 32.8 42 0.00091 21.9 2.1 30 59-88 12-43 (59)
69 PRK11512 DNA-binding transcrip 32.7 48 0.001 22.3 2.5 20 14-33 125-144 (144)
70 PRK14143 heat shock protein Gr 32.6 2.4E+02 0.0053 22.0 7.2 60 17-79 65-129 (238)
71 PF02888 CaMBD: Calmodulin bin 32.5 26 0.00056 23.7 1.2 28 42-69 9-38 (77)
72 PHA01735 hypothetical protein 32.2 86 0.0019 21.5 3.7 41 14-58 3-44 (76)
73 PRK15326 type III secretion sy 31.9 43 0.00094 22.8 2.2 33 24-56 43-75 (80)
74 cd04881 ACT_HSDH-Hom ACT_HSDH_ 31.4 47 0.001 18.6 2.0 17 15-31 50-66 (79)
75 PF09373 PMBR: Pseudomurein-bi 31.1 64 0.0014 17.8 2.5 20 13-32 2-21 (33)
76 PF03874 RNA_pol_Rpb4: RNA pol 31.0 63 0.0014 21.2 2.8 18 14-31 99-116 (117)
77 PRK14552 C/D box methylation g 30.7 1.8E+02 0.0039 24.5 6.0 34 46-79 231-264 (414)
78 KOG3561 Aryl-hydrocarbon recep 30.7 96 0.0021 28.6 4.7 42 18-63 32-75 (803)
79 KOG0288 WD40 repeat protein Ti 30.6 1.4E+02 0.003 26.3 5.4 44 46-89 47-97 (459)
80 PF03147 FDX-ACB: Ferredoxin-f 30.6 56 0.0012 21.0 2.5 22 13-34 66-87 (94)
81 PF10191 COG7: Golgi complex c 30.3 1.4E+02 0.0031 26.5 5.6 60 18-79 33-95 (766)
82 PF10076 DUF2313: Uncharacteri 28.9 2.1E+02 0.0045 20.2 5.3 46 27-79 2-47 (179)
83 TIGR02473 flagell_FliJ flagell 28.2 1.8E+02 0.0038 19.1 6.6 60 19-79 34-93 (141)
84 PF11155 DUF2935: Domain of un 28.1 58 0.0013 21.8 2.3 18 44-61 107-124 (124)
85 COG5238 RNA1 Ran GTPase-activa 27.8 42 0.0009 28.7 1.9 15 58-72 371-385 (388)
86 cd07135 ALDH_F14-YMR110C Sacch 27.6 2.5E+02 0.0055 22.7 6.2 50 17-75 3-52 (436)
87 PRK07352 F0F1 ATP synthase sub 27.2 2.3E+02 0.005 20.0 6.1 46 45-90 121-169 (174)
88 KOG0250 DNA repair protein RAD 27.1 1.9E+02 0.004 27.9 6.0 54 16-77 334-388 (1074)
89 PF14523 Syntaxin_2: Syntaxin- 26.8 1.7E+02 0.0037 18.4 5.9 53 20-73 7-59 (102)
90 PF01544 CorA: CorA-like Mg2+ 26.6 2.4E+02 0.0052 20.1 7.6 36 44-79 189-224 (292)
91 PRK13844 recombination protein 26.6 2.3E+02 0.0049 21.9 5.5 56 13-77 2-57 (200)
92 cd03370 NADH_oxidase NADPH_oxi 26.3 73 0.0016 21.5 2.6 36 2-39 6-41 (156)
93 TIGR03872 cytochrome_MoxG cyto 25.5 75 0.0016 22.4 2.6 19 13-31 103-121 (133)
94 smart00099 btg1 tob/btg1 famil 25.5 1.5E+02 0.0033 20.9 4.1 27 49-75 5-39 (108)
95 TIGR02603 CxxCH_TIGR02603 puta 25.4 66 0.0014 22.0 2.2 18 14-31 116-133 (133)
96 PRK06231 F0F1 ATP synthase sub 25.1 2.9E+02 0.0063 20.5 6.3 47 44-90 149-198 (205)
97 PF12876 Cellulase-like: Sugar 25.0 74 0.0016 20.1 2.3 19 42-60 37-55 (88)
98 PF10044 Ret_tiss: Retinal tis 24.9 57 0.0012 22.6 1.8 39 14-69 42-80 (95)
99 PF14313 Soyouz_module: N-term 24.8 14 0.00031 23.6 -1.1 12 15-26 3-14 (58)
100 COG2118 DNA-binding protein [G 24.8 75 0.0016 23.1 2.5 19 13-31 86-104 (116)
101 PRK00294 hscB co-chaperone Hsc 24.7 2.9E+02 0.0063 20.3 6.1 19 53-71 154-172 (173)
102 PRK06474 hypothetical protein; 24.6 82 0.0018 22.9 2.7 25 14-38 134-158 (178)
103 PRK04239 hypothetical protein; 24.6 72 0.0016 22.7 2.3 17 13-29 83-99 (110)
104 PF09487 HrpB2: Bacterial type 24.5 2.5E+02 0.0054 20.2 5.1 50 20-69 14-69 (117)
105 PRK13453 F0F1 ATP synthase sub 24.5 2.7E+02 0.0058 19.9 6.3 45 45-89 120-167 (173)
106 PF07061 Swi5: Swi5; InterPro 24.0 1.3E+02 0.0027 20.1 3.3 32 44-78 33-66 (83)
107 PRK13689 hypothetical protein; 24.0 75 0.0016 21.6 2.2 22 13-34 4-25 (75)
108 PF12325 TMF_TATA_bd: TATA ele 23.9 2.7E+02 0.0058 19.7 5.6 44 43-86 12-55 (120)
109 smart00529 HTH_DTXR Helix-turn 23.8 77 0.0017 19.5 2.2 21 15-35 66-86 (96)
110 PF08167 RIX1: rRNA processing 23.8 2.7E+02 0.0058 19.6 8.4 62 16-79 18-81 (165)
111 PF00170 bZIP_1: bZIP transcri 23.8 1.7E+02 0.0038 17.5 5.5 39 41-79 13-51 (64)
112 KOG0810 SNARE protein Syntaxin 23.6 1.5E+02 0.0032 24.0 4.2 61 19-79 43-103 (297)
113 PRK00453 rpsF 30S ribosomal pr 23.6 91 0.002 20.6 2.6 22 14-35 12-33 (108)
114 PF11212 DUF2999: Protein of u 23.6 71 0.0015 22.1 2.1 15 14-28 11-25 (82)
115 TIGR01140 L_thr_O3P_dcar L-thr 23.6 1.9E+02 0.0041 21.7 4.5 54 24-78 212-265 (330)
116 PRK11166 chemotaxis regulator 23.3 3E+02 0.0065 21.4 5.7 34 45-78 107-140 (214)
117 cd00179 SynN Syntaxin N-termin 23.1 2.4E+02 0.0051 18.7 6.8 54 19-72 16-69 (151)
118 PF13442 Cytochrome_CBB3: Cyto 22.9 89 0.0019 18.2 2.2 14 14-27 53-66 (67)
119 PF09865 DUF2092: Predicted pe 22.9 51 0.0011 25.1 1.4 17 45-61 2-18 (214)
120 cd02143 NADH_nitroreductase Ni 22.8 88 0.0019 20.9 2.4 35 2-38 3-37 (147)
121 smart00808 FABD F-actin bindin 22.8 1.9E+02 0.004 21.3 4.2 45 19-68 78-122 (126)
122 COG5499 Predicted transcriptio 22.7 97 0.0021 22.8 2.7 25 40-64 84-112 (120)
123 PF05802 EspB: Enterobacterial 22.7 56 0.0012 27.3 1.7 24 13-36 36-61 (317)
124 PF06188 HrpE: HrpE/YscL/FliH 22.6 3.2E+02 0.007 20.1 6.2 46 44-89 65-124 (191)
125 PF08453 Peptidase_M9_N: Pepti 22.5 1.1E+02 0.0025 22.4 3.2 56 16-72 41-97 (190)
126 PF06210 DUF1003: Protein of u 22.5 1.1E+02 0.0024 21.2 2.9 29 48-76 74-102 (108)
127 KOG2483 Upstream transcription 22.4 3.5E+02 0.0076 21.3 6.0 43 18-62 71-113 (232)
128 PF08663 HalX: HalX domain; I 22.4 1.7E+02 0.0036 19.0 3.6 22 58-79 40-61 (71)
129 PF04102 SlyX: SlyX; InterPro 22.3 69 0.0015 20.1 1.7 30 47-76 25-54 (69)
130 TIGR00153 conserved hypothetic 22.3 3.1E+02 0.0068 19.9 6.6 29 48-76 148-177 (216)
131 PF00804 Syntaxin: Syntaxin; 22.1 1.3E+02 0.0029 18.1 2.9 25 46-70 48-72 (103)
132 TIGR00782 ccoP cytochrome c ox 22.0 76 0.0016 24.3 2.2 41 14-54 175-215 (285)
133 PF08919 F_actin_bind: F-actin 22.0 1.5E+02 0.0033 20.9 3.5 37 20-56 63-101 (110)
134 PRK05771 V-type ATP synthase s 21.7 3.6E+02 0.0077 23.0 6.3 16 20-35 54-69 (646)
135 TIGR00400 mgtE Mg2+ transporte 21.7 2.5E+02 0.0054 22.9 5.2 13 21-33 4-16 (449)
136 KOG2351 RNA polymerase II, fou 21.6 91 0.002 23.3 2.5 19 13-31 112-130 (134)
137 PRK13436 F0F1 ATP synthase sub 21.5 94 0.002 22.3 2.5 22 12-33 115-136 (179)
138 PRK11166 chemotaxis regulator 21.4 4E+02 0.0087 20.7 6.7 61 14-75 100-168 (214)
139 PRK03578 hscB co-chaperone Hsc 21.2 3.4E+02 0.0074 19.9 6.0 19 53-71 157-175 (176)
140 KOG3232 Vacuolar assembly/sort 21.2 62 0.0013 25.6 1.6 11 64-74 191-201 (203)
141 PF12296 HsbA: Hydrophobic sur 21.0 2.4E+02 0.0053 18.2 4.9 60 12-71 57-122 (124)
142 PF09755 DUF2046: Uncharacteri 21.0 3.9E+02 0.0084 22.2 6.2 21 50-70 225-245 (310)
143 PF10428 SOG2: RAM signalling 21.0 5E+02 0.011 21.8 8.0 70 18-90 66-135 (445)
144 PF10474 DUF2451: Protein of u 20.8 2.1E+02 0.0045 21.8 4.4 30 51-80 89-118 (234)
145 PF04156 IncA: IncA protein; 20.7 3.1E+02 0.0067 19.2 6.1 31 44-74 120-150 (191)
146 cd07092 ALDH_ABALDH-YdcW Esche 20.1 4.5E+02 0.0098 20.9 6.4 52 14-74 14-65 (450)
No 1
>PLN03217 transcription factor ATBS1; Provisional
Probab=100.00 E-value=2.1e-53 Score=293.39 Aligned_cols=91 Identities=81% Similarity=1.122 Sum_probs=87.7
Q ss_pred CCCcccccc-CCCCCCCCHHHHHHHHHHHHHhchhhhh-ccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Q 048534 1 MSSRRSRSR-QSGSSRITDDQINDLVSKLQQLLPELRN-NRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSELLATTD 78 (91)
Q Consensus 1 MSsrrsrs~-~~~~s~isddqi~dLvsKLQaLLPe~~~-r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll~s~D 78 (91)
|||||||++ ++++++||||||+|||+|||+|||++++ |+++++||+|||||||||||+||||||||||||+|||++.|
T Consensus 1 MSsRRSrsrq~s~s~risddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSerLs~LL~t~~ 80 (93)
T PLN03217 1 MSGRRSRSRQSSGTSRISEDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSERLSELLANSD 80 (93)
T ss_pred CCcccccccccCCCCCCCHHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 999999998 4688999999999999999999999986 88999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHhcC
Q 048534 79 TAQAAIIRSLLMQ 91 (91)
Q Consensus 79 ~~~a~iiRsLL~~ 91 (91)
.|+|+||||||||
T Consensus 81 s~~a~iIRSlL~~ 93 (93)
T PLN03217 81 TAQAALIRSLLTQ 93 (93)
T ss_pred CchHHHHHHHhcC
Confidence 9999999999997
No 2
>smart00353 HLH helix loop helix domain.
Probab=98.56 E-value=1.9e-07 Score=54.26 Aligned_cols=44 Identities=34% Similarity=0.619 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHH
Q 048534 19 DQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVD 64 (91)
Q Consensus 19 dqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVd 64 (91)
++||+.+..|+.++|... .+.+.+-+-||++||+||+.|+.+++
T Consensus 9 ~~~n~~~~~L~~lip~~~--~~~k~~k~~iL~~ai~yi~~L~~~~~ 52 (53)
T smart00353 9 RKINEAFDELRSLLPTLP--NNKKLSKAEILRLAIEYIKSLQEELQ 52 (53)
T ss_pred HHHHHHHHHHHHHCCCCC--CCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 689999999999999875 45677888999999999999999986
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=98.48 E-value=3.8e-07 Score=53.45 Aligned_cols=44 Identities=36% Similarity=0.657 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHH
Q 048534 19 DQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVD 64 (91)
Q Consensus 19 dqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVd 64 (91)
++||+.+..|+.++|... .+.+.+-+.||+.||+||+.|+.+++
T Consensus 17 ~~~n~~~~~L~~llp~~~--~~~k~~k~~iL~~a~~yI~~L~~~~~ 60 (60)
T cd00083 17 ERINDAFDELRSLLPTLP--PSKKLSKAEILRKAVDYIKSLQELLQ 60 (60)
T ss_pred HHHHHHHHHHHHHCCCCC--CCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 789999999999999986 55678889999999999999998863
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=98.45 E-value=5.1e-07 Score=53.50 Aligned_cols=42 Identities=38% Similarity=0.652 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHH
Q 048534 19 DQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLH 60 (91)
Q Consensus 19 dqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~Lh 60 (91)
+.||+.+..|+.+||........+.+-+.||+.||+||+.|+
T Consensus 14 ~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 14 DRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp HHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence 689999999999999954455667899999999999999986
No 5
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=95.98 E-value=0.02 Score=45.27 Aligned_cols=58 Identities=33% Similarity=0.452 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHHhchhhhhcc-C-CcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 048534 19 DQINDLVSKLQQLLPELRNNR-S-DKVSAGKVLQETCNYIRSLHREVDDLSERLSELLAT 76 (91)
Q Consensus 19 dqi~dLvsKLQaLLPe~~~r~-~-~~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll~s 76 (91)
|-|+.=-+-||.|+|.-...- + -|.|-+-|||.||.||--||.|..+--+-+++|=+.
T Consensus 75 dAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s~L~k~ 134 (229)
T KOG1319|consen 75 DAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVSTLRKD 134 (229)
T ss_pred HHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346666677999999986443 2 388999999999999999999999999999998654
No 6
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=95.35 E-value=0.03 Score=47.01 Aligned_cols=52 Identities=31% Similarity=0.601 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048534 19 DQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLS 71 (91)
Q Consensus 19 dqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs 71 (91)
+-||+-|-+|-.|||..+--. .+..-.-||+-+|.|||.||++-....|...
T Consensus 246 ~nIN~~IkeLg~liP~~~~~~-~~~nKgtILk~s~dYIr~Lqq~~q~~~E~~~ 297 (411)
T KOG1318|consen 246 ENINDRIKELGQLIPKCNSED-MKSNKGTILKASCDYIRELQQTLQRARELEN 297 (411)
T ss_pred HHHHHHHHHHHHhCCCCCcch-hhcccchhhHHHHHHHHHHHHHHHHHHHHHh
Confidence 679999999999999985222 2222456999999999999998876666443
No 7
>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=80.24 E-value=3.9 Score=29.02 Aligned_cols=47 Identities=21% Similarity=0.487 Sum_probs=37.0
Q ss_pred CCCccccccCCCCCCCCHHHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHH
Q 048534 1 MSSRRSRSRQSGSSRITDDQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIR 57 (91)
Q Consensus 1 MSsrrsrs~~~~~s~isddqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr 57 (91)
|+.||. ++-+-++|++.+|+.|.|+. .+.-.+-|++.+|.--|..|+
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 676764 67777899999999999975 444578899999987766665
No 8
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=76.45 E-value=5.5 Score=31.18 Aligned_cols=45 Identities=31% Similarity=0.523 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHhchhhhhc---cCCcchHHHHHHHHHHHHHHHHHHH
Q 048534 19 DQINDLVSKLQQLLPELRNN---RSDKVSAGKVLQETCNYIRSLHREV 63 (91)
Q Consensus 19 dqi~dLvsKLQaLLPe~~~r---~~~~~SaskvLqETC~YIr~LhrEV 63 (91)
|=||..++.|+.|+||.-.. +.+|--=+.||+=|-+|.|.||+=.
T Consensus 45 aRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~ 92 (250)
T KOG4304|consen 45 ARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQ 92 (250)
T ss_pred HHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhccc
Confidence 56999999999999999533 3466677899999999999999743
No 9
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=75.00 E-value=4.7 Score=34.07 Aligned_cols=41 Identities=34% Similarity=0.549 Sum_probs=34.0
Q ss_pred HHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHH
Q 048534 21 INDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVD 64 (91)
Q Consensus 21 i~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVd 64 (91)
||-=..-|++|||- .-+-|.|-+.|||.|..||-.|..+--
T Consensus 75 INAGFqsLr~LlPr---~eGEKLSKAAILQQTa~yI~~Le~~Kt 115 (373)
T KOG0561|consen 75 INAGFQSLRALLPR---KEGEKLSKAAILQQTADYIHQLEGHKT 115 (373)
T ss_pred hhHHHHHHHHhcCc---ccchhhHHHHHHHHHHHHHHHHHhccc
Confidence 77778889999993 346788999999999999999977643
No 10
>PF15370 DUF4598: Domain of unknown function (DUF4598)
Probab=74.71 E-value=1.2 Score=31.18 Aligned_cols=17 Identities=41% Similarity=0.831 Sum_probs=14.5
Q ss_pred HHHHHHHHhchhhhhcc
Q 048534 23 DLVSKLQQLLPELRNNR 39 (91)
Q Consensus 23 dLvsKLQaLLPe~~~r~ 39 (91)
||++||+++||++...|
T Consensus 1 dll~rl~~FLPqm~~AN 17 (112)
T PF15370_consen 1 DLLSRLQAFLPQMKAAN 17 (112)
T ss_pred CHHHHHHHHHHHHHHHH
Confidence 58999999999997554
No 11
>smart00338 BRLZ basic region leucin zipper.
Probab=72.98 E-value=18 Score=21.94 Aligned_cols=50 Identities=18% Similarity=0.237 Sum_probs=38.4
Q ss_pred CCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCh--hHHHHHHHHh
Q 048534 40 SDKVSAGKVLQETCNYIRSLHREVDDLSERLSELLATTDT--AQAAIIRSLL 89 (91)
Q Consensus 40 ~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll~s~D~--~~a~iiRsLL 89 (91)
..++||.+.=+--=.||..|+.+|.+|..--.+|...++. .+-..++..+
T Consensus 12 rNR~aA~~~R~rKk~~~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk~~~ 63 (65)
T smart00338 12 RNREAARRSRERKKAEIEELERKVEQLEAENERLKKEIERLRRELEKLKSEL 63 (65)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4567777776777789999999999999999888888876 4555555544
No 12
>PF15233 SYCE1: Synaptonemal complex central element protein 1
Probab=69.30 E-value=15 Score=27.27 Aligned_cols=45 Identities=29% Similarity=0.502 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048534 18 DDQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSER 69 (91)
Q Consensus 18 ddqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeR 69 (91)
+-+|.|||.++-.| .+ .+--++.=|.||=.....||+|+|.|..-
T Consensus 5 eP~iE~LInrInel----QQ---aKKk~~EELgEa~~l~eaL~~ELDsL~~E 49 (134)
T PF15233_consen 5 EPQIEDLINRINEL----QQ---AKKKSSEELGEAQALWEALQRELDSLNGE 49 (134)
T ss_pred cchHHHHHHHHHHH----HH---HHHHhHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 45788888776443 12 34456778999999999999999999654
No 13
>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=69.12 E-value=6.2 Score=22.58 Aligned_cols=17 Identities=35% Similarity=0.632 Sum_probs=15.0
Q ss_pred CCCHHHHHHHHHHHHHh
Q 048534 15 RITDDQINDLVSKLQQL 31 (91)
Q Consensus 15 ~isddqi~dLvsKLQaL 31 (91)
.+||+||.+|+.-|..|
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 58999999999988765
No 14
>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=64.23 E-value=25 Score=22.36 Aligned_cols=35 Identities=29% Similarity=0.487 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCh
Q 048534 45 AGKVLQETCNYIRSLHREVDDLSERLSELLATTDT 79 (91)
Q Consensus 45 askvLqETC~YIr~LhrEVddLSeRLs~Ll~s~D~ 79 (91)
..|.++|+=.-++.+++|+|.+.+...+++...+.
T Consensus 24 l~~~l~~~~~ti~~l~~~~~~i~~e~~~ll~~~n~ 58 (90)
T PF06103_consen 24 LKKTLDEVNKTIDTLQEQVDPITKEINDLLHNTNE 58 (90)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence 46778888888888888888888888888777654
No 15
>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=61.56 E-value=38 Score=25.73 Aligned_cols=59 Identities=24% Similarity=0.291 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHHhchhhhhccCCcc-hHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 048534 19 DQINDLVSKLQQLLPELRNNRSDKV-SAGKV-----LQETCNYIRSLHREVDDLSERLSELLATT 77 (91)
Q Consensus 19 dqi~dLvsKLQaLLPe~~~r~~~~~-Saskv-----LqETC~YIr~LhrEVddLSeRLs~Ll~s~ 77 (91)
|.|.-++-.|+..+|++-.+-++-- .--|. .-.-|.||+.+..++.+|+-++.+|+-+.
T Consensus 44 d~itk~veeLe~~~~q~~~~~s~~~~~~vk~L~k~~~~~l~d~inE~t~k~~El~~~i~el~~~~ 108 (165)
T PF09602_consen 44 DWITKQVEELEKELKQFKREFSDLYEEYVKQLRKATGNSLNDSINEWTDKLNELSAKIQELLLSP 108 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcch
Confidence 4578888889999999953333311 11222 24569999999999999999999887544
No 16
>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=59.84 E-value=62 Score=24.40 Aligned_cols=34 Identities=18% Similarity=0.413 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCh
Q 048534 46 GKVLQETCNYIRSLHREVDDLSERLSELLATTDT 79 (91)
Q Consensus 46 skvLqETC~YIr~LhrEVddLSeRLs~Ll~s~D~ 79 (91)
-.+..+|..|+..+..-.+.+.+.|.+.|...|-
T Consensus 96 ~~l~~~~~~~l~~~~~~~~~~~~~l~eIm~Aq~F 129 (214)
T PF04344_consen 96 RELAHETDAFLQQVEENAQQLRAQLTEIMMAQDF 129 (214)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTH
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhh
Confidence 4578889999999999999999999998888875
No 17
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=59.08 E-value=46 Score=21.44 Aligned_cols=34 Identities=26% Similarity=0.324 Sum_probs=28.6
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 048534 41 DKVSAGKVLQETCNYIRSLHREVDDLSERLSELL 74 (91)
Q Consensus 41 ~~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll 74 (91)
-+-++.+=|+++|.-|..|+.|++.|..-|-.+.
T Consensus 34 ERd~~~~~l~~a~~e~~~Lk~E~e~L~~el~~~r 67 (69)
T PF14197_consen 34 ERDSAERQLGDAYEENNKLKEENEALRKELEELR 67 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3557888899999999999999999988776543
No 18
>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=58.90 E-value=11 Score=25.65 Aligned_cols=24 Identities=38% Similarity=0.493 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccC
Q 048534 55 YIRSLHREVDDLSERLSELLATTD 78 (91)
Q Consensus 55 YIr~LhrEVddLSeRLs~Ll~s~D 78 (91)
=-+.||.||++.+.++++|=+-++
T Consensus 23 EYk~L~~~v~~v~~~f~~L~~~l~ 46 (101)
T PF07303_consen 23 EYKELHAEVDAVSRRFQELDSELK 46 (101)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357899999999999999755443
No 19
>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=55.93 E-value=26 Score=22.45 Aligned_cols=44 Identities=27% Similarity=0.383 Sum_probs=34.9
Q ss_pred HhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048534 30 QLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSEL 73 (91)
Q Consensus 30 aLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~L 73 (91)
.+--+++.-.++-..+.+=|||+=..++.|..||+.|-+.+.++
T Consensus 15 ~~~eEL~kvk~~n~~~e~kLqeaE~rn~eL~~ei~~L~~e~ee~ 58 (61)
T PF08826_consen 15 AIQEELTKVKSANLAFESKLQEAEKRNRELEQEIERLKKEMEEL 58 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34445555455566788889999999999999999999998774
No 20
>smart00657 RPOL4c DNA-directed RNA-polymerase II subunit.
Probab=55.74 E-value=12 Score=25.47 Aligned_cols=21 Identities=33% Similarity=0.719 Sum_probs=18.3
Q ss_pred CCCCHHHHHHHHHHHHHhchh
Q 048534 14 SRITDDQINDLVSKLQQLLPE 34 (91)
Q Consensus 14 s~isddqi~dLvsKLQaLLPe 34 (91)
.|++|+|+.+++..+..+.|.
T Consensus 97 ~r~~ee~l~~iL~~i~~~~~~ 117 (118)
T smart00657 97 ERIDEEELEELLDDLSSLLPF 117 (118)
T ss_pred ccCCHHHHHHHHHHHHHhcCC
Confidence 579999999999999988763
No 21
>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=55.62 E-value=25 Score=21.68 Aligned_cols=23 Identities=30% Similarity=0.531 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 048534 51 ETCNYIRSLHREVDDLSERLSEL 73 (91)
Q Consensus 51 ETC~YIr~LhrEVddLSeRLs~L 73 (91)
.|=+||.+|.+-.|+++.||..|
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 45678999999999999999876
No 22
>smart00533 MUTSd DNA-binding domain of DNA mismatch repair MUTS family.
Probab=55.31 E-value=57 Score=23.74 Aligned_cols=57 Identities=21% Similarity=0.318 Sum_probs=44.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048534 10 QSGSSRITDDQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSE 72 (91)
Q Consensus 10 ~~~~s~isddqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~ 72 (91)
+++.-.|+..++.+|..+++.+.=+.... ..+++++-.+.|..-..++..+.+-+++
T Consensus 212 s~~~~~~~~~~~~~l~~~~~~~~~~~~~~------~~~i~~~l~~~i~~~~~~l~~~~~~i~~ 268 (308)
T smart00533 212 LKNTERFTTPELKELENELLEAKEEIERL------EKEILRELLEKVLEYLEELRALAEALAE 268 (308)
T ss_pred hcccceeeCHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34578899999999999999988777532 3468888888888877777777766665
No 23
>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=54.11 E-value=21 Score=22.40 Aligned_cols=44 Identities=27% Similarity=0.379 Sum_probs=31.8
Q ss_pred HHHHHHHHHHH-hchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCh
Q 048534 20 QINDLVSKLQQ-LLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSELLATTDT 79 (91)
Q Consensus 20 qi~dLvsKLQa-LLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll~s~D~ 79 (91)
||++.+.++.. |.|+...- ......+|.--++|.|-++|-..|.
T Consensus 1 ~I~~i~~~v~~~l~~~v~~~----------------~~~~~~~~~~~l~E~L~~~LlkLD~ 45 (76)
T PF02179_consen 1 KIEKIIDEVEKELQPEVEQF----------------DGKKDEKEYLRLSEMLMQLLLKLDS 45 (76)
T ss_dssp HHHHHHHHHHHCHHHHHHHH----------------HHHHCCHHHHHHHHHHHHHHHHHHT
T ss_pred CHHHHHHHHHHHHHHHHHHH----------------hccCcHHHHHHHHHHHHHHHHHhcC
Confidence 56677777777 77766432 4667778888899999998776664
No 24
>PHA02571 a-gt.4 hypothetical protein; Provisional
Probab=53.75 E-value=33 Score=24.74 Aligned_cols=45 Identities=24% Similarity=0.409 Sum_probs=30.9
Q ss_pred CCCCCHHHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHH
Q 048534 13 SSRITDDQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHRE 62 (91)
Q Consensus 13 ~s~isddqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrE 62 (91)
...++|.|+.++++++|+=+-.-..+ -|+|+|+---.=|++|++=
T Consensus 8 ~~~~~d~~~ee~~~~~q~~~e~eA~k-----kA~K~lkKN~rEIkRL~~H 52 (109)
T PHA02571 8 VEELTDEEVEELLSELQARNEAEAEK-----KAAKILKKNRREIKRLKKH 52 (109)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHhHHHHHHHHHH
Confidence 45678999999999999855433322 3567777666667776654
No 25
>COG2882 FliJ Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]
Probab=52.73 E-value=62 Score=23.87 Aligned_cols=59 Identities=22% Similarity=0.258 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCh
Q 048534 20 QINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSELLATTDT 79 (91)
Q Consensus 20 qi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll~s~D~ 79 (91)
|+-.|...=..+.-.++....+.+|++.+ +-.=.||-.|+.+++....-++.+-..+|-
T Consensus 38 qL~~l~~y~~ey~q~~~~k~~~G~s~~q~-~nyq~fI~~Le~~I~q~~~~~~~~~~~ve~ 96 (148)
T COG2882 38 QLKMLSGYRNEYEQNLNEKLKSGVSAAQW-QNYQQFISQLEVAIDQQQSQLSKLRKQVEQ 96 (148)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccccHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333444455677888888 899999999999999999999998887764
No 26
>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=52.53 E-value=20 Score=23.95 Aligned_cols=22 Identities=41% Similarity=0.646 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 048534 52 TCNYIRSLHREVDDLSERLSEL 73 (91)
Q Consensus 52 TC~YIr~LhrEVddLSeRLs~L 73 (91)
+|+-|-+|.+|-|++-+.|++|
T Consensus 48 A~RViArl~kErd~ar~~l~~l 69 (70)
T PF08606_consen 48 ACRVIARLLKERDEAREALAEL 69 (70)
T ss_pred HHHHHHHHHHhHHHHHHHHHhc
Confidence 7999999999999999999875
No 27
>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=52.30 E-value=8.2 Score=22.78 Aligned_cols=11 Identities=64% Similarity=1.062 Sum_probs=8.8
Q ss_pred HHHHHHHHHHH
Q 048534 49 LQETCNYIRSL 59 (91)
Q Consensus 49 LqETC~YIr~L 59 (91)
+-=||.|||..
T Consensus 8 ~ICTCtYir~~ 18 (36)
T PF06842_consen 8 LICTCTYIRSI 18 (36)
T ss_pred HHHHhHhHHhH
Confidence 44599999987
No 28
>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=52.00 E-value=10 Score=23.62 Aligned_cols=22 Identities=14% Similarity=0.501 Sum_probs=18.1
Q ss_pred CCCCHHHHHHHHHHHHHhchhh
Q 048534 14 SRITDDQINDLVSKLQQLLPEL 35 (91)
Q Consensus 14 s~isddqi~dLvsKLQaLLPe~ 35 (91)
-.+|++||+++|..|-...|.-
T Consensus 8 ~~lTeEEl~~~i~~L~~~~~~~ 29 (61)
T TIGR01639 8 KKLSKEELNELINSLDEIPNRN 29 (61)
T ss_pred HHccHHHHHHHHHhhcCCCCHH
Confidence 3589999999999998777643
No 29
>PF13713 BRX_N: Transcription factor BRX N-terminal domain
Probab=50.29 E-value=13 Score=22.15 Aligned_cols=19 Identities=32% Similarity=0.602 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 048534 54 NYIRSLHREVDDLSERLSE 72 (91)
Q Consensus 54 ~YIr~LhrEVddLSeRLs~ 72 (91)
.+|++|-.++.|++|+|+.
T Consensus 12 e~IKsLt~QlK~maekl~~ 30 (39)
T PF13713_consen 12 EVIKSLTAQLKDMAEKLPG 30 (39)
T ss_pred HHHHHHHHHHHHHHHhCch
Confidence 5899999999999999964
No 30
>KOG3863 consensus bZIP transcription factor NRF1 [Transcription]
Probab=49.77 E-value=44 Score=29.91 Aligned_cols=61 Identities=28% Similarity=0.476 Sum_probs=46.8
Q ss_pred HHHHHHHHHHH------HhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCh
Q 048534 19 DQINDLVSKLQ------QLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSELLATTDT 79 (91)
Q Consensus 19 dqi~dLvsKLQ------aLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll~s~D~ 79 (91)
++.|++++|.+ +|+-.+|+|+-.|++|..-=+---.-|-+|.+||+.|-.+=.+||.--|.
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 34567776654 45667777778899998766666677999999999999988888876654
No 31
>PF13234 rRNA_proc-arch: rRNA-processing arch domain; PDB: 4A4K_E 4A4Z_A 2XGJ_B 3L9O_A.
Probab=48.57 E-value=79 Score=23.68 Aligned_cols=58 Identities=22% Similarity=0.281 Sum_probs=33.3
Q ss_pred CCCHHHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048534 15 RITDDQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSE 72 (91)
Q Consensus 15 ~isddqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~ 72 (91)
+|.|.++.+++.|+++|...+..-.=...+--.=+-..+.-=..|+.|++.|-..|++
T Consensus 210 kI~d~~~~e~~~k~~~Le~rl~~~~~~~~~~~~~~~~~~~~k~~l~~~i~~Lk~~l~~ 267 (268)
T PF13234_consen 210 KIKDPEFVELVKKIEALEKRLSSHPLHKCPDFEEHYALYHEKAELQEEIKALKRQLSD 267 (268)
T ss_dssp ----HHHHHHHHHHHHHHHHHHHSCHCCSSSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCcHHHHHHHHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 6889999999999999988886433111111122223344445677777777766653
No 32
>PF15483 DUF4641: Domain of unknown function (DUF4641)
Probab=48.42 E-value=14 Score=32.10 Aligned_cols=26 Identities=27% Similarity=0.526 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcc
Q 048534 52 TCNYIRSLHREVDDLSERLSELLATT 77 (91)
Q Consensus 52 TC~YIr~LhrEVddLSeRLs~Ll~s~ 77 (91)
-|-----||+|||||-|-|+-+..-.
T Consensus 416 GCpRC~~LQkEIedLreQLaamqsl~ 441 (445)
T PF15483_consen 416 GCPRCLVLQKEIEDLREQLAAMQSLA 441 (445)
T ss_pred CCcccHHHHHHHHHHHHHHHHHHHHH
Confidence 46666679999999999998765543
No 33
>smart00340 HALZ homeobox associated leucin zipper.
Probab=48.34 E-value=30 Score=21.57 Aligned_cols=21 Identities=33% Similarity=0.770 Sum_probs=14.3
Q ss_pred HHHHHHHHHH----HHHHHHHHHHH
Q 048534 47 KVLQETCNYI----RSLHREVDDLS 67 (91)
Q Consensus 47 kvLqETC~YI----r~LhrEVddLS 67 (91)
..|+.-|.-+ |+||+||.+|-
T Consensus 8 e~LKrcce~LteeNrRL~ke~~eLr 32 (44)
T smart00340 8 ELLKRCCESLTEENRRLQKEVQELR 32 (44)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456666554 67999988874
No 34
>PLN03227 serine palmitoyltransferase-like protein; Provisional
Probab=47.11 E-value=22 Score=27.91 Aligned_cols=18 Identities=22% Similarity=0.425 Sum_probs=16.4
Q ss_pred CHHHHHHHHHHHHHhchh
Q 048534 17 TDDQINDLVSKLQQLLPE 34 (91)
Q Consensus 17 sddqi~dLvsKLQaLLPe 34 (91)
|+|||.+++..|.+.+.+
T Consensus 365 t~eei~~~~~~l~~~~~~ 382 (392)
T PLN03227 365 TREDIDKLLTVLGEAVEA 382 (392)
T ss_pred CHHHHHHHHHHHHHHHHH
Confidence 999999999999998754
No 35
>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=45.97 E-value=50 Score=27.14 Aligned_cols=28 Identities=32% Similarity=0.514 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 048534 48 VLQETCNYIRSLHREVDDLSERLSELLA 75 (91)
Q Consensus 48 vLqETC~YIr~LhrEVddLSeRLs~Ll~ 75 (91)
.|+-|-..++.||+|.+.+.+||.++-+
T Consensus 78 ~Lesal~L~~~L~~eI~~f~~~l~~~~~ 105 (302)
T PF05508_consen 78 SLESALPLTKDLRREIDSFDERLEEAAE 105 (302)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4788889999999999999999999888
No 36
>PF04282 DUF438: Family of unknown function (DUF438); InterPro: IPR007380 This is a a group of uncharacterised proteins.
Probab=45.60 E-value=38 Score=22.27 Aligned_cols=28 Identities=18% Similarity=0.478 Sum_probs=23.8
Q ss_pred HHHHHHHHH--HHHHHHHHHHHhhccChhH
Q 048534 54 NYIRSLHRE--VDDLSERLSELLATTDTAQ 81 (91)
Q Consensus 54 ~YIr~LhrE--VddLSeRLs~Ll~s~D~~~ 81 (91)
+||++||.= ++.+-+++.+++..++..+
T Consensus 4 ~ii~~Lh~G~~~e~vk~~F~~~~~~Vs~~E 33 (71)
T PF04282_consen 4 EIIKRLHEGEDPEEVKEEFKKLFSDVSASE 33 (71)
T ss_pred HHHHHHhCCCCHHHHHHHHHHHHCCCCHHH
Confidence 589999974 5889999999999999833
No 37
>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=44.26 E-value=58 Score=22.39 Aligned_cols=43 Identities=23% Similarity=0.383 Sum_probs=26.6
Q ss_pred CCCHHHHHHHHHHHHHhc-hhhh----hccCCcchHHHHHHHHHHHHH
Q 048534 15 RITDDQINDLVSKLQQLL-PELR----NNRSDKVSAGKVLQETCNYIR 57 (91)
Q Consensus 15 ~isddqi~dLvsKLQaLL-Pe~~----~r~~~~~SaskvLqETC~YIr 57 (91)
.|++++|.||-.||++-= |..- .+.-..+.-...|++.|.|=+
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 589999999999998753 4332 122346677889999999986
No 38
>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=44.02 E-value=43 Score=27.09 Aligned_cols=45 Identities=24% Similarity=0.327 Sum_probs=33.6
Q ss_pred HHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCh
Q 048534 28 LQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSELLATTDT 79 (91)
Q Consensus 28 LQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll~s~D~ 79 (91)
|+.||=++-.-..-.+|++.+|.|.|. |+++|+--|-.++...+.
T Consensus 6 l~~ll~~s~~~~p~~~s~~~~l~~v~~-------~~~elA~~Lv~if~~~~~ 50 (310)
T cd05134 6 LRDLLLKSADVEPVSASAAHILGEVCR-------EKQEAAIPLVRLFLHYGK 50 (310)
T ss_pred HHHHHHhCcccCCcchhHHHHHHHhCc-------cHHHHHHHHHHHHHhcCc
Confidence 556665553223334799999999998 778999999988887765
No 39
>PRK00253 fliE flagellar hook-basal body protein FliE; Reviewed
Probab=42.94 E-value=1.1e+02 Score=21.13 Aligned_cols=53 Identities=15% Similarity=0.224 Sum_probs=41.5
Q ss_pred HHHHHHHHHHHHhchhhhhc-------cCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048534 19 DQINDLVSKLQQLLPELRNN-------RSDKVSAGKVLQETCNYIRSLHREVDDLSERLS 71 (91)
Q Consensus 19 dqi~dLvsKLQaLLPe~~~r-------~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs 71 (91)
..|+-++...+.+.++.... .....+-+.+|+.+-+.+...+.+.|++.+.+.
T Consensus 5 ~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sF~~~L~~ai~~vn~~q~~a~~~~~~~~ 64 (108)
T PRK00253 5 QGIEGVLSQLQATAMEASGQAKPAQGAAVGTADFAGQLKAALDKVNDTQQAARTLAEKFE 64 (108)
T ss_pred HhHHHHHHHHHHHHHHhccCCCCCCCCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56777888888888776411 112368889999999999999999999887764
No 40
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=42.63 E-value=42 Score=26.48 Aligned_cols=25 Identities=36% Similarity=0.489 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccCh
Q 048534 55 YIRSLHREVDDLSERLSELLATTDT 79 (91)
Q Consensus 55 YIr~LhrEVddLSeRLs~Ll~s~D~ 79 (91)
-|..|.+||..-+|||--+=+-..+
T Consensus 124 ~i~~L~kev~~~~erl~~~k~g~~~ 148 (201)
T KOG4603|consen 124 EIQELKKEVAGYRERLKNIKAGTNH 148 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccc
Confidence 3678889999999999888776654
No 41
>COG3880 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]
Probab=42.33 E-value=32 Score=26.64 Aligned_cols=30 Identities=30% Similarity=0.489 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHhhccChhHHHHHHH
Q 048534 58 SLHREVDDLSERLSELLATTDTAQAAIIRS 87 (91)
Q Consensus 58 ~LhrEVddLSeRLs~Ll~s~D~~~a~iiRs 87 (91)
...++++.|-|.|.+|+.--|-.+||+||-
T Consensus 133 ~~~~~I~~L~e~Lq~~i~~EefEeAA~iRD 162 (176)
T COG3880 133 NPKRKIIALKEALQDLIEREEFEEAAVIRD 162 (176)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567889999999999999999999999885
No 42
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=41.73 E-value=80 Score=19.14 Aligned_cols=62 Identities=21% Similarity=0.210 Sum_probs=36.9
Q ss_pred CCCCCHHHHHHHHHHHHHhchhhhhccCC------cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 048534 13 SSRITDDQINDLVSKLQQLLPELRNNRSD------KVSAGKVLQETCNYIRSLHREVDDLSERLSELL 74 (91)
Q Consensus 13 ~s~isddqi~dLvsKLQaLLPe~~~r~~~------~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll 74 (91)
++++|.+|..-||.-+..--+-+.+..++ +--+..-+.+.+|-+-.=+|.++++-.....+.
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 57799999999999887765555543332 223444444444443333566666665555443
No 43
>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=41.29 E-value=47 Score=26.86 Aligned_cols=30 Identities=27% Similarity=0.427 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHhhccCh
Q 048534 50 QETCNYIRSLHREV-DDLSERLSELLATTDT 79 (91)
Q Consensus 50 qETC~YIr~LhrEV-ddLSeRLs~Ll~s~D~ 79 (91)
.|+..||++|-.|. .+|.++|++||..--+
T Consensus 192 ~e~l~~i~~L~~~l~~~l~~~L~~llt~~Ei 222 (253)
T TIGR03843 192 AELLADLARLRDDLDGDLGRELAELLTPEEV 222 (253)
T ss_pred HHHHHHHHHHHHhhcChHHHHHHHhCCHHHH
Confidence 57788999998777 3688888888765544
No 44
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=41.07 E-value=62 Score=23.05 Aligned_cols=21 Identities=48% Similarity=0.760 Sum_probs=12.4
Q ss_pred CCHHHHHHHHHHHHHhchhhh
Q 048534 16 ITDDQINDLVSKLQQLLPELR 36 (91)
Q Consensus 16 isddqi~dLvsKLQaLLPe~~ 36 (91)
++++.|.+|.+-||.|+-++.
T Consensus 5 ~~~~~~~~l~~el~~L~d~lE 25 (104)
T COG4575 5 FTDDAIDQLLAELQELLDTLE 25 (104)
T ss_pred chhhhHHHHHHHHHHHHHHHH
Confidence 455566666666666665553
No 45
>PHA03011 hypothetical protein; Provisional
Probab=38.92 E-value=82 Score=23.08 Aligned_cols=52 Identities=23% Similarity=0.396 Sum_probs=35.7
Q ss_pred HHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048534 22 NDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSEL 73 (91)
Q Consensus 22 ~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~L 73 (91)
.+|+.+--.|+.|-+.--+.+-----+.||--.+|-.|..|+|.|-|-.+.+
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 3444444445555543334444566789999999999999999998877643
No 46
>PF06719 AraC_N: AraC-type transcriptional regulator N-terminus; InterPro: IPR009594 This entry represents the N terminus of bacterial ARAC-type transcriptional regulators. In Escherichia coli these regulate the L-arabinose operon through sensing the presence of arabinose, and when the sugar is present, transmitting this information from the arabinose-binding domains to the protein s DNA-binding domains []. This family might represent the N-terminal arm of the protein, which binds to the C-terminal DNA binding domains to hold them in a state where the protein prefers to loop and remain non-activating []. This domain is associated with the IPR000005 from INTERPRO domain.
Probab=38.06 E-value=61 Score=22.55 Aligned_cols=52 Identities=19% Similarity=0.226 Sum_probs=34.5
Q ss_pred CCCHHHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Q 048534 15 RITDDQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSELLATTD 78 (91)
Q Consensus 15 ~isddqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll~s~D 78 (91)
.|..+.|.||+.++..-.+.-..... +-++-....++-|.-+||-+||++-+
T Consensus 78 ~ld~~~l~el~~~~~~~~~~~~~~~~------------~~~~~~~~~~l~da~~RLl~ll~~p~ 129 (155)
T PF06719_consen 78 ELDPALLAELVLELPPQPPPPPPASQ------------GIFVAPADEELLDALLRLLRLLDDPE 129 (155)
T ss_pred EcCHHHHHHHHHhcccccCCCCCCCC------------ccccccCCHHHHHHHHHHHHHHCCch
Confidence 47788899998887665554432221 44555566777777888888887653
No 47
>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=38.06 E-value=26 Score=21.28 Aligned_cols=20 Identities=30% Similarity=0.511 Sum_probs=14.6
Q ss_pred CCCCHHHHHHHHHHHHHhch
Q 048534 14 SRITDDQINDLVSKLQQLLP 33 (91)
Q Consensus 14 s~isddqi~dLvsKLQaLLP 33 (91)
=.|+||||+.+++-+=-..-
T Consensus 5 lpi~e~~i~~~~s~v~t~~~ 24 (47)
T PF04688_consen 5 LPIDEEQINQLISAVFTIVT 24 (47)
T ss_pred CCcCHHHHHHHHHHHHHHHH
Confidence 36899999999976544433
No 48
>PHA02414 hypothetical protein
Probab=38.01 E-value=1.6e+02 Score=21.43 Aligned_cols=47 Identities=26% Similarity=0.446 Sum_probs=27.6
Q ss_pred CHHHHHHHHHHHHHhchhhh----hccCCcchHHHHHHHHHHHHHHHHHHH
Q 048534 17 TDDQINDLVSKLQQLLPELR----NNRSDKVSAGKVLQETCNYIRSLHREV 63 (91)
Q Consensus 17 sddqi~dLvsKLQaLLPe~~----~r~~~~~SaskvLqETC~YIr~LhrEV 63 (91)
-|.|||+||++++.|=.-++ -++++-.--.+-..|--.-|-+|.+.|
T Consensus 2 ~D~~in~Lv~~v~~ledKiQ~Gelt~kgdn~eL~~av~ELRdivvslDKd~ 52 (111)
T PHA02414 2 MDKEINNLVSQVETLEDKIQEGELTDKGDNKELEVAVAELRDIVVSLDKDV 52 (111)
T ss_pred cchHHHHHHHHHHHHHHHHhcCccccCCchHHHHHHHHHHHHHHHHhhhHh
Confidence 37899999999999877664 222343333333344444455554443
No 49
>PRK13702 replication protein; Provisional
Probab=37.92 E-value=1.4e+02 Score=20.72 Aligned_cols=51 Identities=25% Similarity=0.389 Sum_probs=37.6
Q ss_pred CCcchHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHhhccChhHHHHHHHHhc
Q 048534 40 SDKVSAGKVLQETCNYIRSLHREVD-----DLSERLSELLATTDTAQAAIIRSLLM 90 (91)
Q Consensus 40 ~~~~SaskvLqETC~YIr~LhrEVd-----dLSeRLs~Ll~s~D~~~a~iiRsLL~ 90 (91)
+...|++.==+..-.-.|.=|+||. +|-++|.+|-.-.-..||++|.-|+.
T Consensus 21 G~Pls~aErQr~svaRKr~THkei~vfi~n~lK~~L~elc~~~glTQAe~IE~LIe 76 (85)
T PRK13702 21 GNPLSAAEKQRASVARKRATHKEIKVFIQNPLKDKLMELCEEEGLTQAEMIERLIE 76 (85)
T ss_pred CCCCCHHHHHHHHHHHHHHhhhhhheeecHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence 4455666555555556677778874 78899999888777799999988863
No 50
>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=37.82 E-value=48 Score=24.07 Aligned_cols=15 Identities=7% Similarity=0.315 Sum_probs=12.7
Q ss_pred CCCCHHHHHHHHHHH
Q 048534 14 SRITDDQINDLVSKL 28 (91)
Q Consensus 14 s~isddqi~dLvsKL 28 (91)
++||.+|+.+|+..-
T Consensus 2 ~~~~~~~~~~l~~~~ 16 (186)
T TIGR02613 2 TPLDPEELEGLLPGH 16 (186)
T ss_pred CCCCHHHHHHHhhcC
Confidence 579999999999883
No 51
>CHL00123 rps6 ribosomal protein S6; Validated
Probab=37.16 E-value=38 Score=22.52 Aligned_cols=23 Identities=9% Similarity=0.325 Sum_probs=20.4
Q ss_pred CCCCHHHHHHHHHHHHHhchhhh
Q 048534 14 SRITDDQINDLVSKLQQLLPELR 36 (91)
Q Consensus 14 s~isddqi~dLvsKLQaLLPe~~ 36 (91)
+.++|+|+.+++.++++++-+.+
T Consensus 16 p~l~e~~~~~~~~~~~~~i~~~g 38 (97)
T CHL00123 16 PDLNEEELLKWIENYKKLLRKRG 38 (97)
T ss_pred CCCCHHHHHHHHHHHHHHHHHCC
Confidence 56899999999999999998764
No 52
>PRK12525 RNA polymerase sigma factor; Provisional
Probab=37.16 E-value=75 Score=21.49 Aligned_cols=14 Identities=7% Similarity=0.171 Sum_probs=7.8
Q ss_pred CHHHHHHHHHHHHH
Q 048534 17 TDDQINDLVSKLQQ 30 (91)
Q Consensus 17 sddqi~dLvsKLQa 30 (91)
.+|=+.|.+-|+-.
T Consensus 36 aeDlvQevf~~l~~ 49 (168)
T PRK12525 36 AEDIASETFLQVLA 49 (168)
T ss_pred HHHHHHHHHHHHHh
Confidence 45555566666554
No 53
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=36.86 E-value=35 Score=25.34 Aligned_cols=43 Identities=30% Similarity=0.434 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHH
Q 048534 18 DDQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHR 61 (91)
Q Consensus 18 ddqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~Lhr 61 (91)
-.++|.=...|+.+||..-.. .+|-|.-..|..|=.||+-|..
T Consensus 121 v~~vN~~f~~Lr~~lP~~~~~-~kklSKveTLr~A~~YI~~L~~ 163 (228)
T KOG4029|consen 121 VQSVNSAFAELRALLPTEPPQ-SKKLSKVETLRLATSYIRYLTK 163 (228)
T ss_pred ccchhhhhHHHHhcCCCCCCc-ccccCcccchHHHHHHHHHHHH
Confidence 358999999999999998532 6777888999999999998764
No 54
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=36.39 E-value=39 Score=20.07 Aligned_cols=19 Identities=37% Similarity=0.634 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 048534 55 YIRSLHREVDDLSERLSEL 73 (91)
Q Consensus 55 YIr~LhrEVddLSeRLs~L 73 (91)
-+|++++|++++-..+.+|
T Consensus 49 ~~~~~~k~l~~le~e~~~l 67 (68)
T PF06305_consen 49 RIRRLRKELKKLEKELEQL 67 (68)
T ss_pred HHHHHHHHHHHHHHHHHhc
Confidence 4677888888777776654
No 55
>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=36.20 E-value=61 Score=20.13 Aligned_cols=37 Identities=14% Similarity=0.256 Sum_probs=24.6
Q ss_pred CCCccccccCCCCCCCCHHHHHHHHHHHHHhchhhhhcc
Q 048534 1 MSSRRSRSRQSGSSRITDDQINDLVSKLQQLLPELRNNR 39 (91)
Q Consensus 1 MSsrrsrs~~~~~s~isddqi~dLvsKLQaLLPe~~~r~ 39 (91)
|-+|||-..= ....|++++|.+|+.-.+ ..|...++.
T Consensus 1 ~~~RrS~R~f-~~~~i~~~~l~~l~~~~~-~aPs~~n~q 37 (122)
T cd02062 1 ILKRRSVRKF-TDEPVPEEVLEKILEAAR-YAPSGGNLQ 37 (122)
T ss_pred CccceecccC-CCCCCCHHHHHHHHHHHH-hCCCcCCCC
Confidence 3456654332 345899999999997665 557775544
No 56
>PF15112 DUF4559: Domain of unknown function (DUF4559)
Probab=36.16 E-value=1.6e+02 Score=24.41 Aligned_cols=65 Identities=25% Similarity=0.352 Sum_probs=41.6
Q ss_pred CCCCCHHHHHHHHHHHHHhchhhhhccCCcchHHH---HH--------------------HHH-HHHHHHHHHHHHHHHH
Q 048534 13 SSRITDDQINDLVSKLQQLLPELRNNRSDKVSAGK---VL--------------------QET-CNYIRSLHREVDDLSE 68 (91)
Q Consensus 13 ~s~isddqi~dLvsKLQaLLPe~~~r~~~~~Sask---vL--------------------qET-C~YIr~LhrEVddLSe 68 (91)
.-++|+.++++-..|+|.|+-+.+.=-.-.....+ ++ -++ -++=.-++.|+.-|-|
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 46799999999999999998755322211112222 11 011 1223457899999999
Q ss_pred HHHHHhhcc
Q 048534 69 RLSELLATT 77 (91)
Q Consensus 69 RLs~Ll~s~ 77 (91)
+|-+|+...
T Consensus 237 ~lqel~~~~ 245 (307)
T PF15112_consen 237 KLQELYLQA 245 (307)
T ss_pred HHHHHHHHH
Confidence 999995544
No 57
>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=35.62 E-value=1.4e+02 Score=21.05 Aligned_cols=30 Identities=27% Similarity=0.460 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhccCh
Q 048534 50 QETCNYIRSLHREVDDLSERLSELLATTDT 79 (91)
Q Consensus 50 qETC~YIr~LhrEVddLSeRLs~Ll~s~D~ 79 (91)
.|--..|..|..|+..|.+||..|=.....
T Consensus 112 ~el~~~i~~l~~e~~~l~~kL~~l~~~~~~ 141 (169)
T PF07106_consen 112 EELREEIEELEEEIEELEEKLEKLRSGSKP 141 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 455677999999999999999998875544
No 58
>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=35.27 E-value=24 Score=21.52 Aligned_cols=21 Identities=33% Similarity=0.484 Sum_probs=14.0
Q ss_pred CCCHHHHHHHHHHHHHhchhh
Q 048534 15 RITDDQINDLVSKLQQLLPEL 35 (91)
Q Consensus 15 ~isddqi~dLvsKLQaLLPe~ 35 (91)
++|+++|.++=.+|+--||+.
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 379999999999999999975
No 59
>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=34.84 E-value=93 Score=27.61 Aligned_cols=69 Identities=26% Similarity=0.353 Sum_probs=51.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhchhhhhccCCc---chHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhccChhHHHHHH
Q 048534 11 SGSSRITDDQINDLVSKLQQLLPELRNNRSDK---VSAGKVLQETCNYIRSLHREVDDLSERLSE-LLATTDTAQAAIIR 86 (91)
Q Consensus 11 ~~~s~isddqi~dLvsKLQaLLPe~~~r~~~~---~SaskvLqETC~YIr~LhrEVddLSeRLs~-Ll~s~D~~~a~iiR 86 (91)
++.-||-=+.++|-++| .+|+.-. .-..++++|+|.-|..+-.|+.+|-|.|++ ++... +.++.||
T Consensus 406 aR~iRIAFesL~~Y~~K--------EnRn~~~v~~~~~~~~i~~~~~~ls~~~~~~~~lne~l~~~~~~~~--~~~~~~~ 475 (511)
T PF09665_consen 406 ARRIRIAFESLKDYNSK--------ENRNALLVDTQNEEAVISEIVQNLSSLEEESRKLNEKLSDKISSES--ESEEELR 475 (511)
T ss_pred hhHHHHHHHHHHHHHhh--------hcccchhcccHhHHHHHHHHHHHhhcchHHHHHHHHHHHHhhhccc--chHHHHH
Confidence 44567777889999998 3555333 467889999999999999999999999966 44333 3466777
Q ss_pred HHh
Q 048534 87 SLL 89 (91)
Q Consensus 87 sLL 89 (91)
+|+
T Consensus 476 ~l~ 478 (511)
T PF09665_consen 476 SLV 478 (511)
T ss_pred HHH
Confidence 765
No 60
>PRK05014 hscB co-chaperone HscB; Provisional
Probab=34.76 E-value=1.8e+02 Score=21.13 Aligned_cols=19 Identities=32% Similarity=0.604 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 048534 53 CNYIRSLHREVDDLSERLS 71 (91)
Q Consensus 53 C~YIr~LhrEVddLSeRLs 71 (91)
-.|+.+|+.||+...|+|.
T Consensus 152 Lky~~kl~~ei~~~~~~l~ 170 (171)
T PRK05014 152 LKFLDKLRSEVEQLEEKLL 170 (171)
T ss_pred HHHHHHHHHHHHHHHHHhh
Confidence 5799999999999988874
No 61
>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=33.81 E-value=1.2e+02 Score=18.68 Aligned_cols=40 Identities=23% Similarity=0.446 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHH
Q 048534 20 QINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDD 65 (91)
Q Consensus 20 qi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVdd 65 (91)
.+.+++.+|.+++. ..+-..|...+.+ ..|+.++..|++.
T Consensus 39 ~~~~~~~~l~~~f~-----~~d~~~A~~~~~k-Lky~~kl~~~ik~ 78 (78)
T PF07743_consen 39 RIKELIKELAEAFD-----AKDWEEAKEALRK-LKYLQKLLEEIKQ 78 (78)
T ss_dssp HHHHHHHHHHHHHH-----TT-HHHHHHHHHH-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHc-----cCcHHHHHHHHHH-HHHHHHHHHHhcC
Confidence 44455555555551 2233334444433 5899999988863
No 62
>KOG3923 consensus D-aspartate oxidase [Amino acid transport and metabolism]
Probab=33.59 E-value=29 Score=29.21 Aligned_cols=25 Identities=32% Similarity=0.519 Sum_probs=22.8
Q ss_pred CCCCCHHHHHHHHHHHHHhchhhhh
Q 048534 13 SSRITDDQINDLVSKLQQLLPELRN 37 (91)
Q Consensus 13 ~s~isddqi~dLvsKLQaLLPe~~~ 37 (91)
...|+++..+|++++-++|.|.++.
T Consensus 251 ~~ei~~~D~~dIl~rc~aL~P~l~~ 275 (342)
T KOG3923|consen 251 NLEITDEDRRDILERCCALEPSLRH 275 (342)
T ss_pred cCcCChhhHHHHHHHHHHhCccccc
Confidence 3679999999999999999999965
No 63
>PRK12381 bifunctional succinylornithine transaminase/acetylornithine transaminase; Provisional
Probab=33.50 E-value=45 Score=26.10 Aligned_cols=27 Identities=11% Similarity=0.234 Sum_probs=22.0
Q ss_pred CCCCHHHHHHHHHHHHHhchhhhhccC
Q 048534 14 SRITDDQINDLVSKLQQLLPELRNNRS 40 (91)
Q Consensus 14 s~isddqi~dLvsKLQaLLPe~~~r~~ 40 (91)
.-+|+++|.+++.+|.+.+-++..+++
T Consensus 379 ~~~t~~~i~~~~~~l~~~l~~~~~~~~ 405 (406)
T PRK12381 379 LNISEEEITTGLDRFARACERFVSRGS 405 (406)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHhccC
Confidence 348999999999999999987755543
No 64
>PF06013 WXG100: Proteins of 100 residues with WXG; InterPro: IPR010310 ESAT-6 is a small protein appears to be of fundamental importance in virulence and protective immunity in Mycobacterium tuberculosis. Homologues have been detected in other Gram-positive bacterial species. It may represent a novel secretion system potentially driven by the PF01580 from PFAM domains in the YukA-like proteins []. Members of this protein family include secretion targets for type main variants of type VII secretion systems (T7SS), one found in the Actinobacteria, one found in the Firmicutes. This model was derived through iteration from PF06013 from PFAM. The best characterised member of this family is ESAT-6 from Mycobacterium tuberculosis. Members of this family usually are ~100 amino acids in length but occasionally have long C-terminal extension. ; PDB: 3FAV_A 1WA8_A 3Q4H_B 2KG7_A 2VRZ_B 2VS0_B 3OGI_A 3H6P_B 3GVM_B 3GWK_C ....
Probab=33.16 E-value=99 Score=17.70 Aligned_cols=57 Identities=14% Similarity=0.226 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHhchhhh--hccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 048534 20 QINDLVSKLQQLLPELR--NNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSELLAT 76 (91)
Q Consensus 20 qi~dLvsKLQaLLPe~~--~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll~s 76 (91)
+|.+.+..|...+-.+. =.+...........+.....+.+...++++++.|.+.-..
T Consensus 22 ~l~~~~~~l~~~~~~l~~~W~G~a~~af~~~~~~~~~~~~~~~~~L~~~~~~l~~~~~~ 80 (86)
T PF06013_consen 22 ELQSQLQQLESSIDSLQASWQGEAADAFQDKFEEWNQAFRQLNEALEELSQALRQAAQN 80 (86)
T ss_dssp HHHHHHHHHHHHHHHHGGGBTSSTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhhhCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555555555554442 1234455777788888899999999999998888765443
No 65
>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=33.09 E-value=91 Score=21.85 Aligned_cols=55 Identities=25% Similarity=0.353 Sum_probs=26.4
Q ss_pred CCHHHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHH----HHHHHHHHHHHH
Q 048534 16 ITDDQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLH----REVDDLSERLSE 72 (91)
Q Consensus 16 isddqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~Lh----rEVddLSeRLs~ 72 (91)
+..+...+++..|+.+++.+...-++ .-++|.+++|..|..|- .+++...+.+-.
T Consensus 39 ~~~~~~~~~~~~l~~~~~~i~~~l~d--~Rs~v~~~A~~~l~~l~~~l~~~~~~~~~~~l~ 97 (228)
T PF12348_consen 39 APEDFPPDFVECLRQLLDAIIKQLSD--LRSKVSKTACQLLSDLARQLGSHFEPYADILLP 97 (228)
T ss_dssp B-----HHHHHHHH---HHHHH-S-H--H---HHHHHHHHHHHHHHHHGGGGHHHHHHHHH
T ss_pred CccccHHHHHHHHHHhHHHHHHHHhh--hHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHH
Confidence 34667788888888777666432222 22568889998877654 344545444333
No 66
>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=32.97 E-value=64 Score=25.81 Aligned_cols=46 Identities=28% Similarity=0.369 Sum_probs=32.4
Q ss_pred HHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCh
Q 048534 28 LQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSELLATTDT 79 (91)
Q Consensus 28 LQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll~s~D~ 79 (91)
|..||=+.-.-+.-.+|++.+|.|.|. .|.+++++-|-.++...+.
T Consensus 6 l~~ll~~~~~~~~~~~s~~~~l~~v~~------~~~~~~a~~Lv~if~~~g~ 51 (315)
T cd05128 6 LRDLLLESVDVGPISASAAAILEEVCR------EERQDVAVPLVKLFLGQGL 51 (315)
T ss_pred HHHHHHcccccCCCChhHHHHHHHhCc------HHHHHHHHHHHHHHHHhhH
Confidence 344444442222345899999999997 6889999999888877664
No 67
>PF01865 PhoU_div: Protein of unknown function DUF47; InterPro: IPR018445 This family includes prokaryotic proteins of unknown function, as well as a protein annotated as the pit accessory protein from Rhizobium meliloti (Sinorhizobium meliloti) (O30498 from SWISSPROT). However, the function of this protein is also unknown (Pit stands for Phosphate transport) [].; PDB: 2OLT_C 2IIU_C 3L39_A.
Probab=32.80 E-value=1.6e+02 Score=20.88 Aligned_cols=25 Identities=36% Similarity=0.469 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH-Hhh
Q 048534 51 ETCNYIRSLHREVDDLSERLSE-LLA 75 (91)
Q Consensus 51 ETC~YIr~LhrEVddLSeRLs~-Ll~ 75 (91)
+.|.=|+.+.+|+|++-.++-. |..
T Consensus 149 ~~~~~I~~~E~~~D~l~~~~~~~lf~ 174 (214)
T PF01865_consen 149 ELIKEINKLEEEADKLYRRLIKKLFS 174 (214)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999988766 444
No 68
>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=32.80 E-value=42 Score=21.95 Aligned_cols=30 Identities=20% Similarity=0.389 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHhhccCh--hHHHHHHHH
Q 048534 59 LHREVDDLSERLSELLATTDT--AQAAIIRSL 88 (91)
Q Consensus 59 LhrEVddLSeRLs~Ll~s~D~--~~a~iiRsL 88 (91)
.+.|||-|-++.++|.+.... .+-.++|++
T Consensus 12 VrEEVevLK~~I~eL~~~n~~Le~EN~~Lk~~ 43 (59)
T PF01166_consen 12 VREEVEVLKEQIAELEERNSQLEEENNLLKQN 43 (59)
T ss_dssp -TTSHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 367999999999999887765 555666654
No 69
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=32.68 E-value=48 Score=22.31 Aligned_cols=20 Identities=30% Similarity=0.581 Sum_probs=17.1
Q ss_pred CCCCHHHHHHHHHHHHHhch
Q 048534 14 SRITDDQINDLVSKLQQLLP 33 (91)
Q Consensus 14 s~isddqi~dLvsKLQaLLP 33 (91)
..+|++|+..|..-|+.++|
T Consensus 125 ~~ls~ee~~~l~~~L~ki~~ 144 (144)
T PRK11512 125 KNLTADEVATLEHLLKKVLP 144 (144)
T ss_pred ccCCHHHHHHHHHHHHHHcC
Confidence 56889999999988888887
No 70
>PRK14143 heat shock protein GrpE; Provisional
Probab=32.59 E-value=2.4e+02 Score=22.04 Aligned_cols=60 Identities=25% Similarity=0.357 Sum_probs=38.4
Q ss_pred CHHHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHhhccCh
Q 048534 17 TDDQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERL-----SELLATTDT 79 (91)
Q Consensus 17 sddqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRL-----s~Ll~s~D~ 79 (91)
.++++.+|-.+|..|--++..- +--..+..-|..||.|+..||.+++-..- ..||.-+|.
T Consensus 65 ~~~~~~~l~~el~~l~~e~~el---kd~~lR~~AdfeN~RKR~~kE~e~~~~~a~~~~~~~lLpV~Dn 129 (238)
T PRK14143 65 NAARLAQLEQELESLKQELEEL---NSQYMRIAADFDNFRKRTSREQEDLRLQLKCNTLSEILPVVDN 129 (238)
T ss_pred chhHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 4456666655554443333211 12346888999999999999999886653 346666664
No 71
>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=32.46 E-value=26 Score=23.72 Aligned_cols=28 Identities=29% Similarity=0.297 Sum_probs=17.0
Q ss_pred cchHHHHHHHHHHHHHHHH--HHHHHHHHH
Q 048534 42 KVSAGKVLQETCNYIRSLH--REVDDLSER 69 (91)
Q Consensus 42 ~~SaskvLqETC~YIr~Lh--rEVddLSeR 69 (91)
|-+|+.|||||--.-+-.. ..+|...-|
T Consensus 9 K~aAAnVLretWliyK~tkl~~~~~~~r~R 38 (77)
T PF02888_consen 9 KNAAANVLRETWLIYKHTKLVKRRDHARVR 38 (77)
T ss_dssp HHHHHHHHHHHHHHHHHHHS-SSS-HHHHH
T ss_pred HHHHHHHHHHHHHHHHhccccCccchhhHH
Confidence 4589999999976554332 344444433
No 72
>PHA01735 hypothetical protein
Probab=32.20 E-value=86 Score=21.46 Aligned_cols=41 Identities=29% Similarity=0.521 Sum_probs=25.3
Q ss_pred CCCCHHHHHHHHHHHHHhch-hhhhccCCcchHHHHHHHHHHHHHH
Q 048534 14 SRITDDQINDLVSKLQQLLP-ELRNNRSDKVSAGKVLQETCNYIRS 58 (91)
Q Consensus 14 s~isddqi~dLvsKLQaLLP-e~~~r~~~~~SaskvLqETC~YIr~ 58 (91)
++-|+||+.+|- ++|- |+-+|=.+--..+.=|.-+|.|+++
T Consensus 3 krA~ee~fs~LH----~~lt~El~~RiksgeATtaDL~AA~d~Lk~ 44 (76)
T PHA01735 3 KRATEEQFDELH----QLLTNELLSRIKSGEATTADLRAACDWLKS 44 (76)
T ss_pred ccchHHHHHHHH----HHHHHHHHHHHhcCcccHHHHHHHHHHHHH
Confidence 457888887764 4443 4434433433444558899999875
No 73
>PRK15326 type III secretion system needle complex protein PrgI; Provisional
Probab=31.93 E-value=43 Score=22.75 Aligned_cols=33 Identities=24% Similarity=0.261 Sum_probs=25.7
Q ss_pred HHHHHHHhchhhhhccCCcchHHHHHHHHHHHH
Q 048534 24 LVSKLQQLLPELRNNRSDKVSAGKVLQETCNYI 56 (91)
Q Consensus 24 LvsKLQaLLPe~~~r~~~~~SaskvLqETC~YI 56 (91)
++-++|+++-+.+--|+-+.++.|.++.++.=|
T Consensus 43 ~LA~~Qa~l~eyn~~RNaQSn~iKa~KD~~~aI 75 (80)
T PRK15326 43 LLAAYQSKLSEYNLYRNAQSNTVKVFKDIDAAI 75 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466788888888766777888888888888644
No 74
>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=31.39 E-value=47 Score=18.62 Aligned_cols=17 Identities=12% Similarity=0.413 Sum_probs=14.6
Q ss_pred CCCHHHHHHHHHHHHHh
Q 048534 15 RITDDQINDLVSKLQQL 31 (91)
Q Consensus 15 ~isddqi~dLvsKLQaL 31 (91)
..+.+++++++.+|+++
T Consensus 50 ~~~~~~l~~~i~~L~~~ 66 (79)
T cd04881 50 ETSEAALNAALAEIEAL 66 (79)
T ss_pred cCCHHHHHHHHHHHHcC
Confidence 45789999999999974
No 75
>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=31.11 E-value=64 Score=17.79 Aligned_cols=20 Identities=20% Similarity=0.448 Sum_probs=17.4
Q ss_pred CCCCCHHHHHHHHHHHHHhc
Q 048534 13 SSRITDDQINDLVSKLQQLL 32 (91)
Q Consensus 13 ~s~isddqi~dLvsKLQaLL 32 (91)
+..||-+|+.|+.++..++.
T Consensus 2 ~~~i~~~~~~d~a~rv~~f~ 21 (33)
T PF09373_consen 2 SGTISKEEYLDMASRVNNFY 21 (33)
T ss_pred CceecHHHHHHHHHHHHHHH
Confidence 46799999999999998874
No 76
>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=31.04 E-value=63 Score=21.17 Aligned_cols=18 Identities=11% Similarity=0.530 Sum_probs=14.7
Q ss_pred CCCCHHHHHHHHHHHHHh
Q 048534 14 SRITDDQINDLVSKLQQL 31 (91)
Q Consensus 14 s~isddqi~dLvsKLQaL 31 (91)
.+|+|++|.+++.-++.+
T Consensus 99 ~r~~ee~l~~iL~~v~~~ 116 (117)
T PF03874_consen 99 SRFSEEDLEEILDLVSKY 116 (117)
T ss_dssp TTSTHHHHHHHHHHHHHH
T ss_pred cCCCHHHHHHHHHHHHHh
Confidence 579999999998877653
No 77
>PRK14552 C/D box methylation guide ribonucleoprotein complex aNOP56 subunit; Provisional
Probab=30.73 E-value=1.8e+02 Score=24.45 Aligned_cols=34 Identities=15% Similarity=0.229 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCh
Q 048534 46 GKVLQETCNYIRSLHREVDDLSERLSELLATTDT 79 (91)
Q Consensus 46 skvLqETC~YIr~LhrEVddLSeRLs~Ll~s~D~ 79 (91)
...+++.|+-|..|+.+.+.|.+.+...|..+..
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 4678899999999999999999999999998765
No 78
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=30.71 E-value=96 Score=28.63 Aligned_cols=42 Identities=26% Similarity=0.447 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHhchhhh--hccCCcchHHHHHHHHHHHHHHHHHHH
Q 048534 18 DDQINDLVSKLQQLLPELR--NNRSDKVSAGKVLQETCNYIRSLHREV 63 (91)
Q Consensus 18 ddqi~dLvsKLQaLLPe~~--~r~~~~~SaskvLqETC~YIr~LhrEV 63 (91)
-||+|-+|.-|-.++|.-. .|.-|| ..||++|-.+||. |+|+
T Consensus 32 Rdq~N~yI~ELs~Mvp~~~~~~RK~DK---~tVLr~aV~~lr~-~k~~ 75 (803)
T KOG3561|consen 32 RDQMNKYIEELSEMVPTNASLSRKPDK---LTVLRMAVDHLRL-IKEQ 75 (803)
T ss_pred HHHHHHHHHHHHHhhhcchhcccCchH---HHHHHHHHHHHHH-Hhhh
Confidence 4899999999999999985 344444 6899999999986 5565
No 79
>KOG0288 consensus WD40 repeat protein TipD [General function prediction only]
Probab=30.57 E-value=1.4e+02 Score=26.27 Aligned_cols=44 Identities=34% Similarity=0.240 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc-----Ch--hHHHHHHHHh
Q 048534 46 GKVLQETCNYIRSLHREVDDLSERLSELLATT-----DT--AQAAIIRSLL 89 (91)
Q Consensus 46 skvLqETC~YIr~LhrEVddLSeRLs~Ll~s~-----D~--~~a~iiRsLL 89 (91)
-+.+|++=.-|++|+.|.++|-|++.+.-++. |. .+..-||++.
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 33 6667777764
No 80
>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=30.57 E-value=56 Score=20.96 Aligned_cols=22 Identities=23% Similarity=0.524 Sum_probs=15.9
Q ss_pred CCCCCHHHHHHHHHHHHHhchh
Q 048534 13 SSRITDDQINDLVSKLQQLLPE 34 (91)
Q Consensus 13 ~s~isddqi~dLvsKLQaLLPe 34 (91)
..-+|++||++++.++...|.+
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 4569999999999999887754
No 81
>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=30.28 E-value=1.4e+02 Score=26.55 Aligned_cols=60 Identities=22% Similarity=0.325 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHHHhchhhhhccCCcchHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHhhccCh
Q 048534 18 DDQINDLVSKLQQLLPELRNNRSDKVSAGKVLQ---ETCNYIRSLHREVDDLSERLSELLATTDT 79 (91)
Q Consensus 18 ddqi~dLvsKLQaLLPe~~~r~~~~~SaskvLq---ETC~YIr~LhrEVddLSeRLs~Ll~s~D~ 79 (91)
|.-+.+|+.|||...-+.+..= --....+++ .++.-|..++.|+..|-+++..+...++.
T Consensus 33 d~~ls~l~~kLql~~qe~~~~l--e~~~~q~l~~~Pr~~~ev~~l~~ea~~L~~~~~~v~~~~~~ 95 (766)
T PF10191_consen 33 DAHLSSLVMKLQLYSQEVNASL--EETSQQALQRVPRVLREVDRLRQEAASLQEQMASVQEEIKA 95 (766)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4459999999999888875221 011222222 55566889999999999999998887765
No 82
>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=28.87 E-value=2.1e+02 Score=20.16 Aligned_cols=46 Identities=26% Similarity=0.265 Sum_probs=32.0
Q ss_pred HHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCh
Q 048534 27 KLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSELLATTDT 79 (91)
Q Consensus 27 KLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll~s~D~ 79 (91)
.|.++||..-.....+ +-.+-+. +....|.|.+-++..+|++.+++
T Consensus 2 ~L~~~LP~~~~~~~~~-~~~~~l~------~a~~~el~~~~~~~~~l~~e~f~ 47 (179)
T PF10076_consen 2 ELLELLPPGYAWSREP-SEFQALL------EAEGPELDRLDDRADDLLDEQFP 47 (179)
T ss_pred hHHHhCCCccccccch-HHHHHHH------HHHHHHHHHHHHHHHHHHHcCCH
Confidence 4788999985444333 3333333 34568999999999999988886
No 83
>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=28.16 E-value=1.8e+02 Score=19.05 Aligned_cols=60 Identities=17% Similarity=0.243 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCh
Q 048534 19 DQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSELLATTDT 79 (91)
Q Consensus 19 dqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll~s~D~ 79 (91)
+++..|..........+.......+++.. +...=+||..|...++..-..+..+=..++.
T Consensus 34 ~~l~~l~~~~~~~~~~~~~~~~~g~~~~~-l~~~~~f~~~l~~~i~~q~~~l~~~~~~~e~ 93 (141)
T TIGR02473 34 TQLQQLIKYREEYEQQALEKVGAGTSALE-LSNYQRFIRQLDQRIQQQQQELALLQQEVEA 93 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555555555544433333345443 5677789999988888887777766554443
No 84
>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=28.12 E-value=58 Score=21.83 Aligned_cols=18 Identities=22% Similarity=0.468 Sum_probs=14.3
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 048534 44 SAGKVLQETCNYIRSLHR 61 (91)
Q Consensus 44 SaskvLqETC~YIr~Lhr 61 (91)
=+--++.|+|-|++-|.+
T Consensus 107 l~~Hi~rEa~~yl~~L~~ 124 (124)
T PF11155_consen 107 LIDHIIREAEYYLRILNQ 124 (124)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHcC
Confidence 456789999999988763
No 85
>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]
Probab=27.77 E-value=42 Score=28.68 Aligned_cols=15 Identities=60% Similarity=0.820 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHH
Q 048534 58 SLHREVDDLSERLSE 72 (91)
Q Consensus 58 ~LhrEVddLSeRLs~ 72 (91)
-|..+||||+|||++
T Consensus 371 ~~e~q~~dlae~lae 385 (388)
T COG5238 371 LLEVQVDDLAERLAE 385 (388)
T ss_pred HHHHhHHHHHHHHhh
Confidence 367899999999986
No 86
>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=27.56 E-value=2.5e+02 Score=22.72 Aligned_cols=50 Identities=22% Similarity=0.255 Sum_probs=35.5
Q ss_pred CHHHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 048534 17 TDDQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSELLA 75 (91)
Q Consensus 17 sddqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll~ 75 (91)
|.+||++.|..-++-.+..+... .+|=..++++++.++.+-.|.|++++.
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 67899999998888887654322 234466777888888777777777654
No 87
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=27.18 E-value=2.3e+02 Score=20.03 Aligned_cols=46 Identities=28% Similarity=0.306 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH--HhhccCh-hHHHHHHHHhc
Q 048534 45 AGKVLQETCNYIRSLHREVDDLSERLSE--LLATTDT-AQAAIIRSLLM 90 (91)
Q Consensus 45 askvLqETC~YIr~LhrEVddLSeRLs~--Ll~s~D~-~~a~iiRsLL~ 90 (91)
-..|-+|.=..+..|.+||.+++=.+++ |-..+|. .+..+|..++.
T Consensus 121 ~~~i~~e~~~a~~~l~~qi~~la~~~A~kil~~~l~~~~~~~li~~~i~ 169 (174)
T PRK07352 121 AADLSAEQERVIAQLRREAAELAIAKAESQLPGRLDEDAQQRLIDRSIA 169 (174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHcCHHHHHHHHHHHHH
Confidence 3457778888999999999999998888 4455666 66777777663
No 88
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=27.09 E-value=1.9e+02 Score=27.92 Aligned_cols=54 Identities=33% Similarity=0.464 Sum_probs=36.0
Q ss_pred CCHHHHHHHHHHHHHhchhhhhccCCcchHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 048534 16 ITDDQINDLVSKLQQLLPELRNNRSDKVSAGKV-LQETCNYIRSLHREVDDLSERLSELLATT 77 (91)
Q Consensus 16 isddqi~dLvsKLQaLLPe~~~r~~~~~Saskv-LqETC~YIr~LhrEVddLSeRLs~Ll~s~ 77 (91)
..|++|.++..-++.+.-+ +...++ ..|.||+|+.+.++||-+-..++.+=+..
T Consensus 334 ~~d~Ei~~~r~~~~~~~re--------~~~~~~~~~~~~n~i~~~k~~~d~l~k~I~~~~~~~ 388 (1074)
T KOG0250|consen 334 AQDEEIEEARKDLDDLRRE--------VNDLKEEIREIENSIRKLKKEVDRLEKQIADLEKQT 388 (1074)
T ss_pred hhhHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455566655555554332 223333 34899999999999999998888765555
No 89
>PF14523 Syntaxin_2: Syntaxin-like protein; PDB: 2DNX_A.
Probab=26.82 E-value=1.7e+02 Score=18.39 Aligned_cols=53 Identities=26% Similarity=0.423 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048534 20 QINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSEL 73 (91)
Q Consensus 20 qi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~L 73 (91)
+||.-|+.|+.++-.++..+.+.---.+| .+...+++.|-+++.++=..|..+
T Consensus 7 ~in~~v~~l~k~~~~lGt~~Ds~~lR~~i-~~~~~~~~~l~k~~~~~l~~l~~~ 59 (102)
T PF14523_consen 7 KINQNVSQLEKLVNQLGTPRDSQELREKI-HQLIQKTNQLIKEISELLKKLNSL 59 (102)
T ss_dssp HHHHHHHHHHHHHHHH-SSS--HHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHHHhCCccccHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 67888888888888887444333233333 666666666666655555555444
No 90
>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=26.63 E-value=2.4e+02 Score=20.10 Aligned_cols=36 Identities=22% Similarity=0.306 Sum_probs=29.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCh
Q 048534 44 SAGKVLQETCNYIRSLHREVDDLSERLSELLATTDT 79 (91)
Q Consensus 44 SaskvLqETC~YIr~LhrEVddLSeRLs~Ll~s~D~ 79 (91)
.....+++.+..+.++.+.++.+.+++..+.+....
T Consensus 189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 224 (292)
T PF01544_consen 189 EDKEYLRDLLDRIERLLERAESLRERLESLQDLYQS 224 (292)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344568999999999999999999999988776643
No 91
>PRK13844 recombination protein RecR; Provisional
Probab=26.60 E-value=2.3e+02 Score=21.90 Aligned_cols=56 Identities=14% Similarity=0.276 Sum_probs=37.0
Q ss_pred CCCCCHHHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 048534 13 SSRITDDQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSELLATT 77 (91)
Q Consensus 13 ~s~isddqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll~s~ 77 (91)
+++|-+..|++||..|.. ||-+..+. |.|+-- .-++.=..++++|++.|.++...+
T Consensus 2 ~~~~~~~~~~~LI~~l~~-LPGIG~Ks-----A~Rla~---~lL~~~~~~~~~la~~i~~~~~~i 57 (200)
T PRK13844 2 TSKIFSPKISAVIESLRK-LPTIGKKS-----SQRLAL---YLLDKSPETAIAIANSLLDATANI 57 (200)
T ss_pred CcccChHHHHHHHHHHHH-CCCCCHHH-----HHHHHH---HHHcCCHHHHHHHHHHHHHHHHhC
Confidence 467888899999999976 58885544 444321 222333456777888777776554
No 92
>cd03370 NADH_oxidase NADPH_oxidase. Nitroreductase family containing NADH oxidase and other, uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and nitroimidazoles. This process requires NAD(P)H as electron donor in an obligatory two-electron transfer and uses FMN as cofactor. The enzyme is typically a homodimer. Members of this family are also called NADH dehydrogenase, oxygen-insensitive NAD(P)H nitrogenase or dihydropteridine reductase.
Probab=26.28 E-value=73 Score=21.48 Aligned_cols=36 Identities=25% Similarity=0.294 Sum_probs=23.6
Q ss_pred CCccccccCCCCCCCCHHHHHHHHHHHHHhchhhhhcc
Q 048534 2 SSRRSRSRQSGSSRITDDQINDLVSKLQQLLPELRNNR 39 (91)
Q Consensus 2 Ssrrsrs~~~~~s~isddqi~dLvsKLQaLLPe~~~r~ 39 (91)
-+|||-. .=....|++++|.+|+...+. -|...++.
T Consensus 6 ~~RrS~R-~f~~~~i~~e~l~~il~~a~~-aPs~~n~q 41 (156)
T cd03370 6 ERRRSIR-QFDTDPIPEDLLRRLLEAALR-APSAFNLQ 41 (156)
T ss_pred hhCeeec-ccCCCCCCHHHHHHHHHHHHH-CcCcCCCC
Confidence 3566532 223457999999999987754 47765543
No 93
>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=25.52 E-value=75 Score=22.39 Aligned_cols=19 Identities=16% Similarity=0.324 Sum_probs=16.3
Q ss_pred CCCCCHHHHHHHHHHHHHh
Q 048534 13 SSRITDDQINDLVSKLQQL 31 (91)
Q Consensus 13 ~s~isddqi~dLvsKLQaL 31 (91)
...+||+||.+|+.-|+.+
T Consensus 103 ~~~LsdeeI~aLaaYI~sl 121 (133)
T TIGR03872 103 YGNLTLDEMLQIMAWIRHL 121 (133)
T ss_pred ccCCCHHHHHHHHHHHHHh
Confidence 3579999999999988875
No 94
>smart00099 btg1 tob/btg1 family. The tob/btg1 is a family of proteins that inhibit cell proliferation.
Probab=25.51 E-value=1.5e+02 Score=20.92 Aligned_cols=27 Identities=37% Similarity=0.624 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHH--------HHHHHHHHHHHHHhh
Q 048534 49 LQETCNYIRSLH--------REVDDLSERLSELLA 75 (91)
Q Consensus 49 LqETC~YIr~Lh--------rEVddLSeRLs~Ll~ 75 (91)
++++++||-+|= +-|+..++.|.++|.
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 467788887775 668888888888664
No 95
>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=25.44 E-value=66 Score=21.96 Aligned_cols=18 Identities=33% Similarity=0.588 Sum_probs=15.7
Q ss_pred CCCCHHHHHHHHHHHHHh
Q 048534 14 SRITDDQINDLVSKLQQL 31 (91)
Q Consensus 14 s~isddqi~dLvsKLQaL 31 (91)
..+|++||.|||.-|+.|
T Consensus 116 ~~Lt~~e~~dL~aYL~s~ 133 (133)
T TIGR02603 116 MGLSDQDLADLVAYLKSL 133 (133)
T ss_pred ccCCHHHHHHHHHHHhhC
Confidence 579999999999998764
No 96
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=25.11 E-value=2.9e+02 Score=20.53 Aligned_cols=47 Identities=13% Similarity=0.225 Sum_probs=36.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HhhccCh-hHHHHHHHHhc
Q 048534 44 SAGKVLQETCNYIRSLHREVDDLSERLSE--LLATTDT-AQAAIIRSLLM 90 (91)
Q Consensus 44 SaskvLqETC~YIr~LhrEVddLSeRLs~--Ll~s~D~-~~a~iiRsLL~ 90 (91)
.-.+|-+|.=..++.|..|+.+|+-..++ |-..+|. .+.++|..++.
T Consensus 149 A~~~Ie~Ek~~a~~~Lk~ei~~lAv~iA~kiL~k~ld~~~~~~lI~~~i~ 198 (205)
T PRK06231 149 ARQEIEKERRELKEQLQKESVELAMLAAEELIKKKVDREDDDKLVDEFIR 198 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHH
Confidence 34566777788889999999999999988 4445676 77788877663
No 97
>PF12876 Cellulase-like: Sugar-binding cellulase-like; InterPro: IPR024778 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This entry represents a family of putative cellulase enzymes.; PDB: 3GYC_B.
Probab=24.99 E-value=74 Score=20.07 Aligned_cols=19 Identities=21% Similarity=0.370 Sum_probs=15.1
Q ss_pred cchHHHHHHHHHHHHHHHH
Q 048534 42 KVSAGKVLQETCNYIRSLH 60 (91)
Q Consensus 42 ~~SaskvLqETC~YIr~Lh 60 (91)
.....+.|+|++.|||.++
T Consensus 37 ~~~~~~~l~~~~~~iR~~d 55 (88)
T PF12876_consen 37 AEAYAEWLKEAFRWIRAVD 55 (88)
T ss_dssp SHHHHHHHHHHHHHHHTT-
T ss_pred HHHHHHHHHHHHHHHHHhC
Confidence 4567789999999999864
No 98
>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=24.88 E-value=57 Score=22.61 Aligned_cols=39 Identities=23% Similarity=0.429 Sum_probs=22.9
Q ss_pred CCCCHHHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048534 14 SRITDDQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSER 69 (91)
Q Consensus 14 s~isddqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeR 69 (91)
..+++|.+ +.|-.|..|=| +.+ -.|||.||.++=.|+-+
T Consensus 42 ~~l~~dD~-~~~~eLs~Lt~------------~~L----~~~Ik~L~~~aYqLGl~ 80 (95)
T PF10044_consen 42 QELTKDDM-EKMNELSSLTP------------DQL----IEKIKKLQDEAYQLGLE 80 (95)
T ss_pred cccCHHHH-HHHHHHHcCCH------------HHH----HHHHHHHHHHHHHHhHH
Confidence 45666666 35555544433 222 35788888887777644
No 99
>PF14313 Soyouz_module: N-terminal region of Paramyxovirinae phosphoprotein (P); PDB: 2HYE_B 2B5L_D.
Probab=24.85 E-value=14 Score=23.57 Aligned_cols=12 Identities=42% Similarity=0.767 Sum_probs=2.3
Q ss_pred CCCHHHHHHHHH
Q 048534 15 RITDDQINDLVS 26 (91)
Q Consensus 15 ~isddqi~dLvs 26 (91)
-+||+||+|||.
T Consensus 3 ~~td~Ei~dlie 14 (58)
T PF14313_consen 3 TFTDAEIDDLIE 14 (58)
T ss_dssp ------SS---E
T ss_pred CCCHHHHHHHHH
Confidence 378999999874
No 100
>COG2118 DNA-binding protein [General function prediction only]
Probab=24.83 E-value=75 Score=23.12 Aligned_cols=19 Identities=5% Similarity=0.529 Sum_probs=16.2
Q ss_pred CCCCCHHHHHHHHHHHHHh
Q 048534 13 SSRITDDQINDLVSKLQQL 31 (91)
Q Consensus 13 ~s~isddqi~dLvsKLQaL 31 (91)
..+|||++|.+++.++..-
T Consensus 86 ~~~I~e~~lk~IL~~i~~~ 104 (116)
T COG2118 86 THKIDEEELKEILERISPQ 104 (116)
T ss_pred CCCCCHHHHHHHHHHHhHH
Confidence 5789999999999988753
No 101
>PRK00294 hscB co-chaperone HscB; Provisional
Probab=24.68 E-value=2.9e+02 Score=20.33 Aligned_cols=19 Identities=37% Similarity=0.646 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 048534 53 CNYIRSLHREVDDLSERLS 71 (91)
Q Consensus 53 C~YIr~LhrEVddLSeRLs 71 (91)
-.|+.+|+.||+.+.|.|.
T Consensus 154 l~f~~kl~~ei~~~~~~l~ 172 (173)
T PRK00294 154 MQFLDKLAQEVRQLEERLD 172 (173)
T ss_pred HHHHHHHHHHHHHHHHHhh
Confidence 4688888888888777763
No 102
>PRK06474 hypothetical protein; Provisional
Probab=24.56 E-value=82 Score=22.85 Aligned_cols=25 Identities=16% Similarity=0.450 Sum_probs=21.3
Q ss_pred CCCCHHHHHHHHHHHHHhchhhhhc
Q 048534 14 SRITDDQINDLVSKLQQLLPELRNN 38 (91)
Q Consensus 14 s~isddqi~dLvsKLQaLLPe~~~r 38 (91)
=.+|+||..+|..+|.+|+-...++
T Consensus 134 L~Lt~ee~~el~~el~~ll~~y~~~ 158 (178)
T PRK06474 134 LKLDEEEFEEFQSELNELMIKYYNS 158 (178)
T ss_pred EecCHHHHHHHHHHHHHHHHHHHhC
Confidence 4589999999999999999887543
No 103
>PRK04239 hypothetical protein; Provisional
Probab=24.56 E-value=72 Score=22.66 Aligned_cols=17 Identities=24% Similarity=0.597 Sum_probs=15.3
Q ss_pred CCCCCHHHHHHHHHHHH
Q 048534 13 SSRITDDQINDLVSKLQ 29 (91)
Q Consensus 13 ~s~isddqi~dLvsKLQ 29 (91)
..+|||+++.+|+.++.
T Consensus 83 ~~ki~e~~L~~lL~~v~ 99 (110)
T PRK04239 83 QGPIDDEQLKEILEQLT 99 (110)
T ss_pred CCCcCHHHHHHHHHHHh
Confidence 58899999999999886
No 104
>PF09487 HrpB2: Bacterial type III secretion protein (HrpB2); InterPro: IPR013391 This entry represents proteins encoded by genes which are found in type III secretion operons in a narrow group of species including Xanthomonas, Burkholderia and Ralstonia.
Probab=24.55 E-value=2.5e+02 Score=20.19 Aligned_cols=50 Identities=18% Similarity=0.296 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHhchhhh------hccCCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048534 20 QINDLVSKLQQLLPELR------NNRSDKVSAGKVLQETCNYIRSLHREVDDLSER 69 (91)
Q Consensus 20 qi~dLvsKLQaLLPe~~------~r~~~~~SaskvLqETC~YIr~LhrEVddLSeR 69 (91)
=-.+|+.|.|+|.-.-. .+...-.-.+|++-+-=-+||..+.-|++|+..
T Consensus 14 ~~~~l~~rFqALM~~a~~~pp~~~~~~~~s~vs~lv~~qd~~~r~~~~dv~~~~~~ 69 (117)
T PF09487_consen 14 PSQELVERFQALMQSAPPAPPAAHRSEGPSAVSKLVATQDAAMRQVLNDVAALSAQ 69 (117)
T ss_pred CcHHHHHHHHHHHhCCCCCCCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34689999999975443 222223467888888889999999999998765
No 105
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=24.53 E-value=2.7e+02 Score=19.86 Aligned_cols=45 Identities=18% Similarity=0.302 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-Hh-hccCh-hHHHHHHHHh
Q 048534 45 AGKVLQETCNYIRSLHREVDDLSERLSE-LL-ATTDT-AQAAIIRSLL 89 (91)
Q Consensus 45 askvLqETC~YIr~LhrEVddLSeRLs~-Ll-~s~D~-~~a~iiRsLL 89 (91)
-..|-+|.=..+..|+.||.+|+-.+++ +| ..+|. .+..+|...+
T Consensus 120 ~~~I~~ek~~a~~~l~~ei~~lA~~~a~kll~~~l~~~~~~~lI~~~i 167 (173)
T PRK13453 120 QSEINSQKERAIADINNQVSELSVLIASKVLRKEISEQDQKALVDKYL 167 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHcCHHHHHHHHHHHH
Confidence 3466777788899999999999999888 33 45666 7777777665
No 106
>PF07061 Swi5: Swi5; InterPro: IPR010760 This entry represents Swi5 and is involved in meiotic DNA repair synthesis and meiotic joint molecule formation []. It is known to interact with Swi2, Rhp51 and Swi6 [].
Probab=24.02 E-value=1.3e+02 Score=20.05 Aligned_cols=32 Identities=28% Similarity=0.509 Sum_probs=25.2
Q ss_pred hHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHhhccC
Q 048534 44 SAGKVLQETCNYIRSLHR--EVDDLSERLSELLATTD 78 (91)
Q Consensus 44 SaskvLqETC~YIr~Lhr--EVddLSeRLs~Ll~s~D 78 (91)
.+.++++ .||+-||. |+.|..-.|-.++|..-
T Consensus 33 ~~~~~v~---~hI~lLheYNeiKD~gQ~Lig~iA~~r 66 (83)
T PF07061_consen 33 DPEKIVK---RHIKLLHEYNEIKDIGQGLIGLIADQR 66 (83)
T ss_pred CHHHHHH---HHHHHHHHHhHHHHHHHHHHHHHHHHc
Confidence 3444444 69999995 99999999999988764
No 107
>PRK13689 hypothetical protein; Provisional
Probab=23.96 E-value=75 Score=21.62 Aligned_cols=22 Identities=27% Similarity=0.572 Sum_probs=18.9
Q ss_pred CCCCCHHHHHHHHHHHHHhchh
Q 048534 13 SSRITDDQINDLVSKLQQLLPE 34 (91)
Q Consensus 13 ~s~isddqi~dLvsKLQaLLPe 34 (91)
.|+.||+|+..|+.-|-+.|-.
T Consensus 4 ~SKYsd~qvE~il~el~~VLeK 25 (75)
T PRK13689 4 QSKYSDEQVEQLLAELLAVLEK 25 (75)
T ss_pred cccccHHHHHHHHHHHHHHHHh
Confidence 4789999999999999888753
No 108
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The 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. TMF1_TATA_bd is the most conserved part of the TMFs []. 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. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=23.92 E-value=2.7e+02 Score=19.67 Aligned_cols=44 Identities=23% Similarity=0.347 Sum_probs=25.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccChhHHHHHH
Q 048534 43 VSAGKVLQETCNYIRSLHREVDDLSERLSELLATTDTAQAAIIR 86 (91)
Q Consensus 43 ~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll~s~D~~~a~iiR 86 (91)
.+..-++-.-++-||++.-|+..|-+.++.|-..=|....+|++
T Consensus 12 ~~~~~~ve~L~s~lr~~E~E~~~l~~el~~l~~~r~~l~~Eiv~ 55 (120)
T PF12325_consen 12 GPSVQLVERLQSQLRRLEGELASLQEELARLEAERDELREEIVK 55 (120)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555556666666666666666666665555554444443
No 109
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=23.83 E-value=77 Score=19.47 Aligned_cols=21 Identities=10% Similarity=0.468 Sum_probs=18.0
Q ss_pred CCCHHHHHHHHHHHHHhchhh
Q 048534 15 RITDDQINDLVSKLQQLLPEL 35 (91)
Q Consensus 15 ~isddqi~dLvsKLQaLLPe~ 35 (91)
.++++++.+++..|+.++++-
T Consensus 66 ~~~~~e~~~l~~~l~~~~~~~ 86 (96)
T smart00529 66 GVDEEEVHEEAERLEHVLSDE 86 (96)
T ss_pred CCCHHHHHHHHHHHHccCCHH
Confidence 488999999999999888765
No 110
>PF08167 RIX1: rRNA processing/ribosome biogenesis
Probab=23.81 E-value=2.7e+02 Score=19.64 Aligned_cols=62 Identities=16% Similarity=0.185 Sum_probs=48.6
Q ss_pred CCHHHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHhhccCh
Q 048534 16 ITDDQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNY--IRSLHREVDDLSERLSELLATTDT 79 (91)
Q Consensus 16 isddqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~Y--Ir~LhrEVddLSeRLs~Ll~s~D~ 79 (91)
++..++..++.|+.+||-.- ...+|-.+..++.-||.| -..|-+.....-..|-.+|+..|.
T Consensus 18 ~~~~~l~~l~~ri~~LL~s~--~~~~rw~G~~Ll~~~~~~~~~e~l~~~~~~W~~~Ll~~L~~~~~ 81 (165)
T PF08167_consen 18 PSKSALHKLVTRINSLLQSK--SAYSRWAGLCLLKVTVEQCSWEILLSHGSQWLRALLSILEKPDP 81 (165)
T ss_pred cCHHHHHHHHHHHHHHhCCC--ChhhHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHcCCCC
Confidence 47889999999999998332 123466778888888888 688888888888888888888765
No 111
>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=23.80 E-value=1.7e+02 Score=17.49 Aligned_cols=39 Identities=23% Similarity=0.358 Sum_probs=30.3
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCh
Q 048534 41 DKVSAGKVLQETCNYIRSLHREVDDLSERLSELLATTDT 79 (91)
Q Consensus 41 ~~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll~s~D~ 79 (91)
.+.+|.+.=+--=.||..|+.+|+.|...-.+|...++.
T Consensus 13 NR~AAr~~R~RKk~~~~~Le~~~~~L~~en~~L~~~~~~ 51 (64)
T PF00170_consen 13 NREAARRSRQRKKQYIEELEEKVEELESENEELKKELEQ 51 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677666666789999999999999888888776654
No 112
>KOG0810 consensus SNARE protein Syntaxin 1 and related proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.63 E-value=1.5e+02 Score=23.95 Aligned_cols=61 Identities=18% Similarity=0.256 Sum_probs=50.0
Q ss_pred HHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCh
Q 048534 19 DQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSELLATTDT 79 (91)
Q Consensus 19 dqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll~s~D~ 79 (91)
++|++-+.+|...+-.+..-.+.-.++.+-.+++|+-+.++-.++-..+..+-..|..++-
T Consensus 43 e~Ir~~i~~l~~~~~~l~~~hs~~l~~~~~~~~~k~~l~~~~~~~~~~a~~Ik~kL~~~e~ 103 (297)
T KOG0810|consen 43 EEIRDDIEKLDEDVEKLQKLHSKSLHSPNADKELKRKLESLVDEIRRRARKIKTKLKALEK 103 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhHhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5788888888888888876666677888889999999999999988888888877776653
No 113
>PRK00453 rpsF 30S ribosomal protein S6; Reviewed
Probab=23.62 E-value=91 Score=20.58 Aligned_cols=22 Identities=18% Similarity=0.519 Sum_probs=19.7
Q ss_pred CCCCHHHHHHHHHHHHHhchhh
Q 048534 14 SRITDDQINDLVSKLQQLLPEL 35 (91)
Q Consensus 14 s~isddqi~dLvsKLQaLLPe~ 35 (91)
+.++++++..++.+++++|.+.
T Consensus 12 ~~~~~~~~~~~~~~~~~~i~~~ 33 (108)
T PRK00453 12 PDLSEEQVKALVERFKGVITEN 33 (108)
T ss_pred CCCCHHHHHHHHHHHHHHHHHC
Confidence 4589999999999999999875
No 114
>PF11212 DUF2999: Protein of unknown function (DUF2999); InterPro: IPR021376 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=23.60 E-value=71 Score=22.12 Aligned_cols=15 Identities=40% Similarity=0.738 Sum_probs=11.8
Q ss_pred CCCCHHHHHHHHHHH
Q 048534 14 SRITDDQINDLVSKL 28 (91)
Q Consensus 14 s~isddqi~dLvsKL 28 (91)
-.|||+||++|..-|
T Consensus 11 hnvsd~qi~elFq~l 25 (82)
T PF11212_consen 11 HNVSDEQINELFQAL 25 (82)
T ss_pred cCCCHHHHHHHHHHH
Confidence 358999999997544
No 115
>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=23.55 E-value=1.9e+02 Score=21.70 Aligned_cols=54 Identities=19% Similarity=0.262 Sum_probs=34.0
Q ss_pred HHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Q 048534 24 LVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSELLATTD 78 (91)
Q Consensus 24 LvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll~s~D 78 (91)
++.++..+.+...-..-....+.++|+ ...|++..++.+.++-+.|.+.|+..+
T Consensus 212 ~~~~l~~~~~~~~~s~~~q~~~~~~l~-~~~~~~~~~~~~~~~~~~l~~~L~~~~ 265 (330)
T TIGR01140 212 LLARLREALGPWTVNGPARAAGRAALA-DTAWQAATRARLAAERARLAALLARLG 265 (330)
T ss_pred HHHHHHhcCCCCCchHHHHHHHHHHHh-chHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 555555555433211112334556665 357888888889999888888887665
No 116
>PRK11166 chemotaxis regulator CheZ; Provisional
Probab=23.33 E-value=3e+02 Score=21.42 Aligned_cols=34 Identities=15% Similarity=0.305 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Q 048534 45 AGKVLQETCNYIRSLHREVDDLSERLSELLATTD 78 (91)
Q Consensus 45 askvLqETC~YIr~LhrEVddLSeRLs~Ll~s~D 78 (91)
.-.+..+|+.|+.....--.++...|.+.|...|
T Consensus 107 ~~~L~~~~~~fL~~v~~~t~~~~~~L~eI~mAqd 140 (214)
T PRK11166 107 ARELVTDTRAFLADVPEHTSFTNAQLLEIMMAQD 140 (214)
T ss_pred HHHHHHHHHHHHHHhHhhHHHHHHHHHHHHHHcc
Confidence 3445556666666666666666666666555544
No 117
>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=23.12 E-value=2.4e+02 Score=18.75 Aligned_cols=54 Identities=24% Similarity=0.324 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048534 19 DQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSE 72 (91)
Q Consensus 19 dqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~ 72 (91)
.+|+..|..|+.+.-.+...........+-|.+....|+.+.+++...=+.|.+
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 467777777777776664332211123444444444444444444444444433
No 118
>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=22.90 E-value=89 Score=18.17 Aligned_cols=14 Identities=21% Similarity=0.548 Sum_probs=11.7
Q ss_pred CCCCHHHHHHHHHH
Q 048534 14 SRITDDQINDLVSK 27 (91)
Q Consensus 14 s~isddqi~dLvsK 27 (91)
..+||+||.+|+.-
T Consensus 53 ~~ls~~e~~~l~~y 66 (67)
T PF13442_consen 53 GQLSDEEIEALAAY 66 (67)
T ss_dssp TTSTHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHH
Confidence 37999999999864
No 119
>PF09865 DUF2092: Predicted periplasmic protein (DUF2092); InterPro: IPR019207 This entry represents various hypothetical prokaryotic proteins of unknown function.
Probab=22.89 E-value=51 Score=25.14 Aligned_cols=17 Identities=24% Similarity=0.585 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHH
Q 048534 45 AGKVLQETCNYIRSLHR 61 (91)
Q Consensus 45 askvLqETC~YIr~Lhr 61 (91)
|..+|+.+|.|+..++.
T Consensus 2 A~~iL~~m~~~L~~~k~ 18 (214)
T PF09865_consen 2 ADQILKAMSDYLAALKS 18 (214)
T ss_pred HHHHHHHHHHHHhhCcE
Confidence 67899999999988753
No 120
>cd02143 NADH_nitroreductase Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer. Each subunit contains one FMN molecule. Members of this family are also called NADH dehydrogenase, oxygen-insensitive NAD(P)H nitrogenase or dihydropteridine reductase.
Probab=22.76 E-value=88 Score=20.94 Aligned_cols=35 Identities=20% Similarity=0.253 Sum_probs=22.0
Q ss_pred CCccccccCCCCCCCCHHHHHHHHHHHHHhchhhhhc
Q 048534 2 SSRRSRSRQSGSSRITDDQINDLVSKLQQLLPELRNN 38 (91)
Q Consensus 2 Ssrrsrs~~~~~s~isddqi~dLvsKLQaLLPe~~~r 38 (91)
-.|||-.. =....|++|+|.+|+.--+. -|...+.
T Consensus 3 ~~RrSvR~-F~~~~i~~~~l~~il~aa~~-aPs~~n~ 37 (147)
T cd02143 3 RGRRSVRH-YRPEPVPRETIERLLDIARY-APTGSNS 37 (147)
T ss_pred ccceeeec-CCCCCCCHHHHHHHHHHHhh-CCCCCCC
Confidence 35665322 23458999999999876543 4776543
No 121
>smart00808 FABD F-actin binding domain (FABD). FABD is the F-actin binding domain of Bcr-Abl and its cellular counterpart c-Abl. The Bcr-Abl tyrosine kinase causes different forms of leukemia in humans. Depending on its position within the cell, Bcr-Abl differentially affects cellular growth. The FABD forms a compact left-handed four-helix bundle in solution.
Probab=22.76 E-value=1.9e+02 Score=21.29 Aligned_cols=45 Identities=29% Similarity=0.355 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHH
Q 048534 19 DQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSE 68 (91)
Q Consensus 19 dqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSe 68 (91)
=+.-|||+||-..+-+++.--+++.+ +.+=.++-.||.=|+++|+
T Consensus 78 F~FRElvsrlE~~~r~Lr~sa~~~~~-----~~~~~~~~~l~~svkeIsd 122 (126)
T smart00808 78 FQFRELVSRLELQLRELRISAGSRNS-----PGATQDFSKLLSSVKEISD 122 (126)
T ss_pred hHHHHHHHHHHHHHHHHHhhccCCCC-----cchHHHHHHHHHHHHHHHH
Confidence 36789999999999998732222221 3333444556666666554
No 122
>COG5499 Predicted transcription regulator containing HTH domain [Transcription]
Probab=22.66 E-value=97 Score=22.78 Aligned_cols=25 Identities=24% Similarity=0.365 Sum_probs=20.4
Q ss_pred CCcchHHHHHH----HHHHHHHHHHHHHH
Q 048534 40 SDKVSAGKVLQ----ETCNYIRSLHREVD 64 (91)
Q Consensus 40 ~~~~SaskvLq----ETC~YIr~LhrEVd 64 (91)
+||.-++.||. =|-++||.||+|..
T Consensus 84 GSks~vS~iL~~rraLTle~ikkL~q~~g 112 (120)
T COG5499 84 GSKSRVSNILSGRRALTLEHIKKLHQRFG 112 (120)
T ss_pred CchHHHHHHHhhhhHhhHHHHHHHHHHhC
Confidence 56777888885 49999999999864
No 123
>PF05802 EspB: Enterobacterial EspB protein
Probab=22.66 E-value=56 Score=27.34 Aligned_cols=24 Identities=46% Similarity=0.692 Sum_probs=20.2
Q ss_pred CCCCCHH--HHHHHHHHHHHhchhhh
Q 048534 13 SSRITDD--QINDLVSKLQQLLPELR 36 (91)
Q Consensus 13 ~s~isdd--qi~dLvsKLQaLLPe~~ 36 (91)
++-|+|. +|++||.+|+.|+-.++
T Consensus 36 ssll~d~~adIs~lileL~eL~kKLR 61 (317)
T PF05802_consen 36 SSLLTDGIADISDLILELAELFKKLR 61 (317)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3558898 99999999999988875
No 124
>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=22.57 E-value=3.2e+02 Score=20.13 Aligned_cols=46 Identities=24% Similarity=0.388 Sum_probs=29.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHhhccCh--hHHHHHHHHh
Q 048534 44 SAGKVLQETCNYIRSLHREVDDLSE------------RLSELLATTDT--AQAAIIRSLL 89 (91)
Q Consensus 44 SaskvLqETC~YIr~LhrEVddLSe------------RLs~Ll~s~D~--~~a~iiRsLL 89 (91)
...++.|..+.++..++.+-+.+-. -|..||++++. .-.+++|.|+
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 3456777888888888888766544 34456666654 3344666655
No 125
>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=22.54 E-value=1.1e+02 Score=22.44 Aligned_cols=56 Identities=16% Similarity=0.305 Sum_probs=37.1
Q ss_pred CCHHHHHHHHHHHHHhchhhhhccCCcc-hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048534 16 ITDDQINDLVSKLQQLLPELRNNRSDKV-SAGKVLQETCNYIRSLHREVDDLSERLSE 72 (91)
Q Consensus 16 isddqi~dLvsKLQaLLPe~~~r~~~~~-SaskvLqETC~YIr~LhrEVddLSeRLs~ 72 (91)
++++.|..++..|.++.+.-....+... .-..+| -+==|++-=|.||.++++++++
T Consensus 41 ~se~~m~~Va~~l~~~a~~Y~g~~~~~i~~L~e~L-RAgyYv~~y~~~l~~~~~~~~~ 97 (190)
T PF08453_consen 41 FSEANMQAVANALAQLAAQYTGDDAKGIENLVEFL-RAGYYVQYYNDELGYYSSALSQ 97 (190)
T ss_dssp H-HHHHHHHHHHHHHHHHH--SS--TTHHHHHHHH-HHHHHHHHHSTTSCCCTSHHHH
T ss_pred hHHHHHHHHHHHHHHHHhhCCCCchhhHHHHHHHH-HHHHHHhhcccccccccHHHHH
Confidence 5788888999999988888765543333 233333 3445888888999888888887
No 126
>PF06210 DUF1003: Protein of unknown function (DUF1003); InterPro: IPR010406 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=22.48 E-value=1.1e+02 Score=21.20 Aligned_cols=29 Identities=38% Similarity=0.547 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 048534 48 VLQETCNYIRSLHREVDDLSERLSELLAT 76 (91)
Q Consensus 48 vLqETC~YIr~LhrEVddLSeRLs~Ll~s 76 (91)
|=..+=--|+.||+++|++.+.+.+.+..
T Consensus 74 inl~ae~ei~~l~~~l~~l~~~~~~~~~~ 102 (108)
T PF06210_consen 74 INLKAEQEIERLHRKLDALREKLGELLER 102 (108)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 33345556888999999998888876654
No 127
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=22.39 E-value=3.5e+02 Score=21.25 Aligned_cols=43 Identities=21% Similarity=0.356 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHH
Q 048534 18 DDQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHRE 62 (91)
Q Consensus 18 ddqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrE 62 (91)
-++|.+-...|..++|-...-..+- ..-||.-+--||..|++.
T Consensus 71 Rahlk~~~~~Lk~~vP~~~~~~~~t--~lsiL~kA~~~i~~l~~~ 113 (232)
T KOG2483|consen 71 RAHLKDCFESLKDSVPLLNGETRST--TLSILDKALEHIQSLERK 113 (232)
T ss_pred HHHHHHHHHHHHHhCCCCCCcchhh--hhHhhhhHHHHHHHHHhH
Confidence 4789999999999999886322221 577888888999888754
No 128
>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=22.38 E-value=1.7e+02 Score=19.01 Aligned_cols=22 Identities=23% Similarity=0.447 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHHhhccCh
Q 048534 58 SLHREVDDLSERLSELLATTDT 79 (91)
Q Consensus 58 ~LhrEVddLSeRLs~Ll~s~D~ 79 (91)
.|..++++|..+|-+.++.+|.
T Consensus 40 eL~~ri~~lr~~ld~~~~~~d~ 61 (71)
T PF08663_consen 40 ELEDRIEELRAELDDTLDEFDD 61 (71)
T ss_pred HHHHHHHHHHHHHHHHHHhcch
Confidence 3555566666666666666664
No 129
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=22.30 E-value=69 Score=20.13 Aligned_cols=30 Identities=37% Similarity=0.430 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 048534 47 KVLQETCNYIRSLHREVDDLSERLSELLAT 76 (91)
Q Consensus 47 kvLqETC~YIr~LhrEVddLSeRLs~Ll~s 76 (91)
+|+-+==.-|..|++++..|.+||.++-+.
T Consensus 25 ~~v~~Qq~~I~~L~~~l~~L~~rl~~~~~~ 54 (69)
T PF04102_consen 25 DVVTEQQRQIDRLQRQLRLLRERLRELEDP 54 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHT-------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 344444556888888888888888887633
No 130
>TIGR00153 conserved hypothetical protein TIGR00153. An apparent homolog with a suggested function is Pit accessory protein from Sinorhizobium meliloti, which may be involved in phosphate (Pi) transport.
Probab=22.26 E-value=3.1e+02 Score=19.86 Aligned_cols=29 Identities=21% Similarity=0.343 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-HHhhc
Q 048534 48 VLQETCNYIRSLHREVDDLSERLS-ELLAT 76 (91)
Q Consensus 48 vLqETC~YIr~LhrEVddLSeRLs-~Ll~s 76 (91)
-++|.|.=|+.+.+|+|.+-.++- .|...
T Consensus 148 ~i~~~~~~I~~lE~e~D~i~~~~~~~Lf~~ 177 (216)
T TIGR00153 148 LANDIIKEIKDLEDEIDVMQIRIYKKLYNL 177 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 588999999999999999888774 46544
No 131
>PF00804 Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins A and B are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane. Syntaxins are a family of receptors for intracellular transport vesicles. Each target membrane may be identified by a specific member of the syntaxin family []. Members of the syntaxin family [, ] have a size ranging from 30 Kd to 40 Kd; a C-terminal extremity which is highly hydrophobic and anchors the protein on the cytoplasmic surface of cellular membranes; a central, well conserved region, which seems to be in a coiled-coil conformation. ; GO: 0016020 membrane; PDB: 1S94_B 1EZ3_A 3C98_B 1BR0_A 1FIO_A 2XHE_B.
Probab=22.08 E-value=1.3e+02 Score=18.15 Aligned_cols=25 Identities=12% Similarity=0.268 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 048534 46 GKVLQETCNYIRSLHREVDDLSERL 70 (91)
Q Consensus 46 skvLqETC~YIr~LhrEVddLSeRL 70 (91)
-.+..|+=..+..+++-++.|+...
T Consensus 48 ~~l~~~i~~~~~~~~~~lk~l~~~~ 72 (103)
T PF00804_consen 48 DELTDEIKQLFQKIKKRLKQLSKDN 72 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444555555555555555555543
No 132
>TIGR00782 ccoP cytochrome c oxidase, cbb3-type, subunit III. This model describes a di-heme subunit of approximately 26 kDa of the cbb3 type copper and heme-containing cytochrome oxidase.
Probab=22.03 E-value=76 Score=24.32 Aligned_cols=41 Identities=12% Similarity=0.286 Sum_probs=25.4
Q ss_pred CCCCHHHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHH
Q 048534 14 SRITDDQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCN 54 (91)
Q Consensus 14 s~isddqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~ 54 (91)
..+||+||.+++.-+..+-+.............++.++.|.
T Consensus 175 ~~LsdeeI~aVaaYv~sl~~~~~~~~~~~~~G~~lf~~~Ca 215 (285)
T TIGR00782 175 PLLEEADIKDVASYVMSLSSGKPKDEALAAKGQELFADNCT 215 (285)
T ss_pred cccChHHHHHHHHHHHHhccCCccchhHHHHHHHHHhccch
Confidence 56999999999999998874110000111234556666675
No 133
>PF08919 F_actin_bind: F-actin binding; InterPro: IPR015015 The F-actin binding domain forms a compact bundle of four antiparallel alpha-helices, which are arranged in a left-handed topology. Binding of F-actin to the F-actin binding domain may result in cytoplasmic retention and subcellular distribution of the protein, as well as possible inhibition of protein function []. ; GO: 0004715 non-membrane spanning protein tyrosine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1ZZP_A 2KK1_A.
Probab=22.02 E-value=1.5e+02 Score=20.86 Aligned_cols=37 Identities=22% Similarity=0.328 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHhchhhhhccCCc--chHHHHHHHHHHHH
Q 048534 20 QINDLVSKLQQLLPELRNNRSDK--VSAGKVLQETCNYI 56 (91)
Q Consensus 20 qi~dLvsKLQaLLPe~~~r~~~~--~SaskvLqETC~YI 56 (91)
..-|||+||...+-+++...+.. ....+++.+-=+-|
T Consensus 63 ~FREllsrLE~~~rqLr~~~s~~~~~~~~~l~~~l~~~i 101 (110)
T PF08919_consen 63 AFRELLSRLESQSRQLRSCGSSNSSPENQRLVSDLQNTI 101 (110)
T ss_dssp HHHHHHHHHHHHHHHHCHSSSSSSSTT--THHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHhccCCCCCcccHHHHHHHHHHH
Confidence 56799999999999998554433 34455555433333
No 134
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=21.72 E-value=3.6e+02 Score=23.05 Aligned_cols=16 Identities=31% Similarity=0.723 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHhchhh
Q 048534 20 QINDLVSKLQQLLPEL 35 (91)
Q Consensus 20 qi~dLvsKLQaLLPe~ 35 (91)
++++.+.+|+...|..
T Consensus 54 ~~~~~l~~L~~~~~~~ 69 (646)
T PRK05771 54 KLSEALDKLRSYLPKL 69 (646)
T ss_pred HHHHHHHHHHHhcccc
Confidence 3566666676666654
No 135
>TIGR00400 mgtE Mg2+ transporter (mgtE). This family of prokaryotic proteins models a class of Mg++ transporter first described in Bacillus firmus. May form a homodimer.
Probab=21.69 E-value=2.5e+02 Score=22.92 Aligned_cols=13 Identities=31% Similarity=0.677 Sum_probs=8.1
Q ss_pred HHHHHHHHHHhch
Q 048534 21 INDLVSKLQQLLP 33 (91)
Q Consensus 21 i~dLvsKLQaLLP 33 (91)
|.||+.++.+++.
T Consensus 4 ~~~~~~~~~~~~~ 16 (449)
T TIGR00400 4 IDELILRIRILLK 16 (449)
T ss_pred HHHHHHHHHHHHH
Confidence 5666666666653
No 136
>KOG2351 consensus RNA polymerase II, fourth largest subunit [Transcription]
Probab=21.56 E-value=91 Score=23.28 Aligned_cols=19 Identities=26% Similarity=0.648 Sum_probs=17.1
Q ss_pred CCCCCHHHHHHHHHHHHHh
Q 048534 13 SSRITDDQINDLVSKLQQL 31 (91)
Q Consensus 13 ~s~isddqi~dLvsKLQaL 31 (91)
..+|.||+|+..+.+||.+
T Consensus 112 ~nkidD~~le~iL~dls~l 130 (134)
T KOG2351|consen 112 ENKIDDDELEQILKDLSTL 130 (134)
T ss_pred ccccCHHHHHHHHHHHHHH
Confidence 4789999999999999976
No 137
>PRK13436 F0F1 ATP synthase subunit delta; Provisional
Probab=21.46 E-value=94 Score=22.32 Aligned_cols=22 Identities=27% Similarity=0.354 Sum_probs=19.0
Q ss_pred CCCCCCHHHHHHHHHHHHHhch
Q 048534 12 GSSRITDDQINDLVSKLQQLLP 33 (91)
Q Consensus 12 ~~s~isddqi~dLvsKLQaLLP 33 (91)
.+.++||+|++.|..+|+.-++
T Consensus 115 sA~~Ls~~~~~~i~~~l~~~~g 136 (179)
T PRK13436 115 TTEPLSEVQISRFESKLSKKLN 136 (179)
T ss_pred ecCCCCHHHHHHHHHHHHHHHC
Confidence 3678999999999999998763
No 138
>PRK11166 chemotaxis regulator CheZ; Provisional
Probab=21.37 E-value=4e+02 Score=20.74 Aligned_cols=61 Identities=13% Similarity=0.297 Sum_probs=45.4
Q ss_pred CCCCHHHHHHHHHHHHHhchhhhhccC-CcchHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHhh
Q 048534 14 SRITDDQINDLVSKLQQLLPELRNNRS-DKVSAGKVLQETCNY-------IRSLHREVDDLSERLSELLA 75 (91)
Q Consensus 14 s~isddqi~dLvsKLQaLLPe~~~r~~-~~~SaskvLqETC~Y-------Ir~LhrEVddLSeRLs~Ll~ 75 (91)
..++.++..+|+....++|-+...... -+.--.+|+ ++|+| |++.-.=|.++-++|.++|.
T Consensus 100 ~~~~~~e~~~L~~~~~~fL~~v~~~t~~~~~~L~eI~-mAqdFQDLTGQvI~kVi~~v~~vE~~L~~ll~ 168 (214)
T PRK11166 100 NPIELADARELVTDTRAFLADVPEHTSFTNAQLLEIM-MAQDFQDLTGQVIKRMMDVIQEIERQLLMVLL 168 (214)
T ss_pred CCCCHHHHHHHHHHHHHHHHHhHhhHHHHHHHHHHHH-HHccchHhHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 458889999999999998888753332 233444444 78888 88888888899999999664
No 139
>PRK03578 hscB co-chaperone HscB; Provisional
Probab=21.21 E-value=3.4e+02 Score=19.90 Aligned_cols=19 Identities=32% Similarity=0.468 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 048534 53 CNYIRSLHREVDDLSERLS 71 (91)
Q Consensus 53 C~YIr~LhrEVddLSeRLs 71 (91)
-.||.+|+.||+..-|.|.
T Consensus 157 L~y~~kl~~ei~~~~~~l~ 175 (176)
T PRK03578 157 LMFIEKLAQEIGAAIERLE 175 (176)
T ss_pred HHHHHHHHHHHHHHHHHhh
Confidence 4699999999998888764
No 140
>KOG3232 consensus Vacuolar assembly/sorting protein DID2 [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.21 E-value=62 Score=25.57 Aligned_cols=11 Identities=55% Similarity=0.854 Sum_probs=9.8
Q ss_pred HHHHHHHHHHh
Q 048534 64 DDLSERLSELL 74 (91)
Q Consensus 64 ddLSeRLs~Ll 74 (91)
|||++||+.|=
T Consensus 191 d~L~qRLaaLR 201 (203)
T KOG3232|consen 191 DDLTQRLAALR 201 (203)
T ss_pred hHHHHHHHHHh
Confidence 99999999873
No 141
>PF12296 HsbA: Hydrophobic surface binding protein A; InterPro: IPR021054 Hydrophobic surface binding proteins are typically between 171 to 275 amino acids in length. Although the HsbA amino acid sequence suggests that HsbA may be hydrophilic, HsbA adsorbed to hydrophobic PBSA (Polybutylene succinate-co-adipate) surfaces in the presence of NaCl or CaCl2. When HsbA was adsorbed on the hydrophobic PBSA surfaces, it promoted PBSA degradation via the CutL1 polyesterase. CutL1 interacts directly with HsbA attached to the hydrophobic QCM electrode surface. These results suggest that when HsbA is adsorbed onto the PBSA surface, it recruits CutL1, and that when CutL1 is accumulated on the PBSA surface, it stimulates PBSA degradation []. This entry is also characterised by a antigenic cell wall galactomannoprotein in Aspergillus fumigatus, which is a protein of 284 amino acid residues. It contains a serine- and threonine-rich region for O glycosylation, a signal peptide, and a putative glycosylphosphatidyl inositol attachment signal sequence. Ultrastructural analysis showed that the protein is present in the cell walls of hyphae and conidia []. ; PDB: 3L1N_A.
Probab=21.02 E-value=2.4e+02 Score=18.15 Aligned_cols=60 Identities=23% Similarity=0.315 Sum_probs=31.2
Q ss_pred CCCCCCHHHHHHHHHHHHHhchhhhhcc---CCcc---hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 048534 12 GSSRITDDQINDLVSKLQQLLPELRNNR---SDKV---SAGKVLQETCNYIRSLHREVDDLSERLS 71 (91)
Q Consensus 12 ~~s~isddqi~dLvsKLQaLLPe~~~r~---~~~~---SaskvLqETC~YIr~LhrEVddLSeRLs 71 (91)
+++.||++|=..++.-++.|-|....-= .+|. -++.+=-..=.-|+.|+.+.+.|++-+.
T Consensus 57 ~~~~lt~~ds~~l~~~~~~l~~~i~~~l~~l~~Kk~~f~~~g~~~~v~~~L~~l~~~~~~l~~al~ 122 (124)
T PF12296_consen 57 ASPPLTDEDSLALLQAVQTLQPDIQDALNALIAKKPAFDAAGLCSVVRADLQDLKTASDALSDALV 122 (124)
T ss_dssp T-----HHHHHHHH-HHHHHHHHHHHHHHHHHHTHHHHHHTT-HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHhHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHh
Confidence 3577899998888888888888774211 1111 2222222333456677777777776553
No 142
>PF09755 DUF2046: Uncharacterized conserved protein H4 (DUF2046); InterPro: IPR019152 This is the conserved N-terminal 350 residues of a family of proteins of unknown function possibly containing a coiled-coil domain.
Probab=20.99 E-value=3.9e+02 Score=22.18 Aligned_cols=21 Identities=38% Similarity=0.553 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 048534 50 QETCNYIRSLHREVDDLSERL 70 (91)
Q Consensus 50 qETC~YIr~LhrEVddLSeRL 70 (91)
+.-|+||+.|+.||+-|-.-|
T Consensus 225 e~~~shI~~Lr~EV~RLR~qL 245 (310)
T PF09755_consen 225 ERLSSHIRSLRQEVSRLRQQL 245 (310)
T ss_pred hHHHHHHHHHHHHHHHHHHHH
Confidence 568999999999998544433
No 143
>PF10428 SOG2: RAM signalling pathway protein; InterPro: IPR019487 The RAM signalling pathway regulates Ace2p transcription factor activity and cellular morphogenesis in Saccharomyces cerevisiae (Baker's yeast), and is thought to be conserved amongst eukaryotes []. This entry is found in one of the components of this pathway, the leucine-rich repeat-containing protein SOG2.
Probab=20.99 E-value=5e+02 Score=21.77 Aligned_cols=70 Identities=20% Similarity=0.330 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccChhHHHHHHHHhc
Q 048534 18 DDQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSELLATTDTAQAAIIRSLLM 90 (91)
Q Consensus 18 ddqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll~s~D~~~a~iiRsLL~ 90 (91)
...|..|+.-|+..=-..++......-..-|.++...-|....+=+.-|.+.+..+.+..| +-.||.||+
T Consensus 66 ~~hi~~L~~~Le~~d~~~~~~~~~~~~~~~v~~~c~t~i~af~~i~~~L~~n~~~~v~~~D---~ryiRtlll 135 (445)
T PF10428_consen 66 NSHIDQLVEALERFDSSSREDEPSPRVNENVIRACQTCISAFKHICSLLRKNLDVFVDNGD---VRYIRTLLL 135 (445)
T ss_pred HhhHHHHHHHHHHHhcccccCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC---hhHHHHHHH
Confidence 3456667776666533222221122233334444445677777777778888888887777 788888876
No 144
>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=20.76 E-value=2.1e+02 Score=21.84 Aligned_cols=30 Identities=27% Similarity=0.457 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccChh
Q 048534 51 ETCNYIRSLHREVDDLSERLSELLATTDTA 80 (91)
Q Consensus 51 ETC~YIr~LhrEVddLSeRLs~Ll~s~D~~ 80 (91)
+.-+|+..|.+|+..+++||.++-....+|
T Consensus 89 qhs~YVd~l~~~~~~f~~rL~~i~~~~~i~ 118 (234)
T PF10474_consen 89 QHSSYVDQLVQEFQQFSERLDEISKQGPIP 118 (234)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 345799999999999999999988777663
No 145
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=20.72 E-value=3.1e+02 Score=19.19 Aligned_cols=31 Identities=19% Similarity=0.358 Sum_probs=21.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 048534 44 SAGKVLQETCNYIRSLHREVDDLSERLSELL 74 (91)
Q Consensus 44 SaskvLqETC~YIr~LhrEVddLSeRLs~Ll 74 (91)
..-+.++..+.-+.++..+++++.+.+.+|.
T Consensus 120 ~~~~~~~~~~~~l~~l~~~~~~~~~e~~~l~ 150 (191)
T PF04156_consen 120 ELRELLKSVEERLDSLDESIKELEKEIRELQ 150 (191)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3336666777777777777777777777766
No 146
>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=20.08 E-value=4.5e+02 Score=20.87 Aligned_cols=52 Identities=15% Similarity=0.272 Sum_probs=32.6
Q ss_pred CCCCHHHHHHHHHHHHHhchhhhhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 048534 14 SRITDDQINDLVSKLQQLLPELRNNRSDKVSAGKVLQETCNYIRSLHREVDDLSERLSELL 74 (91)
Q Consensus 14 s~isddqi~dLvsKLQaLLPe~~~r~~~~~SaskvLqETC~YIr~LhrEVddLSeRLs~Ll 74 (91)
...+.++|.+.|.+.++-.++.+.-. ..+=+.+++.+...+.+-.|.|++++
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 45678999999999999888764322 12334455555555555555555543
Done!