Query 013738
Match_columns 437
No_of_seqs 254 out of 1360
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 06:53:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013738.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013738hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2554 Pseudouridylate syntha 100.0 9E-99 2E-103 743.1 24.4 391 15-437 11-415 (425)
2 PRK14589 tRNA pseudouridine sy 100.0 7.6E-71 1.6E-75 541.0 29.5 258 93-389 2-259 (265)
3 COG0101 TruA Pseudouridylate s 100.0 8E-71 1.7E-75 539.6 27.6 235 92-361 2-252 (266)
4 cd02569 PseudoU_synth_ScPus3 P 100.0 1.4E-70 3E-75 537.1 26.0 255 96-353 1-256 (256)
5 PRK12434 tRNA pseudouridine sy 100.0 4.1E-70 9E-75 530.8 26.8 229 91-353 1-245 (245)
6 PRK00021 truA tRNA pseudouridi 100.0 2.9E-69 6.4E-74 524.3 27.5 228 91-353 1-244 (244)
7 PRK14588 tRNA pseudouridine sy 100.0 5.3E-69 1.1E-73 530.1 27.2 238 91-360 1-254 (272)
8 PRK14586 tRNA pseudouridine sy 100.0 3.4E-68 7.3E-73 517.4 27.3 228 91-353 1-245 (245)
9 cd02866 PseudoU_synth_TruA_Arc 100.0 1.7E-68 3.6E-73 512.3 24.8 221 96-353 1-221 (221)
10 TIGR00071 hisT_truA pseudourid 100.0 2.8E-68 6.1E-73 512.6 26.4 222 92-348 1-227 (227)
11 cd02570 PseudoU_synth_EcTruA P 100.0 4.8E-68 1E-72 514.1 25.9 223 96-353 1-239 (239)
12 cd00497 PseudoU_synth_TruA_lik 100.0 4.3E-68 9.2E-73 510.4 25.2 224 98-353 1-224 (224)
13 cd02568 PseudoU_synth_PUS1_PUS 100.0 4E-68 8.6E-73 516.5 23.3 240 96-353 1-245 (245)
14 PRK14587 tRNA pseudouridine sy 100.0 2.3E-67 5.1E-72 513.4 28.0 246 93-389 2-247 (256)
15 PLN03078 Putative tRNA pseudou 100.0 1.9E-65 4.2E-70 533.4 31.3 260 82-358 61-423 (513)
16 KOG2553 Pseudouridylate syntha 100.0 7.4E-59 1.6E-63 469.2 24.3 250 88-363 33-338 (416)
17 KOG4393 Predicted pseudouridyl 100.0 1.1E-41 2.5E-46 326.2 15.3 243 91-356 4-279 (295)
18 PF01416 PseudoU_synth_1: tRNA 99.9 7.8E-25 1.7E-29 185.6 -4.0 104 243-354 1-105 (105)
19 PF01416 PseudoU_synth_1: tRNA 98.1 3.1E-07 6.7E-12 77.7 -2.3 84 98-220 3-105 (105)
20 PF10105 DUF2344: Uncharacteri 96.3 0.055 1.2E-06 51.2 11.5 112 117-249 19-134 (187)
21 cd01291 PseudoU_synth PseudoU_ 90.1 0.7 1.5E-05 37.8 5.3 22 287-310 65-86 (87)
22 TIGR01213 conserved hypothetic 89.4 17 0.00036 38.5 16.1 161 115-300 184-351 (388)
23 PF01166 TSC22: TSC-22/dip/bun 84.8 1.6 3.5E-05 33.9 4.1 33 7-39 14-46 (59)
24 TIGR02449 conserved hypothetic 79.3 4.2 9.1E-05 32.3 4.7 34 10-43 3-36 (65)
25 PRK14554 putative pseudouridyl 75.7 58 0.0012 34.9 13.4 158 116-300 220-384 (422)
26 PF09006 Surfac_D-trimer: Lung 74.8 5.5 0.00012 29.5 3.9 26 16-41 1-26 (46)
27 PF06005 DUF904: Protein of un 72.0 9.8 0.00021 30.8 5.2 29 7-35 18-53 (72)
28 PF04977 DivIC: Septum formati 68.3 11 0.00025 29.6 4.9 31 9-39 19-49 (80)
29 PF14077 WD40_alt: Alternative 65.7 3.9 8.5E-05 30.3 1.5 22 15-36 12-33 (48)
30 PF01166 TSC22: TSC-22/dip/bun 65.7 6.5 0.00014 30.6 2.8 27 10-36 10-36 (59)
31 PF06698 DUF1192: Protein of u 63.6 10 0.00022 29.6 3.5 26 14-39 21-46 (59)
32 PF07334 IFP_35_N: Interferon- 63.4 12 0.00026 30.7 4.0 28 9-36 2-29 (76)
33 PF10224 DUF2205: Predicted co 61.3 16 0.00034 30.2 4.5 28 9-36 25-52 (80)
34 PF11336 DUF3138: Protein of u 59.9 11 0.00023 40.3 4.0 24 234-257 253-278 (514)
35 PRK00888 ftsB cell division pr 59.7 19 0.0004 31.1 4.9 31 9-39 29-59 (105)
36 PF04508 Pox_A_type_inc: Viral 59.2 12 0.00027 23.8 2.7 17 15-31 2-18 (23)
37 PF03980 Nnf1: Nnf1 ; InterPr 58.1 20 0.00042 30.6 4.8 32 8-39 74-105 (109)
38 TIGR02894 DNA_bind_RsfA transc 56.9 18 0.00039 33.7 4.5 29 11-39 108-136 (161)
39 PF07716 bZIP_2: Basic region 55.8 23 0.0005 26.5 4.3 27 13-39 24-50 (54)
40 smart00338 BRLZ basic region l 55.6 27 0.00058 27.0 4.8 24 15-38 27-50 (65)
41 TIGR02209 ftsL_broad cell divi 52.5 31 0.00067 27.7 4.9 31 9-39 26-56 (85)
42 PF05308 Mito_fiss_reg: Mitoch 52.5 15 0.00033 36.6 3.6 23 17-39 118-140 (253)
43 PHA03155 hypothetical protein; 51.7 15 0.00032 32.3 3.0 26 14-39 8-33 (115)
44 smart00338 BRLZ basic region l 49.1 31 0.00067 26.6 4.2 28 10-37 36-63 (65)
45 KOG4797 Transcriptional regula 48.8 31 0.00068 30.2 4.4 32 7-38 67-98 (123)
46 PF13935 Ead_Ea22: Ead/Ea22-li 47.1 27 0.00058 31.4 4.1 40 2-41 62-103 (139)
47 PF02344 Myc-LZ: Myc leucine z 47.1 41 0.0009 23.1 3.8 25 11-35 5-29 (32)
48 PF12808 Mto2_bdg: Micro-tubul 46.7 26 0.00057 26.7 3.2 23 17-39 25-47 (52)
49 PRK15422 septal ring assembly 45.9 48 0.001 27.4 4.9 16 7-22 18-33 (79)
50 PF05812 Herpes_BLRF2: Herpesv 45.8 32 0.00069 30.5 4.1 26 14-39 3-28 (118)
51 COG3937 Uncharacterized conser 45.7 25 0.00054 30.6 3.4 25 14-38 83-107 (108)
52 PF09006 Surfac_D-trimer: Lung 43.7 57 0.0012 24.3 4.5 30 9-38 1-30 (46)
53 PF00170 bZIP_1: bZIP transcri 43.1 65 0.0014 24.8 5.2 24 14-37 26-49 (64)
54 PF02370 M: M protein repeat; 42.8 29 0.00063 21.7 2.4 15 24-38 4-18 (21)
55 COG1258 Predicted pseudouridyl 42.3 3.1E+02 0.0068 29.1 11.3 161 115-300 190-356 (398)
56 PF00170 bZIP_1: bZIP transcri 40.7 53 0.0011 25.3 4.3 30 9-38 28-57 (64)
57 PF04380 BMFP: Membrane fusoge 38.6 51 0.0011 26.9 4.1 25 11-35 54-78 (79)
58 PF09340 NuA4: Histone acetylt 38.5 43 0.00093 27.5 3.6 26 14-39 2-27 (80)
59 PF07106 TBPIP: Tat binding pr 37.9 60 0.0013 29.8 5.0 35 5-39 70-104 (169)
60 PF14775 NYD-SP28_assoc: Sperm 37.7 56 0.0012 25.4 4.0 26 14-39 33-58 (60)
61 PF06156 DUF972: Protein of un 37.5 58 0.0013 28.3 4.5 28 9-36 17-44 (107)
62 COG5011 Uncharacterized protei 36.4 86 0.0019 30.5 5.7 74 120-213 23-100 (228)
63 KOG1655 Protein involved in va 36.4 62 0.0013 31.3 4.8 36 6-41 18-53 (218)
64 PF09849 DUF2076: Uncharacteri 36.3 44 0.00095 33.3 4.0 27 8-34 49-75 (247)
65 COG1792 MreC Cell shape-determ 35.9 59 0.0013 32.8 4.9 26 14-39 83-108 (284)
66 PF06305 DUF1049: Protein of u 35.9 52 0.0011 25.3 3.6 22 12-33 46-67 (68)
67 PF11853 DUF3373: Protein of u 35.9 29 0.00064 37.7 2.9 23 15-37 32-54 (489)
68 PHA03162 hypothetical protein; 35.6 48 0.001 30.0 3.7 27 13-39 12-38 (135)
69 PF08172 CASP_C: CASP C termin 35.3 61 0.0013 32.2 4.8 33 9-41 81-113 (248)
70 PF11365 DUF3166: Protein of u 34.8 99 0.0022 26.5 5.3 30 14-43 15-44 (96)
71 PF04849 HAP1_N: HAP1 N-termin 33.9 47 0.001 34.1 3.8 25 15-39 161-185 (306)
72 PF07106 TBPIP: Tat binding pr 33.7 43 0.00093 30.8 3.3 30 9-38 81-110 (169)
73 PRK10265 chaperone-modulator p 33.6 55 0.0012 27.8 3.7 25 15-39 72-96 (101)
74 PRK13169 DNA replication intia 33.4 75 0.0016 27.8 4.5 27 9-35 17-43 (110)
75 TIGR03752 conj_TIGR03752 integ 33.0 64 0.0014 35.0 4.8 34 6-39 58-91 (472)
76 PF04977 DivIC: Septum formati 32.8 55 0.0012 25.6 3.4 25 9-33 26-50 (80)
77 KOG4797 Transcriptional regula 32.6 75 0.0016 27.9 4.3 29 8-36 61-89 (123)
78 PF11471 Sugarporin_N: Maltopo 32.5 80 0.0017 24.6 4.1 29 11-39 29-57 (60)
79 PF06667 PspB: Phage shock pro 31.4 73 0.0016 26.0 3.8 28 12-39 40-67 (75)
80 PRK10884 SH3 domain-containing 31.3 88 0.0019 30.2 5.1 29 11-39 122-150 (206)
81 TIGR02976 phageshock_pspB phag 30.9 75 0.0016 25.9 3.8 28 12-39 40-67 (75)
82 PRK13729 conjugal transfer pil 30.6 55 0.0012 35.6 3.8 25 14-38 97-121 (475)
83 PF06005 DUF904: Protein of un 30.4 1.2E+02 0.0026 24.5 4.9 30 7-36 4-33 (72)
84 PF07716 bZIP_2: Basic region 29.6 1.4E+02 0.003 22.2 4.9 29 7-35 25-53 (54)
85 PRK09458 pspB phage shock prot 29.6 83 0.0018 25.8 3.8 29 11-39 39-67 (75)
86 PF03955 Adeno_PIX: Adenovirus 29.6 52 0.0011 28.8 2.8 34 6-39 75-108 (109)
87 KOG4571 Activating transcripti 29.4 70 0.0015 32.6 4.1 28 12-39 246-273 (294)
88 PF00038 Filament: Intermediat 29.0 97 0.0021 30.9 5.2 32 8-39 5-36 (312)
89 PF04728 LPP: Lipoprotein leuc 28.3 1.5E+02 0.0033 22.9 4.9 31 9-39 5-35 (56)
90 COG4026 Uncharacterized protei 28.3 84 0.0018 31.0 4.3 29 11-39 160-188 (290)
91 PF07061 Swi5: Swi5; InterPro 28.3 69 0.0015 26.6 3.3 24 16-39 2-25 (83)
92 PF04999 FtsL: Cell division p 28.3 1.2E+02 0.0025 25.2 4.8 30 10-39 38-67 (97)
93 COG5509 Uncharacterized small 28.2 95 0.0021 24.5 3.7 26 14-39 25-50 (65)
94 PF11853 DUF3373: Protein of u 27.8 59 0.0013 35.5 3.5 25 14-39 25-49 (489)
95 COG2919 Septum formation initi 27.5 84 0.0018 27.4 3.9 28 9-36 59-86 (117)
96 PF12709 Kinetocho_Slk19: Cent 27.0 1.1E+02 0.0023 25.8 4.2 28 12-39 47-74 (87)
97 PF02183 HALZ: Homeobox associ 26.9 1.5E+02 0.0032 21.8 4.4 29 11-39 9-37 (45)
98 PTZ00464 SNF-7-like protein; P 26.9 1.2E+02 0.0026 29.4 5.2 34 6-39 17-50 (211)
99 PF04102 SlyX: SlyX; InterPro 26.8 1.3E+02 0.0029 23.7 4.6 33 7-39 18-50 (69)
100 PF01486 K-box: K-box region; 26.7 1E+02 0.0022 25.9 4.1 27 12-38 73-99 (100)
101 PRK00888 ftsB cell division pr 26.2 1.1E+02 0.0024 26.3 4.3 28 8-35 35-62 (105)
102 PF08702 Fib_alpha: Fibrinogen 25.5 1.3E+02 0.0028 27.4 4.9 29 6-34 103-131 (146)
103 PF08826 DMPK_coil: DMPK coile 25.2 2.1E+02 0.0046 22.4 5.3 28 11-38 29-56 (61)
104 PRK13922 rod shape-determining 24.8 1.2E+02 0.0025 30.0 4.8 19 193-211 224-242 (276)
105 COG2960 Uncharacterized protei 24.7 96 0.0021 26.8 3.5 21 11-31 70-90 (103)
106 KOG1853 LIS1-interacting prote 24.6 1.3E+02 0.0028 30.3 4.8 37 3-39 41-77 (333)
107 PF12718 Tropomyosin_1: Tropom 24.2 1.5E+02 0.0031 27.0 4.9 29 11-39 32-60 (143)
108 COG3074 Uncharacterized protei 24.2 1.4E+02 0.0031 24.2 4.2 15 24-38 49-63 (79)
109 PRK14127 cell division protein 24.2 1.7E+02 0.0036 25.6 5.0 26 14-39 37-62 (109)
110 PF03357 Snf7: Snf7; InterPro 24.1 1.2E+02 0.0026 27.1 4.4 33 7-39 1-33 (171)
111 TIGR00219 mreC rod shape-deter 23.9 1.3E+02 0.0028 30.3 5.0 20 193-212 225-244 (283)
112 TIGR02338 gimC_beta prefoldin, 23.4 1.9E+02 0.004 24.8 5.2 35 5-39 65-99 (110)
113 PF10506 MCC-bdg_PDZ: PDZ doma 23.1 87 0.0019 25.1 2.8 27 17-43 1-27 (67)
114 PF02183 HALZ: Homeobox associ 22.6 1.7E+02 0.0038 21.4 4.1 29 10-38 15-43 (45)
115 PF15372 DUF4600: Domain of un 22.5 1.1E+02 0.0023 27.7 3.6 30 14-43 51-80 (129)
116 cd00632 Prefoldin_beta Prefold 22.3 2E+02 0.0044 24.2 5.2 35 5-39 61-95 (105)
117 PF13600 DUF4140: N-terminal d 22.3 1.8E+02 0.004 24.2 4.9 23 15-37 71-93 (104)
118 PF10883 DUF2681: Protein of u 22.1 1.3E+02 0.0028 25.3 3.8 27 13-39 22-48 (87)
119 PRK13169 DNA replication intia 22.1 1.9E+02 0.0042 25.3 5.0 33 7-39 22-54 (110)
120 KOG0971 Microtubule-associated 22.1 1.3E+02 0.0028 35.4 4.8 33 7-39 325-357 (1243)
121 cd04785 HTH_CadR-PbrR-like Hel 21.9 2E+02 0.0044 25.0 5.3 35 9-43 81-115 (126)
122 TIGR00414 serS seryl-tRNA synt 21.9 1.2E+02 0.0025 32.4 4.4 31 9-39 71-101 (418)
123 PF04340 DUF484: Protein of un 21.0 1.7E+02 0.0037 28.0 5.0 34 6-39 39-72 (225)
124 PRK14127 cell division protein 20.9 2E+02 0.0042 25.2 4.8 29 11-39 41-69 (109)
125 PHA01750 hypothetical protein 20.8 2.3E+02 0.0049 22.8 4.6 27 11-37 46-72 (75)
126 PF12017 Tnp_P_element: Transp 20.6 1.5E+02 0.0032 29.4 4.5 30 10-39 14-43 (236)
127 COG2433 Uncharacterized conser 20.5 1.6E+02 0.0035 33.0 5.1 33 7-39 429-461 (652)
128 PF10393 Matrilin_ccoil: Trime 20.4 1.9E+02 0.0041 21.6 3.9 20 9-28 25-44 (47)
129 PF10458 Val_tRNA-synt_C: Valy 20.3 1.8E+02 0.004 22.6 4.1 27 13-39 3-29 (66)
130 PRK09343 prefoldin subunit bet 20.3 2.4E+02 0.0051 24.8 5.3 35 5-39 69-103 (121)
131 PF11500 Cut12: Spindle pole b 20.2 2.1E+02 0.0045 26.5 5.1 34 5-39 104-137 (152)
132 PF12329 TMF_DNA_bd: TATA elem 20.1 2.1E+02 0.0046 23.0 4.6 26 14-39 33-58 (74)
No 1
>KOG2554 consensus Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=9e-99 Score=743.06 Aligned_cols=391 Identities=38% Similarity=0.641 Sum_probs=323.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhhccccccccCCCCCCccccccccccCCCCcccccccccccCCCCcccCccceE
Q 013738 15 QLEALQNRVKELEADNAKLLSKLSLCRCEKIEDKVHDGVEDGTTLVEENRKTESGGCKTGKKKVKEKMSGTLNHHFKRYV 94 (437)
Q Consensus 15 ~~~~l~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~kr~i 94 (437)
+.+.|+.|+-||+..++..+.+.-. .+.+... ...++++.++|++ +.|||+++++|+|
T Consensus 11 ~~~~l~kr~~el~~~~~p~~~~~~~-----~~~~~~~-------------~~~~~~s~~~kk~----~~fdfs~~~kR~I 68 (425)
T KOG2554|consen 11 MKNILIKRAVELDNWNKPEKKQHIE-----NEAKSKV-------------SQSANTSRKKKKK----KRFDFSAHSKRHI 68 (425)
T ss_pred HHHHHHHHHHHhhccCCcccccchh-----hHHHhhh-------------chhhccccccccc----cccchhcccceEE
Confidence 6889999999999999876554332 0111111 1122333333333 4699999999999
Q ss_pred EEEEEEeCCCceeecccCCCC-CcHHHHHHHHHHhccccccCCcceeeeeeccCCccccccCCEEEEEEcCCccccCCCC
Q 013738 95 ALKVMYFGQRFYGFASDGNME-PTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQVIAIYLRSNIKECNTNN 173 (437)
Q Consensus 95 aL~iaY~Gt~Y~G~q~Q~~~~-~TVE~~L~~AL~k~~li~~~~~~~~~~ragRTDkGVhA~gQVvs~~~~s~~~~~~~~~ 173 (437)
||+|+|+||+|+|++.|+++. +|||+.||+||.+++| ++++++++|+|||||||||||+|||+|++|+|.++.++...
T Consensus 69 AlkiaY~GW~Y~Gla~Qe~T~~~TIEg~l~eAL~kt~L-ies~~~~~ysRCGRTDKGVSAfgQviSl~lRS~~p~~~s~~ 147 (425)
T KOG2554|consen 69 ALKIAYLGWNYQGLAPQEHTNNPTIEGKLFEALKKTRL-IESRQTCNYSRCGRTDKGVSAFGQVISLVLRSRIPMPDSQR 147 (425)
T ss_pred EEEEEEeccccCceecCCCCCCcchHHHHHHHHHhhhc-ccCcccccccccCCcccchhhhhheeeeeeeccCCCchhhh
Confidence 999999999999999997654 5999999999999998 68899999999999999999999999999999987642111
Q ss_pred CCCCccchhhccccHHHHHHHHhhcCCCCeeEeeeEEcCCCCCccccCCcceeEEEecCCCCCHHHHHHHHhhccccccc
Q 013738 174 ASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDF 253 (437)
Q Consensus 174 ~~~~~~~~~~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~ARf~c~~RtY~Y~f~~~~LDi~~M~~Aak~f~GtHDF 253 (437)
.+ ....+..|++|+.+||++||+||||.||+|||+.|+|||+|..|||+|+|+.++|||++|++||.+|+|+|||
T Consensus 148 ~~-----~~~a~~~Ei~Y~~mLN~vLP~dIRi~awapvp~~FsARFsC~~RtYrY~F~k~dLdI~~M~kAA~l~vGe~DF 222 (425)
T KOG2554|consen 148 DA-----VATADSEEIPYVHMLNRVLPPDIRIVAWAPVPPTFSARFSCVQRTYRYYFPKKDLDIDRMSKAASLLVGEHDF 222 (425)
T ss_pred cc-----ccccccccccHHHHHhccCCCcceEEEEecCCCCccceeehhhceeeEeccCCCcCHHHHHHHHHHHhcchhh
Confidence 10 0112346889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cceeecccCC-cCcceEEEEEEEEEecccccCCCcEEEEEEEeCcchhhhHHHHHHHHHHHHcCCCCHHHHHHHHhcCCC
Q 013738 254 RNFCKMDAAN-VHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTNGI 332 (437)
Q Consensus 254 ~NF~k~d~~~-~~~~~R~I~~~~I~~~~~~~~~~~~~~~~I~G~sFL~hQVR~MVg~L~~VG~G~~~~~~i~~lL~~~~~ 332 (437)
+||||+|+.+ ++||.|+|.++.|..+... .++|+|+|.|++||||||||||++|++||+|++.|++|.+|||.+++
T Consensus 223 rNFCK~D~~n~vtny~Rti~s~kV~~~~~~---~~my~ldi~g~AFLwHqVRcimaiL~liGq~~E~p~lI~dLldIek~ 299 (425)
T KOG2554|consen 223 RNFCKIDVSNGVTNYERTILSAKVEDVGQT---PGMYYLDIQGSAFLWHQVRCIMAILFLIGQGLEQPSLISDLLDIEKN 299 (425)
T ss_pred hhhhhhcchhhhHHHHhhhheeeEEEcCCC---CceEEEEeechhhHHHHHHHHHHHHHHhccccCCchHHHHHHhcccC
Confidence 9999999876 6899999999999886532 34999999999999999999999999999999999999999999999
Q ss_pred CCCCCccCCCCCCeeeecCCC--CCCCcccccchhHHHHHHHHHHH----HHHHHHH---HHHHHHHHccCCCCCC---C
Q 013738 333 PRKPQYNMAPEIPLVLQSCDF--DGLKFTCSLDAGHDLRLHLRNEC----QVYQLQA---AIFHEALLNCLPLAND---Q 400 (437)
Q Consensus 333 ~~k~~~~~AP~~gLvL~dv~y--~~~~~~~~~~~~~~~~~~l~~~~----~~~~~~~---~i~~~~~~~~~~~~~~---~ 400 (437)
|.+|+|.||.+.||+|+||.| ++++|..+.++.....++++..| ..++..+ .|+.+++ .....++. .
T Consensus 300 P~kPqY~mA~~~PL~LydC~f~~e~~ew~~~~~sd~~a~~~l~~t~~~L~~~~q~~~~~~~i~~~~~-~~~e~~n~~~~~ 378 (425)
T KOG2554|consen 300 PQKPQYTMASDYPLELYDCDFHRENVEWRHDTESDQIAPKILKITWENLVEHLQNGSAMENIHEEVL-GMAEFSNFKPSV 378 (425)
T ss_pred CCCceeeeccCCceEEEecCCCCccccccccccccccchhHHHHHHHHHHHHHHhHHHHHhhHHhhh-hhcccccCCcch
Confidence 999999999999999999999 99999998888777777777665 3333333 3444443 12222211 1
Q ss_pred ccccCCccccccccccCCCCCCCCCHHHHHHHhhhcC
Q 013738 401 NSLRNGMVKKKASHIPLFSRPTEPTYKERRAKLDSRK 437 (437)
Q Consensus 401 ~~~~~g~~~~~~~y~pl~~r~~~~~~e~~~~~~~~~~ 437 (437)
..+++|.....++|+||++|++|||+|+.+++|+++|
T Consensus 379 ~~~~~~~~~~~~~Y~pl~~Rk~~EslE~~~e~~~kkk 415 (425)
T KOG2554|consen 379 INQGEGLQDIPRTYIPLEDRKRCESLEVVNEKYKKKK 415 (425)
T ss_pred hhhhhhhhhccccceehhhhhcchhHHHHHHHHHHHh
Confidence 2344666667789999999999999999999998876
No 2
>PRK14589 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=7.6e-71 Score=541.00 Aligned_cols=258 Identities=31% Similarity=0.536 Sum_probs=228.4
Q ss_pred eEEEEEEEeCCCceeecccCCCCCcHHHHHHHHHHhccccccCCcceeeeeeccCCccccccCCEEEEEEcCCccccCCC
Q 013738 93 YVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQVIAIYLRSNIKECNTN 172 (437)
Q Consensus 93 ~iaL~iaY~Gt~Y~G~q~Q~~~~~TVE~~L~~AL~k~~li~~~~~~~~~~ragRTDkGVhA~gQVvs~~~~s~~~~~~~~ 172 (437)
+|+|.|+|+|++|+|||.|++ .+|||++|++||.+++++ .+.+++.+++|||||+||||.|||+||++..
T Consensus 2 ~~~l~i~YdGt~y~G~Q~Q~~-~~TVq~~Le~aL~~~~~~-~~~~~~~i~~agRTDaGVHA~gqv~~f~~~~-------- 71 (265)
T PRK14589 2 RLAFRISYIGTRFFGSQYQPD-QRTVEGEFIAACRRLGLF-SDWREAGFALAGRTDRGVHARGQVLAFSTHK-------- 71 (265)
T ss_pred cEEEEEEEcCCCeeeeeeCCC-CCCHHHHHHHHHHHhhCc-cCCceeeEEEeccCCcCccccccEEEEEeCC--------
Confidence 699999999999999999998 589999999999998763 3346789999999999999999999998742
Q ss_pred CCCCCccchhhccccHHHHHHHHhhcCCCCeeEeeeEEcCCCCCccccCCcceeEEEecCCCCCHHHHHHHHhhcccccc
Q 013738 173 NASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHD 252 (437)
Q Consensus 173 ~~~~~~~~~~~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~ARf~c~~RtY~Y~f~~~~LDi~~M~~Aak~f~GtHD 252 (437)
+..+...||+.||+||+|+++.+||++|||||+|.+|+|+|+|+...+|+++|++||+.|+|+||
T Consensus 72 ---------------~~~~~~~lN~~LP~dI~V~~~~~v~~~FhAR~~a~~R~Y~Y~i~~~~lD~~~m~~a~~~f~G~HD 136 (265)
T PRK14589 72 ---------------PERAVEALNGQLPPDIWCTGWAEVPESFHPRYDAISRTYRYYFSRPPSDINAMRDAAGEFIGTHD 136 (265)
T ss_pred ---------------hHHHHHHHHhhCCCCeEEEEEEEcCCCCCcccCCceeEEEEEEecCccHHHHHHHHHHHccCCcc
Confidence 12477899999999999999999999999999999999999999999999999999999999999
Q ss_pred ccceeecccCCcCcceEEEEEEEEEecccccCCCcEEEEEEEeCcchhhhHHHHHHHHHHHHcCCCCHHHHHHHHhcCCC
Q 013738 253 FRNFCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTNGI 332 (437)
Q Consensus 253 F~NF~k~d~~~~~~~~R~I~~~~I~~~~~~~~~~~~~~~~I~G~sFL~hQVR~MVg~L~~VG~G~~~~~~i~~lL~~~~~ 332 (437)
|+|||+.+ ..+++|+|.++++.. ..++++|+|+|+||||||||+|||+|+.||+|++++++|.++|+....
T Consensus 137 F~~F~~~~---~~~~vRtI~~i~v~~------~~~~~~~~i~G~~FL~~mVR~mVG~ll~vg~G~~~~~~i~~~L~~~~r 207 (265)
T PRK14589 137 FSCFARVE---GKSPVRTILRIRVFS------DGGFPVFEVTAQSFLWHMVRCMAGALLQIGEGEMEPDDIERLLSGPCK 207 (265)
T ss_pred HHHHhccC---CCCCeEEEEEEEEEE------eCCEEEEEEEechhHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhCcCC
Confidence 99999876 358899999999964 356899999999999999999999999999999999999999998542
Q ss_pred CCCCCccCCCCCCeeeecCCCCCCCcccccchhHHHHHHHHHHHHHHHHHHHHHHHH
Q 013738 333 PRKPQYNMAPEIPLVLQSCDFDGLKFTCSLDAGHDLRLHLRNECQVYQLQAAIFHEA 389 (437)
Q Consensus 333 ~~k~~~~~AP~~gLvL~dv~y~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~ 389 (437)
. ..++|||+||+|++|.|+ .+|.++.++. +....+.+.-...+++..++.-+
T Consensus 208 --~-~~~~APa~GL~L~~V~Y~-~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 259 (265)
T PRK14589 208 --R-KVKPAPAEGLVLWDVDCG-LTFTPIPADP-RSVRRIARQRREAHLMETVYALL 259 (265)
T ss_pred --C-CCCccCCCCcEEeeeecC-CccccccchH-HHHHHHHHHHHHHHHHHHHHHHh
Confidence 2 368999999999999998 4999988877 56666776666777776665443
No 3
>COG0101 TruA Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=8e-71 Score=539.63 Aligned_cols=235 Identities=36% Similarity=0.561 Sum_probs=211.0
Q ss_pred ceEEEEEEEeCCCceeecccCCCCCcHHHHHHHHHHhccccccCCcceeeeeeccCCccccccCCEEEEEEcCCccccCC
Q 013738 92 RYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQVIAIYLRSNIKECNT 171 (437)
Q Consensus 92 r~iaL~iaY~Gt~Y~G~q~Q~~~~~TVE~~L~~AL~k~~li~~~~~~~~~~ragRTDkGVhA~gQVvs~~~~s~~~~~~~ 171 (437)
++|+|+|+||||+|+|||+||+. +|||++|++||.+++. .++.+.+|||||+||||.|||+||++..+.
T Consensus 2 ~ri~l~iaYdGt~f~G~Q~Qp~~-~TVQ~~le~aL~~i~~-----~~~~i~~AGRTD~GVHA~gqv~hfd~~~~~----- 70 (266)
T COG0101 2 KRIALKIAYDGTRFHGWQRQPNV-RTVQGELEKALSKIGG-----ESVRVIGAGRTDAGVHALGQVVHFDTPADR----- 70 (266)
T ss_pred ceEEEEEEEcCCceeeeccCCCC-CCHHHHHHHHHHHhcC-----CcceeEEecCCCcCccccccEEEEEcCCcc-----
Confidence 47999999999999999999995 9999999999999764 234899999999999999999999986543
Q ss_pred CCCCCCccchhhccccHHHHHHHHhhcCCCCeeEeeeEEcCCCCCccccCCcceeEEEecCC----------------CC
Q 013738 172 NNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDFSARFSCISREYKYFFWRE----------------NL 235 (437)
Q Consensus 172 ~~~~~~~~~~~~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~ARf~c~~RtY~Y~f~~~----------------~L 235 (437)
.+..+..+||..||+||+|+++++||++|||||+|.+|+|+|+|+.. .|
T Consensus 71 ---------------~~~~~~~~lN~~Lp~dI~V~~~~~v~~~FhaRfsa~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~l 135 (266)
T COG0101 71 ---------------PLEKLVRALNALLPPDIRVLDVAEVPDDFHARFSAKSRTYRYIIYNAPLRPPFLANYVWHVPYPL 135 (266)
T ss_pred ---------------cHHHHHHHHHhcCCCCcEEEEEEECCCCCCCcccccceEEEEEEcCccCCChhhhcccccccCcC
Confidence 13478999999999999999999999999999999999999999753 46
Q ss_pred CHHHHHHHHhhccccccccceeecccCCcCcceEEEEEEEEEecccccCCCcEEEEEEEeCcchhhhHHHHHHHHHHHHc
Q 013738 236 NLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQ 315 (437)
Q Consensus 236 Di~~M~~Aak~f~GtHDF~NF~k~d~~~~~~~~R~I~~~~I~~~~~~~~~~~~~~~~I~G~sFL~hQVR~MVg~L~~VG~ 315 (437)
|+++|++|++.|+|+|||+|||+.+... .+++|+|.+++|.. .++++.|+|+|+||||||||+|||+|++||+
T Consensus 136 d~~~m~~aa~~l~G~HDF~sF~~~~~~~-~s~vRti~~~~v~~------~~~~i~i~i~g~sFL~~mVR~iVg~l~~vg~ 208 (266)
T COG0101 136 DLDAMREAAKLLLGTHDFTSFRKAGCQS-KSPVRTIYRIDVSR------DGDLIVIDISGNSFLWHMVRNIVGALLLVGR 208 (266)
T ss_pred CHHHHHHHHHHccccccchhhccCCCcc-CCCeEEEEEEEEEe------cCCEEEEEEEeChhHHHHHHHHHHHHHHHhC
Confidence 9999999999999999999999988754 48999999999975 3679999999999999999999999999999
Q ss_pred CCCCHHHHHHHHhcCCCCCCCCccCCCCCCeeeecCCCCCCCcccc
Q 013738 316 GLESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDFDGLKFTCS 361 (437)
Q Consensus 316 G~~~~~~i~~lL~~~~~~~k~~~~~AP~~gLvL~dv~y~~~~~~~~ 361 (437)
|..++++|.++|+... ++...|+|||+||+|++|.|++..+...
T Consensus 209 g~~~~~~i~~ll~~~~--r~~~~~~Apa~GL~L~~v~Y~~~~~~~~ 252 (266)
T COG0101 209 GKRPVEWIKELLEAKD--RKLAGPTAPAEGLYLVRVDYPEDFELPE 252 (266)
T ss_pred CCCCHHHHHHHHhccC--cccCCCCCCCCccEEEeeccCCcccccc
Confidence 9999999999999732 3477899999999999999987555443
No 4
>cd02569 PseudoU_synth_ScPus3 PseudoU_synth_ScPus3-like: Pseudouridine synthase, Saccharomyces cerevisiae Pus3 like. This group consists of eukaryotic pseudouridine synthases similar to S. cerevisiae Pus3p, mouse Pus3p and, human PUS2. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. S. cerevisiae Pus3p makes psi38 and psi39 in tRNAs. Mouse Pus3p has been shown to makes psi38 and, possibly also psi 39, in tRNAs. Psi38 and psi39 are highly conserved in tRNAs from eubacteria, archea and eukarya.
Probab=100.00 E-value=1.4e-70 Score=537.11 Aligned_cols=255 Identities=55% Similarity=0.959 Sum_probs=211.4
Q ss_pred EEEEEeCCCceeecccCCCCCcHHHHHHHHHHhccccccCCcceeeeeeccCCccccccCCEEEEEEcCCccccCCCCCC
Q 013738 96 LKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQVIAIYLRSNIKECNTNNAS 175 (437)
Q Consensus 96 L~iaY~Gt~Y~G~q~Q~~~~~TVE~~L~~AL~k~~li~~~~~~~~~~ragRTDkGVhA~gQVvs~~~~s~~~~~~~~~~~ 175 (437)
|+|+|+||+|+|||+|++..+|||++|++||.+++.| .+.+++.+++|||||+||||+|||+||++.+++++.....
T Consensus 1 l~i~YdGt~y~G~Q~Q~~~~~TVq~~Le~aL~~~~~i-~~~~~~~~~~agRTD~GVHA~~qv~~f~~~~~~~~~~~~~-- 77 (256)
T cd02569 1 LRFAYLGWNYNGFAVQEETTNTVEETLFEALEKTRLI-EDRQTSNYSRCGRTDKGVSAFGQVISLDVRSNLKPEDGLD-- 77 (256)
T ss_pred CEEEEeCCcceeeeECCCCCCCHHHHHHHHHHHhcCC-CCCCceeEEeecccCccccccCcEEEEEecCCCCcccccc--
Confidence 5899999999999999974489999999999998763 4446899999999999999999999999976553211100
Q ss_pred CCccchhhccccHHHHHHHHhhcCCCCeeEeeeEEcCCCCCccccCCcceeEEEecCCCCCHHHHHHHHhhccccccccc
Q 013738 176 MGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRN 255 (437)
Q Consensus 176 ~~~~~~~~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~ARf~c~~RtY~Y~f~~~~LDi~~M~~Aak~f~GtHDF~N 255 (437)
....+.......+..+...||++||+||||+++.+||++|||||+|++|+|+|+|+...||+++|++||++|+|+|||+|
T Consensus 78 ~~~~~~~~~~~~~~~~~~~lN~~LP~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~ldi~~m~~a~~~f~G~HDF~~ 157 (256)
T cd02569 78 PSTDVKSTADEEELPYCKILNRVLPPDIRILAWAPVPPDFSARFSCVSRTYRYFFPKGDLDIELMRKAAKLLLGEHDFRN 157 (256)
T ss_pred ccccccccccchHHHHHHHHHhhCCCCcEEEEEEECCCCcCCCccCCceEEEEEecCCCCCHHHHHHHHHHhhCCcchHH
Confidence 00000011112334688999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeecccC-CcCcceEEEEEEEEEecccccCCCcEEEEEEEeCcchhhhHHHHHHHHHHHHcCCCCHHHHHHHHhcCCCCC
Q 013738 256 FCKMDAA-NVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTNGIPR 334 (437)
Q Consensus 256 F~k~d~~-~~~~~~R~I~~~~I~~~~~~~~~~~~~~~~I~G~sFL~hQVR~MVg~L~~VG~G~~~~~~i~~lL~~~~~~~ 334 (437)
||+.+.. ...+++|+|.+++|........+.++++|+|+|+||||||||+|||+|+.||+|.+++++|+++|+.+..+.
T Consensus 158 F~~~~~~~~~~~~~RtI~~~~v~~~~~~~~~~~~~~~~i~g~~FL~~mVR~mvg~ll~vg~G~~~~~~i~~~L~~~~r~~ 237 (256)
T cd02569 158 FCKMDVANQVTNYVRRVLSAEVEPVDQHPDGDGLYYFEVRGSAFLWHQVRCMMAVLFLIGQGLEPPSVISQLLDVEKNPR 237 (256)
T ss_pred HhccCcccCCCCCceEEEEEEEEEccCCCCCCcEEEEEEEEcHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhCccccC
Confidence 9987532 257899999999997521111224799999999999999999999999999999999999999999876444
Q ss_pred CCCccCCCCCCeeeecCCC
Q 013738 335 KPQYNMAPEIPLVLQSCDF 353 (437)
Q Consensus 335 k~~~~~AP~~gLvL~dv~y 353 (437)
.+.+++|||+||+|++|.|
T Consensus 238 ~~~~~~Ap~~GL~L~~v~~ 256 (256)
T cd02569 238 KPQYTMASEVPLVLYDCGF 256 (256)
T ss_pred CCCcCcCCCCCcEEEEeeC
Confidence 4434599999999999987
No 5
>PRK12434 tRNA pseudouridine synthase A; Reviewed
Probab=100.00 E-value=4.1e-70 Score=530.77 Aligned_cols=229 Identities=30% Similarity=0.516 Sum_probs=204.4
Q ss_pred cceEEEEEEEeCCCceeecccCCCCCcHHHHHHHHHHhccccccCCcceeeeeeccCCccccccCCEEEEEEcCCccccC
Q 013738 91 KRYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQVIAIYLRSNIKECN 170 (437)
Q Consensus 91 kr~iaL~iaY~Gt~Y~G~q~Q~~~~~TVE~~L~~AL~k~~li~~~~~~~~~~ragRTDkGVhA~gQVvs~~~~s~~~~~~ 170 (437)
+++|+|.|+|+||+|+|||+|++..+|||++|++||.+. .+ +++.+.+|||||+||||++||+||++...++
T Consensus 1 m~~~~l~i~YdGt~y~G~Q~Q~~~~~TVq~~le~aL~~~---~~--~~~~~~~agRTD~GVHA~~qv~~f~~~~~~~--- 72 (245)
T PRK12434 1 MRNIKLTIQYDGSRYKGWQKLGNNDNTIQGKIESVLSEM---TG--EEIEIIGCGRTDAGVHALNQVANFQTDEKLS--- 72 (245)
T ss_pred CceEEEEEEECCCccceEeeCCCCCCCHHHHHHHHHHHH---hC--CCeEEEEeccCCCCcCccCcEEEEEcCCCCC---
Confidence 367999999999999999999964589999999999985 22 5689999999999999999999999865431
Q ss_pred CCCCCCCccchhhccccHHHHHHHHhhcCCCCeeEeeeEEcCCCCCccccCCcceeEEEecC----------------CC
Q 013738 171 TNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDFSARFSCISREYKYFFWR----------------EN 234 (437)
Q Consensus 171 ~~~~~~~~~~~~~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~ARf~c~~RtY~Y~f~~----------------~~ 234 (437)
...+...||+.||+||||+++.+||++|||||+|.+|+|+|+|+. ..
T Consensus 73 -----------------~~~l~~~lN~~LP~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~~f~~~~~~~~~~~ 135 (245)
T PRK12434 73 -----------------EDKIKKYLNEYLPNDIVVTNVEEVDERFHARYNVKSKTYLYKIWNEKFHNVFMRKYSMHVNEK 135 (245)
T ss_pred -----------------HHHHHHHHHccCCCCeEEEEEEECCCCcccccCCCcEEEEEEEccCCCCChhhCCeEEEeCCC
Confidence 235789999999999999999999999999999999999999853 45
Q ss_pred CCHHHHHHHHhhccccccccceeecccCCcCcceEEEEEEEEEecccccCCCcEEEEEEEeCcchhhhHHHHHHHHHHHH
Q 013738 235 LNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIG 314 (437)
Q Consensus 235 LDi~~M~~Aak~f~GtHDF~NF~k~d~~~~~~~~R~I~~~~I~~~~~~~~~~~~~~~~I~G~sFL~hQVR~MVg~L~~VG 314 (437)
||+++|++||+.|+|+|||+|||+.+. +..+++|+|.+++|.+ ..++++|+|+|+||||||||+|||+|+.||
T Consensus 136 ld~~~m~~a~~~~~G~HDF~~F~~~~~-~~~~~~R~I~~~~v~~------~~~~~~i~i~g~~FL~~mVR~mvg~ll~vg 208 (245)
T PRK12434 136 LDVKAMKEAAKYLVGSHDFTSFTNAKS-KKKSTVREIYSIDIME------EDGFVQIRVSGNGFLHNMVRIIVGALIEVG 208 (245)
T ss_pred CCHHHHHHHHHHccCCcCHHhhcCCCC-CCCCCEEEEEEEEEEE------eCCEEEEEEEecHHHHHHHHHHHHHHHHHh
Confidence 899999999999999999999998653 3468999999999964 346899999999999999999999999999
Q ss_pred cCCCCHHHHHHHHhcCCCCCCCCccCCCCCCeeeecCCC
Q 013738 315 QGLESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDF 353 (437)
Q Consensus 315 ~G~~~~~~i~~lL~~~~~~~k~~~~~AP~~gLvL~dv~y 353 (437)
+|+++++.|.++|+..+ +....++|||+||+|++|.|
T Consensus 209 ~g~~~~~~i~~~L~~~~--r~~~~~~APa~GL~L~~V~Y 245 (245)
T PRK12434 209 LGQLKAEDIKQILEAKD--RNQANCTAPASGLYLENVEY 245 (245)
T ss_pred CCCCCHHHHHHHHhcCC--cccCCCccCCCCCEEeEeEC
Confidence 99999999999999754 34456899999999999987
No 6
>PRK00021 truA tRNA pseudouridine synthase A; Validated
Probab=100.00 E-value=2.9e-69 Score=524.29 Aligned_cols=228 Identities=31% Similarity=0.467 Sum_probs=205.3
Q ss_pred cceEEEEEEEeCCCceeecccCCCCCcHHHHHHHHHHhccccccCCcceeeeeeccCCccccccCCEEEEEEcCCccccC
Q 013738 91 KRYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQVIAIYLRSNIKECN 170 (437)
Q Consensus 91 kr~iaL~iaY~Gt~Y~G~q~Q~~~~~TVE~~L~~AL~k~~li~~~~~~~~~~ragRTDkGVhA~gQVvs~~~~s~~~~~~ 170 (437)
+++|+|.|+|+|++|+|||.|++ .+|||++|++||.+++. +++.+++||||||||||++||++|++....
T Consensus 1 m~~~~l~i~YdGt~y~G~q~q~~-~~TVq~~le~aL~~~~~-----~~~~~~~agRTD~GVHA~~qvv~~~~~~~~---- 70 (244)
T PRK00021 1 MMRIALTIEYDGTNFHGWQRQPN-GRTVQGELEKALSKLAG-----EPVRVIGAGRTDAGVHALGQVAHFDTPAPR---- 70 (244)
T ss_pred CeEEEEEEEECCCccceeeeCCC-CCCHHHHHHHHHHHHhC-----CCeEEEEEccCCCcccccCcEEEEEeCCCC----
Confidence 36899999999999999999998 58999999999999753 568899999999999999999999986543
Q ss_pred CCCCCCCccchhhccccHHHHHHHHhhcCCCCeeEeeeEEcCCCCCccccCCcceeEEEecCC----------------C
Q 013738 171 TNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDFSARFSCISREYKYFFWRE----------------N 234 (437)
Q Consensus 171 ~~~~~~~~~~~~~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~ARf~c~~RtY~Y~f~~~----------------~ 234 (437)
+...+...||+.||+||||+++.+||++|||||+|.+|+|+|+|+.. .
T Consensus 71 ----------------~~~~~~~~lN~~Lp~dI~V~~~~~v~~~F~aR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~ 134 (244)
T PRK00021 71 ----------------PPEKWRRALNALLPDDIAVLWAEEVPDDFHARFSAKARRYRYRIYNRPARPPFLRGYVWHYPYP 134 (244)
T ss_pred ----------------CHHHHHHHHHhcCCCCEEEEEeEecCCCcCcCcCCCceEEEEEEecCCCCChhhCCcEEEeCCC
Confidence 22368899999999999999999999999999999999999999754 3
Q ss_pred CCHHHHHHHHhhccccccccceeecccCCcCcceEEEEEEEEEecccccCCCcEEEEEEEeCcchhhhHHHHHHHHHHHH
Q 013738 235 LNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIG 314 (437)
Q Consensus 235 LDi~~M~~Aak~f~GtHDF~NF~k~d~~~~~~~~R~I~~~~I~~~~~~~~~~~~~~~~I~G~sFL~hQVR~MVg~L~~VG 314 (437)
+|+++|++||++|+|+|||+|||+.+. +..+++|+|.+++|.. ..+++.|+|+|+||||||||+|||+|+.||
T Consensus 135 ld~~~m~~a~~~~~G~HdF~~F~~~~~-~~~~~~R~I~~~~v~~------~~~~~~i~i~g~sFL~~qVR~mvg~l~~vg 207 (244)
T PRK00021 135 LDVDAMNEAAQYLLGEHDFTSFRASGC-QSKSPVRTIYEADVTR------EGDFIVFDISANGFLHNMVRNIVGTLLEVG 207 (244)
T ss_pred CcHHHHHHHHHHhcCceeeeeeeCCCC-CCCCCeEEEEEEEEEE------cCCEEEEEEEEchhHHHHHHHHHHHHHHHH
Confidence 899999999999999999999987543 3478999999999974 247999999999999999999999999999
Q ss_pred cCCCCHHHHHHHHhcCCCCCCCCccCCCCCCeeeecCCC
Q 013738 315 QGLESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDF 353 (437)
Q Consensus 315 ~G~~~~~~i~~lL~~~~~~~k~~~~~AP~~gLvL~dv~y 353 (437)
+|+++++.|.++|+... +....++|||+||+|++|.|
T Consensus 208 ~g~~~~~~i~~~L~~~~--~~~~~~~APa~GL~L~~v~Y 244 (244)
T PRK00021 208 KGKRPPEDIKELLEAKD--RTLAGPTAPAEGLYLVEVDY 244 (244)
T ss_pred CCCCCHHHHHHHHhcCC--cccCCCccCCCCCEEeeeEC
Confidence 99999999999999754 33567899999999999987
No 7
>PRK14588 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=5.3e-69 Score=530.10 Aligned_cols=238 Identities=30% Similarity=0.398 Sum_probs=208.9
Q ss_pred cceEEEEEEEeCCCceeecccCCCCCcHHHHHHHHHHhccccccCCcceeeeeeccCCccccccCCEEEEEEcCCccccC
Q 013738 91 KRYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQVIAIYLRSNIKECN 170 (437)
Q Consensus 91 kr~iaL~iaY~Gt~Y~G~q~Q~~~~~TVE~~L~~AL~k~~li~~~~~~~~~~ragRTDkGVhA~gQVvs~~~~s~~~~~~ 170 (437)
+++|+|.|+|+|++|+|||+|++ .+|||++|++||.++ .+ +++.+.+|||||+||||+|||+||++...+
T Consensus 1 m~~~~l~iaYdGt~f~G~Q~Q~~-~~TVq~~Le~aL~~l---~~--~~i~i~~AgRTDaGVHA~gQv~~f~~~~~~---- 70 (272)
T PRK14588 1 MRTIALLLEYDGTDFAGSQWQTD-GRTVQGALEAAWQAL---TQ--ERRRIVLAGRTDAGVHARGQVAHVQTDTRH---- 70 (272)
T ss_pred CceEEEEEEEcCCceeeeEECCC-CCCHHHHHHHHHHHh---hC--CCceEEEecCCCcCcCccccEEEEEcCCCC----
Confidence 36899999999999999999998 489999999999985 32 467899999999999999999999975432
Q ss_pred CCCCCCCccchhhccccHHHHHHHHhhcCCCCeeEeeeEEcCCCCCccccCCcceeEEEecC----------------CC
Q 013738 171 TNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDFSARFSCISREYKYFFWR----------------EN 234 (437)
Q Consensus 171 ~~~~~~~~~~~~~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~ARf~c~~RtY~Y~f~~----------------~~ 234 (437)
....+...||+.||+||+|+++.+||++|||||+|.+|+|+|+|+. ..
T Consensus 71 ----------------~~~~l~~~LN~~LP~dI~V~~v~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~p~~~~~~~~~~~~ 134 (272)
T PRK14588 71 ----------------SLATIWRGLNAHLPEDIGVQNAWEAPPDFHARFSAIQREYRYVIDCAPAPSPQLRHQVLHYAGT 134 (272)
T ss_pred ----------------CHHHHHHHHHhcCCCCeEEEEEEECCCCcCcccCCCcEEEEEEEcCCCCCChhhcCceEecCCC
Confidence 1236889999999999999999999999999999999999999953 45
Q ss_pred CCHHHHHHHHhhccccccccceeecccCCcCcceEEEEEEEEEecccccCCCcEEEEEEEeCcchhhhHHHHHHHHHHHH
Q 013738 235 LNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIG 314 (437)
Q Consensus 235 LDi~~M~~Aak~f~GtHDF~NF~k~d~~~~~~~~R~I~~~~I~~~~~~~~~~~~~~~~I~G~sFL~hQVR~MVg~L~~VG 314 (437)
+|+++|++||++|+|+|||+|||+.. ...+++|+|.+++|.... ..+.++++|+|+|+||||||||+|||+|+.||
T Consensus 135 lDi~~m~~a~~~f~G~HDF~~F~~~~--~~~~~vRtI~~~~~~~~~--~~~~~~i~~~i~g~~FL~~mVR~mVg~ll~vg 210 (272)
T PRK14588 135 LDVAAMDAALKLLIGTHDFAAFTTAP--QEGSTVRTCYWARCTDTE--WFGRPLLAIEVAANAFLQHMVRNIVGTLLLVG 210 (272)
T ss_pred CCHHHHHHHHHHccCCcchHhhcCCC--CCCCCeEEEEEEEEEEcc--cCCCCEEEEEEEEchhHHHHHHHHHHHHHHHH
Confidence 89999999999999999999999872 346899999999997521 11346899999999999999999999999999
Q ss_pred cCCCCHHHHHHHHhcCCCCCCCCccCCCCCCeeeecCCCCCCCccc
Q 013738 315 QGLESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDFDGLKFTC 360 (437)
Q Consensus 315 ~G~~~~~~i~~lL~~~~~~~k~~~~~AP~~gLvL~dv~y~~~~~~~ 360 (437)
+|+++++.|.++|+... +....++|||+||+|++|.|++..|++
T Consensus 211 ~g~~~~~~i~~~L~~~~--r~~~~~~APa~GL~L~~V~Y~~~~~~~ 254 (272)
T PRK14588 211 RGRMTVDQFGAVLASRD--RRLAGPTAPAHGLYLTAVRYPPGLIRW 254 (272)
T ss_pred CCCCCHHHHHHHHhcCC--cccCCCCCCCCCcEEeeEecCchhccc
Confidence 99999999999998754 455679999999999999998655554
No 8
>PRK14586 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=3.4e-68 Score=517.39 Aligned_cols=228 Identities=32% Similarity=0.470 Sum_probs=202.6
Q ss_pred cceEEEEEEEeCCCceeecccCCCCCcHHHHHHHHHHhccccccCCcceeeeeeccCCccccccCCEEEEEEcCC-cccc
Q 013738 91 KRYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQVIAIYLRSN-IKEC 169 (437)
Q Consensus 91 kr~iaL~iaY~Gt~Y~G~q~Q~~~~~TVE~~L~~AL~k~~li~~~~~~~~~~ragRTDkGVhA~gQVvs~~~~s~-~~~~ 169 (437)
+++|+|.|+|+|++|+|||.|++ .+|||++|++||.++ .+ +++.+.+|||||+||||+|||+||++... +
T Consensus 1 m~~~~l~i~YdGt~f~G~Q~Q~~-~~TVq~~le~aL~~~---~~--~~i~~~~agRTD~GVHA~~qv~~f~~~~~~~--- 71 (245)
T PRK14586 1 MKRVAAVVSYDGSNFFGYQGQPD-VRTVQGVFEDALERI---FK--QRIYTQAAGRTDTGVHANGQVIAFNCPNDRM--- 71 (245)
T ss_pred CeEEEEEEEEcCCceeeEEECCC-CCCHHHHHHHHHHHH---hC--CCeeEEEecCCccCCCccCcEEEEEecCCcC---
Confidence 35799999999999999999998 489999999999996 22 46899999999999999999999998654 2
Q ss_pred CCCCCCCCccchhhccccHHHHHHHHhhcCCCCeeEeeeEEcCCCCCccccCCcceeEEEecC----------------C
Q 013738 170 NTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDFSARFSCISREYKYFFWR----------------E 233 (437)
Q Consensus 170 ~~~~~~~~~~~~~~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~ARf~c~~RtY~Y~f~~----------------~ 233 (437)
+...+...||+.||+||+|+++.+||++|||||+|.+|+|+|+|+. .
T Consensus 72 -----------------~~~~l~~~lN~~LP~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~~f~~~~~~~~~~ 134 (245)
T PRK14586 72 -----------------TEEDIKNAMNANLPDDIYVKKVFEVPKNFHPRFDAKKRIYHYFILTSKEKNVFLRKYVWWFPY 134 (245)
T ss_pred -----------------CHHHHHHHHHccCCCCeEEEEEEECCCCcCcccCCCcEEEEEEEecCCCCChhhCCceEEeCC
Confidence 1236889999999999999999999999999999999999999953 3
Q ss_pred CCCHHHHHHHHhhccccccccceeecccCCcCcceEEEEEEEEEecccccCCCcEEEEEEEeCcchhhhHHHHHHHHHHH
Q 013738 234 NLNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMI 313 (437)
Q Consensus 234 ~LDi~~M~~Aak~f~GtHDF~NF~k~d~~~~~~~~R~I~~~~I~~~~~~~~~~~~~~~~I~G~sFL~hQVR~MVg~L~~V 313 (437)
.||+++|++||++|+|+|||+|| +.+. ..++++|+|.+++|.+. ..++++|+|+|+||||||||+|||+|+.|
T Consensus 135 ~ld~~~m~~a~~~l~G~HDF~~F-~~~~-~~~~~vR~I~~~~~~~~-----~~~~i~~~i~g~~FL~~mVR~mvg~l~~v 207 (245)
T PRK14586 135 ELDLEAMRKAAKYLEGEHDFTSF-KTGS-DERNPVRTIYRIRILRL-----KKDLILIRVEGRSFLRRMVRNIVGALVKV 207 (245)
T ss_pred CCCHHHHHHHHHHccCcchHHhh-cCCC-CCCCCcEEEEEEEEEEc-----cCCEEEEEEEechhHHHHHHHHHHHHHHH
Confidence 58999999999999999999999 4432 34689999999999642 24689999999999999999999999999
Q ss_pred HcCCCCHHHHHHHHhcCCCCCCCCccCCCCCCeeeecCCC
Q 013738 314 GQGLESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDF 353 (437)
Q Consensus 314 G~G~~~~~~i~~lL~~~~~~~k~~~~~AP~~gLvL~dv~y 353 (437)
|+|++++++|.++|+.++ +....++|||+||+|++|.|
T Consensus 208 g~g~~~~~~i~~~L~~~~--r~~~~~~APa~GL~L~~v~f 245 (245)
T PRK14586 208 GLGQWEPEKIKEVLEARD--RSKAAGTAPAHGLYLYKVLF 245 (245)
T ss_pred hCCCCCHHHHHHHHhcCC--cccCCCccCCCCCEEeEeEC
Confidence 999999999999999864 34457899999999999987
No 9
>cd02866 PseudoU_synth_TruA_Archea PseudoU_synth_archea: Pseudouridine synthase,. This group consists of archealpseudouridine synthases.Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. This group of proteins make Psedouridine in tRNAs.
Probab=100.00 E-value=1.7e-68 Score=512.32 Aligned_cols=221 Identities=36% Similarity=0.611 Sum_probs=200.2
Q ss_pred EEEEEeCCCceeecccCCCCCcHHHHHHHHHHhccccccCCcceeeeeeccCCccccccCCEEEEEEcCCccccCCCCCC
Q 013738 96 LKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQVIAIYLRSNIKECNTNNAS 175 (437)
Q Consensus 96 L~iaY~Gt~Y~G~q~Q~~~~~TVE~~L~~AL~k~~li~~~~~~~~~~ragRTDkGVhA~gQVvs~~~~s~~~~~~~~~~~ 175 (437)
|+|+|+|++|+|||.|++ .+|||++|++||.+++.+ .+.+++.+++|||||+||||.+||++|++..
T Consensus 1 l~i~Y~Gt~y~G~q~q~~-~~TVq~~le~aL~~~~~~-~~~~~i~~~~agRTD~GVHA~~qv~~f~~~~----------- 67 (221)
T cd02866 1 LKVAYDGTPYHGFQRQPD-VRTVEGELIKALRRLGII-ESPKRPRLYSAGRTDAGVSALGNVVAFETEK----------- 67 (221)
T ss_pred CEEEEeCCceeeeeeCCC-CCCHHHHHHHHHHHhhcc-ccCCceEEEEEcCCccccCccccEEEEEeCc-----------
Confidence 579999999999999998 589999999999998763 3346789999999999999999999998742
Q ss_pred CCccchhhccccHHHHHHHHhhcCCCCeeEeeeEEcCCCCCccccCCcceeEEEecCCCCCHHHHHHHHhhccccccccc
Q 013738 176 MGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRN 255 (437)
Q Consensus 176 ~~~~~~~~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~ARf~c~~RtY~Y~f~~~~LDi~~M~~Aak~f~GtHDF~N 255 (437)
++ +...||+.||+||||+++.+||++|||||+|++|+|+|+|+...+|+++|++||+.|+|+|||+|
T Consensus 68 ------------~~-~~~~lN~~LP~dI~v~~~~~v~~~F~ar~~a~~r~Y~Y~i~~~~ld~~~m~~a~~~~~G~HDF~~ 134 (221)
T cd02866 68 ------------EL-TPPAINNALPKDIRVWAWAKVPEDFHPRRDARRRYYRYYLGAEDYDVEAMAEAAKKLIGTHDFSN 134 (221)
T ss_pred ------------HH-HHHHHHhhCCCCEEEEEEEEeCCCCCCCccCCeEEEEEEECCCcCCHHHHHHHHHHhcCCcCHHH
Confidence 12 67889999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeecccCCcCcceEEEEEEEEEecccccCCCcEEEEEEEeCcchhhhHHHHHHHHHHHHcCCCCHHHHHHHHhcCCCCCC
Q 013738 256 FCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTNGIPRK 335 (437)
Q Consensus 256 F~k~d~~~~~~~~R~I~~~~I~~~~~~~~~~~~~~~~I~G~sFL~hQVR~MVg~L~~VG~G~~~~~~i~~lL~~~~~~~k 335 (437)
||+.+. .+++|+|.++++.. ..++++|+|+|+||||||||+|||+|+.||+|+++++.|+++|+... +.
T Consensus 135 F~~~~~---~~~~R~I~~~~~~~------~~~~~~~~i~g~~FL~~mVR~mvg~ll~vg~g~~~~~~i~~~l~~~~--~~ 203 (221)
T cd02866 135 FSKRDG---RDPVRTIERIEIRE------NGEFLVIDVVGESFLWNMVRRIVGALSLVGKGKRENEWVDKLLDGEF--RK 203 (221)
T ss_pred hhCCCC---CCCcEEEEEEEEEE------cCCEEEEEEEEcHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhCCC--cc
Confidence 998653 37899999999964 35799999999999999999999999999999999999999999754 33
Q ss_pred CCccCCCCCCeeeecCCC
Q 013738 336 PQYNMAPEIPLVLQSCDF 353 (437)
Q Consensus 336 ~~~~~AP~~gLvL~dv~y 353 (437)
...++|||+||+|++|.|
T Consensus 204 ~~~~~APa~GL~L~~v~Y 221 (221)
T cd02866 204 KDGVPAPPEGLILVDVKY 221 (221)
T ss_pred cCCCCCCCCCcEEEEeeC
Confidence 345699999999999987
No 10
>TIGR00071 hisT_truA pseudouridylate synthase I. universal so far, single copy in all prokaryotes, 3 in yeast. Trusted cutoff for orthology is about 100 based on 1 match only in complete prokaryote with length 200.
Probab=100.00 E-value=2.8e-68 Score=512.57 Aligned_cols=222 Identities=36% Similarity=0.586 Sum_probs=200.2
Q ss_pred ceEEEEEEEeCCCceeecccCCCCCcHHHHHHHHHHhccccccCCcceeeeeeccCCccccccCCEEEEEEcCCccccCC
Q 013738 92 RYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQVIAIYLRSNIKECNT 171 (437)
Q Consensus 92 r~iaL~iaY~Gt~Y~G~q~Q~~~~~TVE~~L~~AL~k~~li~~~~~~~~~~ragRTDkGVhA~gQVvs~~~~s~~~~~~~ 171 (437)
++|+|.|+|+||+|+|||.|++ .+|||++|++||.+.+. +++.+.+|||||+||||++||+||++...++
T Consensus 1 ~~~~l~i~YdGt~f~G~Q~Q~~-~~TVq~~le~aL~~~~~-----~~i~~~~agRTD~GVHA~~qv~~f~~~~~~~---- 70 (227)
T TIGR00071 1 RKIALKIAYDGSNYHGWQRQPN-KRTVQGELEKALEAIGK-----KKITIMSAGRTDKGVHAMGQVISFDTPKEIP---- 70 (227)
T ss_pred CeEEEEEEEcCCCeeEEeECcC-CCCHHHHHHHHHHHHhC-----CCeeEEeeccCcCCccccccEEEEEecCCCC----
Confidence 4699999999999999999998 58999999999999642 5689999999999999999999999875431
Q ss_pred CCCCCCccchhhccccHHHHHHHHhhcCCCCeeEeeeEEcCCCCCccccCCcceeEEEecCC-----CCCHHHHHHHHhh
Q 013738 172 NNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDFSARFSCISREYKYFFWRE-----NLNLSAMESAGKK 246 (437)
Q Consensus 172 ~~~~~~~~~~~~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~ARf~c~~RtY~Y~f~~~-----~LDi~~M~~Aak~ 246 (437)
+..+...||+.||+||||+++.+||++|||||+|.+|+|+|+|+.. .+|+++|++||++
T Consensus 71 ----------------~~~~~~~lN~~Lp~dI~V~~~~~v~~~FhaR~~a~~R~Y~Y~i~~~~~~~~~ld~~~m~~a~~~ 134 (227)
T TIGR00071 71 ----------------DNKLNAKLNALLPPDIRVKALAPVNDNFHARFSASKRHYRYILYNHRHYYSPLDLEKMRAAAKQ 134 (227)
T ss_pred ----------------HHHHHHHHHccCCCCEEEEEEEeCCCCcCCCCCCCcEEEEEEEccCcccCCCCCHHHHHHHHHH
Confidence 2357899999999999999999999999999999999999999876 6999999999999
Q ss_pred ccccccccceeecccCCcCcceEEEEEEEEEecccccCCCcEEEEEEEeCcchhhhHHHHHHHHHHHHcCCCCHHHHHHH
Q 013738 247 FVGEHDFRNFCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESL 326 (437)
Q Consensus 247 f~GtHDF~NF~k~d~~~~~~~~R~I~~~~I~~~~~~~~~~~~~~~~I~G~sFL~hQVR~MVg~L~~VG~G~~~~~~i~~l 326 (437)
|+|+|||+|||+.+. +..+++|+|.+++|.. +.++++|+|+|+||||||||+|||+|+.||+|++++++|+++
T Consensus 135 ~~G~HDF~~F~~~~~-~~~~~~R~i~~~~v~~------~~~~~~i~i~g~~FL~~mVR~mvg~l~~vg~g~~~~~~i~~~ 207 (227)
T TIGR00071 135 LLGKHDFSNFSKAKS-KSRSPIRTISDIKVSE------SGEYIIFDIIGNSFLWHMVRKIVGALVLVGRGKLPPEWVAKL 207 (227)
T ss_pred ccCcccHHHhcCCCC-CCCCCeEEEEEEEEEE------cCCEEEEEEEecHHHHHHHHHHHHHHHHHHCCCCCHHHHHHH
Confidence 999999999998653 3568999999999964 457999999999999999999999999999999999999999
Q ss_pred HhcCCCCCCCCccCCCCCCeee
Q 013738 327 LDTNGIPRKPQYNMAPEIPLVL 348 (437)
Q Consensus 327 L~~~~~~~k~~~~~AP~~gLvL 348 (437)
|+.+. +....++|||+||+|
T Consensus 208 L~~~~--r~~~~~~APa~GL~L 227 (227)
T TIGR00071 208 LDAKK--RNLAPTTAPANGLYL 227 (227)
T ss_pred HhcCC--cccCCCCCCCCCCcC
Confidence 98754 333467999999997
No 11
>cd02570 PseudoU_synth_EcTruA PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1). Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. E. coli TruA makes psi38/39 and/or 40 in tRNA. psi38 and psi39 in tRNAs are highly phylogenetically conserved. P. aeruginosa truA is required for induction of type III secretory genes and may act through modifying tRNAs critical for the expression of type III genes or their regulators.
Probab=100.00 E-value=4.8e-68 Score=514.09 Aligned_cols=223 Identities=33% Similarity=0.509 Sum_probs=201.2
Q ss_pred EEEEEeCCCceeecccCCCCCcHHHHHHHHHHhccccccCCcceeeeeeccCCccccccCCEEEEEEcCCccccCCCCCC
Q 013738 96 LKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQVIAIYLRSNIKECNTNNAS 175 (437)
Q Consensus 96 L~iaY~Gt~Y~G~q~Q~~~~~TVE~~L~~AL~k~~li~~~~~~~~~~ragRTDkGVhA~gQVvs~~~~s~~~~~~~~~~~ 175 (437)
|+|+|+||+|+|||.|++. +|||++|++||.+++. +++.+.+||||||||||.+||+||++...+
T Consensus 1 l~i~Y~Gt~f~G~q~q~~~-~TVq~~le~aL~~~~~-----~~~~i~~agRTD~GVHA~~qvv~~~~~~~~--------- 65 (239)
T cd02570 1 LTIEYDGTNFSGWQRQPNG-RTVQGELEKALSKIAG-----EPVRVIGAGRTDAGVHALGQVAHFDTPSEI--------- 65 (239)
T ss_pred CEEEEeCCccceeeeCCCC-CCHHHHHHHHHHHHhC-----CCeEEEEECcCCCCcCccccEEEEEECCCC---------
Confidence 5799999999999999994 8999999999999742 578999999999999999999999987643
Q ss_pred CCccchhhccccHHHHHHHHhhcCCCCeeEeeeEEcCCCCCccccCCcceeEEEecCC----------------CCCHHH
Q 013738 176 MGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDFSARFSCISREYKYFFWRE----------------NLNLSA 239 (437)
Q Consensus 176 ~~~~~~~~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~ARf~c~~RtY~Y~f~~~----------------~LDi~~ 239 (437)
+...+...||+.||+||||+++.+||++|||||+|.+|+|+|+|+.. .+|+++
T Consensus 66 -----------~~~~~~~~lN~~Lp~dI~v~~i~~v~~~F~aR~~a~~R~Y~Y~i~~~~~~~~~~~~~~~~~~~~~d~~~ 134 (239)
T cd02570 66 -----------PLEKLIKALNSLLPPDIRVLSAEEVPDDFHARFSAKSRTYRYRILNRPVPSPFLRRYVWHVPRPLDIEA 134 (239)
T ss_pred -----------CHHHHHHHHHccCCCCEEEEEEEECCCCcCcccCCCceEEEEEEccCCCCChhhCCeEEEeCCCCCHHH
Confidence 12368899999999999999999999999999999999999999754 689999
Q ss_pred HHHHHhhccccccccceeecccCCcCcceEEEEEEEEEecccccCCCcEEEEEEEeCcchhhhHHHHHHHHHHHHcCCCC
Q 013738 240 MESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLES 319 (437)
Q Consensus 240 M~~Aak~f~GtHDF~NF~k~d~~~~~~~~R~I~~~~I~~~~~~~~~~~~~~~~I~G~sFL~hQVR~MVg~L~~VG~G~~~ 319 (437)
|++||++|+|+|||+|||+.+.. ..+++|+|.+++|.+ ..++++|+|+|+||||||||+|||+|+.||+|.++
T Consensus 135 m~~a~~~f~G~HdF~~F~~~~~~-~~~~~R~I~~~~v~~------~~~~~~i~i~g~sFL~~qVR~mvg~ll~vg~g~~~ 207 (239)
T cd02570 135 MQEAAKLLLGTHDFSSFRAAGCQ-SKSTVRTIYRADVYR------EGDLIVFEIRANGFLYHMVRNIVGTLLEVGRGKLS 207 (239)
T ss_pred HHHHHHHccCCcchhhhCCCCCC-CCCCeEEEEEEEEEE------eCCEEEEEEEEcHHHHHHHHHHHHHHHHHHCCCCC
Confidence 99999999999999999987643 468999999999975 34799999999999999999999999999999999
Q ss_pred HHHHHHHHhcCCCCCCCCccCCCCCCeeeecCCC
Q 013738 320 IDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDF 353 (437)
Q Consensus 320 ~~~i~~lL~~~~~~~k~~~~~AP~~gLvL~dv~y 353 (437)
++.|+++|+... +....++|||+||+|++|.|
T Consensus 208 ~~~i~~~l~~~~--~~~~~~~APa~GL~L~~v~Y 239 (239)
T cd02570 208 PEDIKEILEAKD--RTAAGPTAPAHGLYLVKVEY 239 (239)
T ss_pred HHHHHHHHhcCC--cccCCCCcCCCCCEEeeeEC
Confidence 999999998754 33347899999999999987
No 12
>cd00497 PseudoU_synth_TruA_like PseudoU_synth_TruA: Pseudouridine synthase, TruA family. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases similar to Escherichia coli TruA, Saccharomyces cerevisiae Pus1p, S. cerevisiae Pus3p Caenorhabditis elegans Pus1p and human PUS1. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. S. cerevisiae PUS1 catalyzes the formation of psi34 and psi36 in the intron containing tRNAIle, psi35 in the intron containing tRNATyr, psi27 and/or psi28 in several yeast cytoplasmic tRNAs and, psi44 in U2 small nuclear RNA (U2 snRNA). The presence of the intron is required for the formation of psi 34, 35 and 36. In addition S. cerevisiae PUS1 makes psi 26, 65 and 67. C. elegans Pus1p does not modify psi44 in U2 snRNA. S. cerevisiae Pus3p makes psi38 and psi39 in tRNAs. Psi44 in U2 snRNA and, psi38 and psi39 in tRNAs are highly ph
Probab=100.00 E-value=4.3e-68 Score=510.43 Aligned_cols=224 Identities=47% Similarity=0.843 Sum_probs=200.3
Q ss_pred EEEeCCCceeecccCCCCCcHHHHHHHHHHhccccccCCcceeeeeeccCCccccccCCEEEEEEcCCccccCCCCCCCC
Q 013738 98 VMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQVIAIYLRSNIKECNTNNASMG 177 (437)
Q Consensus 98 iaY~Gt~Y~G~q~Q~~~~~TVE~~L~~AL~k~~li~~~~~~~~~~ragRTDkGVhA~gQVvs~~~~s~~~~~~~~~~~~~ 177 (437)
|+|+|++|+|||.|++ .+|||++|++||.+++.+ .+.+++.+.+|||||+||||++||++|++...+
T Consensus 1 i~YdGt~f~G~Q~Q~~-~~TVq~~le~aL~~~~~~-~~~~~~~i~~agRTD~GVHA~~qv~~~~~~~~~----------- 67 (224)
T cd00497 1 IAYDGWKYHGFQRQPD-VPTVEGELFKALLKTGLI-ESPKPSNYSRAGRTDKGVSALGQVVSLETRSKL----------- 67 (224)
T ss_pred CEEcCCceeeEeeCcC-CCCHHHHHHHHHHHhhCc-CCCcceeEEEeccccccccccccEEEEEECCCc-----------
Confidence 6899999999999999 489999999999998652 223578999999999999999999999985432
Q ss_pred ccchhhccccHHHHHHHHhhcCCCCeeEeeeEEcCCCCCccccCCcceeEEEecCCCCCHHHHHHHHhhcccccccccee
Q 013738 178 ETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHDFRNFC 257 (437)
Q Consensus 178 ~~~~~~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~ARf~c~~RtY~Y~f~~~~LDi~~M~~Aak~f~GtHDF~NF~ 257 (437)
. .+...||+.||+||+|+++.+||++|||||+|.+|+|+|+|+...+|+++|++||+.|+|+|||+|||
T Consensus 68 ---------~--~~~~~lN~~Lp~dI~v~~~~~v~~~F~aR~~a~~R~Y~Y~i~~~~~d~~~m~~a~~~f~G~HDF~~F~ 136 (224)
T cd00497 68 ---------K--PYPDILNGLLPKDIRVLAWAPVPEDFHARFSCVSRTYRYYFPGGDLDIEAMREAAKLLLGTHDFRNFC 136 (224)
T ss_pred ---------H--HHHHHHHhhCCCCcEEEEEEEeCCCCCCCcccCeEEEEEEECCCCcCHHHHHHHHHHccCcccHHHhc
Confidence 1 57889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecccCCcCcceEEEEEEEEEecccccCCCcEEEEEEEeCcchhhhHHHHHHHHHHHHcCCCCHHHHHHHHhcCCCCCCCC
Q 013738 258 KMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTNGIPRKPQ 337 (437)
Q Consensus 258 k~d~~~~~~~~R~I~~~~I~~~~~~~~~~~~~~~~I~G~sFL~hQVR~MVg~L~~VG~G~~~~~~i~~lL~~~~~~~k~~ 337 (437)
+.+.. ..+++|+|.+++|.. ..++++|+|+|+||||||||+|||+|+.||+|+++++.|.++|+.... ....
T Consensus 137 ~~~~~-~~~~~RtI~~~~v~~------~~~~~~i~i~g~sFL~~mVR~mvg~ll~vg~g~~~~~~i~~~l~~~~~-~~~~ 208 (224)
T cd00497 137 KKDGR-KKNPVRTIISAEVEE------VDDFYVFEVKGKSFLWHQVRRIVAALFLVGQGLEPPSIISRLLDEEKR-PSKP 208 (224)
T ss_pred CCCCC-CCCCeEEEEEEEEEe------cCCEEEEEEEEcHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhcCCc-ccCC
Confidence 87543 378999999999975 347999999999999999999999999999999999999999987542 2222
Q ss_pred ccCCCCCCeeeecCCC
Q 013738 338 YNMAPEIPLVLQSCDF 353 (437)
Q Consensus 338 ~~~AP~~gLvL~dv~y 353 (437)
.++|||+||+|++|.|
T Consensus 209 ~~~APa~GL~L~~V~Y 224 (224)
T cd00497 209 QYPAPPEPLVLWDCKY 224 (224)
T ss_pred CCcCCCCCcEEeeeeC
Confidence 3499999999999987
No 13
>cd02568 PseudoU_synth_PUS1_PUS2 PseudoU_synth_PUS1_PUS2: Pseudouridine synthase, PUS1/ PUS2 like. This group consists of eukaryotic pseudouridine synthases similar to Saccharomyces cerevisiae Pus1p, S. cerevisiae Pus2p, Caenorhabditis elegans Pus1p and human PUS1. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). No cofactors are required. S. cerevisiae Pus1p catalyzes the formation of psi34 and psi36 in the intron-containing tRNAIle, psi35 in the intron-containing tRNATyr, psi27 and/or psi28 in several yeast cytoplasmic tRNAs and, psi44 in U2 small nuclear RNA (U2 snRNA). The presence of the intron is required for the formation of psi 34, 35 and 36. In addition S. cerevisiae PUS1 makes are psi 26, 65 and 67. C. elegans Pus1p does not modify psi44 in U2 snRNA. Mouse Pus1p makes psi27/28 in pre- tRNASer , tRNAVal and tRNAIle, psi 34/36 in tRNAIle and, psi 32 and potentially 67 in tRNAVal. Psi44 in U
Probab=100.00 E-value=4e-68 Score=516.54 Aligned_cols=240 Identities=30% Similarity=0.435 Sum_probs=207.4
Q ss_pred EEEEEeCCCceeecccCCCCCcHHHHHHHHHHhcccccc----CCcceeeeeeccCCccccccCCEEEEEEcCCccccCC
Q 013738 96 LKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVA----DKKESHYSRCGRTDKGVSSVGQVIAIYLRSNIKECNT 171 (437)
Q Consensus 96 L~iaY~Gt~Y~G~q~Q~~~~~TVE~~L~~AL~k~~li~~----~~~~~~~~ragRTDkGVhA~gQVvs~~~~s~~~~~~~ 171 (437)
|.|+|+||+|+|||.|++..+|||++|++||.+++.+.+ +.+++++++|||||+||||++||+||++...+++.
T Consensus 1 l~i~Y~Gt~f~G~Q~Q~~~~~TVq~~le~aL~~~~~~~~~~~~~~~~~~~~~agRTD~GVHA~~qv~~~~~~~~~~~~-- 78 (245)
T cd02568 1 LLFGYCGTGYHGMQYNPGNYKTIEGELERALVKAGAISESNAGDPKKIGFSRAARTDKGVHAARNVVSLKVIIDDPEG-- 78 (245)
T ss_pred CEEEEeCCCccccccCCCCCCChHHHHHHHHHHcCCcCccccCChhhcceeeecccccchhheeeEEEEEEecccccc--
Confidence 579999999999999998438999999999999876421 23678999999999999999999999987654210
Q ss_pred CCCCCCccchhhccccHHHHHHHHhhcCCCCeeEeeeEEcCCCCCccccCCcceeEEEecCCC-CCHHHHHHHHhhcccc
Q 013738 172 NNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDFSARFSCISREYKYFFWREN-LNLSAMESAGKKFVGE 250 (437)
Q Consensus 172 ~~~~~~~~~~~~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~ARf~c~~RtY~Y~f~~~~-LDi~~M~~Aak~f~Gt 250 (437)
......+...||+.||+||+|++|.+|+++|||||+|.+|+|+|+|+... +|+++|++||++|+|+
T Consensus 79 -------------~~~~~~~~~~lN~~Lp~dI~v~~~~~v~~~F~aR~~a~~R~Y~Y~i~~~~~~d~~~m~~a~~~~~G~ 145 (245)
T cd02568 79 -------------LGIGEDLVEKLNSHLPEDIRVFGITRVTKSFNARKACDSRTYEYLLPTFALETLDRFNEILKLYVGT 145 (245)
T ss_pred -------------ccchHHHHHHHHccCCCceEEEEEEcCCCCCCcchhhhcceeEEECCcccHhHHHHHHHHHHHhhCc
Confidence 01234688999999999999999999999999999999999999999888 6999999999999999
Q ss_pred ccccceeecccCCcCcceEEEEEEEEEecccccCCCcEEEEEEEeCcchhhhHHHHHHHHHHHHcCCCCHHHHHHHHhcC
Q 013738 251 HDFRNFCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTN 330 (437)
Q Consensus 251 HDF~NF~k~d~~~~~~~~R~I~~~~I~~~~~~~~~~~~~~~~I~G~sFL~hQVR~MVg~L~~VG~G~~~~~~i~~lL~~~ 330 (437)
|||+|||+.+..+..+++|+|.++++.+......+.++++|+|+|+||||||||+|||+|+.||+|.++++.|+.+|+..
T Consensus 146 HdF~~F~~~~~~~~~~~~R~i~~~~~~~~~~~~~~~~~i~i~i~g~~FL~~mVR~mvg~l~~vg~g~~~~~~i~~~L~~~ 225 (245)
T cd02568 146 HNFHNFTVRKKFEDPSANRFIISFYVSEPFVIEEGLEWVSIEIHGQSFMLHQIRKMIGLAIAIVRGGAPESLIDLSFNKA 225 (245)
T ss_pred cccccCcccccccCCCceeEEEEEEEecceeecCCccEEEEEEEechHHHHHHHHHHHHHHHHHcCCCCHHHHHHHhccc
Confidence 99999998765445789999999999752111123479999999999999999999999999999999999999999853
Q ss_pred CCCCCCCccCCCCCCeeeecCCC
Q 013738 331 GIPRKPQYNMAPEIPLVLQSCDF 353 (437)
Q Consensus 331 ~~~~k~~~~~AP~~gLvL~dv~y 353 (437)
. ....|+|||+||+|++|.|
T Consensus 226 ~---~~~~~~APa~GL~L~~v~y 245 (245)
T cd02568 226 K---RIIIPLAPGLGLLLEYPHF 245 (245)
T ss_pred c---cccccCCCCcceeEecccC
Confidence 2 3457899999999999987
No 14
>PRK14587 tRNA pseudouridine synthase ACD; Provisional
Probab=100.00 E-value=2.3e-67 Score=513.44 Aligned_cols=246 Identities=24% Similarity=0.364 Sum_probs=219.5
Q ss_pred eEEEEEEEeCCCceeecccCCCCCcHHHHHHHHHHhccccccCCcceeeeeeccCCccccccCCEEEEEEcCCccccCCC
Q 013738 93 YVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQVIAIYLRSNIKECNTN 172 (437)
Q Consensus 93 ~iaL~iaY~Gt~Y~G~q~Q~~~~~TVE~~L~~AL~k~~li~~~~~~~~~~ragRTDkGVhA~gQVvs~~~~s~~~~~~~~ 172 (437)
+|+|.|+|||++|+|||.||+ |||++|++||.+. . .+|||||+||||+|||++| ..++
T Consensus 2 ~~~l~i~YdGt~f~G~Q~Q~~---TVq~~Le~aL~~i---~--------~~agRTDaGVHA~~qv~~~--~~~~------ 59 (256)
T PRK14587 2 PYLYRIAYDGTLFYGFTGHPN---SLEPALRRVFGEI---L--------GRGSRTDPGVSAVGNVVMT--SQKL------ 59 (256)
T ss_pred cEEEEEEECCCcccceecCcc---hHHHHHHHHHHHh---c--------cCccCCccCCCcccCEEEE--CCcC------
Confidence 589999999999999999987 9999999999873 2 2399999999999999997 2211
Q ss_pred CCCCCccchhhccccHHHHHHHHhhcCCCCeeEeeeEEcCCCCCccccCCcceeEEEecCCCCCHHHHHHHHhhcccccc
Q 013738 173 NASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDFSARFSCISREYKYFFWRENLNLSAMESAGKKFVGEHD 252 (437)
Q Consensus 173 ~~~~~~~~~~~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~ARf~c~~RtY~Y~f~~~~LDi~~M~~Aak~f~GtHD 252 (437)
+ ...||+.||+||+|+++.+||++||||+ |.+|+|+|+|+...+|+++|++||+.|+|+||
T Consensus 60 -----------------~-~~~LN~~LP~dI~V~~~~~V~~~FhaR~-a~~R~Y~Y~i~~~~lDi~~m~~aa~~l~G~HD 120 (256)
T PRK14587 60 -----------------P-LGYVNSKLPRGVWAWAVAEVPEGFNPRR-AKRRRYLYVAPHWGEDVEAMREAAELLAGTHD 120 (256)
T ss_pred -----------------C-HHHHHhcCCCCeEEEEEEECCCCcCcCc-ccceEEEEEEccCcchHHHHHHHHHHhcCCcC
Confidence 1 3579999999999999999999999998 99999999998888999999999999999999
Q ss_pred ccceeecccCCcCcceEEEEEEEEEecccccCCCcEEEEEEEeCcchhhhHHHHHHHHHHHHcCCCCHHHHHHHHhcCCC
Q 013738 253 FRNFCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTNGI 332 (437)
Q Consensus 253 F~NF~k~d~~~~~~~~R~I~~~~I~~~~~~~~~~~~~~~~I~G~sFL~hQVR~MVg~L~~VG~G~~~~~~i~~lL~~~~~ 332 (437)
|+|||+.+.....+++|+|.+++|.. ..++++|+|+|+||||||||+|||+|+.||+|+++++.|.++|+..
T Consensus 121 F~~F~~~~~~~~~~~vRtI~~i~v~~------~~~~i~i~i~g~sFL~~mVR~mVG~Ll~Vg~G~~~~~~i~~~L~~~-- 192 (256)
T PRK14587 121 YSSFIQRRGEKATPTVTTVYEIGVEL------RGDLIYLYFVGRGFRNKMIRKMAWAILAAGRGVLSRRDIAELLERP-- 192 (256)
T ss_pred hHHhccCCCCCCCCCEEEEEEEEEEE------eCCEEEEEEEechhHHHHHHHHHHHHHHHhCCCCCHHHHHHHHhcC--
Confidence 99999876443334999999999964 2468999999999999999999999999999999999999999842
Q ss_pred CCCCCccCCCCCCeeeecCCCCCCCcccccchhHHHHHHHHHHHHHHHHHHHHHHHH
Q 013738 333 PRKPQYNMAPEIPLVLQSCDFDGLKFTCSLDAGHDLRLHLRNECQVYQLQAAIFHEA 389 (437)
Q Consensus 333 ~~k~~~~~AP~~gLvL~dv~y~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~~~ 389 (437)
+....++|||+||+|++|.|+ ..|..+.++.++....+.+++..+..++++++.+
T Consensus 193 -r~~~~~~APa~GL~L~~V~Y~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 247 (256)
T PRK14587 193 -RPGAVPSAPAEGLVLLDIEYD-VKFQVDYTALRKAYVYFLSKYRHLEAHAAALKAA 247 (256)
T ss_pred -cccCCCCCCCCCCEEeeeccC-ccccCChHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 445679999999999999997 4899999999999999999999999999988865
No 15
>PLN03078 Putative tRNA pseudouridine synthase; Provisional
Probab=100.00 E-value=1.9e-65 Score=533.44 Aligned_cols=260 Identities=25% Similarity=0.350 Sum_probs=218.0
Q ss_pred CCCCcccCccceEEEEEEEeCCCceeecccCCC--CCcHHHHHHHHHHhcccccc----CCcceeeeeeccCCccccccC
Q 013738 82 MSGTLNHHFKRYVALKVMYFGQRFYGFASDGNM--EPTVESEIFKALEKTRLLVA----DKKESHYSRCGRTDKGVSSVG 155 (437)
Q Consensus 82 ~~~~~s~~~kr~iaL~iaY~Gt~Y~G~q~Q~~~--~~TVE~~L~~AL~k~~li~~----~~~~~~~~ragRTDkGVhA~g 155 (437)
..++|+++++|+|+|.|+|+|++|+|||.|++. .+|||++|++||.+++.|.+ +.+++.|++||||||||||+|
T Consensus 61 ~~~~w~~~~krrvaL~IaYdGt~Y~G~Q~Q~n~~~~~TVEg~LE~AL~k~~~I~e~n~~~~~ki~~~rAgRTDkGVHA~g 140 (513)
T PLN03078 61 GGMKWESARKKKVVLRVGYVGTDYRGLQKQRDLSSLSTIEGELETAIFKAGGIRESNYGNLHKIGWARSSRTDKGVHSLA 140 (513)
T ss_pred CCCCcccccceEEEEEEEEcCCCcceeeECCCCCCCCCHHHHHHHHHHHHhCccccccccccceeEEeeccCCcCccccc
Confidence 357899999999999999999999999999873 47999999999999977543 236899999999999999999
Q ss_pred CEEEEEEcCCccccCCCCCCCCccchhhccccHHHHHHHHhhcCCCCeeEeeeEEcCCCCCccccCCcceeEEEecCCC-
Q 013738 156 QVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDFSARFSCISREYKYFFWREN- 234 (437)
Q Consensus 156 QVvs~~~~s~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~ARf~c~~RtY~Y~f~~~~- 234 (437)
||+||++...... +. .+.....+...||++||+||||++|.+|+++|||||+|.+|+|+|+||...
T Consensus 141 QVvsf~l~~p~~~--------~~-----~d~~~~~L~~~LN~~LP~DIRVl~v~~V~~~FhAR~sc~sRtY~Y~iP~~~~ 207 (513)
T PLN03078 141 TMISLKMEIPENA--------WK-----DDPDGIALAKFINSHLPDNIRVFSILPAQRSFDPRRECDLRKYSYLLPAEVI 207 (513)
T ss_pred cEEEEeccCcchh--------cc-----ccchHHHHHHHHHhcCCCCeEEEEEEECCCCcCCCCCCCceEEEEEEccccc
Confidence 9999998531100 00 001234688999999999999999999999999999999999999998621
Q ss_pred ------------CCHHHHHHHHhhccccccccceeecccCCcC-------------------------------------
Q 013738 235 ------------LNLSAMESAGKKFVGEHDFRNFCKMDAANVH------------------------------------- 265 (437)
Q Consensus 235 ------------LDi~~M~~Aak~f~GtHDF~NF~k~d~~~~~------------------------------------- 265 (437)
.|+++|++|+++|+|+|||+|||........
T Consensus 208 ~~k~~f~~~~~~~dI~kMneAl~~fiGtHDFhNFT~r~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 287 (513)
T PLN03078 208 GIKSGFSSEEIDEHISEFNSILNGFEGEHPFHNYTARSKYRKKLPGKHKQRNGAVSRRAKSSKEMSSSESEENHGEISEE 287 (513)
T ss_pred cCCCccchhhhHHHHHHHHHHHHhcccccCcccccCCCccCccccccccccccccccccccccccccccccccccccccc
Confidence 2699999999999999999999975321110
Q ss_pred -----------------------------------------------cceEEEEEEEEEecccccCCCcEEEEEEEeCcc
Q 013738 266 -----------------------------------------------NYKRHVTSFEISPCYISFEGNQLCAIKIRGSAF 298 (437)
Q Consensus 266 -----------------------------------------------~~~R~I~~~~I~~~~~~~~~~~~~~~~I~G~sF 298 (437)
+..|+|++|.+..+. ...+.+|+.|+|.|+||
T Consensus 288 ~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~wl~e~d~~d~i~~s~~R~I~~~~~~~~~-~~~g~~fv~i~I~GqSF 366 (513)
T PLN03078 288 DEEDLSFSSIPSGSSDENEDILKFQSSQVQIRARWLHEPDETDRISASHFRKIFRCSCGKLE-KSLGFDFVELSIWGESF 366 (513)
T ss_pred hhhhhccccccccccccccccccccccchhhhhhhccCCccccccchhheEEEEEeecCCcc-ccCCceEEEEEEEehhH
Confidence 236889999876542 23467899999999999
Q ss_pred hhhhHHHHHHHHHHHHcCCCCHHHHHHHHhcCCCCCCCCccCCCCCCeeeecCCCCCCCc
Q 013738 299 LWHQVRCMVAVLFMIGQGLESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSCDFDGLKF 358 (437)
Q Consensus 299 L~hQVR~MVg~L~~VG~G~~~~~~i~~lL~~~~~~~k~~~~~AP~~gLvL~dv~y~~~~~ 358 (437)
||||||+|||++++|++|..+++.|..+|+.. .+..+|+||+.||+|++|.|+.++-
T Consensus 367 mlhQIRKMIG~~~aV~rg~~~~~~i~~~L~~~---~r~~~P~AP~~GL~L~~~~F~~yn~ 423 (513)
T PLN03078 367 MLHQIRKMVGTAVAVKRELLPRDIIRLSLTKF---SRIVLPLAPSEVLILRGNSFSVRKK 423 (513)
T ss_pred HHHHHHHHHHHHHHHHhccCCHHHHHHHhccc---cccccccCCCcceEEEeeecccccc
Confidence 99999999999999999999999999999763 3456899999999999999998865
No 16
>KOG2553 consensus Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=7.4e-59 Score=469.24 Aligned_cols=250 Identities=30% Similarity=0.453 Sum_probs=222.5
Q ss_pred cCccceEEEEEEEeCCCceeecccCCCCCcHHHHHHHHHHhcccccc----CCcceeeeeeccCCccccccCCEEEEEEc
Q 013738 88 HHFKRYVALKVMYFGQRFYGFASDGNMEPTVESEIFKALEKTRLLVA----DKKESHYSRCGRTDKGVSSVGQVIAIYLR 163 (437)
Q Consensus 88 ~~~kr~iaL~iaY~Gt~Y~G~q~Q~~~~~TVE~~L~~AL~k~~li~~----~~~~~~~~ragRTDkGVhA~gQVvs~~~~ 163 (437)
++++|+||+.++|.|++|||+|.|++ .+|||++|++||.++|.|.+ +++++.|.||+||||||||++||||+++.
T Consensus 33 k~~KrKVail~gY~G~gY~GmQ~N~~-~kTIEgeL~~al~~aGaI~e~n~~dpkk~~~~raARTDKGVhA~~nviSlK~~ 111 (416)
T KOG2553|consen 33 KPRKRKVAILLGYCGTGYHGMQYNPP-LKTIEGELFEALFKAGAISESNAGDPKKIGFARAARTDKGVHAAGNVISLKLE 111 (416)
T ss_pred cccceEEEEEEEeccCCccceecCCC-CCchHHHHHHHHHHcCCcccccccChHHhhhHHhhccccchhhhhheeEEEEe
Confidence 68899999999999999999999999 59999999999999999764 45789999999999999999999999985
Q ss_pred CCccccCCCCCCCCccchhhccccHHHHHHHHhhcCCCCeeEeeeEEcCCCCCccccCCcceeEEEecCC------CC--
Q 013738 164 SNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPKDIRVIGWSPAPTDFSARFSCISREYKYFFWRE------NL-- 235 (437)
Q Consensus 164 s~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~LN~~LP~dIrV~~~~~V~~~F~ARf~c~~RtY~Y~f~~~------~L-- 235 (437)
.+. ..++..||..||++||||++.+|+++||+|-.|.+|+|.|.+|.. ..
T Consensus 112 ~~~----------------------~~lv~~lN~~Lp~~IRv~~v~r~~k~F~pr~~CdsR~YeYllPtfal~~p~~~~~ 169 (416)
T KOG2553|consen 112 LDD----------------------PELVEKLNEILPEQIRVWGVKRVTKSFNPRKQCDSRTYEYLLPTFALAPPKPSSL 169 (416)
T ss_pred eCc----------------------HHHHHHHhhhCCcceEEEEEEecCCCCCccccccceeEEEecceeeecCCCCccH
Confidence 321 257899999999999999999999999999999999999998731 00
Q ss_pred -------------------------------------------CHHHHHHHHhhccccccccceeecccCCcCcceEEEE
Q 013738 236 -------------------------------------------NLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVT 272 (437)
Q Consensus 236 -------------------------------------------Di~~M~~Aak~f~GtHDF~NF~k~d~~~~~~~~R~I~ 272 (437)
.++.++.+++.|+||||||||+..+....++..|.|.
T Consensus 170 ~~~~~~~~~e~~~~f~~~~~~~~~~~~s~~~~~~~~~yr~s~~~l~~~~~~ls~Y~GthnFHNfT~~~~~~dpss~R~I~ 249 (416)
T KOG2553|consen 170 LEVDIQYDKEFEKEFWNTYPLSAKERLSGQDRKTESGYRLSEEKLEVFNTILSKYVGTHNFHNFTTGKDFTDPSSNRFIK 249 (416)
T ss_pred HHhhhhhhhhhhhhhccccchhhhhhhcccccccccceeeCHHHHHHHHHHHHHhhcccccceecccCCCCCccccceee
Confidence 2467899999999999999999988777888999999
Q ss_pred EEEEEecccc-cCCCcEEEEEEEeCcchhhhHHHHHHHHHHHHcCCCCHHHHHHHHhcCCCCCCCCccCCCCCCeeeecC
Q 013738 273 SFEISPCYIS-FEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDVIESLLDTNGIPRKPQYNMAPEIPLVLQSC 351 (437)
Q Consensus 273 ~~~I~~~~~~-~~~~~~~~~~I~G~sFL~hQVR~MVg~L~~VG~G~~~~~~i~~lL~~~~~~~k~~~~~AP~~gLvL~dv 351 (437)
++.+..+... ..+.+|+.+.|+|+|||.||||+|||++++|-++..+.+.|+..++. ..+..+|+||+.||+|..+
T Consensus 250 s~~~~~pfv~~~~~~e~V~i~i~GQSFMLHQIRKMVglav~i~R~~~p~~~i~~af~~---~~ri~IP~AP~~gLlL~~~ 326 (416)
T KOG2553|consen 250 SFTVSEPFVINDEGVEFVKIKIHGQSFMLHQIRKMVGLAVLIVRSGAPASTIQRAFNK---EHKINIPKAPGEGLLLEEP 326 (416)
T ss_pred EEEecCcceeccCCceEEEEEEEcchhHHHHHHHHHHHHHHHHhcCCCHHHHHHhhCC---CccccccCCCcceEEeecc
Confidence 9999754321 25789999999999999999999999999999999999999999984 3577899999999999999
Q ss_pred CCCCCCcccccc
Q 013738 352 DFDGLKFTCSLD 363 (437)
Q Consensus 352 ~y~~~~~~~~~~ 363 (437)
.|+.||-.+...
T Consensus 327 ~F~~yn~~~~~~ 338 (416)
T KOG2553|consen 327 HFESYNRKFRPS 338 (416)
T ss_pred cccccccccCCC
Confidence 999998876543
No 17
>KOG4393 consensus Predicted pseudouridylate synthase [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.1e-41 Score=326.16 Aligned_cols=243 Identities=26% Similarity=0.273 Sum_probs=201.0
Q ss_pred cceEEEEEEEeCCCceeecccCCC-CCcHHHHHHHHHHhccccccCCcceeeeeeccCCccccccCCEEEEEEcCCcccc
Q 013738 91 KRYVALKVMYFGQRFYGFASDGNM-EPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQVIAIYLRSNIKEC 169 (437)
Q Consensus 91 kr~iaL~iaY~Gt~Y~G~q~Q~~~-~~TVE~~L~~AL~k~~li~~~~~~~~~~ragRTDkGVhA~gQVvs~~~~s~~~~~ 169 (437)
.+++.|+|+||||.|.|||.+... ..|||+-|++|.... .+ .+..+++.+||||+||||.+|++++.+...-
T Consensus 4 ~~ryll~i~ydgT~f~e~a~~~s~~~~tIq~~leea~eeq---t~-l~~l~l~~ssrtDa~Vha~~naa~~~vpr~s--- 76 (295)
T KOG4393|consen 4 IMRYLLKIPYDGTAFEESAERLSKVARTIQGFLEEASEEQ---TG-LDRLDLESSSRTDAGVHAYLNAAHYIVPRFS--- 76 (295)
T ss_pred hheeEEEecccccccHHHHhccCCcceehhhhhhhhHHhh---cC-CcceeecccCCCchhhheeeeeEEEEeeccc---
Confidence 467999999999999999999864 239999999999884 32 3678999999999999999999999985431
Q ss_pred CCCCCCCCccchhhccccHHHHHHHHhhcC-CC--CeeEeeeEEcCCCCCccccCCcceeEEEecC--------------
Q 013738 170 NTNNASMGETVQEEQIEDEIDYVRVLNRVL-PK--DIRVIGWSPAPTDFSARFSCISREYKYFFWR-------------- 232 (437)
Q Consensus 170 ~~~~~~~~~~~~~~~~~~e~~~~~~LN~~L-P~--dIrV~~~~~V~~~F~ARf~c~~RtY~Y~f~~-------------- 232 (437)
|. ......+.+|.+| ++ ||+|+.+..||.+|||||++.+|+|.|.+..
T Consensus 77 -------g~--------~~~~~~~a~nt~l~~k~gdirV~dv~~Vps~FhaR~sassRtY~YRla~g~d~l~~fERd~cW 141 (295)
T KOG4393|consen 77 -------GS--------QQQAKDRAVNTVLQRKDGDIRVIDVRCVPSNFHARYSASSRTYFYRLASGSDPLSIFERDRCW 141 (295)
T ss_pred -------CC--------cHHHHHHHHhccccCCCCceEEEEeeecCcchhheecccceeEEEEeecCCCccChhhhcccc
Confidence 10 1123456677776 44 9999999999999999999999999999843
Q ss_pred ---CCCCHHHHHHHHhhccccccccceeecccCCcCcceEEEEEEEEEecc----------cccCCCcEEEEEEEeCcch
Q 013738 233 ---ENLNLSAMESAGKKFVGEHDFRNFCKMDAANVHNYKRHVTSFEISPCY----------ISFEGNQLCAIKIRGSAFL 299 (437)
Q Consensus 233 ---~~LDi~~M~~Aak~f~GtHDF~NF~k~d~~~~~~~~R~I~~~~I~~~~----------~~~~~~~~~~~~I~G~sFL 299 (437)
..||..+|++|+++|+|+|||.+|.+.. ..+..+.+|+..+.|.... ....-.+++.+++.++|||
T Consensus 142 ~lp~~lna~kmqeaa~lf~G~hdfsaf~~at-s~~y~P~~t~rr~sv~~~g~~~a~~~~~~~e~~~~~~~nve~e~~gfl 220 (295)
T KOG4393|consen 142 HLPEELNARKMQEAAPLFEGSHDFSAFTEAT-STVYFPSITERRLSVLNNGDPLACSNQPETEGVTTNVGNVEGETEGFL 220 (295)
T ss_pred cCCcccCHHHHHhhhhhhccchhhhhhhcCC-CCCCCCcccceeeeecccCCccccccCCccccceeeeEEEEEEecchH
Confidence 4589999999999999999999999876 3456667777777773111 0112357899999999999
Q ss_pred hhhHHHHHHHHHHHHcCCCCHHHHHHHHhcCCC--CCCCCccCCCCCCeeeecCCCCCC
Q 013738 300 WHQVRCMVAVLFMIGQGLESIDVIESLLDTNGI--PRKPQYNMAPEIPLVLQSCDFDGL 356 (437)
Q Consensus 300 ~hQVR~MVg~L~~VG~G~~~~~~i~~lL~~~~~--~~k~~~~~AP~~gLvL~dv~y~~~ 356 (437)
|.|||+|++.|+.+|.+.+.+..+..+|++... --|-..+.|||+||+|.+|.|.+.
T Consensus 221 yrQvRrm~a~LV~~g~~al~~~qv~~iLe~~~~~~l~k~~~~vapphglfL~sv~Y~n~ 279 (295)
T KOG4393|consen 221 YRQVRRMRAYLVTAGSRALLYHQVLYILEVRDIVGLLKCVGTVAPPHGLFLSSVEYVNL 279 (295)
T ss_pred HHHHHhhheeeeeecccccchhhhhhhhhccchhhhhhccCCCCCCccceeeeEEechh
Confidence 999999999999999999999999999998753 235678999999999999999863
No 18
>PF01416 PseudoU_synth_1: tRNA pseudouridine synthase; InterPro: IPR020097 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequence similarity, but which do share the same fold of their catalytic domain(s) and uracil-binding site and are descended from a common molecular ancestor. The catalytic domain consists of two subdomains, each of which has an alpha+beta structure that has some similarity to the ferredoxin-like fold (note: some pseudouridine synthases contain additional domains). The active site is the most conserved structural region of the superfamily and is located between the two homologous domains. These families are []: Pseudouridine synthase I, TruA. Pseudouridine synthase II, TruB, which contains and additional C-terminal PUA domain. Pseudouridine synthase RsuA (ribosomal small subunit) and RluC/RluD (ribosomal large subunits), both of which contain an additional N-terminal alpha-L RNA-binding motif. Pseudouridine synthase TruD, which has a natural circular permutation in the catalytic domain, as well as an insertion of a family-specific alpha+beta subdomain. This entry represents pseudouridine synthase I (TruA). TruA from Escherichia coli modifies positions uracil-38, U-39 and/or U-40 in tRNA [, ]. TruA contains one atom of zinc essential for its native conformation and tRNA recognition and has a strictly conserved aspartic acid that is likely to be involved in catalysis []. These enzymes are dimeric proteins that contain two positively charged, RNA-binding clefts along their surface. Each cleft contains a highly conserved aspartic acid located at its centre. The structural domains have a topological similarity to those of other RNA-binding proteins, though the mode of interaction with tRNA appears to be unique. ; GO: 0003723 RNA binding, 0009982 pseudouridine synthase activity, 0001522 pseudouridine synthesis, 0009451 RNA modification; PDB: 1VS3_B 2NR0_B 2NQP_D 1DJ0_A 2NRE_A.
Probab=99.88 E-value=7.8e-25 Score=185.59 Aligned_cols=104 Identities=36% Similarity=0.596 Sum_probs=87.2
Q ss_pred HHhhccccccccceeecccCCcCcceEEEEEEEEEecccccCCCcEEEEEEEeCcchhhhHHHHHHHHHHHHcCCCCHHH
Q 013738 243 AGKKFVGEHDFRNFCKMDAANVHNYKRHVTSFEISPCYISFEGNQLCAIKIRGSAFLWHQVRCMVAVLFMIGQGLESIDV 322 (437)
Q Consensus 243 Aak~f~GtHDF~NF~k~d~~~~~~~~R~I~~~~I~~~~~~~~~~~~~~~~I~G~sFL~hQVR~MVg~L~~VG~G~~~~~~ 322 (437)
|++.|+|+|||++||+.+..+ .+++|+|.++.+.. ..++++ +|+|+||||||||+|||.++.+|+|..+++.
T Consensus 1 A~~~~~G~HdF~~f~~~~~~~-~~~~r~i~~~~~~~------~~~~~~-~i~g~~Fl~~~vR~~vg~~~~~~~G~~~~~~ 72 (105)
T PF01416_consen 1 AAKLYVGTHDFSGFQKQKTVE-KNTIRTIFSIDIIE------EGDVVV-EIHGNSFLRHQVRIMVGTLLRTGRGVHSLEQ 72 (105)
T ss_dssp -CCEETCEEECCGCSSCS-HH-HHHCCCEEEEECCC------CCCEEE-EEEESS--TTHHHHHHCCCCHHHTTSCEEEC
T ss_pred CcceeEecCCCcCCEECCccc-ccHHHHHHHHhhhc------CCCEEE-EEEecccccccchhhhHHHHHHhcCCCCHHH
Confidence 688999999999999986433 68899999999843 456888 9999999999999999999999999999999
Q ss_pred HHHHHhcCCCCCCC-CccCCCCCCeeeecCCCC
Q 013738 323 IESLLDTNGIPRKP-QYNMAPEIPLVLQSCDFD 354 (437)
Q Consensus 323 i~~lL~~~~~~~k~-~~~~AP~~gLvL~dv~y~ 354 (437)
|..+|+....+..+ .+.+||+.||+|++|.||
T Consensus 73 i~~~L~~~~~~~~~~ri~~ap~~gL~L~~v~y~ 105 (105)
T PF01416_consen 73 IAELLNSKLRPKAPPRILTAPAVGLYLFHVRYD 105 (105)
T ss_dssp CCCCHHHHSCTTS-TEEEEEEECCECCEECCTT
T ss_pred HHHHHhccCccccCCCcceeeCCCCCceEeeCc
Confidence 99999997644332 356999999999999996
No 19
>PF01416 PseudoU_synth_1: tRNA pseudouridine synthase; InterPro: IPR020097 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequence similarity, but which do share the same fold of their catalytic domain(s) and uracil-binding site and are descended from a common molecular ancestor. The catalytic domain consists of two subdomains, each of which has an alpha+beta structure that has some similarity to the ferredoxin-like fold (note: some pseudouridine synthases contain additional domains). The active site is the most conserved structural region of the superfamily and is located between the two homologous domains. These families are []: Pseudouridine synthase I, TruA. Pseudouridine synthase II, TruB, which contains and additional C-terminal PUA domain. Pseudouridine synthase RsuA (ribosomal small subunit) and RluC/RluD (ribosomal large subunits), both of which contain an additional N-terminal alpha-L RNA-binding motif. Pseudouridine synthase TruD, which has a natural circular permutation in the catalytic domain, as well as an insertion of a family-specific alpha+beta subdomain. This entry represents pseudouridine synthase I (TruA). TruA from Escherichia coli modifies positions uracil-38, U-39 and/or U-40 in tRNA [, ]. TruA contains one atom of zinc essential for its native conformation and tRNA recognition and has a strictly conserved aspartic acid that is likely to be involved in catalysis []. These enzymes are dimeric proteins that contain two positively charged, RNA-binding clefts along their surface. Each cleft contains a highly conserved aspartic acid located at its centre. The structural domains have a topological similarity to those of other RNA-binding proteins, though the mode of interaction with tRNA appears to be unique. ; GO: 0003723 RNA binding, 0009982 pseudouridine synthase activity, 0001522 pseudouridine synthesis, 0009451 RNA modification; PDB: 1VS3_B 2NR0_B 2NQP_D 1DJ0_A 2NRE_A.
Probab=98.08 E-value=3.1e-07 Score=77.68 Aligned_cols=84 Identities=24% Similarity=0.376 Sum_probs=63.4
Q ss_pred EEEeCC-CceeecccCCCCCcHHHHHHHHHHhccccccCC--------------cceeeeeeccCCccccccCCEEEEEE
Q 013738 98 VMYFGQ-RFYGFASDGNMEPTVESEIFKALEKTRLLVADK--------------KESHYSRCGRTDKGVSSVGQVIAIYL 162 (437)
Q Consensus 98 iaY~Gt-~Y~G~q~Q~~~~~TVE~~L~~AL~k~~li~~~~--------------~~~~~~ragRTDkGVhA~gQVvs~~~ 162 (437)
..|.|+ +|+||+.| +|++...+++|..+.++.... ...-+..++|||+||||..|+..+
T Consensus 3 ~~~~G~HdF~~f~~~----~~~~~~~~r~i~~~~~~~~~~~~~~i~g~~Fl~~~vR~~vg~~~~~~~G~~~~~~i~~~-- 76 (105)
T PF01416_consen 3 KLYVGTHDFSGFQKQ----KTVEKNTIRTIFSIDIIEEGDVVVEIHGNSFLRHQVRIMVGTLLRTGRGVHSLEQIAEL-- 76 (105)
T ss_dssp CEETCEEECCGCSSC----S-HHHHHCCCEEEEECCCCCCEEEEEEESS--TTHHHHHHCCCCHHHTTSCEEECCCCC--
T ss_pred ceeEecCCCcCCEEC----CcccccHHHHHHHHhhhcCCCEEEEEEecccccccchhhhHHHHHHhcCCCCHHHHHHH--
Confidence 479999 99999987 477777777777776522111 234478899999999998777654
Q ss_pred cCCccccCCCCCCCCccchhhccccHHHHHHHHhhcCCC---CeeEeeeEEcC-CCCCcccc
Q 013738 163 RSNIKECNTNNASMGETVQEEQIEDEIDYVRVLNRVLPK---DIRVIGWSPAP-TDFSARFS 220 (437)
Q Consensus 163 ~s~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~LN~~LP~---dIrV~~~~~V~-~~F~ARf~ 220 (437)
||..+|+ + ||+.+.+++ ..||++|+
T Consensus 77 --------------------------------L~~~~~~~~~~-ri~~ap~~gL~L~~v~y~ 105 (105)
T PF01416_consen 77 --------------------------------LNSKLRPKAPP-RILTAPAVGLYLFHVRYD 105 (105)
T ss_dssp --------------------------------HHHHSCTTS-T-EEEEEEECCECCEECCTT
T ss_pred --------------------------------HhccCccccCC-CcceeeCCCCCceEeeCc
Confidence 5666754 5 999999999 99999985
No 20
>PF10105 DUF2344: Uncharacterized protein conserved in bacteria (DUF2344); InterPro: IPR018768 This domain, found in various hypothetical bacterial proteins and Radical Sam domain proteins, has no known function.
Probab=96.26 E-value=0.055 Score=51.24 Aligned_cols=112 Identities=21% Similarity=0.283 Sum_probs=79.8
Q ss_pred cHHHHHHHHHHhcccccc----CCcceeeeeeccCCccccccCCEEEEEEcCCccccCCCCCCCCccchhhccccHHHHH
Q 013738 117 TVESEIFKALEKTRLLVA----DKKESHYSRCGRTDKGVSSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYV 192 (437)
Q Consensus 117 TVE~~L~~AL~k~~li~~----~~~~~~~~ragRTDkGVhA~gQVvs~~~~s~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 192 (437)
-+...++.||.++|+=+. =.....++.+.=.=-||.+.+-++-+.+..++ ++..+.
T Consensus 19 dl~r~~eRa~rRA~lp~a~SqGFnP~Pkisf~~aLpvGv~S~~E~~di~l~~~~--------------------~~~~~~ 78 (187)
T PF10105_consen 19 DLMRVFERALRRAGLPVAYSQGFNPHPKISFAPALPVGVESLAEYMDIELEEDI--------------------DPEEVL 78 (187)
T ss_pred HHHHHHHHHhhhcCCCeeecCCCCCCcceeecccccCceeeccEEEEEEEecCC--------------------CHHHHH
Confidence 455678899999997211 01234567777778899999999999986544 223688
Q ss_pred HHHhhcCCCCeeEeeeEEcCCCCCccccCCcceeEEEecCCCCCHHHHHHHHhhccc
Q 013738 193 RVLNRVLPKDIRVIGWSPAPTDFSARFSCISREYKYFFWRENLNLSAMESAGKKFVG 249 (437)
Q Consensus 193 ~~LN~~LP~dIrV~~~~~V~~~F~ARf~c~~RtY~Y~f~~~~LDi~~M~~Aak~f~G 249 (437)
..||..||++|+|+++..||.+..+ ....-..+.|.+.....+.+...+++..|.-
T Consensus 79 ~rLn~~lP~Gl~i~~~~~i~~~~~s-l~~~i~~~~Y~i~~~~~~~~~~~~~~~~~~~ 134 (187)
T PF10105_consen 79 ERLNAVLPEGLRILEAEEIPPKAPS-LMALINAAEYRITLPEIDEEELEEAIEAFLA 134 (187)
T ss_pred HHHHHhCCCCCEEEEEEEccCCCcc-hhhhcceEEEEEEecCCCHHHHHHHHHHHHC
Confidence 9999999999999999999854433 2233355667665557777888887776643
No 21
>cd01291 PseudoU_synth PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases. Some psi sites such as psi55,13,38 and 39 in tRNA are highly conserved, being in the same position in eubacteria, archeabacteria and eukaryotes. Other psi sites occur in a more restricted fashion, for example psi2604in 23S RNA made by E.coli RluF has only been detected in E.coli. Human dyskerin with the help of guide RNAs makes the hundreds of psueudouridnes present in rRNA and small nuclear RNAs (snRNAs). Mutations in human dyskerin cause X-linked dyskeratosis congenitas. Missense mutation in human PUS1 causes mitochondrial myopathy and sideroblastic anemia (MLASA).
Probab=90.05 E-value=0.7 Score=37.80 Aligned_cols=22 Identities=5% Similarity=-0.111 Sum_probs=17.6
Q ss_pred cEEEEEEEeCcchhhhHHHHHHHH
Q 013738 287 QLCAIKIRGSAFLWHQVRCMVAVL 310 (437)
Q Consensus 287 ~~~~~~I~G~sFL~hQVR~MVg~L 310 (437)
..+.|++.. +.+||+|.|+..|
T Consensus 65 ~~~~l~f~l--~~~~yat~~l~el 86 (87)
T cd01291 65 RALVLEFTL--PRGSYATMLLREL 86 (87)
T ss_pred ceEEEEEEc--CCcchHHHHHHHh
Confidence 356677776 9999999999865
No 22
>TIGR01213 conserved hypothetical protein TIGR01213. Members of this family show twilight-zone similarity to several predicted RNA pseudouridine synthases. All trusted members of this family are archaeal. Several eukaryotic homologs lack N-terminal homology including two CXXC motifs.
Probab=89.44 E-value=17 Score=38.45 Aligned_cols=161 Identities=14% Similarity=0.108 Sum_probs=99.3
Q ss_pred CCcHHHHHHHHHHhccccccCCcceeeeeeccCCccccccCC--EEEEEEcCCccccCCCCCCCCccchhhccccHHHHH
Q 013738 115 EPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQ--VIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYV 192 (437)
Q Consensus 115 ~~TVE~~L~~AL~k~~li~~~~~~~~~~ragRTDkGVhA~gQ--Vvs~~~~s~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 192 (437)
..+||+.|...+.+. .+ ...+.|+.|||-|--|--+|. -+.+.+-... .+..+...+.
T Consensus 184 ~~SVeelI~~~v~~~---~~-~~~~~Fh~aGREDvDvRMLG~GRPFvlEi~~P~----------------rr~~dl~~le 243 (388)
T TIGR01213 184 PESVEELIASPFLKA---TG-GTDAYFHGAGREDVDVRMLGTGRPFVLEVKEPR----------------YRKIDLDPLE 243 (388)
T ss_pred CchHHHHHHHHHHHH---hC-CceeEEeccCccccceeeccCCCceEEEecCCc----------------cCCCCHHHHH
Confidence 469999988888775 32 246899999999999998864 2222221110 0011223467
Q ss_pred HHHhhcCCCCeeEeeeEEcCCCCCc--cccCCcceeEEEec-CCCCCHHHHHHHHhhcccc--ccccceeecccCCcCcc
Q 013738 193 RVLNRVLPKDIRVIGWSPAPTDFSA--RFSCISREYKYFFW-RENLNLSAMESAGKKFVGE--HDFRNFCKMDAANVHNY 267 (437)
Q Consensus 193 ~~LN~~LP~dIrV~~~~~V~~~F~A--Rf~c~~RtY~Y~f~-~~~LDi~~M~~Aak~f~Gt--HDF~NF~k~d~~~~~~~ 267 (437)
..+|......|.|.+..-++..=-. +..-..++|+=.++ ..+++.+.++++++.|.|. |-...--..-......=
T Consensus 244 ~~IN~~~~g~V~v~~L~~~~~~~v~~ik~~~~~K~Y~alV~~~~~v~~e~L~~~~~~l~g~~I~QrTP~RV~hRRa~~~R 323 (388)
T TIGR01213 244 EEINTSGKGKVEVEGLKFATREEVEEVKEEKHRKVYRALVEVDGPVSDEDLEELCKELEGATIYQRTPLRVLHRRADLVR 323 (388)
T ss_pred HHHhhccCCCEEEEEeEEEcHHHHHHHhccCCceEEEEEEEECCCCCHHHHHHHHHhccCCEEEccCCceEEEecCCCce
Confidence 7899988899999998765431000 11223589997766 4678999999999988872 21111111000001122
Q ss_pred eEEEEEEEEEecccccCCCcEEEEEEEeCcchh
Q 013738 268 KRHVTSFEISPCYISFEGNQLCAIKIRGSAFLW 300 (437)
Q Consensus 268 ~R~I~~~~I~~~~~~~~~~~~~~~~I~G~sFL~ 300 (437)
.|+|+++++...+ ...+.+.|.++|=+|
T Consensus 324 ~R~I~~i~~~~i~-----~~~~~l~v~~qaGtY 351 (388)
T TIGR01213 324 ERRVYQVDLSGLD-----GNHAELIIEAEGGLY 351 (388)
T ss_pred EEEEEEEEEEEEc-----CCEEEEEEEecCCCE
Confidence 4899999987753 346778887776443
No 23
>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=84.77 E-value=1.6 Score=33.87 Aligned_cols=33 Identities=30% Similarity=0.390 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 7 ELISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 7 ~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
|-+-.|+.++..|..|+.+||.||+-|++..+.
T Consensus 14 EEVevLK~~I~eL~~~n~~Le~EN~~Lk~~~~p 46 (59)
T PF01166_consen 14 EEVEVLKEQIAELEERNSQLEEENNLLKQNASP 46 (59)
T ss_dssp TSHHHHHHHHHHHHHHHHHHHHHHHHHHHHCSS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCH
Confidence 445567788888888888888888888775443
No 24
>TIGR02449 conserved hypothetical protein TIGR02449. Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.
Probab=79.35 E-value=4.2 Score=32.33 Aligned_cols=34 Identities=26% Similarity=0.327 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhc
Q 013738 10 SSLQSQLEALQNRVKELEADNAKLLSKLSLCRCE 43 (437)
Q Consensus 10 ~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~ 43 (437)
..|...++.|+.+.++|..||+.|..++....-+
T Consensus 3 ~~Le~kle~Li~~~~~L~~EN~~Lr~q~~~~~~E 36 (65)
T TIGR02449 3 QALAAQVEHLLEYLERLKSENRLLRAQEKTWREE 36 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3688899999999999999999999998875533
No 25
>PRK14554 putative pseudouridylate synthase; Provisional
Probab=75.70 E-value=58 Score=34.92 Aligned_cols=158 Identities=15% Similarity=0.112 Sum_probs=91.0
Q ss_pred CcHHHHHHHHHHhccccccCCcceeeeeeccCCccccccCC--EEEEEEcCCccccCCCCCCCCccchhhccccHHHHHH
Q 013738 116 PTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQ--VIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVR 193 (437)
Q Consensus 116 ~TVE~~L~~AL~k~~li~~~~~~~~~~ragRTDkGVhA~gQ--Vvs~~~~s~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 193 (437)
.+||+.|...+... .+ ...+.|+.|||-|.-|--+|. -+-+.+.... .+..+...+.
T Consensus 220 ~SVeelI~~~i~~~---f~-~~~~~fh~aGREDvDVRmLG~GRPFViEi~~p~----------------r~~~~~~~l~- 278 (422)
T PRK14554 220 ESVEELIAKPVIEA---FG-GEDAVFHGAGREDVDARMLGTGRPFVIEVKEPR----------------KRKVDLEALE- 278 (422)
T ss_pred CCHHHHHHHHHHHH---hC-CCceEEecCCCCCcceEecCCCCceEEEecCcc----------------cccCCHHHHH-
Confidence 69999998877664 22 357899999999999998887 2222221110 0000111122
Q ss_pred HHhhcCCCCeeEeeeEEcCCCCCcc--ccCCcceeEEEec-CCCCCHHHHHHHHhhccccc-cccceeecccCC-cCcce
Q 013738 194 VLNRVLPKDIRVIGWSPAPTDFSAR--FSCISREYKYFFW-RENLNLSAMESAGKKFVGEH-DFRNFCKMDAAN-VHNYK 268 (437)
Q Consensus 194 ~LN~~LP~dIrV~~~~~V~~~F~AR--f~c~~RtY~Y~f~-~~~LDi~~M~~Aak~f~GtH-DF~NF~k~d~~~-~~~~~ 268 (437)
+|..-...|.|.....++..--.+ .....|+|+=.++ ..+++-+.+.+++..|.|.- .=+......-.. ...=.
T Consensus 279 -~~~~~~g~V~v~~l~~~~~~~~~~ik~~~~~K~YralV~~~~~v~~e~l~~~~~~l~~~~I~QrTP~RV~hRR~~~~R~ 357 (422)
T PRK14554 279 -EEINADGKVEVENLRFATRKEVERIKEEKASKTYRALVESDEPVSEEELEKLLDELSGATIEQRTPRRVKHRRADLVRV 357 (422)
T ss_pred -HhhccCCCEEEEEEEEEcHHHHHHHhcCCCceEEEEEEEECCCCCHHHHHHHHHhccCcEeeccCcHhhhhhcccccee
Confidence 444446789999888765421111 1112389987766 46788888999988887641 111111111000 12335
Q ss_pred EEEEEEEEEecccccCCCcEEEEEEEeCcchh
Q 013738 269 RHVTSFEISPCYISFEGNQLCAIKIRGSAFLW 300 (437)
Q Consensus 269 R~I~~~~I~~~~~~~~~~~~~~~~I~G~sFL~ 300 (437)
|+|+++++...+ ...+.+.|.++|=+|
T Consensus 358 R~I~~i~~~~i~-----~~~~~l~i~~eaGtY 384 (422)
T PRK14554 358 RKVYDISGELID-----DKHFELRIKCEGGLY 384 (422)
T ss_pred eEEEEEEEEEEc-----CcEEEEEEEEecCCE
Confidence 889999987643 345666776655333
No 26
>PF09006 Surfac_D-trimer: Lung surfactant protein D coiled-coil trimerisation; InterPro: IPR015097 This domain is found in the SFTPD family, which includes lung surfactant protein D (SFTPD), conglutinin, collectin-43 and collectin-46. It forms a triple-helical parallel coiled coil, and mediates trimerisation of the protein []. ; PDB: 4DN8_A 3G84_A 2RIE_C 3IKR_B 1B08_A 2GGX_B 2OS9_C 2ORK_B 1PWB_A 2RIA_C ....
Probab=74.79 E-value=5.5 Score=29.53 Aligned_cols=26 Identities=23% Similarity=0.433 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhh
Q 013738 16 LEALQNRVKELEADNAKLLSKLSLCR 41 (437)
Q Consensus 16 ~~~l~~~~~~l~~~~~~l~~~~~~~~ 41 (437)
+++|+++|..||.+++.|++.++.+.
T Consensus 1 i~aLrqQv~aL~~qv~~Lq~~fs~yK 26 (46)
T PF09006_consen 1 INALRQQVEALQGQVQRLQAAFSQYK 26 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788888888888888888888743
No 27
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=72.00 E-value=9.8 Score=30.75 Aligned_cols=29 Identities=34% Similarity=0.460 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHH-------HHHHHHHHHHHHH
Q 013738 7 ELISSLQSQLEALQNR-------VKELEADNAKLLS 35 (437)
Q Consensus 7 ~~~~~~~~~~~~l~~~-------~~~l~~~~~~l~~ 35 (437)
++|..|+.+++.|..+ -.+|+.+|++|+.
T Consensus 18 eti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~ 53 (72)
T PF06005_consen 18 ETIALLQMENEELKEKNNELKEENEELKEENEQLKQ 53 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence 5666677777777666 4444444444444
No 28
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=68.27 E-value=11 Score=29.59 Aligned_cols=31 Identities=23% Similarity=0.425 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 9 ISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 9 ~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
+..++.++++|..++.+|++++++|+.+++.
T Consensus 19 ~~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~ 49 (80)
T PF04977_consen 19 YYQLNQEIAELQKEIEELKKENEELKEEIER 49 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4577888889999999999999999888876
No 29
>PF14077 WD40_alt: Alternative WD40 repeat motif
Probab=65.72 E-value=3.9 Score=30.28 Aligned_cols=22 Identities=36% Similarity=0.383 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 013738 15 QLEALQNRVKELEADNAKLLSK 36 (437)
Q Consensus 15 ~~~~l~~~~~~l~~~~~~l~~~ 36 (437)
.-|+|..||-|||.|+.-|+++
T Consensus 12 ~~e~l~vrv~eLEeEV~~LrKI 33 (48)
T PF14077_consen 12 DQEQLRVRVSELEEEVRTLRKI 33 (48)
T ss_pred CcchheeeHHHHHHHHHHHHHH
Confidence 4578899999999999999875
No 30
>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=65.71 E-value=6.5 Score=30.59 Aligned_cols=27 Identities=26% Similarity=0.500 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013738 10 SSLQSQLEALQNRVKELEADNAKLLSK 36 (437)
Q Consensus 10 ~~~~~~~~~l~~~~~~l~~~~~~l~~~ 36 (437)
-+-+.+++.|..+|.+|+..|.+|+.+
T Consensus 10 ~AVrEEVevLK~~I~eL~~~n~~Le~E 36 (59)
T PF01166_consen 10 YAVREEVEVLKEQIAELEERNSQLEEE 36 (59)
T ss_dssp GT-TTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356789999999999999999999774
No 31
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=63.63 E-value=10 Score=29.63 Aligned_cols=26 Identities=31% Similarity=0.429 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 14 SQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 14 ~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
.+++.|..||.-||+|.+|++..+..
T Consensus 21 lSv~EL~~RIa~L~aEI~R~~~~~~~ 46 (59)
T PF06698_consen 21 LSVEELEERIALLEAEIARLEAAIAK 46 (59)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57899999999999999999998875
No 32
>PF07334 IFP_35_N: Interferon-induced 35 kDa protein (IFP 35) N-terminus; InterPro: IPR009938 This entry represents the N terminus of interferon-induced 35 kDa protein (IFP 35) (approximately 80 residues long), which contains a leucine zipper motif in an alpha helical configuration []. This group of proteins also includes N-myc-interactor (Nmi), a homologous interferon-induced protein.
Probab=63.38 E-value=12 Score=30.71 Aligned_cols=28 Identities=21% Similarity=0.326 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013738 9 ISSLQSQLEALQNRVKELEADNAKLLSK 36 (437)
Q Consensus 9 ~~~~~~~~~~l~~~~~~l~~~~~~l~~~ 36 (437)
+.++..+-..|..|++.||+|+++++..
T Consensus 2 i~ei~eEn~~Lk~eiqkle~ELq~~~~~ 29 (76)
T PF07334_consen 2 IHEIQEENARLKEEIQKLEAELQQNKRE 29 (76)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4567788889999999999999998774
No 33
>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure. The exact function is unknown.
Probab=61.29 E-value=16 Score=30.23 Aligned_cols=28 Identities=50% Similarity=0.668 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013738 9 ISSLQSQLEALQNRVKELEADNAKLLSK 36 (437)
Q Consensus 9 ~~~~~~~~~~l~~~~~~l~~~~~~l~~~ 36 (437)
|..|+..+..|.+||.+.+.|+.+|.++
T Consensus 25 i~~LQ~sL~~L~~Rve~Vk~E~~kL~~E 52 (80)
T PF10224_consen 25 ILELQDSLEALSDRVEEVKEENEKLESE 52 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4468889999999999999999988774
No 34
>PF11336 DUF3138: Protein of unknown function (DUF3138); InterPro: IPR021485 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=59.87 E-value=11 Score=40.31 Aligned_cols=24 Identities=21% Similarity=0.317 Sum_probs=20.0
Q ss_pred CCCH--HHHHHHHhhcccccccccee
Q 013738 234 NLNL--SAMESAGKKFVGEHDFRNFC 257 (437)
Q Consensus 234 ~LDi--~~M~~Aak~f~GtHDF~NF~ 257 (437)
.+|+ ..++-+.+-++|+-+++.+-
T Consensus 253 G~~~~~t~G~W~wk~~l~N~~~rt~g 278 (514)
T PF11336_consen 253 GLNYSSTSGNWAWKFMLANEQYRTYG 278 (514)
T ss_pred ceeccccccceehhhhhcccccccch
Confidence 3667 77888999999999999883
No 35
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=59.74 E-value=19 Score=31.07 Aligned_cols=31 Identities=23% Similarity=0.279 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 9 ISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 9 ~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
...++.+++++.+++++|+++|++|+.++..
T Consensus 29 ~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~ 59 (105)
T PRK00888 29 YWRVNDQVAAQQQTNAKLKARNDQLFAEIDD 59 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4577888889999999999999999888775
No 36
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=59.16 E-value=12 Score=23.82 Aligned_cols=17 Identities=29% Similarity=0.603 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHH
Q 013738 15 QLEALQNRVKELEADNA 31 (437)
Q Consensus 15 ~~~~l~~~~~~l~~~~~ 31 (437)
+++.|+.||..||.++.
T Consensus 2 E~~rlr~rI~dLer~L~ 18 (23)
T PF04508_consen 2 EMNRLRNRISDLERQLS 18 (23)
T ss_pred hHHHHHHHHHHHHHHHH
Confidence 46788888888887654
No 37
>PF03980 Nnf1: Nnf1 ; InterPro: IPR007128 NNF1 is an essential yeast gene required for proper spindle orientation, nucleolar and nuclear envelope structure and mRNA export [].
Probab=58.11 E-value=20 Score=30.65 Aligned_cols=32 Identities=28% Similarity=0.399 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 8 LISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 8 ~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
++..+..+.+.|..++++|+.+|.+|..++..
T Consensus 74 l~~~~~~~~~~L~~~l~~l~~eN~~L~~~i~~ 105 (109)
T PF03980_consen 74 LAPYKKKEREQLNARLQELEEENEALAEEIQE 105 (109)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456788999999999999999999999876
No 38
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=56.85 E-value=18 Score=33.72 Aligned_cols=29 Identities=45% Similarity=0.519 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 11 SLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 11 ~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
.++.+++.|..++++||.||++|.++++.
T Consensus 108 ~l~~e~~~l~~~~e~Le~e~~~L~~~~~~ 136 (161)
T TIGR02894 108 RLKNQNESLQKRNEELEKELEKLRQRLST 136 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46678889999999999999999987765
No 39
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is 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: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=55.80 E-value=23 Score=26.50 Aligned_cols=27 Identities=30% Similarity=0.500 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 13 QSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 13 ~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
....+.|..+|.+|+.+|+.|..+++.
T Consensus 24 k~~~~~le~~~~~L~~en~~L~~~i~~ 50 (54)
T PF07716_consen 24 KQREEELEQEVQELEEENEQLRQEIAQ 50 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356677888888888888888877654
No 40
>smart00338 BRLZ basic region leucin zipper.
Probab=55.56 E-value=27 Score=26.97 Aligned_cols=24 Identities=33% Similarity=0.674 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q 013738 15 QLEALQNRVKELEADNAKLLSKLS 38 (437)
Q Consensus 15 ~~~~l~~~~~~l~~~~~~l~~~~~ 38 (437)
.+..|..+|+.|+++|..|.++++
T Consensus 27 ~~~~Le~~~~~L~~en~~L~~~~~ 50 (65)
T smart00338 27 EIEELERKVEQLEAENERLKKEIE 50 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555555555443
No 41
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=52.53 E-value=31 Score=27.73 Aligned_cols=31 Identities=19% Similarity=0.290 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 9 ISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 9 ~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
+..+..+++.+..++.+|+.|+.+|+.+++.
T Consensus 26 ~~~~~~~~~~~~~~~~~l~~en~~L~~ei~~ 56 (85)
T TIGR02209 26 TRQLNNELQKLQLEIDKLQKEWRDLQLEVAE 56 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567788899999999999999999988875
No 42
>PF05308 Mito_fiss_reg: Mitochondrial fission regulator; InterPro: IPR007972 This family consists of several uncharacterised eukaryotic proteins of unknown function.
Probab=52.47 E-value=15 Score=36.61 Aligned_cols=23 Identities=22% Similarity=0.390 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhh
Q 013738 17 EALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 17 ~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
++-++||-+||.|+++|++||+.
T Consensus 118 ~~AlqKIsALEdELs~LRaQIA~ 140 (253)
T PF05308_consen 118 EAALQKISALEDELSRLRAQIAK 140 (253)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34468999999999999999976
No 43
>PHA03155 hypothetical protein; Provisional
Probab=51.75 E-value=15 Score=32.31 Aligned_cols=26 Identities=27% Similarity=0.442 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 14 SQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 14 ~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
..+|+|-.+|+.|+-||..|++++.+
T Consensus 8 ~tvEeLaaeL~kL~~ENK~LKkkl~~ 33 (115)
T PHA03155 8 ADVEELEKELQKLKIENKALKKKLLQ 33 (115)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 45899999999999999999999876
No 44
>smart00338 BRLZ basic region leucin zipper.
Probab=49.13 E-value=31 Score=26.64 Aligned_cols=28 Identities=29% Similarity=0.433 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013738 10 SSLQSQLEALQNRVKELEADNAKLLSKL 37 (437)
Q Consensus 10 ~~~~~~~~~l~~~~~~l~~~~~~l~~~~ 37 (437)
..|..+.+.|..+|..|+.|+..|++++
T Consensus 36 ~~L~~en~~L~~~~~~l~~e~~~lk~~~ 63 (65)
T smart00338 36 EQLEAENERLKKEIERLRRELEKLKSEL 63 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3455555566666666666666666554
No 45
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=48.77 E-value=31 Score=30.15 Aligned_cols=32 Identities=31% Similarity=0.404 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013738 7 ELISSLQSQLEALQNRVKELEADNAKLLSKLS 38 (437)
Q Consensus 7 ~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~ 38 (437)
|.+..|+.++..|..|+..||+||.=|+.-.+
T Consensus 67 EEVe~Lk~qI~eL~er~~~Le~EN~lLk~~~s 98 (123)
T KOG4797|consen 67 EEVEVLKEQIRELEERNSALERENSLLKTLAS 98 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence 44445666666666667777777766665433
No 46
>PF13935 Ead_Ea22: Ead/Ea22-like protein
Probab=47.11 E-value=27 Score=31.43 Aligned_cols=40 Identities=28% Similarity=0.395 Sum_probs=32.7
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHhhhhh
Q 013738 2 SEAKQELISSLQSQLEALQNRVKELEAD--NAKLLSKLSLCR 41 (437)
Q Consensus 2 ~~~~~~~~~~~~~~~~~l~~~~~~l~~~--~~~l~~~~~~~~ 41 (437)
++++|.++..|=.++|.+.+++++|+++ ++.+...+.+++
T Consensus 62 a~anP~tvLALLDElE~~~~~i~~~~~~~e~~~~a~~~~~l~ 103 (139)
T PF13935_consen 62 AAANPATVLALLDELERAQQRIAELEQECENEDIALDVQKLR 103 (139)
T ss_pred HHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4668999999999999999999999977 777766655533
No 47
>PF02344 Myc-LZ: Myc leucine zipper domain; InterPro: IPR003327 This family consists of the leucine zipper dimerisation domain found in both cellular c-Myc proto-oncogenes and viral v-Myc oncogenes. Dimerisation via the leucine zipper motif with other basic helix-loop-helix-leucine zipper (b/HLH/lz) proteins is required for efficient DNA binding []. The Myc-Max dimer is a transactivating complex activating expression of growth related genes promoting cell proliferation. The dimerisation is facilitated via interdigitating leucine residues every 7th position of the alpha helix. Like charge repulsion of adjacent residues in this region preturbs the formation of homodimers with heterodimers being promoted by opposing charge attractions. It has been demonstrated that in transgenic mice the balance between oncogene-induced proliferation and apoptosis in a given tissue can be a critical determinant in the initiation and maintenance of the tumor [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1NKP_D 1A93_A 2A93_A.
Probab=47.06 E-value=41 Score=23.05 Aligned_cols=25 Identities=28% Similarity=0.333 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 013738 11 SLQSQLEALQNRVKELEADNAKLLS 35 (437)
Q Consensus 11 ~~~~~~~~l~~~~~~l~~~~~~l~~ 35 (437)
.|.+++|.|+.|-++|.-.+++|.+
T Consensus 5 kL~sekeqLrrr~eqLK~kLeqlrn 29 (32)
T PF02344_consen 5 KLISEKEQLRRRREQLKHKLEQLRN 29 (32)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4668899999999999999998865
No 48
>PF12808 Mto2_bdg: Micro-tubular organiser Mto1 C-term Mto2-binding region; InterPro: IPR024545 This domain occurs at the C terminus of microtubule organising proteins in both budding and fission fungi. In Schizosaccharomyces pombe it has been shown to interact with the Mto2p protein, an interaction which is critical for anchoring the cytokinetic actin ring to the medial region of the cell and for proper coordination of mitosis with cytokinesis [, ].
Probab=46.67 E-value=26 Score=26.68 Aligned_cols=23 Identities=30% Similarity=0.429 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhh
Q 013738 17 EALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 17 ~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
.....||.+||.||..|+.+|..
T Consensus 25 ~~a~~rl~~l~~EN~~Lr~eL~~ 47 (52)
T PF12808_consen 25 SAARKRLSKLEGENRLLRAELER 47 (52)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHH
Confidence 34578999999999999999875
No 49
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=45.92 E-value=48 Score=27.37 Aligned_cols=16 Identities=31% Similarity=0.569 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHH
Q 013738 7 ELISSLQSQLEALQNR 22 (437)
Q Consensus 7 ~~~~~~~~~~~~l~~~ 22 (437)
+||.-|+.+++.|..+
T Consensus 18 dtI~LLqmEieELKek 33 (79)
T PRK15422 18 DTITLLQMEIEELKEK 33 (79)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5666666666666543
No 50
>PF05812 Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro: IPR008642 This family consists of several herpes virus BLRF2 tegument proteins.; PDB: 2OA5_B 2H3R_D.
Probab=45.84 E-value=32 Score=30.52 Aligned_cols=26 Identities=27% Similarity=0.405 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 14 SQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 14 ~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
...|+|.++++.|+-||..|+.++.+
T Consensus 3 ~t~EeLaaeL~kLqmENk~LKkkl~~ 28 (118)
T PF05812_consen 3 MTMEELAAELQKLQMENKALKKKLRQ 28 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 46799999999999999999999987
No 51
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=45.73 E-value=25 Score=30.63 Aligned_cols=25 Identities=40% Similarity=0.546 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 013738 14 SQLEALQNRVKELEADNAKLLSKLS 38 (437)
Q Consensus 14 ~~~~~l~~~~~~l~~~~~~l~~~~~ 38 (437)
+...+|..||.+||.++++|++++.
T Consensus 83 ~~~~~l~~rvd~Lerqv~~Lenk~k 107 (108)
T COG3937 83 SEMDELTERVDALERQVADLENKLK 107 (108)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHhc
Confidence 5567888999999999999988764
No 52
>PF09006 Surfac_D-trimer: Lung surfactant protein D coiled-coil trimerisation; InterPro: IPR015097 This domain is found in the SFTPD family, which includes lung surfactant protein D (SFTPD), conglutinin, collectin-43 and collectin-46. It forms a triple-helical parallel coiled coil, and mediates trimerisation of the protein []. ; PDB: 4DN8_A 3G84_A 2RIE_C 3IKR_B 1B08_A 2GGX_B 2OS9_C 2ORK_B 1PWB_A 2RIA_C ....
Probab=43.67 E-value=57 Score=24.28 Aligned_cols=30 Identities=33% Similarity=0.402 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013738 9 ISSLQSQLEALQNRVKELEADNAKLLSKLS 38 (437)
Q Consensus 9 ~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~ 38 (437)
|.+|+.++++|..+|+-|+.-..+-+.-.-
T Consensus 1 i~aLrqQv~aL~~qv~~Lq~~fs~yKKa~l 30 (46)
T PF09006_consen 1 INALRQQVEALQGQVQRLQAAFSQYKKAEL 30 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457999999999999999999988877543
No 53
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=43.11 E-value=65 Score=24.76 Aligned_cols=24 Identities=38% Similarity=0.639 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 013738 14 SQLEALQNRVKELEADNAKLLSKL 37 (437)
Q Consensus 14 ~~~~~l~~~~~~l~~~~~~l~~~~ 37 (437)
..++.|..+|.+|+.+|..|+.++
T Consensus 26 ~~~~~Le~~~~~L~~en~~L~~~~ 49 (64)
T PF00170_consen 26 QYIEELEEKVEELESENEELKKEL 49 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555555555544
No 54
>PF02370 M: M protein repeat; InterPro: IPR003345 This short repeat is found in multiple copies in bacterial M proteins. The M proteins bind to IgA and are closely associated with virulence. The M protein has been postulated to be a major group A streptococcal (GAS) virulence factor because of its contribution to the bacterial resistance to opsonophagocytosis [].; PDB: 2KK9_A.
Probab=42.76 E-value=29 Score=21.69 Aligned_cols=15 Identities=47% Similarity=0.565 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHhh
Q 013738 24 KELEADNAKLLSKLS 38 (437)
Q Consensus 24 ~~l~~~~~~l~~~~~ 38 (437)
|+||++.++|.++.+
T Consensus 4 k~lEa~~qkLe~e~q 18 (21)
T PF02370_consen 4 KQLEADHQKLEAEKQ 18 (21)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHh
Confidence 677888888876543
No 55
>COG1258 Predicted pseudouridylate synthase [Translation, ribosomal structure and biogenesis]
Probab=42.28 E-value=3.1e+02 Score=29.14 Aligned_cols=161 Identities=13% Similarity=0.130 Sum_probs=98.0
Q ss_pred CCcHHHHHHHHHHhccccccCCcceeeeeeccCCccccccCCEEEEEEcCCccccCCCCCCCCccchhhccccHHHHHHH
Q 013738 115 EPTVESEIFKALEKTRLLVADKKESHYSRCGRTDKGVSSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRV 194 (437)
Q Consensus 115 ~~TVE~~L~~AL~k~~li~~~~~~~~~~ragRTDkGVhA~gQVvs~~~~s~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~ 194 (437)
..|||+.|-..+.++ .+ ..+..|++|||-|--|--+|.===|.+.-.-+ -.+..+...+...
T Consensus 190 ~~sve~~i~~~~~~~---f~-g~~~~fhgAGREDvDvRMLG~GRPfVlEvk~P--------------r~R~~dl~~l~~~ 251 (398)
T COG1258 190 PESVEELIKQPIKEA---FG-GLDAKFHGAGREDVDVRMLGTGRPFVLEVKEP--------------RRRNVDLDELEEE 251 (398)
T ss_pred cccHHHHHHHHHHHh---cc-CceeEEEccCCCccceeeecCCCceEEEecCc--------------ccccCChHHHHHH
Confidence 368999888866664 22 24688999999999998887522222211100 0011122346678
Q ss_pred HhhcCCCCeeEeeeEEcCCCCCcccc---CCcceeEEEec-CCCCCHHHHHHHHhhccc-cccccceeecccC-CcCcce
Q 013738 195 LNRVLPKDIRVIGWSPAPTDFSARFS---CISREYKYFFW-RENLNLSAMESAGKKFVG-EHDFRNFCKMDAA-NVHNYK 268 (437)
Q Consensus 195 LN~~LP~dIrV~~~~~V~~~F~ARf~---c~~RtY~Y~f~-~~~LDi~~M~~Aak~f~G-tHDF~NF~k~d~~-~~~~~~ 268 (437)
+|.-. .+.|..+.-+...=-.+.. -..++|+=++. ..+++-+.+.+++.-+.| +=.=+.+....-. ...--+
T Consensus 252 in~~~--~vev~~l~f~~~e~v~~ik~~~~~rK~YrAlV~~~~~v~~e~l~~~~~~L~g~~I~QrTP~RV~hrRadlvR~ 329 (398)
T COG1258 252 INRGG--KVEVFDLEFVGREEVEEIKETERHRKVYRALVYSDRPVSDEKLEEVLGSLEGKTIRQRTPRRVLHRRADLVRI 329 (398)
T ss_pred hccCC--cEEEEEEEecCHHHHHHHHhccccceeEEEEEEECCCcCHHHHHHHHhhccCcEEeecChHHHhhhhcccceE
Confidence 89877 7889988877542111111 23467776654 578999999999999998 4333333322110 012235
Q ss_pred EEEEEEEEEecccccCCCcEEEEEEEeCcchh
Q 013738 269 RHVTSFEISPCYISFEGNQLCAIKIRGSAFLW 300 (437)
Q Consensus 269 R~I~~~~I~~~~~~~~~~~~~~~~I~G~sFL~ 300 (437)
|.|+.+++... +...+.+.|.+.+=||
T Consensus 330 R~V~~l~~~~~-----~~~~~~~~i~~egGlY 356 (398)
T COG1258 330 RRVYELSLDLI-----DDRHAELEIEAEGGLY 356 (398)
T ss_pred EEEEEeeeeec-----cCceEEEEEEecccce
Confidence 78888888764 3456777777776444
No 56
>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=40.71 E-value=53 Score=25.29 Aligned_cols=30 Identities=23% Similarity=0.434 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013738 9 ISSLQSQLEALQNRVKELEADNAKLLSKLS 38 (437)
Q Consensus 9 ~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~ 38 (437)
+..|+..++.|......|..++..|+.++.
T Consensus 28 ~~~Le~~~~~L~~en~~L~~~~~~L~~~~~ 57 (64)
T PF00170_consen 28 IEELEEKVEELESENEELKKELEQLKKEIQ 57 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555555555555555555555554443
No 57
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=38.58 E-value=51 Score=26.90 Aligned_cols=25 Identities=24% Similarity=0.292 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 013738 11 SLQSQLEALQNRVKELEADNAKLLS 35 (437)
Q Consensus 11 ~~~~~~~~l~~~~~~l~~~~~~l~~ 35 (437)
.++..+..++.||.+||+.++.|..
T Consensus 54 ~q~~~L~~~r~kl~~LEarl~~LE~ 78 (79)
T PF04380_consen 54 AQKAVLARTREKLEALEARLAALEA 78 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4456666778888888888887754
No 58
>PF09340 NuA4: Histone acetyltransferase subunit NuA4; InterPro: IPR015418 The NuA4 histone acetyltransferase (HAT) multisubunit complex is responsible for acetylation of histone H4 and H2A N-terminal tails in yeast []. NuA4 complexes are highly conserved in eukaryotes and play primary roles in transcription, cellular response to DNA damage, and cell cycle control [].
Probab=38.45 E-value=43 Score=27.52 Aligned_cols=26 Identities=31% Similarity=0.336 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 14 SQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 14 ~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
.++.+|+++-++||.+++.|..++-.
T Consensus 2 ~~L~~l~~~k~~Le~~L~~lE~qIy~ 27 (80)
T PF09340_consen 2 KELKELLQKKKKLEKDLAALEKQIYD 27 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46778888999999999999888865
No 59
>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=37.86 E-value=60 Score=29.78 Aligned_cols=35 Identities=20% Similarity=0.380 Sum_probs=23.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 5 KQELISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 5 ~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
++|.+..+..++..|...+++|+.++..|.++|++
T Consensus 70 s~eel~~ld~ei~~L~~el~~l~~~~k~l~~eL~~ 104 (169)
T PF07106_consen 70 SPEELAELDAEIKELREELAELKKEVKSLEAELAS 104 (169)
T ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555566666777777777777777766666665
No 60
>PF14775 NYD-SP28_assoc: Sperm tail C-terminal domain
Probab=37.67 E-value=56 Score=25.41 Aligned_cols=26 Identities=31% Similarity=0.253 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 14 SQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 14 ~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
.+-.+|...+..|+++|+.|++.|.+
T Consensus 33 ~~R~~l~~e~~~L~~qN~eLr~lLkq 58 (60)
T PF14775_consen 33 LDRAALIQEKESLEQQNEELRSLLKQ 58 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45667888899999999999998865
No 61
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=37.47 E-value=58 Score=28.27 Aligned_cols=28 Identities=32% Similarity=0.525 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013738 9 ISSLQSQLEALQNRVKELEADNAKLLSK 36 (437)
Q Consensus 9 ~~~~~~~~~~l~~~~~~l~~~~~~l~~~ 36 (437)
+..+-.++++|...|.+|..||++|+-+
T Consensus 17 l~~l~~~~~~LK~~~~~l~EEN~~L~~E 44 (107)
T PF06156_consen 17 LGQLLEELEELKKQLQELLEENARLRIE 44 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455567777777888877776666543
No 62
>COG5011 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.40 E-value=86 Score=30.46 Aligned_cols=74 Identities=19% Similarity=0.297 Sum_probs=50.4
Q ss_pred HHHHHHHHhcccccc---C-CcceeeeeeccCCccccccCCEEEEEEcCCccccCCCCCCCCccchhhccccHHHHHHHH
Q 013738 120 SEIFKALEKTRLLVA---D-KKESHYSRCGRTDKGVSSVGQVIAIYLRSNIKECNTNNASMGETVQEEQIEDEIDYVRVL 195 (437)
Q Consensus 120 ~~L~~AL~k~~li~~---~-~~~~~~~ragRTDkGVhA~gQVvs~~~~s~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~L 195 (437)
--+.++..++|+=+. . ....+++.+.=---|+..-|-++-|++.... .+..+.+.|
T Consensus 23 RlidR~iRRAglpiayT~GFhP~prmsia~alpvG~~ssge~fd~eL~e~v--------------------~~dk~~etl 82 (228)
T COG5011 23 RLIDRTIRRAGLPIAYTGGFHPHPRMSIAQALPVGIYSSGEIFDFELTEEV--------------------SEDKFKETL 82 (228)
T ss_pred HHHHHHHHhcCCceeecCCCCCCCceeeccccccccccCceEEEEEeeeec--------------------CcHHHHHHH
Confidence 345667777776211 0 1234456666666788877878777764322 334789999
Q ss_pred hhcCCCCeeEeeeEEcCC
Q 013738 196 NRVLPKDIRVIGWSPAPT 213 (437)
Q Consensus 196 N~~LP~dIrV~~~~~V~~ 213 (437)
|..||+|+-+..+..++.
T Consensus 83 ~~~lp~Dl~~~~v~~iD~ 100 (228)
T COG5011 83 NKALPNDLPAYDVEKIDK 100 (228)
T ss_pred HHhCCCCcchhheeeecC
Confidence 999999999999998854
No 63
>KOG1655 consensus Protein involved in vacuolar protein sorting [Intracellular trafficking, secretion, and vesicular transport]
Probab=36.35 E-value=62 Score=31.27 Aligned_cols=36 Identities=19% Similarity=0.422 Sum_probs=31.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 013738 6 QELISSLQSQLEALQNRVKELEADNAKLLSKLSLCR 41 (437)
Q Consensus 6 ~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~ 41 (437)
++.|.++..-...+-.||+.|++|+.+++.|+++-|
T Consensus 18 ~dai~~v~~r~dSve~KIskLDaeL~k~~~Qi~k~R 53 (218)
T KOG1655|consen 18 QDAIDSVNKRSDSVEKKISKLDAELCKYKDQIKKTR 53 (218)
T ss_pred HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHhcC
Confidence 466777888888999999999999999999999843
No 64
>PF09849 DUF2076: Uncharacterized protein conserved in bacteria (DUF2076); InterPro: IPR018648 This family of hypothetical prokaryotic proteins has no known function but includes putative perimplasmic ligand-binding sensor proteins.
Probab=36.26 E-value=44 Score=33.27 Aligned_cols=27 Identities=26% Similarity=0.302 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013738 8 LISSLQSQLEALQNRVKELEADNAKLL 34 (437)
Q Consensus 8 ~~~~~~~~~~~l~~~~~~l~~~~~~l~ 34 (437)
+|..++.-++++..||+|||++++++.
T Consensus 49 ~vlvQE~AL~~a~~ri~eLe~ql~q~~ 75 (247)
T PF09849_consen 49 TVLVQEQALKQAQARIQELEAQLQQAQ 75 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 455677788999999999999998843
No 65
>COG1792 MreC Cell shape-determining protein [Cell envelope biogenesis, outer membrane]
Probab=35.94 E-value=59 Score=32.81 Aligned_cols=26 Identities=35% Similarity=0.534 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 14 SQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 14 ~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
.+.+++..+++.||+||++|++.|..
T Consensus 83 ~~~~~~~~~~~~l~~EN~~Lr~lL~~ 108 (284)
T COG1792 83 AELEQLLEEVESLEEENKRLKELLDF 108 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 45667788999999999999997754
No 66
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=35.92 E-value=52 Score=25.27 Aligned_cols=22 Identities=27% Similarity=0.526 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 013738 12 LQSQLEALQNRVKELEADNAKL 33 (437)
Q Consensus 12 ~~~~~~~l~~~~~~l~~~~~~l 33 (437)
++.+...+.++++++|+|+++|
T Consensus 46 ~r~~~~~~~k~l~~le~e~~~l 67 (68)
T PF06305_consen 46 LRRRIRRLRKELKKLEKELEQL 67 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 3444444555555555555443
No 67
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=35.86 E-value=29 Score=37.74 Aligned_cols=23 Identities=30% Similarity=0.582 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 013738 15 QLEALQNRVKELEADNAKLLSKL 37 (437)
Q Consensus 15 ~~~~l~~~~~~l~~~~~~l~~~~ 37 (437)
++|+|.++|+||+++++.|++++
T Consensus 32 kie~L~kql~~Lk~q~~~l~~~v 54 (489)
T PF11853_consen 32 KIEALKKQLEELKAQQDDLNDRV 54 (489)
T ss_pred HHHHHHHHHHHHHHhhccccccc
Confidence 44444444444444444444433
No 68
>PHA03162 hypothetical protein; Provisional
Probab=35.58 E-value=48 Score=29.97 Aligned_cols=27 Identities=26% Similarity=0.402 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 13 QSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 13 ~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
...+|+|-.+|+.|+-||..|+.++.+
T Consensus 12 ~~tmEeLaaeL~kLqmENK~LKkkl~~ 38 (135)
T PHA03162 12 QPTMEDLAAEIAKLQLENKALKKKIKE 38 (135)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345799999999999999999999965
No 69
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=35.31 E-value=61 Score=32.19 Aligned_cols=33 Identities=27% Similarity=0.315 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 013738 9 ISSLQSQLEALQNRVKELEADNAKLLSKLSLCR 41 (437)
Q Consensus 9 ~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~ 41 (437)
..-..+|-+-++.|+.|||+|+.++..+++.++
T Consensus 81 LpIVtsQRDRFR~Rn~ELE~elr~~~~~~~~L~ 113 (248)
T PF08172_consen 81 LPIVTSQRDRFRQRNAELEEELRKQQQTISSLR 113 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334567888999999999999999988887754
No 70
>PF11365 DUF3166: Protein of unknown function (DUF3166); InterPro: IPR021507 This eukaryotic family of proteins has no known function.
Probab=34.77 E-value=99 Score=26.49 Aligned_cols=30 Identities=27% Similarity=0.472 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhhhc
Q 013738 14 SQLEALQNRVKELEADNAKLLSKLSLCRCE 43 (437)
Q Consensus 14 ~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~ 43 (437)
.+.+-|++.+-+||.+|.+|..+|+.=.+.
T Consensus 15 EEa~LlRRkl~ele~eN~~l~~EL~kyk~~ 44 (96)
T PF11365_consen 15 EEAELLRRKLSELEDENKQLTEELNKYKSK 44 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 456678899999999999999999985543
No 71
>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues. HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].
Probab=33.88 E-value=47 Score=34.05 Aligned_cols=25 Identities=52% Similarity=0.646 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 15 QLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 15 ~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
.++.|..|++.||.||.+|+++.+.
T Consensus 161 ~le~Lq~Klk~LEeEN~~LR~Ea~~ 185 (306)
T PF04849_consen 161 QLEALQEKLKSLEEENEQLRSEASQ 185 (306)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
No 72
>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=33.71 E-value=43 Score=30.75 Aligned_cols=30 Identities=40% Similarity=0.511 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013738 9 ISSLQSQLEALQNRVKELEADNAKLLSKLS 38 (437)
Q Consensus 9 ~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~ 38 (437)
|..|+.++..|...++.|++|+..|.+.++
T Consensus 81 i~~L~~el~~l~~~~k~l~~eL~~L~~~~t 110 (169)
T PF07106_consen 81 IKELREELAELKKEVKSLEAELASLSSEPT 110 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 557777777777777777777766666553
No 73
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=33.61 E-value=55 Score=27.81 Aligned_cols=25 Identities=24% Similarity=0.278 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 15 QLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 15 ~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
-+-.|++||.+|++|+..|+++|+.
T Consensus 72 lvl~LLd~i~~Lr~el~~L~~~l~~ 96 (101)
T PRK10265 72 VALTLLDEIAHLKQENRLLRQRLSR 96 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567899999999999999998865
No 74
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=33.37 E-value=75 Score=27.82 Aligned_cols=27 Identities=30% Similarity=0.401 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013738 9 ISSLQSQLEALQNRVKELEADNAKLLS 35 (437)
Q Consensus 9 ~~~~~~~~~~l~~~~~~l~~~~~~l~~ 35 (437)
+..+-.++++|.+.|.+|..||+.|+-
T Consensus 17 l~~l~~el~~LK~~~~el~EEN~~L~i 43 (110)
T PRK13169 17 LGVLLKELGALKKQLAELLEENTALRL 43 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334455666667777776666666644
No 75
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=32.98 E-value=64 Score=35.00 Aligned_cols=34 Identities=18% Similarity=0.344 Sum_probs=28.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 6 QELISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 6 ~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
.+|+++|-.++.+|+.++++|+++|++|+++-+.
T Consensus 58 ~DTlrTlva~~k~~r~~~~~l~~~N~~l~~eN~~ 91 (472)
T TIGR03752 58 ADTLRTLVAEVKELRKRLAKLISENEALKAENER 91 (472)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4688999999999999999999888888875443
No 76
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=32.78 E-value=55 Score=25.60 Aligned_cols=25 Identities=32% Similarity=0.551 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 013738 9 ISSLQSQLEALQNRVKELEADNAKL 33 (437)
Q Consensus 9 ~~~~~~~~~~l~~~~~~l~~~~~~l 33 (437)
+..++.+++.|..+.++|++++++|
T Consensus 26 i~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 26 IAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4477777777888888888887777
No 77
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=32.55 E-value=75 Score=27.87 Aligned_cols=29 Identities=28% Similarity=0.539 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013738 8 LISSLQSQLEALQNRVKELEADNAKLLSK 36 (437)
Q Consensus 8 ~~~~~~~~~~~l~~~~~~l~~~~~~l~~~ 36 (437)
+.-+.+.++|.|+..|+|||+.|.+|..+
T Consensus 61 LmfAVREEVe~Lk~qI~eL~er~~~Le~E 89 (123)
T KOG4797|consen 61 LMFAVREEVEVLKEQIRELEERNSALERE 89 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33456889999999999999999999774
No 78
>PF11471 Sugarporin_N: Maltoporin periplasmic N-terminal extension; InterPro: IPR021570 This N-terminal domain is found in members of the sugar porin family 1.B.3 from TC, They are related to LamB - the well characterised maltoporin of Escherichia coli for which the three-dimensional structures with and without its substrate have been obtained by X-ray diffraction. The protein consists of an 18 beta-stranded beta-barrel in contrast to proteins of the general bacterial porin family (GBP) and the Rhodobacter PorCa Porin (RPP) family which consist of 16 beta-stranded beta-barrels. Although maltoporin contains a wider beta-barrel than the porins of the GBP and RPP families (1.B.1 from TC and 1.B.7 from TC), it exhibits a narrower channel, showing only 5% of the ionic conductance of the latter porins.
Probab=32.49 E-value=80 Score=24.62 Aligned_cols=29 Identities=17% Similarity=0.307 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 11 SLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 11 ~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
+++.-++.|-+|+++.|++.+..+.+++.
T Consensus 29 tiEqRLa~LE~rL~~ae~ra~~ae~~~~~ 57 (60)
T PF11471_consen 29 TIEQRLAALEQRLQAAEQRAQAAEARAKQ 57 (60)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556666666666666666666665543
No 79
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=31.43 E-value=73 Score=26.04 Aligned_cols=28 Identities=18% Similarity=0.205 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 12 LQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 12 ~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
.+.++++|..+.+.||+-++-|.++|..
T Consensus 40 d~~~L~~L~~~a~rm~eRI~tLE~ILda 67 (75)
T PF06667_consen 40 DEQRLQELYEQAERMEERIETLERILDA 67 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 4455666666666666666666666643
No 80
>PRK10884 SH3 domain-containing protein; Provisional
Probab=31.32 E-value=88 Score=30.23 Aligned_cols=29 Identities=21% Similarity=0.378 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 11 SLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 11 ~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
.++..++++.+.+.+|+.+|++|++++..
T Consensus 122 ~l~~~~~~~~~~~~~L~~~n~~L~~~l~~ 150 (206)
T PRK10884 122 EMQQKVAQSDSVINGLKEENQKLKNQLIV 150 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555566667788888888887765
No 81
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=30.94 E-value=75 Score=25.94 Aligned_cols=28 Identities=25% Similarity=0.194 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 12 LQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 12 ~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
...++++|.++.+.||+-++-|..+|..
T Consensus 40 d~~~L~~L~~~a~rm~eRI~tLE~ILd~ 67 (75)
T TIGR02976 40 DQALLQELYAKADRLEERIDTLERILDA 67 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 4455566666666666666666666543
No 82
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=30.59 E-value=55 Score=35.56 Aligned_cols=25 Identities=32% Similarity=0.383 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 013738 14 SQLEALQNRVKELEADNAKLLSKLS 38 (437)
Q Consensus 14 ~~~~~l~~~~~~l~~~~~~l~~~~~ 38 (437)
.+.+.+.++|++||.||++|++|+.
T Consensus 97 aq~~dle~KIkeLEaE~~~Lk~Ql~ 121 (475)
T PRK13729 97 KQRGDDQRRIEKLGQDNAALAEQVK 121 (475)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHH
Confidence 3344567888999999999999984
No 83
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=30.42 E-value=1.2e+02 Score=24.47 Aligned_cols=30 Identities=23% Similarity=0.428 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013738 7 ELISSLQSQLEALQNRVKELEADNAKLLSK 36 (437)
Q Consensus 7 ~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~ 36 (437)
|....|+..+.+++..|..|..||+.|+.+
T Consensus 4 E~l~~LE~ki~~aveti~~Lq~e~eeLke~ 33 (72)
T PF06005_consen 4 ELLEQLEEKIQQAVETIALLQMENEELKEK 33 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444556666666666666666555555553
No 84
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is 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: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=29.60 E-value=1.4e+02 Score=22.22 Aligned_cols=29 Identities=17% Similarity=0.289 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013738 7 ELISSLQSQLEALQNRVKELEADNAKLLS 35 (437)
Q Consensus 7 ~~~~~~~~~~~~l~~~~~~l~~~~~~l~~ 35 (437)
+.+..++.++..|.....+|+.+++.|+.
T Consensus 25 ~~~~~le~~~~~L~~en~~L~~~i~~L~~ 53 (54)
T PF07716_consen 25 QREEELEQEVQELEEENEQLRQEIAQLER 53 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34457777888888888888888887765
No 85
>PRK09458 pspB phage shock protein B; Provisional
Probab=29.58 E-value=83 Score=25.79 Aligned_cols=29 Identities=17% Similarity=0.208 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 11 SLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 11 ~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
..+.++++|..+.+.|++-++-|.++|..
T Consensus 39 ~d~~~L~~L~~~A~rm~~RI~tLE~ILDa 67 (75)
T PRK09458 39 EEQQRLAQLTEKAERMRERIQALEAILDA 67 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 34556677777777777777777777654
No 86
>PF03955 Adeno_PIX: Adenovirus hexon-associated protein (IX); InterPro: IPR005641 Hexon (IPR000736 from INTERPRO) is the major coat protein from adenovirus type 2. Hexon forms a homo-trimer, 240 copies of which are present in the capsid, organised so that 12 lie on each of the 20 facets of this structure. The central 9 hexons in a facet are cemented together by 12 copies of protein IX []. Protein IX is not neccessarily required for viral replication, but has been shown to affect several processes including DNA-packaging capacity, thermostability, and the transcriptional activity of several promoters. For more information see [].; GO: 0031423 hexon binding, 0044423 virion part; PDB: 3IYN_T.
Probab=29.57 E-value=52 Score=28.83 Aligned_cols=34 Identities=26% Similarity=0.300 Sum_probs=24.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 6 QELISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 6 ~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
.+.+..+..++.++.++++.|.++++.|+.+|..
T Consensus 75 ~~~~~~l~~~~~~~~~~l~~l~a~Le~l~~~L~~ 108 (109)
T PF03955_consen 75 VGSYSELKANLTALEDKLTALLAQLEALKQQLAE 108 (109)
T ss_dssp ----SSTTSTHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3444556677788899999999999999988864
No 87
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=29.41 E-value=70 Score=32.58 Aligned_cols=28 Identities=29% Similarity=0.305 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 12 LQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 12 ~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
.+.+-|+|..-++.||++|++|+.|++.
T Consensus 246 kRae~E~l~ge~~~Le~rN~~LK~qa~~ 273 (294)
T KOG4571|consen 246 KRAEKEALLGELEGLEKRNEELKDQASE 273 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567788888888899999999888876
No 88
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=28.96 E-value=97 Score=30.92 Aligned_cols=32 Identities=28% Similarity=0.408 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 8 LISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 8 ~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
....|-.-++.-+.||..||++|.+|..++..
T Consensus 5 eL~~LNdRla~YIekVr~LE~~N~~Le~~i~~ 36 (312)
T PF00038_consen 5 ELQSLNDRLASYIEKVRFLEQENKRLESEIEE 36 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHH
Confidence 44578888999999999999999999999886
No 89
>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP. The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.
Probab=28.32 E-value=1.5e+02 Score=22.92 Aligned_cols=31 Identities=26% Similarity=0.445 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 9 ISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 9 ~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
+-.|.+++-.|..+|.+|..++.-|+..+..
T Consensus 5 id~Ls~dVq~L~~kvdqLs~dv~~lr~~v~~ 35 (56)
T PF04728_consen 5 IDQLSSDVQTLNSKVDQLSSDVNALRADVQA 35 (56)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456677777777777777777777766543
No 90
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=28.30 E-value=84 Score=31.05 Aligned_cols=29 Identities=34% Similarity=0.550 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 11 SLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 11 ~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
.++++.++++.|++.||.||.+|...+..
T Consensus 160 ele~e~ee~~erlk~le~E~s~LeE~~~~ 188 (290)
T COG4026 160 ELEAEYEEVQERLKRLEVENSRLEEMLKK 188 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34566667777777777777777665543
No 91
>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=28.28 E-value=69 Score=26.56 Aligned_cols=24 Identities=25% Similarity=0.432 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 16 LEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 16 ~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
++.|..++++|+++..+|.+++++
T Consensus 2 ~~~l~~~~~~L~~~~~~l~~~i~~ 25 (83)
T PF07061_consen 2 IESLEAEIQELKEQIEQLEKEISE 25 (83)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555555555555555555544
No 92
>PF04999 FtsL: Cell division protein FtsL; InterPro: IPR007082 In Escherichia coli, nine gene products are known to be essential for assembly of the division septum. One of these, FtsL, is a bitopic membrane protein whose precise function is not understood. It has been proposed that FtsL interacts with the DivIC protein IPR007060 from INTERPRO [], however this interaction may be indirect [].; GO: 0007049 cell cycle, 0016021 integral to membrane
Probab=28.26 E-value=1.2e+02 Score=25.16 Aligned_cols=30 Identities=20% Similarity=0.416 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 10 SSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 10 ~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
..+..+++.+.+...+|+.|+.+|+-+++.
T Consensus 38 ~~~~~~l~~l~~~~~~l~~e~~~L~lE~~~ 67 (97)
T PF04999_consen 38 RQLFYELQQLEKEIDQLQEENERLRLEIAT 67 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456678889999999999999999887765
No 93
>COG5509 Uncharacterized small protein containing a coiled-coil domain [Function unknown]
Probab=28.16 E-value=95 Score=24.46 Aligned_cols=26 Identities=23% Similarity=0.373 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 14 SQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 14 ~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
..+.+|-.||--|.+|.+||+.++..
T Consensus 25 lsV~El~eRIalLq~EIeRlkAe~~k 50 (65)
T COG5509 25 LSVAELEERIALLQAEIERLKAELAK 50 (65)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 46788999999999999999998865
No 94
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=27.84 E-value=59 Score=35.46 Aligned_cols=25 Identities=16% Similarity=0.304 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 14 SQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 14 ~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
.+++.|+ +|++|++|+++|++|+..
T Consensus 25 ~~~~~~q-kie~L~kql~~Lk~q~~~ 49 (489)
T PF11853_consen 25 DDIDLLQ-KIEALKKQLEELKAQQDD 49 (489)
T ss_pred hhhHHHH-HHHHHHHHHHHHHHhhcc
Confidence 4444445 999999999999998773
No 95
>COG2919 Septum formation initiator [Cell division and chromosome partitioning]
Probab=27.51 E-value=84 Score=27.44 Aligned_cols=28 Identities=36% Similarity=0.419 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013738 9 ISSLQSQLEALQNRVKELEADNAKLLSK 36 (437)
Q Consensus 9 ~~~~~~~~~~l~~~~~~l~~~~~~l~~~ 36 (437)
+..+..+.+.|.++...||+|+..|++.
T Consensus 59 i~~~~~e~~~L~~~~~~l~~ei~~L~dg 86 (117)
T COG2919 59 IAAQQAELEKLSARNTALEAEIKDLKDG 86 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 3355566666666666666666666554
No 96
>PF12709 Kinetocho_Slk19: Central kinetochore-associated; InterPro: IPR024312 This is a family of proteins integrally involved in the central kinetochore. Slk19 is a yeast member and it may play an important role in the timing of nuclear migration. It may also participate, directly or indirectly, in the maintenance of centromeric tensile strength during mitotic stagnation, for instance during activation of checkpoint controls, when cells need to preserve nuclear integrity until cell cycle progression can be resumed [].
Probab=26.96 E-value=1.1e+02 Score=25.82 Aligned_cols=28 Identities=29% Similarity=0.465 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 12 LQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 12 ~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
-+..+..|...++.|..||++|+.++..
T Consensus 47 wek~v~~L~~e~~~l~~E~e~L~~~l~~ 74 (87)
T PF12709_consen 47 WEKKVDELENENKALKRENEQLKKKLDT 74 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567888888899999999999998876
No 97
>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=26.92 E-value=1.5e+02 Score=21.82 Aligned_cols=29 Identities=21% Similarity=0.400 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 11 SLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 11 ~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
.|...-+.|...-..|..||++|++++..
T Consensus 9 ~LK~~yd~Lk~~~~~L~~E~~~L~aev~~ 37 (45)
T PF02183_consen 9 ALKASYDSLKAEYDSLKKENEKLRAEVQE 37 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666666666666777777777666554
No 98
>PTZ00464 SNF-7-like protein; Provisional
Probab=26.91 E-value=1.2e+02 Score=29.43 Aligned_cols=34 Identities=15% Similarity=0.328 Sum_probs=26.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 6 QELISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 6 ~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
.+++..++...+.|..||+.|+.|+++.+.++.+
T Consensus 17 ~d~~~~l~~r~~~l~kKi~~ld~E~~~ak~~~k~ 50 (211)
T PTZ00464 17 EDASKRIGGRSEVVDARINKIDAELMKLKEQIQR 50 (211)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4667778888888888888888888888777765
No 99
>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=26.81 E-value=1.3e+02 Score=23.69 Aligned_cols=33 Identities=18% Similarity=0.245 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 7 ELISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 7 ~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
++|..|...+....+.|..|+.++..|.+++..
T Consensus 18 ~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~ 50 (69)
T PF04102_consen 18 DTIEELNDVVTEQQRQIDRLQRQLRLLRERLRE 50 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHT---
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455566666667777888888888888887765
No 100
>PF01486 K-box: K-box region; InterPro: IPR002487 MADS genes in plants encode key developmental regulators of vegetative and reproductive development. The majority of the plant MADS proteins share a stereotypical MIKC structure. It comprises (from N- to C-terminal) an N-terminal domain, which is, however, present only in a minority of proteins; a MADS domain (see PDOC00302 from PROSITEDOC, IPR002100 from INTERPRO), which is the major determinant of DNA-binding but which also performs dimerisation and accessory factor binding functions; a weakly conserved intervening (I) domain, which constitutes a key molecular determinant for the selective formation of DNA-binding dimers; a keratin-like (K-box) domain, which promotes protein dimerisation; and a C-terminal (C) domain, which is involved in transcriptional activation or in the formation of ternary or quaternary protein complexes. The 80-amino acid K-box domain was originally identified as a region with low but significant similarity to a region of keratin, which is part of the coiled-coil sequence constituting the central rod-shaped domain of keratin [, , ]. The K-box protein-protein interaction domain which mediates heterodimerization of MIKC-type MADS proteins contains several heptad repeats in which the first and the fourth positions are occupied by hydrophobic amino acids suggesting that the K-box domain forms three amphipathic alpha-helices referred to as K1, K2, and K3 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=26.67 E-value=1e+02 Score=25.90 Aligned_cols=27 Identities=37% Similarity=0.608 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013738 12 LQSQLEALQNRVKELEADNAKLLSKLS 38 (437)
Q Consensus 12 ~~~~~~~l~~~~~~l~~~~~~l~~~~~ 38 (437)
+..+++.|..++..|+.+|..|..++.
T Consensus 73 l~~~i~~l~~ke~~l~~en~~L~~~~~ 99 (100)
T PF01486_consen 73 LMEQIEELKKKERELEEENNQLRQKIE 99 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 457788889999999999999988764
No 101
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=26.22 E-value=1.1e+02 Score=26.34 Aligned_cols=28 Identities=21% Similarity=0.197 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013738 8 LISSLQSQLEALQNRVKELEADNAKLLS 35 (437)
Q Consensus 8 ~~~~~~~~~~~l~~~~~~l~~~~~~l~~ 35 (437)
-+..++.+.++|.++.++|+.|+++|++
T Consensus 35 q~~~~~~e~~~l~~~n~~L~~eI~~L~~ 62 (105)
T PRK00888 35 QVAAQQQTNAKLKARNDQLFAEIDDLKG 62 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 3446777788888888888888888876
No 102
>PF08702 Fib_alpha: Fibrinogen alpha/beta chain family; InterPro: IPR012290 Fibrinogen plays key roles in both blood clotting and platelet aggregation. During blood clot formation, the conversion of soluble fibrinogen to insoluble fibrin is triggered by thrombin, resulting in the polymerisation of fibrin, which forms a soft clot; this is then converted to a hard clot by factor XIIIA, which cross-links fibrin molecules. Platelet aggregation involves the binding of the platelet protein receptor integrin alpha(IIb)-beta(3) to the C-terminal D domain of fibrinogen []. In addition to platelet aggregation, platelet-fibrinogen interaction mediates both adhesion and fibrin clot retraction. Fibrinogen occurs as a dimer, where each monomer is composed of three non-identical chains, alpha, beta and gamma, linked together by several disulphide bonds []. The N-terminals of all six chains come together to form the centre of the molecule (E domain), from which the monomers extend in opposite directions as coiled coils, followed by C-terminal globular domains (D domains). Therefore, the domain composition is: D-coil-E-coil-D. At each end, the C-terminal of the alpha chain extends beyond the D domain as a protuberance that is important for cross-linking the molecule. During clot formation, the N-terminal fragments of the alpha and beta chains (within the E domain) in fibrinogen are cleaved by thrombin, releasing fibrinopeptides A and B, respectively, and producing fibrin. This cleavage results in the exposure of four binding sites on the E domain, each of which can bind to a D domain from different fibrin molecules. The binding of fibrin molecules produces a polymer consisting of a lattice network of fibrins that form a long, branching, flexible fibre [, ]. Fibrin fibres interact with platelets to increase the size of the clot, as well as with several different proteins and cells, thereby promoting the inflammatory response and concentrating the cells required for wound repair at the site of damage. This entry represents the coiled-coil domain and part of the N-terminal E domain found in all three fibrinogen polypeptides, namely the alpha, beta and gamma chains. More information about these proteins can be found at Protein of the Month: Fibrinogen [].; GO: 0005102 receptor binding, 0030674 protein binding, bridging, 0007165 signal transduction, 0030168 platelet activation, 0051258 protein polymerization, 0005577 fibrinogen complex; PDB: 1LWU_D 1N73_D 1M1J_B 1JY2_R 1JY3_R 1RF0_A 2H43_D 1RE4_D 2XNY_D 2HPC_D ....
Probab=25.50 E-value=1.3e+02 Score=27.42 Aligned_cols=29 Identities=24% Similarity=0.277 Sum_probs=18.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 013738 6 QELISSLQSQLEALQNRVKELEADNAKLL 34 (437)
Q Consensus 6 ~~~~~~~~~~~~~l~~~~~~l~~~~~~l~ 34 (437)
+..|..|++.++.+..+++.||..+..+.
T Consensus 103 ~~~I~~Lq~~~~~~~~ki~~Le~~i~~~~ 131 (146)
T PF08702_consen 103 PSNIRVLQNILRSNRQKIQRLEQDIDQQE 131 (146)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456666666666777777776666553
No 103
>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=25.22 E-value=2.1e+02 Score=22.43 Aligned_cols=28 Identities=25% Similarity=0.483 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013738 11 SLQSQLEALQNRVKELEADNAKLLSKLS 38 (437)
Q Consensus 11 ~~~~~~~~l~~~~~~l~~~~~~l~~~~~ 38 (437)
+....+..-..|.++|++++.+|+.++.
T Consensus 29 ~~e~kLqeaE~rn~eL~~ei~~L~~e~e 56 (61)
T PF08826_consen 29 AFESKLQEAEKRNRELEQEIERLKKEME 56 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444555566666666666666554
No 104
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=24.83 E-value=1.2e+02 Score=30.03 Aligned_cols=19 Identities=16% Similarity=0.202 Sum_probs=13.1
Q ss_pred HHHhhcCCCCeeEeeeEEc
Q 013738 193 RVLNRVLPKDIRVIGWSPA 211 (437)
Q Consensus 193 ~~LN~~LP~dIrV~~~~~V 211 (437)
..+....|++|.|=-+..|
T Consensus 224 SGl~g~fP~Gi~VG~V~~v 242 (276)
T PRK13922 224 SGLGGIFPAGLPVGKVTSV 242 (276)
T ss_pred CCCCCcCCCCCEEEEEEEE
Confidence 3455667888877777766
No 105
>COG2960 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.71 E-value=96 Score=26.83 Aligned_cols=21 Identities=43% Similarity=0.559 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 013738 11 SLQSQLEALQNRVKELEADNA 31 (437)
Q Consensus 11 ~~~~~~~~l~~~~~~l~~~~~ 31 (437)
.-+..++.|.+||.+||+.+.
T Consensus 70 rtR~kl~~Leari~~LEarl~ 90 (103)
T COG2960 70 RTREKLAALEARIEELEARLA 90 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHhc
Confidence 344555555556655555443
No 106
>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]
Probab=24.58 E-value=1.3e+02 Score=30.35 Aligned_cols=37 Identities=32% Similarity=0.522 Sum_probs=30.3
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 3 EAKQELISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 3 ~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
+|..|.-..|++++.+|..|.+.||.+|++|+-.+..
T Consensus 41 egSrE~EaelesqL~q~etrnrdl~t~nqrl~~E~e~ 77 (333)
T KOG1853|consen 41 EGSREIEAELESQLDQLETRNRDLETRNQRLTTEQER 77 (333)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556667788999999999999999999999876543
No 107
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=24.17 E-value=1.5e+02 Score=26.95 Aligned_cols=29 Identities=24% Similarity=0.359 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 11 SLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 11 ~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
.+..++..|..|++.||.++.++..+++.
T Consensus 32 ~~E~EI~sL~~K~~~lE~eld~~~~~l~~ 60 (143)
T PF12718_consen 32 QKEQEITSLQKKNQQLEEELDKLEEQLKE 60 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56678888999999999999999988876
No 108
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.17 E-value=1.4e+02 Score=24.22 Aligned_cols=15 Identities=27% Similarity=0.419 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHhh
Q 013738 24 KELEADNAKLLSKLS 38 (437)
Q Consensus 24 ~~l~~~~~~l~~~~~ 38 (437)
..|+.||++|+++.+
T Consensus 49 eaL~~eneqlk~e~~ 63 (79)
T COG3074 49 EALERENEQLKEEQN 63 (79)
T ss_pred HHHHHHHHHHHHHHH
Confidence 355666666665543
No 109
>PRK14127 cell division protein GpsB; Provisional
Probab=24.16 E-value=1.7e+02 Score=25.62 Aligned_cols=26 Identities=31% Similarity=0.538 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 14 SQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 14 ~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
...+.|...+.+|+.+|.+|+.++..
T Consensus 37 ~dye~l~~e~~~Lk~e~~~l~~~l~e 62 (109)
T PRK14127 37 KDYEAFQKEIEELQQENARLKAQVDE 62 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566777777777777777777665
No 110
>PF03357 Snf7: Snf7; InterPro: IPR005024 This is a family of eukaryotic proteins which are variously described as either hypothetical protein, developmental protein or related to yeast SNF7. The family contains human CHMP1. CHMP1 (CHromatin Modifying Protein; CHarged Multivesicular body Protein), is encoded by an alternative open reading frame in the PRSM1 gene [] and is conserved in both complex and simple eukaryotes. CHMP1 contains a predicted bipartite nuclear localisation signal and distributes as distinct forms to the cytoplasm and the nuclear matrix in all cell lines tested. Human CHMP1 is strongly implicated in multivesicular body formation. A multivesicular body is a vesicle-filled endosome that targets proteins to the interior of lysosomes. Immunocytochemistry and biochemical fractionation localise CHMP1 to early endosomes and CHMP1 physically interacts with SKD1/VPS4, a highly conserved protein directly linked to multivesicular body sorting in yeast. Similar to the action of a mutant SKD1 protein, over expression of a fusion derivative of human CHMP1 dilates endosomal compartments and disrupts the normal distribution of several endosomal markers. Genetic studies in Saccharomyces cerevisiae (Baker's yeast) further support a conserved role of CHMP1 in vesicle trafficking. Deletion of CHM1, the budding yeast homologue of CHMP1, results in defective sorting of carboxypeptidases S and Y and produces abnormal, multi-lamellar prevacuolar compartments. This phenotype classifies CHM1 as a member of the class E vacuolar protein sorting genes []. ; GO: 0015031 protein transport; PDB: 2V6X_B 2W2U_D 2GD5_D 3FRT_B 3FRV_A 4ABM_D 3EAB_H 3HTU_D.
Probab=24.10 E-value=1.2e+02 Score=27.08 Aligned_cols=33 Identities=30% Similarity=0.368 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 7 ELISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 7 ~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
|++..++.....|.++++.||.+..++..++..
T Consensus 1 eai~~Lk~~~~~L~~~~~~le~~i~~~~~~~k~ 33 (171)
T PF03357_consen 1 EAILKLKKTIRRLEKQIKRLEKKIKKLEKKAKK 33 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678889999999999999999999999888876
No 111
>TIGR00219 mreC rod shape-determining protein MreC. MreC (murein formation C) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped. Cells defective in MreC are round. Species with MreC include many of the Proteobacteria, Gram-positives, and spirochetes.
Probab=23.85 E-value=1.3e+02 Score=30.33 Aligned_cols=20 Identities=10% Similarity=0.016 Sum_probs=13.1
Q ss_pred HHHhhcCCCCeeEeeeEEcC
Q 013738 193 RVLNRVLPKDIRVIGWSPAP 212 (437)
Q Consensus 193 ~~LN~~LP~dIrV~~~~~V~ 212 (437)
..+....|++|.|=-+..|.
T Consensus 225 SGlgg~fP~Gl~VG~V~~v~ 244 (283)
T TIGR00219 225 SGLGGRFPEGYPIGVVTSVH 244 (283)
T ss_pred CCCCCcCCCCCEEEEEEEEE
Confidence 34556677777777666663
No 112
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=23.37 E-value=1.9e+02 Score=24.77 Aligned_cols=35 Identities=34% Similarity=0.471 Sum_probs=28.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 5 KQELISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 5 ~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
..|++..+...++.+-.+|+.||.....|..++.+
T Consensus 65 ~~e~~~~l~~r~e~ie~~i~~lek~~~~l~~~l~e 99 (110)
T TIGR02338 65 KEEAIQELKEKKETLELRVKTLQRQEERLREQLKE 99 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35667778888888888888888888888888776
No 113
>PF10506 MCC-bdg_PDZ: PDZ domain of MCC-2 bdg protein for Usher syndrome; InterPro: IPR019536 The entry represents a protein that has a high homology to the tumour suppressor Usher syndrome type-1C protein-binding protein 1, or known as MCC2 (mutated in colon cancer). MCC2 protein binds the first PDZ domain of AIE-75 with its C-terminal amino acids -DTFL. A possible role of MCC2 as a tumour suppressor has been put forward. The carboxyl terminus of the predicted protein was DTFL which matched the consensus motif X-S/T-X-phi (phi: hydrophobic amino acid residue) for binding to the PDZ domain of AIE-75 [, ].
Probab=23.14 E-value=87 Score=25.08 Aligned_cols=27 Identities=33% Similarity=0.450 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhc
Q 013738 17 EALQNRVKELEADNAKLLSKLSLCRCE 43 (437)
Q Consensus 17 ~~l~~~~~~l~~~~~~l~~~~~~~~~~ 43 (437)
+.|..||++|...|+.|..-+..|+..
T Consensus 1 erL~~~ie~L~~~n~~L~~~le~~k~~ 27 (67)
T PF10506_consen 1 ERLKRRIEELKSQNEMLSSTLEERKQQ 27 (67)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 468889999999999998887776544
No 114
>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=22.63 E-value=1.7e+02 Score=21.42 Aligned_cols=29 Identities=28% Similarity=0.455 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 013738 10 SSLQSQLEALQNRVKELEADNAKLLSKLS 38 (437)
Q Consensus 10 ~~~~~~~~~l~~~~~~l~~~~~~l~~~~~ 38 (437)
.+|.++-+.|..-.++|-+++..|+..+.
T Consensus 15 d~Lk~~~~~L~~E~~~L~aev~~L~~kl~ 43 (45)
T PF02183_consen 15 DSLKAEYDSLKKENEKLRAEVQELKEKLQ 43 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 36778888888889999999999888765
No 115
>PF15372 DUF4600: Domain of unknown function (DUF4600)
Probab=22.47 E-value=1.1e+02 Score=27.67 Aligned_cols=30 Identities=23% Similarity=0.317 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhhhc
Q 013738 14 SQLEALQNRVKELEADNAKLLSKLSLCRCE 43 (437)
Q Consensus 14 ~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~ 43 (437)
...+.|...|++||.|-..|.+|+..|.+.
T Consensus 51 Ms~~~l~~llkqLEkeK~~Le~qlk~~e~r 80 (129)
T PF15372_consen 51 MSVESLNQLLKQLEKEKRSLENQLKDYEWR 80 (129)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466889999999999999999999887654
No 116
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=22.30 E-value=2e+02 Score=24.22 Aligned_cols=35 Identities=34% Similarity=0.490 Sum_probs=24.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 5 KQELISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 5 ~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
..|++..+...++.|-.+|+.|+.+...|.++++.
T Consensus 61 ~~ea~~~Le~~~e~le~~i~~l~~~~~~l~~~~~e 95 (105)
T cd00632 61 KEEARTELKERLETIELRIKRLERQEEDLQEKLKE 95 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566677777777777777777777777776665
No 117
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=22.27 E-value=1.8e+02 Score=24.19 Aligned_cols=23 Identities=26% Similarity=0.476 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 013738 15 QLEALQNRVKELEADNAKLLSKL 37 (437)
Q Consensus 15 ~~~~l~~~~~~l~~~~~~l~~~~ 37 (437)
.+.+|.+++++||++.+.+..++
T Consensus 71 ~~~~l~~~l~~l~~~~~~~~~~~ 93 (104)
T PF13600_consen 71 ELKELEEELEALEDELAALQDEI 93 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445555555555555554443
No 118
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=22.12 E-value=1.3e+02 Score=25.29 Aligned_cols=27 Identities=11% Similarity=0.224 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 13 QSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 13 ~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
--++..+..++..|.+||++|+.+...
T Consensus 22 ~~k~~ka~~~~~kL~~en~qlk~Ek~~ 48 (87)
T PF10883_consen 22 WWKVKKAKKQNAKLQKENEQLKTEKAV 48 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356777788888888888888876543
No 119
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=22.12 E-value=1.9e+02 Score=25.27 Aligned_cols=33 Identities=27% Similarity=0.358 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 7 ELISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 7 ~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
+.+..|..++..|+..-.+|+-||+.|+..++.
T Consensus 22 ~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~ 54 (110)
T PRK13169 22 KELGALKKQLAELLEENTALRLENDKLRERLEE 54 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345678888999999999999999999998885
No 120
>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=22.12 E-value=1.3e+02 Score=35.43 Aligned_cols=33 Identities=42% Similarity=0.508 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 7 ELISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 7 ~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
|-+-+|+.++|.|..||.|||-+++=|++++.+
T Consensus 325 ERaesLQ~eve~lkEr~deletdlEILKaEmee 357 (1243)
T KOG0971|consen 325 ERAESLQQEVEALKERVDELETDLEILKAEMEE 357 (1243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 456688999999999999999999999998876
No 121
>cd04785 HTH_CadR-PbrR-like Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators. Helix-turn-helix (HTH) CadR- and PbrR-like transcription regulators. CadR and PbrR regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which comprise a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=21.91 E-value=2e+02 Score=25.05 Aligned_cols=35 Identities=17% Similarity=0.284 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhc
Q 013738 9 ISSLQSQLEALQNRVKELEADNAKLLSKLSLCRCE 43 (437)
Q Consensus 9 ~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~ 43 (437)
..-+..+.+.|..++++|++-...|...+..|.+.
T Consensus 81 ~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~~~ 115 (126)
T cd04785 81 DAIARAHLADVRARIADLRRLEAELKRMVAACSGG 115 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCC
Confidence 33456677777777777777777777777776543
No 122
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=21.90 E-value=1.2e+02 Score=32.36 Aligned_cols=31 Identities=26% Similarity=0.369 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 9 ISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 9 ~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
+.++..+..+|..++++||++...+.+++..
T Consensus 71 ~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~ 101 (418)
T TIGR00414 71 IEEIKKELKELKEELTELSAALKALEAELQD 101 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4466667777888888888888888777654
No 123
>PF04340 DUF484: Protein of unknown function, DUF484; InterPro: IPR007435 This family consists of several proteins of uncharacterised function.; PDB: 3E98_B.
Probab=21.01 E-value=1.7e+02 Score=28.03 Aligned_cols=34 Identities=26% Similarity=0.362 Sum_probs=27.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 6 QELISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 6 ~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
+.+|+=.+-|++.|+.|+++||.+++.|-.....
T Consensus 39 ~~avSL~erQ~~~LR~~~~~L~~~l~~Li~~Ar~ 72 (225)
T PF04340_consen 39 GGAVSLVERQLERLRERNRQLEEQLEELIENARE 72 (225)
T ss_dssp --HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3467666789999999999999999999876544
No 124
>PRK14127 cell division protein GpsB; Provisional
Probab=20.86 E-value=2e+02 Score=25.21 Aligned_cols=29 Identities=28% Similarity=0.425 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 11 SLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 11 ~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
.+..+...|..++..|+++++.++++++.
T Consensus 41 ~l~~e~~~Lk~e~~~l~~~l~e~~~~~~~ 69 (109)
T PRK14127 41 AFQKEIEELQQENARLKAQVDELTKQVSV 69 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 45677888888888888888888888774
No 125
>PHA01750 hypothetical protein
Probab=20.85 E-value=2.3e+02 Score=22.83 Aligned_cols=27 Identities=26% Similarity=0.436 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 013738 11 SLQSQLEALQNRVKELEADNAKLLSKL 37 (437)
Q Consensus 11 ~~~~~~~~l~~~~~~l~~~~~~l~~~~ 37 (437)
.|+.+++++..|..+|++++..++..+
T Consensus 46 NL~~ei~~~kikqDnl~~qv~eik~k~ 72 (75)
T PHA01750 46 NLKTEIEELKIKQDELSRQVEEIKRKL 72 (75)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHhh
Confidence 566666677667777777766666543
No 126
>PF12017 Tnp_P_element: Transposase protein; InterPro: IPR021896 Protein in this family are transposases found in insects. This region is about 230 amino acids in length and is found associated with PF05485 from PFAM.
Probab=20.63 E-value=1.5e+02 Score=29.36 Aligned_cols=30 Identities=27% Similarity=0.410 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 10 SSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 10 ~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
.++..+.+.|..++++||.++.+|+.++..
T Consensus 14 ~~~~~e~~~Lk~kir~le~~l~~Lk~~l~~ 43 (236)
T PF12017_consen 14 RTLKIENKKLKKKIRRLEKELKKLKQKLEK 43 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346678899999999999999999998876
No 127
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=20.47 E-value=1.6e+02 Score=33.01 Aligned_cols=33 Identities=27% Similarity=0.378 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 7 ELISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 7 ~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
+++-.|+.+...|...|.||++++.+|+++++.
T Consensus 429 ~~ve~l~~e~~~L~~~~ee~k~eie~L~~~l~~ 461 (652)
T COG2433 429 ETVERLEEENSELKRELEELKREIEKLESELER 461 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555566666666666666666666666654
No 128
>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=20.37 E-value=1.9e+02 Score=21.61 Aligned_cols=20 Identities=35% Similarity=0.630 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 013738 9 ISSLQSQLEALQNRVKELEA 28 (437)
Q Consensus 9 ~~~~~~~~~~l~~~~~~l~~ 28 (437)
+.+|...++++.+|++.||.
T Consensus 25 lq~Lt~kL~~vs~RLe~LEn 44 (47)
T PF10393_consen 25 LQSLTQKLDAVSKRLEALEN 44 (47)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 33455555555566655554
No 129
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=20.26 E-value=1.8e+02 Score=22.58 Aligned_cols=27 Identities=30% Similarity=0.481 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 13 QSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 13 ~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
..+++.|...+..|+.+++++...|++
T Consensus 3 ~~E~~rL~Kel~kl~~~i~~~~~kL~n 29 (66)
T PF10458_consen 3 EAEIERLEKELEKLEKEIERLEKKLSN 29 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 456788888999999999999998887
No 130
>PRK09343 prefoldin subunit beta; Provisional
Probab=20.25 E-value=2.4e+02 Score=24.78 Aligned_cols=35 Identities=31% Similarity=0.369 Sum_probs=29.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 5 KQELISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 5 ~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
..|+...+...++.+..+|+.||.....|..++.+
T Consensus 69 ~~e~~~~l~~r~E~ie~~ik~lekq~~~l~~~l~e 103 (121)
T PRK09343 69 KTKVEKELKERKELLELRSRTLEKQEKKLREKLKE 103 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677788888888889999999998888888876
No 131
>PF11500 Cut12: Spindle pole body formation-associated protein; InterPro: IPR021589 This is the central coiled-coil region of cut12 also found in other fungi, barring S. cerevisiae. The full protein has two predicted coiled-coil regions, and one consensus phosphorylation site for p34cdc2 and two for MAP kinase. During Schizosaccharomyces japonicus yFS275 mitosis, the duplicated spindle pole bodies (SPBs) nucleate microtubule arrays that interdigitate to form the mitotic spindle. Cut12 is localised to the SPB throughout the cell cycle, predominantly around the inner face of the interphase SPB, adjacent to the nucleus []. Cut12 associates with Fin1 and is important in this context for the activity of Plo1 [].
Probab=20.22 E-value=2.1e+02 Score=26.55 Aligned_cols=34 Identities=26% Similarity=0.392 Sum_probs=27.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 5 KQELISSLQSQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 5 ~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
|.|++ .|...+..-..||.++|.++.+|.+++..
T Consensus 104 D~Ea~-~L~~KLkeEq~kv~~ME~~v~elas~m~~ 137 (152)
T PF11500_consen 104 DAEAM-RLAEKLKEEQEKVAEMERHVTELASQMAS 137 (152)
T ss_pred HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444 77777888889999999999999998876
No 132
>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.
Probab=20.10 E-value=2.1e+02 Score=23.00 Aligned_cols=26 Identities=31% Similarity=0.450 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhh
Q 013738 14 SQLEALQNRVKELEADNAKLLSKLSL 39 (437)
Q Consensus 14 ~~~~~l~~~~~~l~~~~~~l~~~~~~ 39 (437)
+.+-.|+..++++|.++..|+.++..
T Consensus 33 ~~IKKLr~~~~e~e~~~~~l~~~~~~ 58 (74)
T PF12329_consen 33 NTIKKLRAKIKELEKQIKELKKKLEE 58 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455566666666666666666554
Done!