Query 009343
Match_columns 537
No_of_seqs 126 out of 187
Neff 2.6
Searched_HMMs 46136
Date Thu Mar 28 11:57:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009343.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009343hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1142 Transcription initiati 100.0 4.9E-54 1.1E-58 417.6 13.3 231 268-505 25-258 (258)
2 PF03847 TFIID_20kDa: Transcri 100.0 3.5E-30 7.5E-35 208.3 7.0 68 403-470 1-68 (68)
3 COG5624 TAF61 Transcription in 100.0 6.2E-30 1.3E-34 262.2 3.3 115 386-501 369-485 (505)
4 cd07981 TAF12 TATA Binding Pro 99.9 1.6E-25 3.5E-30 180.7 9.0 72 401-472 1-72 (72)
5 PLN00035 histone H4; Provision 98.8 2.8E-08 6.1E-13 87.4 9.0 74 402-477 30-103 (103)
6 cd00076 H4 Histone H4, one of 98.7 5.7E-08 1.2E-12 82.7 8.5 74 400-475 12-85 (85)
7 PTZ00015 histone H4; Provision 98.7 7E-08 1.5E-12 84.7 9.0 76 398-475 27-102 (102)
8 COG2036 HHT1 Histones H3 and H 98.5 1.5E-07 3.3E-12 81.2 6.1 71 396-467 14-84 (91)
9 PF00125 Histone: Core histone 98.3 1.1E-06 2.3E-11 69.9 5.5 68 399-466 3-74 (75)
10 smart00803 TAF TATA box bindin 98.3 3.9E-06 8.5E-11 67.9 7.9 64 401-465 2-65 (65)
11 cd07979 TAF9 TATA Binding Prot 98.2 6.9E-06 1.5E-10 72.8 8.2 67 405-472 5-71 (117)
12 smart00417 H4 Histone H4. 98.1 6.7E-06 1.5E-10 68.8 6.7 64 398-462 10-73 (74)
13 smart00428 H3 Histone H3. 98.1 1.2E-05 2.6E-10 71.1 7.1 69 396-464 24-98 (105)
14 PF00808 CBFD_NFYB_HMF: Histon 98.1 1.5E-05 3.3E-10 62.6 7.0 63 402-464 3-65 (65)
15 KOG3467 Histone H4 [Chromatin 98.1 1.5E-05 3.2E-10 69.8 7.6 78 398-477 26-103 (103)
16 PLN00161 histone H3; Provision 97.8 4.9E-05 1.1E-09 70.1 7.4 78 396-474 50-132 (135)
17 PLN00121 histone H3; Provision 97.7 7.4E-05 1.6E-09 68.9 6.5 69 396-464 57-129 (136)
18 PF02291 TFIID-31kDa: Transcri 97.6 0.00015 3.3E-09 65.9 7.3 67 405-472 16-82 (129)
19 PTZ00018 histone H3; Provision 97.6 0.00012 2.6E-09 67.5 6.0 69 396-464 57-129 (136)
20 smart00576 BTP Bromodomain tra 97.5 0.00057 1.2E-08 56.1 8.6 69 402-472 7-75 (77)
21 PLN00160 histone H3; Provision 97.5 0.00028 6E-09 62.0 6.2 69 396-464 16-89 (97)
22 cd08050 TAF6 TATA Binding Prot 97.4 0.00082 1.8E-08 68.4 9.3 74 404-478 2-75 (343)
23 PF02269 TFIID-18kDa: Transcri 97.3 0.00023 5E-09 60.9 4.1 61 407-467 7-67 (93)
24 PF15630 CENP-S: Kinetochore c 97.1 0.0012 2.5E-08 55.6 6.1 61 407-467 11-73 (76)
25 smart00427 H2B Histone H2B. 97.0 0.0029 6.3E-08 55.1 7.6 64 407-474 7-70 (89)
26 PF02969 TAF: TATA box binding 96.9 0.0048 1E-07 50.8 7.6 65 400-465 2-66 (66)
27 PF07524 Bromo_TP: Bromodomain 96.8 0.011 2.4E-07 48.1 8.6 65 406-472 11-75 (77)
28 PLN00158 histone H2B; Provisio 96.6 0.0076 1.7E-07 54.8 7.6 64 407-474 33-96 (116)
29 KOG0869 CCAAT-binding factor, 96.6 0.0072 1.6E-07 57.7 7.2 71 396-466 27-98 (168)
30 PTZ00463 histone H2B; Provisio 96.5 0.0093 2E-07 54.3 7.6 64 407-474 34-97 (117)
31 KOG3334 Transcription initiati 96.5 0.012 2.6E-07 55.4 8.1 68 406-474 18-85 (148)
32 cd07978 TAF13 The TATA Binding 96.4 0.019 4.1E-07 49.6 8.3 62 405-467 6-67 (92)
33 cd08048 TAF11 TATA Binding Pro 96.3 0.021 4.6E-07 48.8 8.1 64 402-466 17-83 (85)
34 cd00074 H2A Histone 2A; H2A is 95.9 0.028 6E-07 50.6 7.0 70 398-467 17-86 (115)
35 KOG0871 Class 2 transcription 95.7 0.05 1.1E-06 51.7 8.3 104 394-503 5-131 (156)
36 PF09415 CENP-X: CENP-S associ 95.7 0.012 2.7E-07 49.0 3.9 60 405-464 3-65 (72)
37 KOG3423 Transcription initiati 95.4 0.078 1.7E-06 51.2 8.6 69 403-472 69-169 (176)
38 KOG1744 Histone H2B [Chromatin 95.4 0.05 1.1E-06 50.3 6.8 63 408-474 44-106 (127)
39 KOG2549 Transcription initiati 95.4 0.083 1.8E-06 58.3 9.6 92 397-489 6-98 (576)
40 PF04719 TAFII28: hTAFII28-lik 94.6 0.14 3E-06 44.7 7.1 60 402-461 24-84 (90)
41 KOG0870 DNA polymerase epsilon 94.2 0.4 8.7E-06 46.4 9.9 69 399-467 8-78 (172)
42 KOG1745 Histones H3 and H4 [Ch 93.8 0.046 1E-06 51.0 2.7 69 397-465 59-131 (137)
43 PF15511 CENP-T: Centromere ki 93.6 0.13 2.7E-06 54.3 5.9 60 400-459 350-414 (414)
44 PF05236 TAF4: Transcription i 93.6 0.068 1.5E-06 52.5 3.7 59 396-454 38-99 (264)
45 PF03540 TFIID_30kDa: Transcri 93.5 0.34 7.4E-06 38.8 6.7 48 402-450 3-50 (51)
46 cd08045 TAF4 TATA Binding Prot 93.4 0.21 4.6E-06 47.8 6.6 59 395-453 38-99 (212)
47 COG5094 TAF9 Transcription ini 93.4 0.26 5.6E-06 46.1 6.8 67 407-474 20-89 (145)
48 COG5150 Class 2 transcription 91.1 0.98 2.1E-05 42.6 7.6 109 396-505 6-132 (148)
49 COG5248 TAF19 Transcription in 90.7 1.1 2.4E-05 41.4 7.4 59 407-467 15-73 (126)
50 KOG3901 Transcription initiati 90.3 1.4 3E-05 40.2 7.6 59 406-467 14-72 (109)
51 TIGR02902 spore_lonB ATP-depen 88.6 1.2 2.7E-05 48.1 7.3 65 401-465 262-330 (531)
52 smart00350 MCM minichromosome 87.6 2.1 4.5E-05 45.9 8.1 67 399-465 415-502 (509)
53 COG5162 Transcription initiati 87.3 2.7 5.9E-05 41.1 7.9 48 404-451 72-137 (197)
54 TIGR03015 pepcterm_ATPase puta 87.2 2.2 4.8E-05 40.1 7.2 67 400-466 190-265 (269)
55 PRK00411 cdc6 cell division co 87.0 2.9 6.4E-05 41.8 8.3 66 402-467 207-282 (394)
56 COG5095 TAF6 Transcription ini 86.7 2.5 5.5E-05 45.0 7.9 76 400-477 4-80 (450)
57 TIGR02928 orc1/cdc6 family rep 84.9 3.5 7.5E-05 40.8 7.5 66 402-467 199-274 (365)
58 smart00414 H2A Histone 2A. 84.7 3 6.6E-05 37.3 6.3 67 400-466 8-74 (106)
59 KOG3219 Transcription initiati 84.2 1.5 3.3E-05 43.2 4.6 67 399-466 110-177 (195)
60 COG5208 HAP5 CCAAT-binding fac 81.7 2.1 4.6E-05 43.5 4.7 49 419-467 127-175 (286)
61 KOG2680 DNA helicase TIP49, TB 81.6 3.8 8.3E-05 43.9 6.7 64 403-466 359-428 (454)
62 KOG4336 TBP-associated transcr 81.6 4.4 9.5E-05 42.7 7.0 69 406-476 10-78 (323)
63 COG1224 TIP49 DNA helicase TIP 81.2 2.7 5.9E-05 45.5 5.5 63 403-465 362-430 (450)
64 TIGR02639 ClpA ATP-dependent C 77.9 5.3 0.00011 44.8 6.7 78 403-480 346-442 (731)
65 PTZ00017 histone H2A; Provisio 75.6 6.9 0.00015 36.7 5.7 69 398-466 24-92 (134)
66 COG4585 Signal transduction hi 75.5 4 8.8E-05 40.8 4.6 70 417-501 269-345 (365)
67 PTZ00171 acyl carrier protein; 74.0 0.85 1.8E-05 42.6 -0.5 35 440-474 90-124 (148)
68 TIGR00635 ruvB Holliday juncti 73.3 13 0.00029 36.0 7.3 65 402-466 159-228 (305)
69 PRK13407 bchI magnesium chelat 73.0 10 0.00022 39.3 6.9 73 399-472 232-311 (334)
70 KOG1659 Class 2 transcription 71.5 14 0.0003 37.4 7.1 49 419-467 31-79 (224)
71 PF00616 RasGAP: GTPase-activa 71.3 26 0.00057 31.9 8.3 81 423-506 97-195 (197)
72 KOG3489 Mitochondrial import i 71.1 15 0.00032 32.6 6.3 50 403-452 23-82 (86)
73 TIGR03772 anch_rpt_subst ancho 70.1 9.7 0.00021 41.6 6.2 78 399-476 312-396 (479)
74 PRK06508 acyl carrier protein; 69.1 5.4 0.00012 34.6 3.3 67 440-506 23-91 (93)
75 TIGR02442 Cob-chelat-sub cobal 69.0 12 0.00026 41.6 6.6 56 411-466 241-303 (633)
76 TIGR02030 BchI-ChlI magnesium 68.9 14 0.0003 38.5 6.7 70 402-472 238-314 (337)
77 CHL00124 acpP acyl carrier pro 68.5 3.7 8.1E-05 33.2 2.1 30 445-474 30-59 (82)
78 PLN00154 histone H2A; Provisio 68.3 14 0.0003 35.0 6.0 68 399-466 36-104 (136)
79 PTZ00183 centrin; Provisional 67.5 44 0.00095 28.6 8.5 69 395-465 27-117 (158)
80 PRK05350 acyl carrier protein; 67.2 3.6 7.9E-05 33.7 1.8 26 449-474 35-60 (82)
81 PRK12449 acyl carrier protein; 66.5 3.7 8E-05 33.1 1.7 35 440-474 25-59 (80)
82 PLN00157 histone H2A; Provisio 64.9 13 0.00027 35.0 5.0 68 399-466 24-91 (132)
83 KOG1748 Acyl carrier protein/N 64.3 6 0.00013 37.1 2.8 63 422-484 52-117 (131)
84 PTZ00361 26 proteosome regulat 62.8 11 0.00024 40.6 4.8 65 403-467 355-424 (438)
85 KOG1658 DNA polymerase epsilon 62.8 5.4 0.00012 38.6 2.2 66 405-471 63-129 (162)
86 TIGR02031 BchD-ChlD magnesium 62.7 13 0.00028 41.2 5.4 72 400-472 185-263 (589)
87 cd01137 PsaA Metal binding pro 62.4 13 0.00029 37.0 5.0 79 397-475 116-201 (287)
88 COG0593 DnaA ATPase involved i 62.4 9.1 0.0002 41.3 4.1 74 399-476 298-372 (408)
89 cd01017 AdcA Metal binding pro 62.0 21 0.00045 35.2 6.2 75 401-475 116-195 (282)
90 PRK14086 dnaA chromosomal repl 61.6 11 0.00024 42.6 4.8 31 446-476 545-576 (617)
91 TIGR00368 Mg chelatase-related 61.6 16 0.00034 40.0 5.7 48 418-465 444-497 (499)
92 PF00745 GlutR_dimer: Glutamyl 61.3 7.5 0.00016 32.2 2.6 62 404-470 39-100 (101)
93 PLN00156 histone H2AX; Provisi 60.4 20 0.00044 34.0 5.5 68 399-466 27-94 (139)
94 cd06845 Bcl-2_like Apoptosis r 60.4 19 0.00041 32.3 5.2 47 404-453 51-107 (144)
95 PRK08727 hypothetical protein; 60.3 33 0.00071 33.0 7.1 64 403-467 163-231 (233)
96 cd05022 S-100A13 S-100A13: S-1 60.1 30 0.00065 29.7 6.1 55 397-452 21-86 (89)
97 PRK09545 znuA high-affinity zi 59.7 31 0.00067 35.0 7.1 76 400-475 147-227 (311)
98 PRK00149 dnaA chromosomal repl 59.1 16 0.00035 38.4 5.1 29 446-474 378-407 (450)
99 PF07261 DnaB_2: Replication i 59.0 40 0.00086 26.6 6.2 48 417-466 10-59 (77)
100 PRK07360 FO synthase subunit 2 58.6 29 0.00062 36.0 6.8 76 403-478 3-82 (371)
101 PRK07639 acyl carrier protein; 58.3 3.5 7.7E-05 34.8 0.2 31 444-474 30-60 (86)
102 cd01019 ZnuA Zinc binding prot 58.2 35 0.00076 34.0 7.1 76 401-476 124-204 (286)
103 PF13335 Mg_chelatase_2: Magne 57.9 28 0.0006 30.2 5.5 47 418-464 41-93 (96)
104 PF04867 DUF643: Protein of un 57.5 22 0.00049 32.7 5.1 36 421-456 54-89 (114)
105 CHL00081 chlI Mg-protoporyphyr 57.3 32 0.00069 36.3 6.9 72 400-472 249-327 (350)
106 PRK07117 acyl carrier protein; 57.2 5.1 0.00011 33.6 1.0 38 444-482 30-67 (79)
107 cd01018 ZntC Metal binding pro 56.8 25 0.00053 34.4 5.7 76 400-475 114-194 (266)
108 TIGR00764 lon_rel lon-related 56.5 41 0.00088 37.6 7.9 59 404-462 311-386 (608)
109 cd01145 TroA_c Periplasmic bin 56.5 13 0.00028 35.1 3.6 76 401-476 111-191 (203)
110 PRK07081 acyl carrier protein; 56.2 4.3 9.3E-05 33.9 0.4 24 451-474 32-55 (83)
111 TIGR02999 Sig-70_X6 RNA polyme 55.1 41 0.00089 30.0 6.4 88 407-502 4-93 (183)
112 cd05128 RasGAP_GAP1_like The G 54.6 96 0.0021 32.3 9.7 74 426-506 132-226 (315)
113 KOG3598 Thyroid hormone recept 54.6 2.5 5.3E-05 51.9 -1.7 8 191-198 1994-2001(2220)
114 PF00493 MCM: MCM2/3/5 family 54.3 7.8 0.00017 39.5 1.9 63 401-465 241-324 (331)
115 PLN02641 anthranilate phosphor 54.3 22 0.00049 37.2 5.2 48 407-455 4-52 (343)
116 cd00454 Trunc_globin Truncated 54.0 61 0.0013 27.4 6.9 79 425-506 9-92 (116)
117 PF10789 Phage_RpbA: Phage RNA 54.0 5.7 0.00012 36.2 0.8 39 418-456 48-86 (108)
118 PRK09184 acyl carrier protein; 54.0 9.5 0.00021 32.8 2.1 28 447-474 37-64 (89)
119 PF08546 ApbA_C: Ketopantoate 53.9 13 0.00029 31.7 3.0 37 430-467 34-70 (125)
120 PRK13406 bchD magnesium chelat 53.7 53 0.0011 36.8 8.2 70 402-472 179-255 (584)
121 PRK00080 ruvB Holliday junctio 53.4 36 0.00078 34.1 6.3 66 401-466 179-249 (328)
122 TIGR00362 DnaA chromosomal rep 52.4 22 0.00047 36.7 4.7 100 398-506 284-392 (405)
123 CHL00176 ftsH cell division pr 52.0 64 0.0014 36.5 8.6 63 403-467 354-423 (638)
124 PRK04195 replication factor C 51.2 31 0.00067 36.8 5.8 69 402-472 160-230 (482)
125 cd03565 VHS_Tom1 VHS domain fa 51.2 37 0.00079 31.2 5.5 18 456-473 101-118 (141)
126 PRK13430 F0F1 ATP synthase sub 50.8 81 0.0018 31.9 8.3 29 439-469 167-195 (271)
127 PLN00153 histone H2A; Provisio 50.8 33 0.00072 32.2 5.2 68 399-466 22-89 (129)
128 PRK11034 clpA ATP-dependent Cl 50.6 62 0.0014 37.4 8.4 77 403-479 350-445 (758)
129 cd00052 EH Eps15 homology doma 50.3 68 0.0015 23.8 6.0 20 395-414 9-28 (67)
130 cd01016 TroA Metal binding pro 50.2 42 0.00091 33.3 6.2 76 399-474 102-184 (276)
131 PRK15380 pathogenicity island 49.4 23 0.00049 37.1 4.3 70 396-466 113-191 (319)
132 PRK12402 replication factor C 48.8 30 0.00065 33.7 4.8 63 402-466 184-248 (337)
133 PF01297 TroA: Periplasmic sol 48.6 22 0.00048 34.1 3.9 79 398-476 92-175 (256)
134 PRK14086 dnaA chromosomal repl 48.3 1.1E+02 0.0025 34.9 9.8 18 416-433 462-479 (617)
135 PRK05828 acyl carrier protein; 48.3 6.7 0.00015 33.4 0.3 26 449-474 34-59 (84)
136 PRK14622 hypothetical protein; 48.2 11 0.00024 33.5 1.7 9 469-477 95-103 (103)
137 cd05030 calgranulins Calgranul 48.0 42 0.00092 28.0 5.0 45 396-440 21-78 (88)
138 PRK13428 F0F1 ATP synthase sub 48.0 95 0.0021 33.5 8.8 34 400-433 316-350 (445)
139 cd05395 RasGAP_RASA4 Ras GTPas 47.8 1.1E+02 0.0023 32.5 8.9 74 426-506 148-244 (337)
140 PF06570 DUF1129: Protein of u 47.1 22 0.00048 33.9 3.6 35 404-438 7-41 (206)
141 PF07030 DUF1320: Protein of u 47.0 53 0.0011 29.5 5.8 45 402-447 11-55 (130)
142 COG4296 Uncharacterized protei 47.0 15 0.00033 35.2 2.4 62 421-499 53-114 (156)
143 PRK04036 DNA polymerase II sma 46.9 38 0.00082 36.9 5.7 55 409-464 3-60 (504)
144 TIGR01765 tspaseT_teng_N trans 46.8 27 0.00058 28.5 3.6 46 419-469 7-52 (73)
145 PRK05087 D-alanine--poly(phosp 46.7 11 0.00023 31.7 1.2 24 451-474 33-56 (78)
146 cd05137 RasGAP_CLA2_BUD2 CLA2/ 46.6 1.2E+02 0.0027 32.6 9.3 74 426-506 199-294 (395)
147 cd01020 TroA_b Metal binding p 46.4 26 0.00055 34.4 4.0 78 397-474 94-176 (264)
148 cd05132 RasGAP_GAPA GAPA is an 46.0 90 0.002 32.2 8.0 78 426-506 123-218 (331)
149 PRK14087 dnaA chromosomal repl 46.0 30 0.00065 37.1 4.7 28 446-473 377-405 (450)
150 cd05391 RasGAP_p120GAP p120GAP 45.7 1.2E+02 0.0027 31.6 8.9 74 426-506 126-220 (315)
151 cd05130 RasGAP_Neurofibromin N 45.5 85 0.0018 32.9 7.8 74 426-506 135-229 (329)
152 PF07516 SecA_SW: SecA Wing an 45.4 60 0.0013 31.0 6.2 48 423-472 55-102 (214)
153 TIGR00517 acyl_carrier acyl ca 45.3 13 0.00028 29.8 1.5 25 450-474 33-57 (77)
154 COG2256 MGS1 ATPase related to 45.3 1E+02 0.0022 34.1 8.5 66 402-469 163-240 (436)
155 cd05135 RasGAP_RASAL Ras GTPas 45.1 1E+02 0.0022 32.4 8.3 21 426-446 149-169 (333)
156 KOG1657 CCAAT-binding factor, 45.1 41 0.00089 34.0 5.3 81 396-479 69-149 (236)
157 TIGR01688 dltC D-alanine--poly 45.1 11 0.00023 31.9 1.1 22 453-474 32-53 (73)
158 COG1202 Superfamily II helicas 45.0 22 0.00048 41.0 3.7 66 406-472 710-784 (830)
159 PRK07668 hypothetical protein; 44.5 23 0.00051 36.1 3.5 34 405-438 8-41 (254)
160 cd03569 VHS_Hrs_Vps27p VHS dom 44.3 85 0.0018 28.9 6.8 20 455-474 99-118 (142)
161 PHA02944 hypothetical protein; 44.3 18 0.00039 35.5 2.5 45 402-446 44-89 (180)
162 smart00324 RhoGAP GTPase-activ 44.2 1.1E+02 0.0025 27.3 7.5 34 434-467 112-145 (174)
163 PRK14700 recombination factor 44.0 1.1E+02 0.0023 32.3 8.1 66 402-467 39-115 (300)
164 PTZ00252 histone H2A; Provisio 43.8 61 0.0013 30.7 5.8 68 399-466 23-92 (134)
165 cd03197 GST_C_mPGES2 GST_C fam 43.5 33 0.00073 32.5 4.1 52 408-463 64-115 (149)
166 PLN02690 Agmatine deiminase 43.3 25 0.00053 37.4 3.6 70 439-509 174-265 (374)
167 PRK09862 putative ATP-dependen 42.0 74 0.0016 35.2 7.0 48 418-465 437-490 (506)
168 PRK06620 hypothetical protein; 42.0 1E+02 0.0023 29.6 7.3 46 417-463 164-212 (214)
169 cd02191 FtsZ FtsZ is a GTPase 41.9 70 0.0015 32.8 6.4 76 402-478 135-219 (303)
170 TIGR01560 put_DNA_pack unchara 41.8 49 0.0011 27.9 4.5 36 405-443 3-38 (91)
171 COG1474 CDC6 Cdc6-related prot 41.8 68 0.0015 33.8 6.5 61 403-463 191-261 (366)
172 PRK07764 DNA polymerase III su 41.7 30 0.00064 40.3 4.2 65 401-465 178-244 (824)
173 PF12767 SAGA-Tad1: Transcript 41.7 69 0.0015 31.6 6.2 50 399-448 200-252 (252)
174 PF02881 SRP54_N: SRP54-type p 41.6 1.2E+02 0.0026 24.1 6.5 36 400-445 16-57 (75)
175 PF13565 HTH_32: Homeodomain-l 41.0 32 0.00068 27.1 3.1 35 421-472 32-66 (77)
176 PHA02839 Il-24-like protein; P 40.8 68 0.0015 31.1 5.7 73 390-462 42-133 (156)
177 cd08324 CARD_NOD1_CARD4 Caspas 40.8 31 0.00067 30.6 3.2 31 405-437 49-79 (85)
178 PRK00982 acpP acyl carrier pro 40.8 25 0.00054 28.0 2.5 30 445-474 28-57 (78)
179 PHA00440 host protein H-NS-int 40.8 62 0.0013 29.4 5.1 44 403-446 25-68 (98)
180 cd02202 FtsZ_type2 FtsZ is a G 40.6 68 0.0015 33.5 6.2 76 404-480 151-238 (349)
181 PRK08172 putative acyl carrier 40.1 11 0.00024 31.6 0.4 33 442-474 26-58 (82)
182 PF13654 AAA_32: AAA domain; P 39.9 86 0.0019 34.7 7.1 66 403-468 425-507 (509)
183 COG0236 AcpP Acyl carrier prot 39.8 9.5 0.0002 31.2 -0.0 25 450-474 35-59 (80)
184 PF08625 Utp13: Utp13 specific 39.8 87 0.0019 29.1 6.1 39 459-502 85-130 (141)
185 KOG2114 Vacuolar assembly/sort 39.7 34 0.00073 40.5 4.2 95 403-504 446-549 (933)
186 TIGR00362 DnaA chromosomal rep 39.6 1.2E+02 0.0025 31.5 7.7 51 416-467 284-337 (405)
187 cd05136 RasGAP_DAB2IP The DAB2 39.5 2.1E+02 0.0046 29.8 9.5 76 424-506 125-219 (309)
188 PRK14955 DNA polymerase III su 39.4 70 0.0015 33.4 6.1 61 402-462 186-252 (397)
189 PRK08150 enoyl-CoA hydratase; 39.4 3 6.5E-05 40.6 -3.5 66 433-501 181-246 (255)
190 PTZ00465 rhoptry-associated pr 39.0 11 0.00023 42.2 0.2 66 408-473 48-125 (565)
191 PF01432 Peptidase_M3: Peptida 38.8 55 0.0012 34.2 5.3 54 415-468 61-119 (458)
192 PRK00117 recX recombination re 38.8 45 0.00098 30.1 4.1 31 419-450 39-71 (157)
193 TIGR01241 FtsH_fam ATP-depende 38.8 86 0.0019 33.6 6.8 32 436-467 264-295 (495)
194 PRK05574 holA DNA polymerase I 38.5 1.2E+02 0.0026 29.7 7.3 67 402-471 146-217 (340)
195 TIGR01446 DnaD_dom DnaD and ph 38.3 1.4E+02 0.0029 23.8 6.3 46 419-466 12-59 (73)
196 TIGR01128 holA DNA polymerase 38.0 1.3E+02 0.0028 28.9 7.3 68 402-472 111-183 (302)
197 PF04983 RNA_pol_Rpb1_3: RNA p 37.9 16 0.00034 32.8 1.0 47 404-460 112-158 (158)
198 PRK06249 2-dehydropantoate 2-r 37.7 29 0.00063 34.5 2.9 28 436-464 225-252 (313)
199 PF04371 PAD_porph: Porphyromo 37.6 23 0.0005 36.5 2.3 69 440-509 152-242 (329)
200 PF00452 Bcl-2: Apoptosis regu 37.6 78 0.0017 26.4 5.1 49 405-455 14-72 (101)
201 PRK13531 regulatory ATPase Rav 37.3 1.8E+02 0.0039 32.6 9.0 70 399-469 204-286 (498)
202 COG5247 BUR6 Class 2 transcrip 37.3 80 0.0017 29.2 5.3 38 428-465 50-87 (113)
203 smart00760 Bac_DnaA_C Bacteria 37.3 14 0.00031 28.9 0.6 47 424-473 2-49 (60)
204 PRK08136 glycosyl transferase 37.2 45 0.00098 34.7 4.3 50 407-456 3-57 (317)
205 PRK15379 pathogenicity island 37.0 37 0.0008 35.8 3.6 70 396-466 113-191 (317)
206 COG3935 DnaD Putative primosom 36.7 92 0.002 31.9 6.3 45 419-465 141-187 (246)
207 PRK13342 recombination factor 36.6 81 0.0018 33.0 6.1 65 401-467 150-219 (413)
208 PTZ00454 26S protease regulato 36.2 51 0.0011 35.0 4.6 65 403-467 317-386 (398)
209 PRK05883 acyl carrier protein; 36.0 27 0.00058 29.9 2.1 30 445-474 39-68 (91)
210 PF08429 PLU-1: PLU-1-like pro 36.0 1.2E+02 0.0025 30.6 6.8 73 397-476 78-155 (335)
211 PF13551 HTH_29: Winged helix- 35.9 1.1E+02 0.0024 25.0 5.6 41 420-472 58-99 (112)
212 PRK09281 F0F1 ATP synthase sub 35.9 47 0.001 36.7 4.4 34 405-438 466-499 (502)
213 TIGR00962 atpA proton transloc 35.8 48 0.001 36.7 4.4 35 404-438 464-498 (501)
214 cd05023 S-100A11 S-100A11: S-1 35.7 1.1E+02 0.0023 26.1 5.6 46 399-444 25-83 (89)
215 PRK13551 agmatine deiminase; P 35.7 30 0.00065 36.6 2.8 70 439-509 165-255 (362)
216 COG4286 Uncharacterized conser 35.6 25 0.00055 37.0 2.2 40 405-444 143-185 (306)
217 PRK00095 mutL DNA mismatch rep 35.4 59 0.0013 36.3 5.1 54 423-477 532-596 (617)
218 PRK08903 DnaA regulatory inact 35.4 1.6E+02 0.0034 27.6 7.2 62 403-465 158-224 (227)
219 PRK12422 chromosomal replicati 35.1 1.6E+02 0.0034 31.8 8.1 19 454-472 351-369 (445)
220 COG1466 HolA DNA polymerase II 35.0 1.1E+02 0.0024 31.1 6.6 67 403-469 141-209 (334)
221 cd06457 M3A_MIP Peptidase M3 m 34.9 56 0.0012 34.9 4.7 62 421-483 62-129 (458)
222 TIGR02881 spore_V_K stage V sp 34.7 1.4E+02 0.0031 28.9 7.0 32 402-433 178-211 (261)
223 TIGR00382 clpX endopeptidase C 34.4 39 0.00084 36.4 3.4 68 409-480 304-373 (413)
224 TIGR03420 DnaA_homol_Hda DnaA 34.3 1.6E+02 0.0035 27.0 7.0 62 403-465 160-226 (226)
225 cd05026 S-100Z S-100Z: S-100Z 34.3 1.4E+02 0.003 25.2 6.0 47 397-443 23-83 (93)
226 PF10018 Med4: Vitamin-D-recep 34.2 68 0.0015 30.5 4.7 98 404-506 28-145 (188)
227 PRK09648 RNA polymerase sigma 34.1 1.5E+02 0.0032 26.9 6.7 61 403-469 7-68 (189)
228 PRK12422 chromosomal replicati 33.9 63 0.0014 34.8 4.9 31 446-476 373-404 (445)
229 cd05394 RasGAP_RASA2 RASA2 (or 33.6 2.4E+02 0.0051 29.9 8.8 76 425-507 130-226 (313)
230 PF13022 HTH_Tnp_1_2: Helix-tu 33.6 70 0.0015 30.6 4.6 95 403-504 33-140 (142)
231 PRK05342 clpX ATP-dependent pr 33.6 48 0.001 35.5 3.9 69 408-480 297-367 (412)
232 PRK12710 flgJ flagellar rod as 33.4 50 0.0011 34.5 3.9 42 430-472 128-169 (291)
233 PRK05803 sporulation sigma fac 33.4 1.4E+02 0.003 28.5 6.6 68 434-502 53-121 (233)
234 PHA03181 helicase-primase prim 32.9 67 0.0015 37.6 5.1 40 404-444 607-646 (764)
235 PRK14959 DNA polymerase III su 32.8 66 0.0014 36.7 5.0 59 402-461 178-238 (624)
236 PF08157 NUC129: NUC129 domain 32.8 1E+02 0.0022 26.2 4.8 46 421-469 8-63 (63)
237 PRK00149 dnaA chromosomal repl 32.8 1.2E+02 0.0026 32.0 6.7 17 417-433 297-313 (450)
238 TIGR03380 agmatine_aguA agmati 32.8 38 0.00082 35.8 3.0 69 439-508 162-251 (357)
239 cd00043 CYCLIN Cyclin box fold 32.6 1.7E+02 0.0037 21.9 5.8 33 406-438 4-36 (88)
240 PRK09111 DNA polymerase III su 32.4 93 0.002 35.0 6.0 62 402-464 191-254 (598)
241 PF14842 FliG_N: FliG N-termin 32.4 87 0.0019 27.4 4.7 33 402-437 30-62 (108)
242 PF15601 Imm42: Immunity prote 32.2 38 0.00082 31.8 2.6 27 428-454 98-131 (134)
243 PF09943 DUF2175: Uncharacteri 32.2 99 0.0021 28.2 5.1 40 410-449 31-70 (101)
244 KOG3341 RNA polymerase II tran 32.2 1.4E+02 0.0031 30.8 6.7 63 404-467 63-129 (249)
245 KOG1087 Cytosolic sorting prot 32.1 1.2E+02 0.0026 33.7 6.6 68 403-476 36-118 (470)
246 PRK13765 ATP-dependent proteas 32.0 1.1E+02 0.0024 34.9 6.6 44 418-461 338-394 (637)
247 TIGR00524 eIF-2B_rel eIF-2B al 32.0 73 0.0016 32.8 4.8 27 422-448 84-110 (303)
248 PRK08402 replication factor A; 31.7 75 0.0016 33.8 4.9 59 400-461 2-69 (355)
249 cd05127 RasGAP_IQGAP_related T 31.5 3.4E+02 0.0073 27.7 9.4 20 487-506 198-217 (325)
250 PF02898 NO_synthase: Nitric o 31.3 1E+02 0.0022 33.6 5.8 19 488-506 28-46 (372)
251 PRK00979 tetrahydromethanopter 31.3 1.3E+02 0.0029 31.7 6.6 100 395-502 42-172 (308)
252 PF09860 DUF2087: Uncharacteri 31.2 57 0.0012 27.4 3.2 30 407-436 17-47 (71)
253 TIGR00988 hip integration host 31.0 67 0.0015 26.9 3.7 19 463-481 36-54 (94)
254 PLN03214 probable enoyl-CoA hy 31.0 24 0.00052 35.1 1.1 100 400-505 162-266 (278)
255 COG5566 Uncharacterized conser 30.8 1.1E+02 0.0024 29.3 5.3 59 406-469 15-75 (137)
256 PF09123 DUF1931: Domain of un 30.6 34 0.00075 32.5 2.0 55 407-462 1-55 (138)
257 PF02885 Glycos_trans_3N: Glyc 30.5 29 0.00063 27.7 1.4 47 407-453 2-49 (66)
258 PF11247 DUF2675: Protein of u 30.3 1.1E+02 0.0023 27.9 4.9 42 404-445 26-67 (98)
259 COG4749 Uncharacterized protei 30.2 52 0.0011 32.6 3.2 105 401-507 8-131 (196)
260 smart00047 LYZ2 Lysozyme subfa 30.2 69 0.0015 29.6 3.9 40 432-472 8-47 (147)
261 PRK05870 enoyl-CoA hydratase; 30.2 48 0.001 32.1 3.0 94 400-499 149-246 (249)
262 COG1067 LonB Predicted ATP-dep 29.9 1.8E+02 0.004 33.4 7.8 73 394-466 310-398 (647)
263 PRK06245 cofG FO synthase subu 29.7 5.9E+02 0.013 25.8 10.7 21 484-504 144-164 (336)
264 PF13690 CheX: Chemotaxis phos 29.7 1.2E+02 0.0026 25.4 4.9 40 402-444 19-58 (94)
265 PF03885 DUF327: Protein of un 29.6 50 0.0011 30.5 2.9 50 404-453 42-96 (147)
266 PF08165 FerA: FerA (NUC095) d 29.5 63 0.0014 26.8 3.1 38 421-461 9-46 (66)
267 PF04129 Vps52: Vps52 / Sac2 f 29.5 39 0.00085 36.8 2.5 88 402-489 66-162 (508)
268 CHL00017 ndhH NADH dehydrogena 29.5 1.7E+02 0.0037 31.4 7.2 59 403-461 137-215 (393)
269 PRK12711 flgJ flagellar rod as 29.4 58 0.0013 35.5 3.7 41 432-473 215-255 (392)
270 cd06571 Bac_DnaA_C C-terminal 29.3 41 0.00089 28.3 2.1 47 425-474 2-49 (90)
271 cd08790 DED_DEDD Death Effecto 29.1 1.2E+02 0.0025 27.6 5.0 50 406-467 4-53 (97)
272 TIGR02397 dnaX_nterm DNA polym 29.0 97 0.0021 30.6 4.9 63 402-465 176-240 (355)
273 KOG2018 Predicted dinucleotide 29.0 1E+02 0.0022 33.6 5.3 66 418-484 306-373 (430)
274 TIGR00496 frr ribosome recycli 28.9 1E+02 0.0022 29.7 4.9 18 424-441 147-164 (176)
275 PF08367 M16C_assoc: Peptidase 28.9 1.4E+02 0.0029 29.2 5.8 65 405-471 174-240 (248)
276 TIGR02937 sigma70-ECF RNA poly 28.8 49 0.0011 27.1 2.5 19 442-460 13-31 (158)
277 cd03567 VHS_GGA VHS domain fam 28.5 1E+02 0.0022 28.6 4.6 47 425-473 71-119 (139)
278 PRK09087 hypothetical protein; 28.3 2.7E+02 0.0059 27.1 7.7 50 416-466 169-221 (226)
279 PF00346 Complex1_49kDa: Respi 28.3 1.7E+02 0.0037 29.9 6.6 57 404-460 15-91 (272)
280 PRK00440 rfc replication facto 28.2 1.5E+02 0.0031 28.7 5.9 63 402-466 161-225 (319)
281 PF13499 EF-hand_7: EF-hand do 28.2 1.9E+02 0.0041 21.8 5.4 29 433-461 35-63 (66)
282 PRK09103 ribonucleotide-diphos 27.9 1.3E+02 0.0028 35.1 6.3 33 421-453 530-562 (758)
283 PRK10569 NAD(P)H-dependent FMN 27.9 53 0.0012 31.3 2.8 26 414-439 147-172 (191)
284 PRK02079 pyrroloquinoline quin 27.6 1E+02 0.0023 26.7 4.3 24 408-435 39-62 (88)
285 KOG2389 Predicted bromodomain 27.6 1.6E+02 0.0034 32.0 6.4 64 402-466 30-93 (353)
286 PRK12921 2-dehydropantoate 2-r 27.6 65 0.0014 31.2 3.4 32 433-465 213-244 (305)
287 PRK10733 hflB ATP-dependent me 27.5 1.3E+02 0.0029 33.7 6.2 64 405-468 325-393 (644)
288 PRK13343 F0F1 ATP synthase sub 27.4 80 0.0017 35.2 4.4 31 408-438 469-499 (502)
289 COG0541 Ffh Signal recognition 27.4 1.6E+02 0.0034 32.8 6.6 65 441-507 313-385 (451)
290 PF13963 Transpos_assoc: Trans 27.4 60 0.0013 27.0 2.7 34 432-467 21-63 (77)
291 KOG3902 Histone acetyltransfer 27.3 4E+02 0.0086 28.9 9.1 60 404-465 27-88 (352)
292 PLN02353 probable UDP-glucose 27.3 1.6E+02 0.0034 32.3 6.5 73 404-476 188-267 (473)
293 COG1705 FlgJ Muramidase (flage 27.3 71 0.0015 32.0 3.7 40 431-471 42-81 (201)
294 PRK08215 sporulation sigma fac 27.2 1.6E+02 0.0034 28.7 6.0 59 397-465 14-73 (258)
295 PRK14087 dnaA chromosomal repl 27.0 3.5E+02 0.0075 29.3 8.9 15 419-433 296-310 (450)
296 PRK08444 hypothetical protein; 27.0 95 0.0021 32.6 4.7 100 400-501 78-196 (353)
297 PF07253 Gypsy: Gypsy protein; 27.0 2.1E+02 0.0045 32.1 7.4 53 414-466 145-201 (472)
298 PRK13556 azoreductase; Provisi 26.9 92 0.002 29.4 4.2 39 429-481 20-58 (208)
299 PRK00373 V-type ATP synthase s 26.9 48 0.001 31.9 2.4 73 404-477 31-108 (204)
300 PRK14127 cell division protein 26.9 93 0.002 28.4 4.0 19 487-505 85-103 (109)
301 cd02888 RNR_II_dimer Class II 26.8 2.4E+02 0.0053 30.7 7.8 32 421-452 315-346 (464)
302 PF02867 Ribonuc_red_lgC: Ribo 26.5 1.4E+02 0.003 32.8 6.0 33 421-453 308-340 (538)
303 cd03561 VHS VHS domain family; 26.5 1.3E+02 0.0028 26.9 4.9 46 426-475 71-117 (133)
304 cd05392 RasGAP_Neurofibromin_l 26.3 3.9E+02 0.0085 27.3 8.8 21 426-446 126-146 (323)
305 PRK07415 NAD(P)H-quinone oxido 26.3 5.8E+02 0.013 27.6 10.4 59 403-461 137-216 (394)
306 smart00544 MA3 Domain in DAP-5 26.0 88 0.0019 26.4 3.6 46 404-450 2-48 (113)
307 TIGR02923 AhaC ATP synthase A1 26.0 1.1E+02 0.0024 30.3 4.8 48 430-481 280-339 (343)
308 PRK06585 holA DNA polymerase I 25.8 1.8E+02 0.0038 29.2 6.1 69 402-472 142-215 (343)
309 smart00337 BCL BCL (B-Cell lym 25.7 1.2E+02 0.0027 26.1 4.5 43 406-451 15-67 (100)
310 PRK05720 mtnA methylthioribose 25.6 1.3E+02 0.0028 31.9 5.4 29 421-449 111-139 (344)
311 PRK14903 16S rRNA methyltransf 25.6 1.3E+02 0.0028 32.2 5.4 64 403-467 52-122 (431)
312 PRK14088 dnaA chromosomal repl 25.6 3.6E+02 0.0079 28.9 8.7 97 403-506 264-389 (440)
313 PF06576 DUF1133: Protein of u 25.5 1.1E+02 0.0024 30.3 4.5 50 401-452 54-118 (176)
314 PF07464 ApoLp-III: Apolipopho 25.5 1.2E+02 0.0026 29.0 4.7 25 418-442 120-144 (155)
315 PRK08699 DNA polymerase III su 25.5 2.3E+02 0.005 29.3 7.1 68 400-467 91-184 (325)
316 PRK14963 DNA polymerase III su 25.4 1.5E+02 0.0032 32.7 6.0 67 401-469 174-242 (504)
317 PRK12322 NADH dehydrogenase su 25.4 3.2E+02 0.0069 29.1 8.2 58 403-460 133-210 (366)
318 PF10273 WGG: Pre-rRNA-process 25.2 64 0.0014 27.5 2.6 38 403-440 29-71 (82)
319 COG1480 Predicted membrane-ass 25.2 1.3E+02 0.0029 35.0 5.7 75 395-469 60-138 (700)
320 PRK05708 2-dehydropantoate 2-r 25.2 1.2E+02 0.0027 30.4 5.0 6 193-198 10-15 (305)
321 CHL00059 atpA ATP synthase CF1 25.1 1.1E+02 0.0024 34.1 4.9 31 408-438 448-478 (485)
322 PRK14950 DNA polymerase III su 25.1 1.2E+02 0.0026 33.6 5.3 63 402-465 179-243 (585)
323 PRK03992 proteasome-activating 25.0 1.9E+02 0.0042 30.2 6.5 65 403-467 303-372 (389)
324 PRK14964 DNA polymerase III su 24.8 1.4E+02 0.0031 33.0 5.7 62 402-464 175-238 (491)
325 PRK00423 tfb transcription ini 24.7 1.6E+02 0.0034 30.2 5.6 11 424-434 219-229 (310)
326 PRK06347 autolysin; Reviewed 24.7 80 0.0017 35.8 3.9 38 432-470 150-187 (592)
327 PF01385 OrfB_IS605: Probable 24.7 93 0.002 28.3 3.7 35 426-460 189-223 (227)
328 PRK08691 DNA polymerase III su 24.3 1.7E+02 0.0036 34.2 6.3 62 402-464 178-241 (709)
329 PF12422 Condensin2nSMC: Conde 24.3 76 0.0016 29.5 3.1 41 402-443 91-131 (152)
330 PRK06256 biotin synthase; Vali 24.2 1.2E+02 0.0025 30.6 4.6 52 405-456 5-56 (336)
331 PF01934 DUF86: Protein of unk 24.1 2.6E+02 0.0056 23.8 6.1 52 406-457 7-59 (119)
332 TIGR02541 flagell_FlgJ flagell 24.1 85 0.0018 32.7 3.7 43 429-472 145-187 (294)
333 PRK06246 fumarate hydratase; P 24.0 1.3E+02 0.0028 31.3 4.9 46 402-447 4-59 (280)
334 cd04400 RhoGAP_fBEM3 RhoGAP_fB 24.0 2.9E+02 0.0063 26.0 6.9 33 435-467 136-168 (190)
335 PRK06030 hypothetical protein; 24.0 1.5E+02 0.0032 27.5 4.8 85 418-505 19-115 (124)
336 PRK06075 NADH dehydrogenase su 24.0 4.4E+02 0.0096 28.2 9.0 57 404-460 134-210 (392)
337 PRK05684 flgJ flagellar rod as 23.9 85 0.0018 33.1 3.7 42 430-472 150-191 (312)
338 cd01936 Ntn_CA Cephalosporin a 23.9 1.7E+02 0.0037 31.8 6.0 64 404-472 337-405 (469)
339 KOG2948 Predicted metal-bindin 23.9 1.3E+02 0.0029 32.1 5.0 69 405-473 148-243 (327)
340 PF14677 FANCI_S3: FANCI solen 23.8 2.3E+02 0.005 28.2 6.4 54 404-462 114-170 (219)
341 TIGR02850 spore_sigG RNA polym 23.8 1.9E+02 0.0042 28.1 5.8 54 397-460 11-64 (254)
342 KOG0406 Glutathione S-transfer 23.7 1.6E+02 0.0034 30.0 5.4 55 424-478 95-155 (231)
343 PRK12712 flgJ flagellar rod as 23.6 91 0.002 33.4 3.8 40 432-472 197-236 (344)
344 PF09869 DUF2096: Uncharacteri 23.5 1.8E+02 0.0039 28.7 5.5 66 424-501 61-133 (169)
345 PF07697 7TMR-HDED: 7TM-HD ext 23.4 2E+02 0.0044 26.5 5.7 54 399-452 21-81 (222)
346 PRK08084 DNA replication initi 23.4 3.5E+02 0.0076 26.2 7.5 18 416-433 183-200 (235)
347 KOG1103 Predicted coiled-coil 23.3 2.2E+02 0.0047 31.6 6.5 64 396-471 6-71 (561)
348 PRK13940 glutamyl-tRNA reducta 23.3 1.8E+02 0.004 31.2 6.1 62 405-472 351-412 (414)
349 smart00323 RasGAP GTPase-activ 23.3 3.1E+02 0.0066 28.2 7.4 71 426-506 150-243 (344)
350 PRK08305 spoVFB dipicolinate s 23.3 1.5E+02 0.0032 29.3 4.9 75 425-505 95-180 (196)
351 PRK12713 flgJ flagellar rod as 23.2 88 0.0019 33.4 3.6 39 433-472 182-220 (339)
352 PF01857 RB_B: Retinoblastoma- 23.2 2E+02 0.0043 26.8 5.5 59 404-467 15-86 (135)
353 TIGR02846 spore_sigmaK RNA pol 23.2 1.8E+02 0.004 27.7 5.5 60 400-469 28-88 (227)
354 PHA02102 hypothetical protein 23.1 69 0.0015 27.5 2.3 35 436-476 4-38 (72)
355 cd07176 terB tellurite resista 23.1 1.7E+02 0.0038 24.0 4.7 34 403-436 20-53 (111)
356 PRK06645 DNA polymerase III su 23.0 1.7E+02 0.0038 32.4 6.0 65 401-465 186-254 (507)
357 PRK13018 cell division protein 23.0 95 0.0021 33.3 3.9 74 403-477 164-246 (378)
358 PRK13292 trifunctional NADH de 22.9 2.7E+02 0.0059 32.8 7.7 58 403-460 531-608 (788)
359 COG1893 ApbA Ketopantoate redu 22.8 1.5E+02 0.0032 30.5 5.0 37 417-453 230-267 (307)
360 PHA03247 large tegument protei 22.8 1.5E+03 0.032 31.4 14.1 129 38-170 2557-2695(3151)
361 PRK07362 isocitrate dehydrogen 22.8 89 0.0019 34.9 3.7 24 427-450 204-227 (474)
362 PRK00188 trpD anthranilate pho 22.7 1.6E+02 0.0034 30.5 5.3 48 407-454 3-51 (339)
363 PF08236 SRI: SRI (Set2 Rpb1 i 22.7 66 0.0014 27.6 2.2 38 402-439 28-80 (88)
364 PRK13341 recombination factor 22.6 2.3E+02 0.005 32.8 7.0 64 403-466 169-246 (725)
365 PRK14962 DNA polymerase III su 22.5 1.9E+02 0.0042 31.5 6.1 67 402-469 176-244 (472)
366 cd05030 calgranulins Calgranul 22.5 1.3E+02 0.0028 25.2 3.8 43 423-473 2-45 (88)
367 PRK06893 DNA replication initi 22.4 3.6E+02 0.0077 25.9 7.3 31 403-433 162-194 (229)
368 PF09358 UBA_e1_C: Ubiquitin-a 22.4 38 0.00082 30.8 0.7 50 454-504 42-92 (125)
369 COG0542 clpA ATP-binding subun 22.3 92 0.002 36.6 3.9 65 409-481 678-744 (786)
370 PRK05629 hypothetical protein; 22.2 2.6E+02 0.0057 28.0 6.6 70 402-472 126-197 (318)
371 cd01679 RNR_I Class I ribonucl 22.2 1.2E+02 0.0026 33.1 4.4 30 422-451 310-339 (460)
372 COG2766 PrkA Putative Ser prot 22.1 1E+02 0.0023 35.5 4.1 66 395-467 524-592 (649)
373 PF02854 MIF4G: MIF4G domain; 22.0 1.6E+02 0.0034 26.0 4.5 46 405-451 2-50 (209)
374 cd05134 RasGAP_RASA3 RASA3 (or 22.0 4.6E+02 0.01 27.7 8.5 20 426-445 131-150 (310)
375 PF10431 ClpB_D2-small: C-term 22.0 1.4E+02 0.0029 24.2 3.8 27 406-432 13-42 (81)
376 PRK12709 flgJ flagellar rod as 21.9 1E+02 0.0022 32.7 3.7 41 432-473 173-213 (320)
377 PRK06200 2,3-dihydroxy-2,3-dih 21.9 38 0.00083 31.6 0.7 13 403-415 39-51 (263)
378 PRK00771 signal recognition pa 21.9 1.7E+02 0.0038 31.7 5.6 39 405-443 3-55 (437)
379 PF10127 Nuc-transf: Predicted 21.9 2.2E+02 0.0047 27.8 5.8 8 424-431 175-182 (247)
380 PF08369 PCP_red: Proto-chloro 21.9 90 0.002 24.1 2.6 40 421-461 2-42 (45)
381 cd03568 VHS_STAM VHS domain fa 21.8 1.6E+02 0.0034 27.4 4.6 32 403-436 78-109 (144)
382 TIGR01962 NuoD NADH dehydrogen 21.8 6.2E+02 0.013 27.1 9.5 57 404-460 130-206 (386)
383 COG2083 Uncharacterized protei 21.8 38 0.00081 32.3 0.6 63 404-471 26-108 (140)
384 COG1060 ThiH Thiamine biosynth 21.7 3.2E+02 0.0069 29.3 7.4 106 395-504 83-210 (370)
385 PRK10911 oligopeptidase A; Pro 21.6 1.5E+02 0.0033 33.7 5.3 68 416-484 286-357 (680)
386 TIGR00511 ribulose_e2b2 ribose 21.6 1.8E+02 0.0038 29.9 5.3 40 407-448 68-107 (301)
387 PRK14961 DNA polymerase III su 21.5 1.5E+02 0.0033 30.5 4.9 59 402-464 178-241 (363)
388 PF02268 TFIIA_gamma_N: Transc 21.5 2.6E+02 0.0056 22.5 5.1 32 405-440 17-48 (49)
389 TIGR00745 apbA_panE 2-dehydrop 21.4 1E+02 0.0022 29.4 3.4 18 436-453 206-223 (293)
390 PRK10061 DNA damage-inducible 21.3 96 0.0021 28.2 3.0 43 419-467 22-64 (96)
391 PRK13655 phosphoenolpyruvate c 21.3 1.4E+02 0.0029 33.5 4.7 73 430-503 407-493 (494)
392 COG1241 MCM2 Predicted ATPase 21.2 1.6E+02 0.0036 34.1 5.5 48 418-465 524-590 (682)
393 TIGR00563 rsmB ribosomal RNA s 21.2 2.5E+02 0.0055 29.6 6.5 65 403-467 46-120 (426)
394 PRK14958 DNA polymerase III su 21.2 2.3E+02 0.005 31.2 6.4 61 402-463 178-240 (509)
395 TIGR03566 FMN_reduc_MsuE FMN r 21.2 1.1E+02 0.0025 27.9 3.5 25 415-439 147-171 (174)
396 PF01221 Dynein_light: Dynein 21.1 76 0.0017 26.7 2.2 19 419-437 12-30 (89)
397 TIGR02510 NrdE-prime ribonucle 21.1 1.6E+02 0.0034 33.2 5.2 35 421-455 355-389 (571)
398 cd00336 Ribosomal_L22 Ribosoma 21.0 1.8E+02 0.004 25.1 4.6 51 402-453 10-62 (105)
399 PRK12906 secA preprotein trans 21.0 63 0.0014 37.9 2.3 44 422-469 634-677 (796)
400 cd00051 EFh EF-hand, calcium b 20.9 1.4E+02 0.003 20.4 3.2 11 451-461 49-59 (63)
401 COG1223 Predicted ATPase (AAA+ 20.9 2.3E+02 0.0049 30.6 6.0 36 434-469 322-357 (368)
402 PF11047 SopD: Salmonella oute 20.9 1.6E+02 0.0034 31.5 4.8 70 396-466 113-191 (319)
403 PLN02162 triacylglycerol lipas 20.9 80 0.0017 35.2 2.9 61 406-476 113-173 (475)
404 PRK11034 clpA ATP-dependent Cl 20.9 1.1E+02 0.0024 35.5 4.1 66 408-481 638-705 (758)
405 PF12243 CTK3: CTD kinase subu 20.9 4.1E+02 0.0088 25.1 7.1 57 418-477 35-102 (139)
406 KOG0034 Ca2+/calmodulin-depend 20.8 3.2E+02 0.007 26.7 6.7 62 396-467 115-176 (187)
407 PF07156 Prenylcys_lyase: Pren 20.7 1.4E+02 0.003 31.7 4.5 62 416-478 45-110 (368)
408 PRK12531 RNA polymerase sigma 20.6 1.8E+02 0.0039 26.7 4.7 93 398-502 5-98 (194)
409 PF01152 Bac_globin: Bacterial 20.6 2.3E+02 0.0051 24.2 5.1 79 425-506 9-96 (120)
410 PF00161 RIP: Ribosome inactiv 20.6 1.7E+02 0.0037 27.7 4.7 70 399-469 122-197 (206)
411 PRK14607 bifunctional glutamin 20.5 1.6E+02 0.0035 32.4 5.1 49 407-455 195-244 (534)
412 COG3900 Predicted periplasmic 20.5 46 0.001 34.3 1.0 65 403-472 123-192 (262)
413 KOG4316 Uncharacterized conser 20.5 96 0.0021 30.4 3.0 54 436-497 67-121 (172)
414 PRK15182 Vi polysaccharide bio 20.4 2.8E+02 0.0062 29.7 6.7 72 404-478 180-260 (425)
415 COG5262 HTA1 Histone H2A [Chro 20.3 2.7E+02 0.0059 26.5 5.8 71 396-466 21-91 (132)
416 PRK06596 RNA polymerase factor 20.3 3.7E+02 0.0081 27.0 7.2 27 434-460 52-78 (284)
417 cd05027 S-100B S-100B: S-100B 20.3 3.4E+02 0.0073 23.0 5.9 33 397-431 21-60 (88)
418 PRK06522 2-dehydropantoate 2-r 20.3 6E+02 0.013 24.5 8.3 62 404-466 155-242 (304)
419 TIGR02947 SigH_actino RNA poly 20.2 1.6E+02 0.0035 26.9 4.3 78 418-502 3-81 (193)
420 PRK13386 fliH flagellar assemb 20.2 1.4E+02 0.0031 29.6 4.2 22 418-439 114-135 (236)
421 KOG1662 Mitochondrial F1F0-ATP 20.1 1.6E+02 0.0034 30.0 4.5 59 399-457 77-140 (210)
422 PRK14136 recX recombination re 20.1 2.2E+02 0.0048 30.3 5.7 33 403-440 227-261 (309)
No 1
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=100.00 E-value=4.9e-54 Score=417.58 Aligned_cols=231 Identities=36% Similarity=0.492 Sum_probs=181.4
Q ss_pred cccCccccccCCCCCCCCCCCCCCCCCCCCcccccccCCcccCCCCcchhhhhhcccccCCCCCCCCCCccccccccCC-
Q 009343 268 QSFNQPWLSSGSQGKPPLAPPSTYRPQMNTPSMQQRSHIPQQHSPLSTNLQQQHLSSVQPQQSKPSHQLPDHYGQQFSS- 346 (537)
Q Consensus 268 Q~~~Q~WL~~~~q~~p~l~sp~s~r~q~~~~~~QQr~h~~qQ~~~~~t~lqqqqlsq~qqqq~~~~~q~q~h~~qQ~~~- 346 (537)
|..+++||+.+..+.++...| ++|+|++.+.+.+|.++.+|+-+..- .+.+. ....+...+..++|+. ++..
T Consensus 25 q~~qq~~~~~~~~~~s~~~~~-s~~~q~~~~~~~~~~~~~qq~~s~~~--~~~~~---~n~~~~s~~~~~~~~~-~~~~~ 97 (258)
T KOG1142|consen 25 QARQQQWLRQIQGIPSPESYP-SQRQQRFSPTCSIRENPNQQWISTGY--PQPQV---SNGGPPSQALNQQDSQ-QSAIS 97 (258)
T ss_pred HHHHhhhhccccCCCCCCCCh-hhccccCCCcccccCCCCcccccccc--Ccccc---ccCCchHHhhhhhhHH-hhccc
Confidence 455889999999888888886 99999999999999888888854432 11111 1111111122223333 2222
Q ss_pred -CCCCCCCccccccCCCCCCCCCCcccccc-CCCCccccCCCCccCCCCCCCcCCccCCHHHHHHHHHhhCCCCCCCHHH
Q 009343 347 -PRVPQSSPHQQQITRPPGSATQKPSSLAL-VQPNAVQTGNQSKIAGTESDEFGNRILTKRSIQELVNQIDPSERLDPDV 424 (537)
Q Consensus 347 -~~~~~~~~~qqq~~r~~~~~~qk~~sl~~-sqp~~~~~g~~~~~~~~~~~e~~nrILtKrKLqELVrqIDP~e~LD~DV 424 (537)
.+.++....+....+++....++...-.. ++......+++.++..+..++++++||.|+||+|||++||++++||+||
T Consensus 98 ~~q~P~~~~~q~~~~~~~~~~~~~~~~P~~~~~g~~~g~~~sp~~s~s~~~~~~~~il~k~kl~dLvqqId~~~~LD~dV 177 (258)
T KOG1142|consen 98 QQQQPASSPSQGSSMSNQTSSVQKDPAPVIGSQGSVSGGGTSPAGSSSQDEPGNNPILSKRKLDDLVQQIDGTTKLDDDV 177 (258)
T ss_pred cCCCCccCCCCCCCccccCcccccCCCCCCCCCCccCCCCCCCCcccccccCCCCccccccchhHHHHhhcCcccccHHH
Confidence 34455555566666777777776654433 2233333445556777788999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccccccCCCCCchHHHHHHHHHHHHhh
Q 009343 425 EDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKTFRKPLVCDIHKERLAAIKKSVM 504 (537)
Q Consensus 425 EELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGfssDEIR~~RK~~pTEaHKQRMALIRKsI~ 504 (537)
||+||||||||||+|++|+|+||||||+++||+|||+|||||+|||+||||++||++.|||+.++|+||+|||+|||.++
T Consensus 178 edlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhLEr~~Nm~iPgf~sd~~~~~~k~~pTe~hkqr~a~i~k~~~ 257 (258)
T KOG1142|consen 178 EDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHLERNFNMEIPGFSSDEKRSKKKALPTEEHKQRLALIRKQIK 257 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeeeeccccccCCCccccccccccccCCcHHHHHHHHHHHHhhc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999886
Q ss_pred h
Q 009343 505 A 505 (537)
Q Consensus 505 s 505 (537)
.
T Consensus 258 k 258 (258)
T KOG1142|consen 258 K 258 (258)
T ss_pred C
Confidence 3
No 2
>PF03847 TFIID_20kDa: Transcription initiation factor TFIID subunit A; InterPro: IPR003228 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription [].; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_B.
Probab=99.96 E-value=3.5e-30 Score=208.25 Aligned_cols=68 Identities=63% Similarity=1.135 Sum_probs=57.9
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCc
Q 009343 403 TKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNM 470 (537)
Q Consensus 403 tKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI 470 (537)
+|++|+|||++|||+++||+||||+|++||||||++|+++||+||||||+++||++||+|||||+|||
T Consensus 1 ~K~~l~~Lv~~iDp~~~ld~~vee~Ll~laddFv~~v~~~ac~lAKhR~s~tle~~Dv~~~Ler~~ni 68 (68)
T PF03847_consen 1 SKRKLQELVKQIDPNEKLDPDVEELLLELADDFVDDVVSFACRLAKHRKSSTLEVKDVQLHLERNWNI 68 (68)
T ss_dssp -HHHHHHHHHCC-SS----HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHHHHHS--
T ss_pred ChHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHHHHHHHhhcCC
Confidence 69999999999999999999999999999999999999999999999999999999999999999997
No 3
>COG5624 TAF61 Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=99.95 E-value=6.2e-30 Score=262.18 Aligned_cols=115 Identities=43% Similarity=0.602 Sum_probs=106.5
Q ss_pred CCccCCCCCCCcCCccCCHHHHHHHHHhh-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009343 386 QSKIAGTESDEFGNRILTKRSIQELVNQI-DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL 464 (537)
Q Consensus 386 ~~~~~~~~~~e~~nrILtKrKLqELVrqI-DP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhL 464 (537)
+.+++.|+.| +..||+.|+||+||++.| |..++||.||||+||++|||||+.|.+|+|+||||||+|+|||+||+|||
T Consensus 369 ~~k~p~ye~D-~~~Rl~skrkL~el~~~~vd~eekie~eveelll~~ad~fve~vt~FsCrlakhrkSdtlevrD~qlhl 447 (505)
T COG5624 369 RDKGPLYERD-DLWRLDSKRKLEELQHGGVDEEEKIENEVEELLLSRADGFVEPVTEFSCRLAKHRKSDTLEVRDGQLHL 447 (505)
T ss_pred ccCCCchhcc-hhhhhhhhhhHHHHHhhccCcceeccchHHHHHHhhhcccccccchheeEeeccCCCCceeeccceeee
Confidence 3455555443 458999999999999999 99999999999999999999999999999999999999999999999999
Q ss_pred hhccCcccCCCCccccc-ccCCCCCchHHHHHHHHHHH
Q 009343 465 ERNWNMTLPGFSGDEIK-TFRKPLVCDIHKERLAAIKK 501 (537)
Q Consensus 465 ERnWNI~IPGfssDEIR-~~RK~~pTEaHKQRMALIRK 501 (537)
||||||++|||..|+|+ .|||+.++-+|.+++..|+-
T Consensus 448 ErnwnIr~pGf~~d~I~~s~rk~~pt~~y~qk~~ai~t 485 (505)
T COG5624 448 ERNWNIRCPGFVDDIIHMSYRKQKPTVEYCQKKLAIKT 485 (505)
T ss_pred ccccceecCcchHHHHHHHHHhcCCChhHHHHHHhhhh
Confidence 99999999999999998 99999999999999998864
No 4
>cd07981 TAF12 TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 12 (TAF12) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of the seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs function such as serving as activator-bind
Probab=99.92 E-value=1.6e-25 Score=180.75 Aligned_cols=72 Identities=63% Similarity=1.080 Sum_probs=70.7
Q ss_pred cCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 401 ILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 401 ILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
+|+|++|++||++||+++.||+||+++|+++|||||++|+++||+||||||++||+++||+|||||+|||+|
T Consensus 1 i~~k~~l~~lv~~id~~~~~~~da~~~l~~~~e~fv~~v~~~a~~lAkHr~~~tv~~~Di~l~l~r~~~~~~ 72 (72)
T cd07981 1 ILTKRKLQELLKEIDPREQLDPDVEELLLEIADDFVDDVVEDACRLAKHRKSDTLEVKDVQLHLERNWNISI 72 (72)
T ss_pred CCcHHHHHHHHHhhCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhcCCCC
Confidence 689999999999999999999999999999999999999999999999999999999999999999999986
No 5
>PLN00035 histone H4; Provisional
Probab=98.78 E-value=2.8e-08 Score=87.39 Aligned_cols=74 Identities=24% Similarity=0.358 Sum_probs=68.9
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCc
Q 009343 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSG 477 (537)
Q Consensus 402 LtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGfss 477 (537)
|+|..|..|++.- .-+.|.+|+.|.|.++.++|+++|+..|+.+|+|.+-.||++.||.|.|+|.+. .+.||+.
T Consensus 30 ipk~~IrRLARr~-GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr~g~-~lyGf~~ 103 (103)
T PLN00035 30 ITKPAIRRLARRG-GVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGR-TLYGFGG 103 (103)
T ss_pred CCHHHHHHHHHHc-CcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHcCC-cCCCCCC
Confidence 8899999999986 478999999999999999999999999999999999999999999999999755 8889863
No 6
>cd00076 H4 Histone H4, one of the four histones, along with H2A, H2B and H3, which forms the eukaryotic nucleosome core; along with H3, it plays a central role in nucleosome formation; histones bind to DNA and wrap the genetic material into "beads on a string" in which DNA (the string) is wrapped around small blobs of histones (the beads) at regular intervals; play a role in the inheritance of specialized chromosome structures and the control of gene activity; defects in the establishment of proper chromosome structure by histones may activate or silence genes aberrantly and thus lead to disease; the sequence of histone H4 has remained almost invariant in more than 2 billion years of evolution
Probab=98.72 E-value=5.7e-08 Score=82.67 Aligned_cols=74 Identities=24% Similarity=0.384 Sum_probs=69.1
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCC
Q 009343 400 RILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGF 475 (537)
Q Consensus 400 rILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGf 475 (537)
.-|+|..|..|++.- +-..|.+|+.|.|.++.++|+++|+..|+.+|+|.+-.||+..||.+.|+|. |..+-||
T Consensus 12 ~gi~k~~I~RLarr~-GvkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr~-g~~~ygf 85 (85)
T cd00076 12 KGITKPAIRRLARRG-GVKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKRQ-GRTLYGY 85 (85)
T ss_pred ccCCHHHHHHHHHHc-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHC-CCCccCC
Confidence 448999999999985 5789999999999999999999999999999999999999999999999995 8888887
No 7
>PTZ00015 histone H4; Provisional
Probab=98.71 E-value=7e-08 Score=84.74 Aligned_cols=76 Identities=24% Similarity=0.337 Sum_probs=69.1
Q ss_pred CCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCC
Q 009343 398 GNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGF 475 (537)
Q Consensus 398 ~nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGf 475 (537)
.-+-|+|..|..|++.- .-..|.+|+.|.|.++.++|+++|+..|+.+|+|.+-.||++.||.|.|+|.+. .+.||
T Consensus 27 ~i~gI~k~~IrRLarr~-GvkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr~g~-~~ygf 102 (102)
T PTZ00015 27 NIRGITKGAIRRLARRG-GVKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKRQGR-TLYGF 102 (102)
T ss_pred cccCCCHHHHHHHHHHc-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCC-CCCCC
Confidence 34568999999999974 678999999999999999999999999999999999999999999999999755 77776
No 8
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=98.54 E-value=1.5e-07 Score=81.19 Aligned_cols=71 Identities=24% Similarity=0.386 Sum_probs=66.5
Q ss_pred CcCCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 396 EFGNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 396 e~~nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
.+...+|++..++.|++++... ++..++.|.|.+.+++|+..|.+.||.+|+|.|..||+.+||++.|++.
T Consensus 14 ~~~~~~Lp~apv~Ri~r~~~~~-Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~~~ 84 (91)
T COG2036 14 RSTDLLLPKAPVRRILRKAGAE-RVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRL 84 (91)
T ss_pred hhhhhhcCchHHHHHHHHHhHH-HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHHHh
Confidence 4566789999999999999665 9999999999999999999999999999999999999999999999885
No 9
>PF00125 Histone: Core histone H2A/H2B/H3/H4 histone h2a signature histone h2b signature histone h3 signature histone h4 signature; InterPro: IPR007125 The core histones together with some other DNA binding proteins appear to form a superfamily defined by a common fold and distant sequence similarities [, ]. Some proteins contain local homology domains related to the histone fold [].; GO: 0003677 DNA binding; PDB: 2YFW_D 2YFV_B 1U35_H 2F8N_D 2PYO_D 2NQB_D 3AN2_C 3AZJ_C 3AV1_G 3AZM_G ....
Probab=98.31 E-value=1.1e-06 Score=69.85 Aligned_cols=68 Identities=22% Similarity=0.317 Sum_probs=61.1
Q ss_pred CccCCHHHHHHHHHhhCCC----CCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 399 NRILTKRSIQELVNQIDPS----ERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 399 nrILtKrKLqELVrqIDP~----e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
...+.|--+..|+++|..+ ..|+.++.++|..++|+|+.+|++.|+.+|+|.|..+|..+||++.+..
T Consensus 3 ~~~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~ 74 (75)
T PF00125_consen 3 RRLIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRI 74 (75)
T ss_dssp SHSSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHH
T ss_pred ccccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhc
Confidence 3456777888888888665 7999999999999999999999999999999999999999999998864
No 10
>smart00803 TAF TATA box binding protein associated factor. TAFs (TATA box binding protein associated factors) are part of the transcription initiation factor TFIID multimeric protein complex. TFIID is composed of the TATA box binding protein (TBP) and a number of TAFs. The TAFs provide binding sites for many different transcriptional activators and co-activators that modulate transcription initiation by Pol II. TAF proteins adopt a histone-like fold.
Probab=98.27 E-value=3.9e-06 Score=67.85 Aligned_cols=64 Identities=22% Similarity=0.308 Sum_probs=59.6
Q ss_pred cCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009343 401 ILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (537)
Q Consensus 401 ILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLE 465 (537)
+|++..|..|++.++- ..|.+|+.+.|.+.++.|+..|+..|+++++|=|..||...||.+.|+
T Consensus 2 ~~p~~~i~ria~~~Gi-~ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 2 WLPKETIKDVAESLGI-GNLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred CCCHHHHHHHHHHCCC-ccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 5789999999999844 589999999999999999999999999999999999999999999875
No 11
>cd07979 TAF9 TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 9 (TAF9) is one of several TAFs that bind TBP and are involved in forming the TFIID complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. The TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Human TAF9 has a paralogue gene (TAF9L) whi
Probab=98.18 E-value=6.9e-06 Score=72.80 Aligned_cols=67 Identities=13% Similarity=0.292 Sum_probs=59.3
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 405 RSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 405 rKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
+-+..+++.. +-+.++++|...|+|++..++.+|+..|..+|+|-|.++|++.||+|.++...+..+
T Consensus 5 ~~v~~iLk~~-Gv~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~~~f 71 (117)
T cd07979 5 RVIAAILKSM-GITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVDYSF 71 (117)
T ss_pred HHHHHHHHHC-CCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhccCC
Confidence 3466777765 457999999999999999999999999999999999999999999999999877443
No 12
>smart00417 H4 Histone H4.
Probab=98.13 E-value=6.7e-06 Score=68.76 Aligned_cols=64 Identities=19% Similarity=0.276 Sum_probs=59.1
Q ss_pred CCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHH
Q 009343 398 GNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILV 462 (537)
Q Consensus 398 ~nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQL 462 (537)
..+-|+|..|..|++.- +-..|.+++.|.|.++.++|+++|+..|+.+|+|.+-.||++.||.|
T Consensus 10 ~i~gI~k~~IrRLaRr~-GvkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~ 73 (74)
T smart00417 10 NIQGITKPAIRRLARRG-GVKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVY 73 (74)
T ss_pred hhcCCCHHHHHHHHHHc-CcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHhee
Confidence 34569999999999984 67899999999999999999999999999999999999999999975
No 13
>smart00428 H3 Histone H3.
Probab=98.05 E-value=1.2e-05 Score=71.11 Aligned_cols=69 Identities=25% Similarity=0.243 Sum_probs=63.0
Q ss_pred CcCCccCCHHHHHHHHHhhC----C--CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009343 396 EFGNRILTKRSIQELVNQID----P--SERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL 464 (537)
Q Consensus 396 e~~nrILtKrKLqELVrqID----P--~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhL 464 (537)
.+.+-+|.|--+..||++|. . +..+.+++.++|.+.+|+|+.++.+.+..+|+|.|-.||.+|||+|+.
T Consensus 24 kst~lLI~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~ 98 (105)
T smart00428 24 KSTDLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLAR 98 (105)
T ss_pred cCcccccccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHH
Confidence 35667889999999999994 2 568999999999999999999999999999999999999999999986
No 14
>PF00808 CBFD_NFYB_HMF: Histone-like transcription factor (CBF/NF-Y) and archaeal histone; InterPro: IPR003958 The CCAAT-binding factor (CBF) is a mammalian transcription factor that binds to a CCAAT motif in the promoters of a wide variety of genes, including type I collagen and albumin. The factor is a heteromeric complex of A and B subunits, both of which are required for DNA-binding [, ]. The subunits can interact in the absence of DNA-binding, conserved regions in each being important in mediating this interaction. The A subunit can be split into 3 domains on the basis of sequence similarity, a non-conserved N-terminal 'A domain'; a highly-conserved central 'B domain' involved in DNA-binding; and a C-terminal 'C domain', which contains a number of glutamine and acidic residues involved in protein-protein interactions []. The A subunit shows striking similarity to the HAP3 subunit of the yeast CCAAT-binding heterotrimeric transcription factor [, ]. The Kluyveromyces lactis HAP3 protein has been predicted to contain a 4-cysteine zinc finger, which is thought to be present in similar HAP3 and CBF subunit A proteins, in which the third cysteine is replaced by a serine []. This domain is found in the CCAAT transcription factor and archaeal histones.; GO: 0043565 sequence-specific DNA binding, 0005622 intracellular; PDB: 1F1E_A 2BYM_D 2BYK_D 1HTA_A 1B67_A 1JFI_B 1KU5_B 1N1J_A 1BFM_A 1B6W_A ....
Probab=98.05 E-value=1.5e-05 Score=62.61 Aligned_cols=63 Identities=14% Similarity=0.274 Sum_probs=55.6
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009343 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL 464 (537)
Q Consensus 402 LtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhL 464 (537)
|.+.++..+++.......+..|+.++|.+.++.||+.++..|...|++.+..||..+||...|
T Consensus 3 lP~a~vkri~k~~~~~~~vs~ea~~~i~~a~e~Fi~~l~~~A~~~a~~~~rkti~~~Dv~~Av 65 (65)
T PF00808_consen 3 LPLARVKRIMKSDPDVMRVSKEAVEAIAKAAEEFIQYLAKEANEIAQRDKRKTITYEDVAKAV 65 (65)
T ss_dssp S-HHHHHHHHHHTSTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEE-HHHHHHHH
T ss_pred CChHHHHHHhccCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHC
Confidence 678899999999855668999999999999999999999999999999999999999997654
No 15
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]
Probab=98.05 E-value=1.5e-05 Score=69.82 Aligned_cols=78 Identities=24% Similarity=0.333 Sum_probs=68.9
Q ss_pred CCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCc
Q 009343 398 GNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSG 477 (537)
Q Consensus 398 ~nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGfss 477 (537)
.-+-|+|-.|..|.+.- .-..+..-..|-.-.++.+|++||+..||-.+.|-|..||...||.+.|+|. ++.+-||++
T Consensus 26 nIqgitKpaIRRlARr~-GVkRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~dvv~~LKR~-G~~~~g~~~ 103 (103)
T KOG3467|consen 26 NIQGITKPAIRRLARRG-GVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQ-GRTLYGFGG 103 (103)
T ss_pred hccccchHHHHHHHHhc-CcchhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHHHHHHHHHHc-CceeeccCC
Confidence 34557899999999874 4567888888889999999999999999999999999999999999999996 999999974
No 16
>PLN00161 histone H3; Provisional
Probab=97.84 E-value=4.9e-05 Score=70.06 Aligned_cols=78 Identities=21% Similarity=0.125 Sum_probs=67.9
Q ss_pred CcCCccCCHHHHHHHHHhhC-----CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCc
Q 009343 396 EFGNRILTKRSIQELVNQID-----PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNM 470 (537)
Q Consensus 396 e~~nrILtKrKLqELVrqID-----P~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI 470 (537)
.+.+-+|.|--++.||++|- .+..+..++.++|.|.+|+|+-++.+.+-..|.|+|--||..|||+|+. |--+.
T Consensus 50 kst~lLIpklPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~-rirg~ 128 (135)
T PLN00161 50 KSTELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLAR-RIRGP 128 (135)
T ss_pred cccccccccccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHH-Hhccc
Confidence 46677889999999999992 3578999999999999999999999999999999999999999999987 44455
Q ss_pred ccCC
Q 009343 471 TLPG 474 (537)
Q Consensus 471 ~IPG 474 (537)
++.+
T Consensus 129 ~~~~ 132 (135)
T PLN00161 129 IYGI 132 (135)
T ss_pred cccc
Confidence 5543
No 17
>PLN00121 histone H3; Provisional
Probab=97.72 E-value=7.4e-05 Score=68.89 Aligned_cols=69 Identities=23% Similarity=0.201 Sum_probs=63.9
Q ss_pred CcCCccCCHHHHHHHHHhhC----CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009343 396 EFGNRILTKRSIQELVNQID----PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL 464 (537)
Q Consensus 396 e~~nrILtKrKLqELVrqID----P~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhL 464 (537)
.+.+-+|.|--+..||++|. .+..+..++.++|.+.+|+|+-++.+.+-..|.|.|--||..|||+|+.
T Consensus 57 kst~lLI~k~pF~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ 129 (136)
T PLN00121 57 KSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 129 (136)
T ss_pred cccccccccccHHHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHH
Confidence 46678899999999999994 4579999999999999999999999999999999999999999999986
No 18
>PF02291 TFIID-31kDa: Transcription initiation factor IID, 31kD subunit; InterPro: IPR003162 Human transcription initiation factor TFIID is composed of the TATA-binding polypeptide (TBP) and at least 13 TBP-associated factors (TAFs) that collectively or individually are involved in activator-dependent transcription []. TAFII-31 protein is a transcriptional coactivator of the p53 protein [].; GO: 0006352 transcription initiation, DNA-dependent; PDB: 1TAF_A.
Probab=97.64 E-value=0.00015 Score=65.95 Aligned_cols=67 Identities=16% Similarity=0.320 Sum_probs=52.2
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 405 RSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 405 rKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
+.|..|++.+ +-...|+.|...|||+|-.|+.+|+..|-.+|+|.+..++++.||+|.++-..+..+
T Consensus 16 ~~i~~iL~~~-Gv~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~r~~~~f 82 (129)
T PF02291_consen 16 RVIHLILKSM-GVTEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQSRLDHSF 82 (129)
T ss_dssp HHHHHHHHHT-T---B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHHT-----
T ss_pred HHHHHHHHHc-CCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHhhhc
Confidence 4577888888 445689999999999999999999999999999999999999999999997777665
No 19
>PTZ00018 histone H3; Provisional
Probab=97.60 E-value=0.00012 Score=67.54 Aligned_cols=69 Identities=23% Similarity=0.201 Sum_probs=64.0
Q ss_pred CcCCccCCHHHHHHHHHhhC----CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009343 396 EFGNRILTKRSIQELVNQID----PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL 464 (537)
Q Consensus 396 e~~nrILtKrKLqELVrqID----P~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhL 464 (537)
.+.+-+|.|--+..||++|. .+..+..++.++|.+.+|+|+-++.+.+-..|.|.|--||..|||+|+.
T Consensus 57 kst~lLI~k~pF~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ 129 (136)
T PTZ00018 57 KSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 129 (136)
T ss_pred ccchhccccccHHHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHH
Confidence 46678899999999999994 4679999999999999999999999999999999999999999999885
No 20
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=97.53 E-value=0.00057 Score=56.06 Aligned_cols=69 Identities=13% Similarity=0.277 Sum_probs=59.0
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 402 LtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
|-|..+..+++.. +-+.+++++.|.|.||+++|+..+...+-++|+|-+..++.+.||.+.|++ .|+.+
T Consensus 7 ll~~~Vaqil~~~-Gf~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~-~gi~~ 75 (77)
T smart00576 7 LLRIAVAQILESA-GFDSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALEN-LGISV 75 (77)
T ss_pred HHHHHHHHHHHHc-CccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH-hCccc
Confidence 3455566666665 448999999999999999999999999999999999999999999999987 47754
No 21
>PLN00160 histone H3; Provisional
Probab=97.46 E-value=0.00028 Score=61.99 Aligned_cols=69 Identities=19% Similarity=0.135 Sum_probs=62.5
Q ss_pred CcCCccCCHHHHHHHHHhhCC-----CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009343 396 EFGNRILTKRSIQELVNQIDP-----SERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL 464 (537)
Q Consensus 396 e~~nrILtKrKLqELVrqIDP-----~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhL 464 (537)
.+.+-+|.|--+..||++|.. +..+..++.++|.+.+|.|+-.+.+.+-..|.|.|--||..||++|+.
T Consensus 16 kst~lLI~k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~ 89 (97)
T PLN00160 16 KSTDLLIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLAR 89 (97)
T ss_pred cchhhhhccccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHH
Confidence 345678899999999999942 378999999999999999999999999999999999999999999985
No 22
>cd08050 TAF6 TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 6 (TAF6) is one of several TAFs that bind TBP and are involved in forming Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTFs) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs are named after their electrophoretic mobility in polyacrylamide gels in different species. A new, unified nomenclature has been suggested for the pol II TAFs to show the relationship between TAF orthologs and paralogs. Several hypotheses are proposed for TAFs functions such as serving as
Probab=97.37 E-value=0.00082 Score=68.35 Aligned_cols=74 Identities=22% Similarity=0.275 Sum_probs=62.9
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcc
Q 009343 404 KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGD 478 (537)
Q Consensus 404 KrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGfssD 478 (537)
++.+.++++.+ +-+.+++|+.+.|.+.+++|+..|+..|+++|||-|..+|.+.||.+.|+..=--.+-||..-
T Consensus 2 ~~~i~~ia~~~-Gi~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~~n~eplyG~~~~ 75 (343)
T cd08050 2 QESIKLIAESL-GIDSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRLRNVEPLYGFSSS 75 (343)
T ss_pred hhHHHHHHHHc-CCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHhCCCcccCCCCC
Confidence 45677777776 446999999999999999999999999999999999999999999999988533456677643
No 23
>PF02269 TFIID-18kDa: Transcription initiation factor IID, 18kD subunit; InterPro: IPR003195 This family includes the Spt3 yeast transcription factors and the 18 kDa subunit from human transcription initiation factor IID (TFIID-18). Determination of the crystal structure reveals an atypical histone fold [].; GO: 0006366 transcription from RNA polymerase II promoter; PDB: 1BH9_A 1BH8_A.
Probab=97.33 E-value=0.00023 Score=60.92 Aligned_cols=61 Identities=20% Similarity=0.405 Sum_probs=31.3
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 407 LqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
|..|+--.+-...-.+|..++|-+|+-+||-+++..|+++|..||+..|.++|+.|.|.|+
T Consensus 7 I~~mMy~fGD~~~P~~eTv~lvE~iv~~~i~~l~~~A~~~a~~rg~~~i~~eDl~F~lR~D 67 (93)
T PF02269_consen 7 IRQMMYGFGDVEEPLPETVDLVEDIVREYIIELCQEAMEVAQRRGSKKIKVEDLLFLLRKD 67 (93)
T ss_dssp CHHHHHCTTS-SS--HHHHHHHHHHHHHHHHHHHHHHHC----------------------
T ss_pred HHHHHHHcCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCcCcHHHHHHHHhcC
Confidence 5566666666677888999999999999999999999999999999999999999999885
No 24
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=97.13 E-value=0.0012 Score=55.58 Aligned_cols=61 Identities=18% Similarity=0.282 Sum_probs=50.9
Q ss_pred HHHHHHhh--CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 407 IQELVNQI--DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 407 LqELVrqI--DP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
+..+++++ +.+..+.+++...|.||+-++++++...--.+|||.|.++|...||.|...||
T Consensus 11 v~ki~ee~~~~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~Rrn 73 (76)
T PF15630_consen 11 VGKIVEEEAKEKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLARRN 73 (76)
T ss_dssp HHHHHHHCCCCTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTTT-
T ss_pred HHHHHHHHHhccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhhcC
Confidence 34566666 45668999999999999999999999999999999999999999999999887
No 25
>smart00427 H2B Histone H2B.
Probab=97.01 E-value=0.0029 Score=55.10 Aligned_cols=64 Identities=25% Similarity=0.466 Sum_probs=58.7
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009343 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 407 LqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (537)
|...+++|.|+..|...+..+|--+++|+.|.|...|++||+..|..||..+||+...+ +-+||
T Consensus 7 i~kvLKqVhpd~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvr----l~Lpg 70 (89)
T smart00427 7 IYKVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVR----LILPG 70 (89)
T ss_pred HHHHHHHhCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHH----HHccH
Confidence 66889999999999999999999999999999999999999999999999999998765 44566
No 26
>PF02969 TAF: TATA box binding protein associated factor (TAF); InterPro: IPR004823 The TATA box binding protein associated factor (TAF) is part of the transcription initiation factor TFIID multimeric protein complex. TFIID plays a central role in mediating promoter responses to various activators and repressors. It binds tightly to TAFII-250 and directly interacts with TAFII-40. TFIID is composed of TATA binding protein (TBP)and a number of TBP-associated factors (TAFS). TAF proteins adopt a histone-like fold.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus; PDB: 1TAF_B.
Probab=96.89 E-value=0.0048 Score=50.85 Aligned_cols=65 Identities=17% Similarity=0.283 Sum_probs=50.6
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009343 400 RILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (537)
Q Consensus 400 rILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLE 465 (537)
-+++++.++.....+ +-..|++|+..+|.+-++-.|..|+..|+++++|-|..+|...||...|+
T Consensus 2 s~~~~esvk~iAes~-Gi~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 2 SVFSQESVKDIAESL-GISNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR 66 (66)
T ss_dssp ----HHHHHHHHHHT-T---B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred CcCCHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence 367788888888887 44679999999999999999999999999999999999999999998874
No 27
>PF07524 Bromo_TP: Bromodomain associated; InterPro: IPR006565 This bromodomain is found in eukaryotic transcription factors and PHD domain containing proteins (IPR001965 from INTERPRO). The tandem PHD finger-bromodomain is found in many chromatin-associated proteins. It is involved in gene silencing by the human co-repressor KRAB-associated protein 1 (KAP1). The tandem PHD finger-bromodomain of KAP1 has a distinct structure that joins the two protein modules. The first helix, alpha(Z), of an atypical bromodomain forms the central hydrophobic core that anchors the other three helices of the bromodomain on one side and the zinc binding PHD finger on the other []. The Rap1 GTPase-activating protein, Sipa1, is modulated by the cellular bromodomain protein, Brd4. Brd4 belongs to the BET family and is a multifunctional protein involved in transcription, replication, the signal transduction pathway, and cell cycle progression. All of these functions are linked to its association with acetylated chromatin. It has tandem bromodomains []. The dysregulation of the Brd4-associated pathways may play an important role in breast cancer progression []. Bovine papillomavirus type 1 E2 also binds to chromosomes in a complex with Brd4. Interaction with Brd4 is additionally important for E2-mediated transcriptional regulation [, ].
Probab=96.75 E-value=0.011 Score=48.09 Aligned_cols=65 Identities=17% Similarity=0.304 Sum_probs=53.7
Q ss_pred HHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 406 SIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 406 KLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
.+..+++.+ +=+...+.+.|.|.+|+.+||.++...+-++|.|.+.....+.||.+.|+. .|+.+
T Consensus 11 ~va~il~~~-GF~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~~-~gi~v 75 (77)
T PF07524_consen 11 SVAQILKHA-GFDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALEE-MGISV 75 (77)
T ss_pred HHHHHHHHc-CccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH-hCCCC
Confidence 333444433 446889999999999999999999999999999999998999999999976 46643
No 28
>PLN00158 histone H2B; Provisional
Probab=96.64 E-value=0.0076 Score=54.79 Aligned_cols=64 Identities=23% Similarity=0.433 Sum_probs=59.1
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009343 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 407 LqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (537)
|...|++|.|+..|...+..+|--+.+|+.|.|...|++||+..+..||..+||+-..+ +.+||
T Consensus 33 I~kVLKQVhPd~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvr----LvLpg 96 (116)
T PLN00158 33 IYKVLKQVHPDTGISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVR----LILPG 96 (116)
T ss_pred HHHHHHHhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHH----HhccH
Confidence 78899999999999999999999999999999999999999999999999999987754 45676
No 29
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription]
Probab=96.56 E-value=0.0072 Score=57.68 Aligned_cols=71 Identities=13% Similarity=0.298 Sum_probs=64.8
Q ss_pred CcCCccCCHHHHHHHHHhh-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 396 EFGNRILTKRSIQELVNQI-DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 396 e~~nrILtKrKLqELVrqI-DP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
.+..|+|.=.++-++++++ .++.+|.+|+.|.+.|.+.|||.=|+..|...|-.-|.+||.-.||.+.|..
T Consensus 27 reqDr~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~t 98 (168)
T KOG0869|consen 27 REQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMST 98 (168)
T ss_pred chhhhhccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHHH
Confidence 4667899988999999886 6788999999999999999999999999999999999999999999877765
No 30
>PTZ00463 histone H2B; Provisional
Probab=96.55 E-value=0.0093 Score=54.35 Aligned_cols=64 Identities=25% Similarity=0.436 Sum_probs=59.5
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009343 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 407 LqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (537)
|...|++|.|...|...+..+|--+.+|..|.|...|++||+..+..||..+||+-.++ +.+||
T Consensus 34 I~KVLKqVhPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvr----LlLpG 97 (117)
T PTZ00463 34 IFKVLKQVHPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIR----LVLPG 97 (117)
T ss_pred HHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHh----hcccH
Confidence 88999999999999999999999999999999999999999999999999999988754 56777
No 31
>KOG3334 consensus Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=96.49 E-value=0.012 Score=55.44 Aligned_cols=68 Identities=15% Similarity=0.289 Sum_probs=60.6
Q ss_pred HHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009343 406 SIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 406 KLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (537)
.|.-+++.+ +-...|+-|.-.|||+|-.++..|+..|--+++|-+..+|++.||.+.++..-|..+-+
T Consensus 18 ~i~~iL~s~-GI~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~~~~~sf~~ 85 (148)
T KOG3334|consen 18 VIASILKSL-GIQEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQMRVDHSFTP 85 (148)
T ss_pred HHHHHHHHc-CccccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHhccccCC
Confidence 355667765 56789999999999999999999999999999999999999999999999988888654
No 32
>cd07978 TAF13 The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Several hy
Probab=96.40 E-value=0.019 Score=49.62 Aligned_cols=62 Identities=16% Similarity=0.410 Sum_probs=51.7
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 405 RSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 405 rKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
+.|..|+--.+-...-.+|..++|-+|.-+||.+++..||.+|..|++. +.++|+.|.|.++
T Consensus 6 ~ei~~mmy~~GD~~~P~~eTv~llE~iv~~~i~~l~~~a~~~A~~r~~k-~~~eD~~FliR~D 67 (92)
T cd07978 6 KEIRQMMYGFGDVQNPLPETVDLLEDIVVEYIIELCHKAAEVAQRRRGK-VKVEDLIFLLRKD 67 (92)
T ss_pred HHHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCC-CCHHHHHHHHhcC
Confidence 4577888777666677788889999999999999999999999955555 5999999999663
No 33
>cd08048 TAF11 TATA Binding Protein (TBP) Associated Factor 11 (TAF11) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 11 (TAF11) is one of several TAFs that bind TBP and are involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAF orthologs and paralogs. Several hypothes
Probab=96.32 E-value=0.021 Score=48.84 Aligned_cols=64 Identities=17% Similarity=0.264 Sum_probs=56.6
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC---CCcchhhHHHHHhh
Q 009343 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKS---DTLEAKDILVHLER 466 (537)
Q Consensus 402 LtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKS---dTLEvKDVQLhLER 466 (537)
|+|.++..|+..+.. .++.++|..+|-.||..||-++|+.|..+.+.++. .-|..+.|.-.+.|
T Consensus 17 f~k~~iKr~~~~~~~-~~v~~~v~i~v~glaKvFVGeivE~A~~V~~~~~~~~~~Pl~P~HireA~rr 83 (85)
T cd08048 17 FPKAAIKRLIQSVTG-QSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGEANTGPLQPRHLREAYRR 83 (85)
T ss_pred ccHHHHHHHHHHHcC-CCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCCCCCcHHHHHHHHH
Confidence 899999999999866 89999999999999999999999999999999887 56777777666555
No 34
>cd00074 H2A Histone 2A; H2A is a subunit of the nucleosome. The nucleosome is an octamer containing two H2A, H2B, H3, and H4 subunits. The H2A subunit performs essential roles in maintaining structural integrity of the nucleosome, chromatin condensation, and binding of specific chromatin-associated proteins.
Probab=95.88 E-value=0.028 Score=50.62 Aligned_cols=70 Identities=10% Similarity=0.176 Sum_probs=63.7
Q ss_pred CCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 398 GNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 398 ~nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
.+-+|.-.+++.|+++-...++++.++-..|..+.|.|+.+|++.|..+|||.|...|..+||++.+..+
T Consensus 17 agL~fPV~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~nD 86 (115)
T cd00074 17 AGLQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRND 86 (115)
T ss_pred cCccCcHHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhcc
Confidence 3557788999999997556789999999999999999999999999999999999999999999998763
No 35
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=95.74 E-value=0.05 Score=51.68 Aligned_cols=104 Identities=15% Similarity=0.343 Sum_probs=84.3
Q ss_pred CCCcCCccCCHHHHHHHHHhhCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 394 SDEFGNRILTKRSIQELVNQIDP-SERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 394 ~~e~~nrILtKrKLqELVrqIDP-~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
+.++++--|.|.-+..+|++|=| +..+..|+.|+|.+.+-+||.-|...|-++|-.+...||-.+-|.-.||+.
T Consensus 5 ~~~dde~sLPkAtv~KmIke~lP~d~rvakeareliincCvEFI~liSsEAneic~~e~KKTIa~EHV~KALe~L----- 79 (156)
T KOG0871|consen 5 GKEDDELSLPKATVNKMIKEMLPKDVRVAKEARELIINCCVEFINLISSEANEICNKEAKKTIAPEHVIKALENL----- 79 (156)
T ss_pred ccccccccCcHHHHHHHHHHhCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhHHhcccCCHHHHHHHHHHc-----
Confidence 44667778999999999999977 899999999999999999999999999999999999999999999999974
Q ss_pred CCCCcc-----c--------c--cc-----cCCCCCc--hHHHHHHHHHHHHh
Q 009343 473 PGFSGD-----E--------I--KT-----FRKPLVC--DIHKERLAAIKKSV 503 (537)
Q Consensus 473 PGfssD-----E--------I--R~-----~RK~~pT--EaHKQRMALIRKsI 503 (537)
||+.. + . +. +++.-.+ |.|++-..|+.|+.
T Consensus 80 -gF~eYiee~~~vl~~~K~~~~~~~~kssk~e~~Gi~eEEL~~qQqeLf~~AR 131 (156)
T KOG0871|consen 80 -GFGEYIEEAEEVLENCKEEAKKRRRKSSKFEKSGIPEEELLRQQQELFAKAR 131 (156)
T ss_pred -chHHHHHHHHHHHHHHHHHHHHhhhhhhhHHhcCCCHHHHHHHHHHHHHHHH
Confidence 55520 0 0 10 1111122 57888888999877
No 36
>PF09415 CENP-X: CENP-S associating Centromere protein X; InterPro: IPR018552 Centromere protein X (CENP-X) is a component of the CENP-S complex. The CENP-S complex is composed of at least of CENP-S and CENP-X and is essential for the stable assembly of the outer kinetchore []. CENP-X is also a DNA-binding component of the Fanconi anemia (FA) core complex involved in DNA damage repair and genome maintenance. The FA complex is composed of CENPS, FANCA, FANCB, FANCC, FANCE, FANCF, FANCG, FANCL/PHF9, FANCM, FAAP24 and CENPX. Interacts with CENPS, FANCM and FAAP24 [, ].; PDB: 4DRB_L 4DRA_H 3V9R_D.
Probab=95.73 E-value=0.012 Score=48.96 Aligned_cols=60 Identities=17% Similarity=0.216 Sum_probs=47.3
Q ss_pred HHHHHHHHhh--CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCC-cchhhHHHHH
Q 009343 405 RSIQELVNQI--DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDT-LEAKDILVHL 464 (537)
Q Consensus 405 rKLqELVrqI--DP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdT-LEvKDVQLhL 464 (537)
+-|.+|++.- |.+.+|.+|+-+++.++.|-||...+.+|+..|+..+.+. ||+.|++-++
T Consensus 3 ~li~rll~~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le~e~LEki~ 65 (72)
T PF09415_consen 3 ELIARLLHEHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLEVEHLEKIL 65 (72)
T ss_dssp HHHHHHHCTTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE-HHHHHHHC
T ss_pred HHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence 3455566532 6788999999999999999999999999999999999999 9999986543
No 37
>KOG3423 consensus Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=95.43 E-value=0.078 Score=51.23 Aligned_cols=69 Identities=23% Similarity=0.347 Sum_probs=57.9
Q ss_pred CHHHHHHHHHhhCC------------------CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC------------
Q 009343 403 TKRSIQELVNQIDP------------------SERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKS------------ 452 (537)
Q Consensus 403 tKrKLqELVrqIDP------------------~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKS------------ 452 (537)
.-.-|.||+.++|- -.+.|+-|..||.-.|-.||.||+..|.+.||-|..
T Consensus 69 ~d~~l~efl~qLddYtP~IPDavt~~yL~~aGf~~~D~rv~RLvsLaAQKfvSDIa~DA~Q~~k~r~~~~~~~~k~~~kd 148 (176)
T KOG3423|consen 69 KDTHLEEFLAQLDDYTPTIPDAVTDHYLKKAGFQTSDPRVKRLVSLAAQKFVSDIANDALQHSKIRTKTAIGKDKKQAKD 148 (176)
T ss_pred cchHHHHHHHHHhcCCCCCcHHHHHHHHHhcCCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccccccccccccc
Confidence 44568899988863 357788899999999999999999999999999984
Q ss_pred --CCcchhhHHHHHhhccCccc
Q 009343 453 --DTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 453 --dTLEvKDVQLhLERnWNI~I 472 (537)
-||.++|+.-+|+. |||.|
T Consensus 149 kK~tLtmeDL~~AL~E-yGinv 169 (176)
T KOG3423|consen 149 KKYTLTMEDLSPALAE-YGINV 169 (176)
T ss_pred cceeeeHHHHHHHHHH-hCccc
Confidence 27889999888875 88876
No 38
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]
Probab=95.38 E-value=0.05 Score=50.31 Aligned_cols=63 Identities=21% Similarity=0.392 Sum_probs=56.9
Q ss_pred HHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009343 408 QELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 408 qELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (537)
...+++|+|..-|..+...++--+..||+|+|+..|-+||..+|..||..++|+..++ +-+||
T Consensus 44 ~kvlk~Vhpd~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~r----LllPg 106 (127)
T KOG1744|consen 44 YKVLKQVHPDLGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVR----LLLPG 106 (127)
T ss_pred hhhhhcccCCCCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHH----HhCch
Confidence 3488999999999999999999999999999999999999999999999999988654 45676
No 39
>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=95.37 E-value=0.083 Score=58.30 Aligned_cols=92 Identities=21% Similarity=0.230 Sum_probs=76.5
Q ss_pred cCCccCC-HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCC
Q 009343 397 FGNRILT-KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGF 475 (537)
Q Consensus 397 ~~nrILt-KrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGf 475 (537)
..+.|+. +..++.+++.| +-+.|++|+..+|.+-.+.-|.+|+..|.+.-+|-|..+|.+.||...|.-.-=-.+-||
T Consensus 6 ~~~~v~s~~Es~k~vAEsl-Gi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~~nVep~yg~ 84 (576)
T KOG2549|consen 6 ESPTVVSPKESVKVVAESL-GITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRSLNVEPLYGF 84 (576)
T ss_pred ccccccCcHHHHHHHHHHh-CccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhhcccccccCc
Confidence 4455666 77777777776 668899999999999999999999999999999999999999999977765423557789
Q ss_pred CcccccccCCCCCc
Q 009343 476 SGDEIKTFRKPLVC 489 (537)
Q Consensus 476 ssDEIR~~RK~~pT 489 (537)
++-++-.+||...+
T Consensus 85 ~s~~~i~fr~a~~~ 98 (576)
T KOG2549|consen 85 GAQEIIPFRKASGG 98 (576)
T ss_pred ccCceeeccccCCC
Confidence 88888888877665
No 40
>PF04719 TAFII28: hTAFII28-like protein conserved region; InterPro: IPR006809 The general transcription factor, TFIID, consists of the TATA-binding protein (TBP) associated with a series of TBP-associated factors (TAFs) that together participate in the assembly of the transcription preinitiation complex. The conserved region is found at the C terminus of most member proteins. The crystal structure of hTAFII28 with hTAFII18 shows that this region is involved in the binding of these two subunits. The conserved region contains four alpha helices and three loops arranged as in histone H3 [, ].; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005634 nucleus; PDB: 1BH9_B 1BH8_B.
Probab=94.63 E-value=0.14 Score=44.68 Aligned_cols=60 Identities=20% Similarity=0.276 Sum_probs=44.6
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCC-CcchhhHH
Q 009343 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSD-TLEAKDIL 461 (537)
Q Consensus 402 LtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSd-TLEvKDVQ 461 (537)
|+|..|..|++.+..+..+.+.|.-+|.-||.-||-++|+.|..+.+.++.. .|..+.|.
T Consensus 24 ~~k~~ikkli~~~~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hlr 84 (90)
T PF04719_consen 24 FNKAAIKKLINQVLGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHLR 84 (90)
T ss_dssp --HHHHHHHHHHHHS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHHH
T ss_pred CCHHHHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHHH
Confidence 7899999999999988999999999999999999999999999999976644 44444443
No 41
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]
Probab=94.22 E-value=0.4 Score=46.39 Aligned_cols=69 Identities=25% Similarity=0.317 Sum_probs=62.1
Q ss_pred CccCCHHHHHHHHHhhCC--CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 399 NRILTKRSIQELVNQIDP--SERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 399 nrILtKrKLqELVrqIDP--~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
.-.|.+.-|..||+++=+ +..|..|+..+|.+-|--||..++.+|-.+||.-+..||.+.||.-.|+.-
T Consensus 8 dl~lP~AiI~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~Ei 78 (172)
T KOG0870|consen 8 DLNLPNAIITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALDEI 78 (172)
T ss_pred HhhccHHHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHHHh
Confidence 345788899999999954 468999999999999999999999999999999999999999998888863
No 42
>KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics]
Probab=93.77 E-value=0.046 Score=51.04 Aligned_cols=69 Identities=23% Similarity=0.218 Sum_probs=61.2
Q ss_pred cCCccCCHHHHHHHHHhhC----CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009343 397 FGNRILTKRSIQELVNQID----PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (537)
Q Consensus 397 ~~nrILtKrKLqELVrqID----P~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLE 465 (537)
..+-+|.|--.+.||++|. ++..+-.+++..|.|.+|.|+-...+.+-..|-|-|--||..|||+|++.
T Consensus 59 stdLlI~K~PFqRlvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlArr 131 (137)
T KOG1745|consen 59 STDLLIRKLPFQRLVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARR 131 (137)
T ss_pred hhHHHhhcCcHHHHhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhhh
Confidence 4556778888899999874 46788899999999999999999999999999999999999999999763
No 43
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=93.62 E-value=0.13 Score=54.34 Aligned_cols=60 Identities=18% Similarity=0.236 Sum_probs=43.1
Q ss_pred ccCCHHHHHHHHHhh-----CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhh
Q 009343 400 RILTKRSIQELVNQI-----DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKD 459 (537)
Q Consensus 400 rILtKrKLqELVrqI-----DP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKD 459 (537)
--|....++.|+..+ -.+.+|.+|+.++|.++.|.|.+.+++.-+.+|||-|-+|||..|
T Consensus 350 P~lP~~~vK~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD 414 (414)
T PF15511_consen 350 PSLPPGVVKKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD 414 (414)
T ss_dssp --S-HHHHHHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred CCCCccHHHHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence 334444445555444 246899999999999999999999999999999999999999887
No 44
>PF05236 TAF4: Transcription initiation factor TFIID component TAF4 family; InterPro: IPR007900 Accurate transcription initiation at protein-coding genes by RNA polymerase II requires the assembly of a multiprotein complex around the mRNA start site. Transcription factor TFIID is one of the general factors involved in this process. Yeast TFIID comprises the TATA binding protein and 14 TBP-associated factors (TAFIIs), nine of which contain histone-fold domains (IPR007124 from INTERPRO). The C-terminal region of the TFIID-specific yeast TAF4 (yTAF4) containing the HFD shares strong sequence similarity with Drosophila (d)TAF4 and human TAF4. A structure/function analysis of yTAF4 demonstrates that the HFD, a short conserved C-terminal domain (CCTD), and the region separating them are all required for yTAF4 function. This region of similarity is found in Transcription initiation factor TFIID component TAF4 []. ; GO: 0006352 transcription initiation, DNA-dependent, 0005669 transcription factor TFIID complex; PDB: 1H3O_C.
Probab=93.58 E-value=0.068 Score=52.52 Aligned_cols=59 Identities=20% Similarity=0.319 Sum_probs=36.9
Q ss_pred CcCCccCCHHHHHHHHHhhC---CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCC
Q 009343 396 EFGNRILTKRSIQELVNQID---PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDT 454 (537)
Q Consensus 396 e~~nrILtKrKLqELVrqID---P~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdT 454 (537)
+....+|....|...|++|. ....+|+||.++|..-+++++.+||+.+..+|+||....
T Consensus 38 ~~~~~fL~~~~L~~~i~~i~~~~g~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~hR~~~~ 99 (264)
T PF05236_consen 38 EKEEPFLNPSPLQKRIQKIAKKHGLKSVDEDVLELLSLATEERLRNLIEKAIVLSRHRRDSS 99 (264)
T ss_dssp ------S-HHHHHHHHHHHHHCTT--EE-TCHHHHHHHHHHHHHHHHHHHHH----------
T ss_pred cccccccCHHHHHHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence 34566899999999999996 345699999999999999999999999999999998764
No 45
>PF03540 TFIID_30kDa: Transcription initiation factor TFIID 23-30kDa subunit; InterPro: IPR003923 Transcription initiation factor TFIID is a multimeric protein complex that plays a central role in mediating promoter responses to various activators and repressors. The complex includes TATA binding protein (TBP) and various TBP-associated factors (TAFS). TFIID a bona fide RNA polymerase II-specific TATA-binding protein-associated factor (TAF) and is essential for viability []. TFIID acts to nucleate the transcription complex, recruiting the rest of the factors through a direct interaction with TFIIB. The TBP subunit of TFIID is sufficient for TATA-element binding and TFIIB interaction, and can support basal transcription. The protein belongs to the TAF2H family.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus
Probab=93.49 E-value=0.34 Score=38.76 Aligned_cols=48 Identities=17% Similarity=0.225 Sum_probs=39.4
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 009343 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHR 450 (537)
Q Consensus 402 LtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHR 450 (537)
|....++-.+++. +-..-|+-|..|+.-.|..||.+|++.|++.||.|
T Consensus 3 IPD~v~~~yL~~~-G~~~~D~rv~RLvSLaaQKFisdI~~dA~q~~k~r 50 (51)
T PF03540_consen 3 IPDEVTDYYLERS-GFQTSDPRVKRLVSLAAQKFISDIANDAMQYCKIR 50 (51)
T ss_pred CCHHHHHHHHHHC-CCCCCCHhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4444555556554 55678999999999999999999999999999988
No 46
>cd08045 TAF4 TATA Binding Protein (TBP) Associated Factor 4 (TAF4) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 4 (TAF4) is one of several TAFs that bind TBP and are involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryote. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAF orthologs and paralogs. Several hypotheses are
Probab=93.40 E-value=0.21 Score=47.85 Aligned_cols=59 Identities=15% Similarity=0.224 Sum_probs=51.0
Q ss_pred CCcCCccCCHHHHHHHHHhhCCCC---CCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCC
Q 009343 395 DEFGNRILTKRSIQELVNQIDPSE---RLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSD 453 (537)
Q Consensus 395 ~e~~nrILtKrKLqELVrqIDP~e---~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSd 453 (537)
......+|.+..|...|++|.... .+|+|+.++|...+++|+-+|++.+..+|+||...
T Consensus 38 ~~~~~~fl~~~~l~~~~~~i~~~~g~~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR~~~ 99 (212)
T cd08045 38 SQKDPSFLNPSPLAKKIRKIAKKHGLKEVDEDVLDLISLALEERLRNLLEKLIEVSEHRVDS 99 (212)
T ss_pred ccchhhccCHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 345567999999999999995433 67999999999999999999999999999999654
No 47
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=93.35 E-value=0.26 Score=46.14 Aligned_cols=67 Identities=19% Similarity=0.271 Sum_probs=55.0
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCC---CcchhhHHHHHhhccCcccCC
Q 009343 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSD---TLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 407 LqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSd---TLEvKDVQLhLERnWNI~IPG 474 (537)
|+=+++.+ .-+..++.|.=-||++|-.|-.+|++.|.-+|||-|+. +|.|+||.|.|.-.-|..|-+
T Consensus 20 ihliL~Sl-gi~~ye~~VplQLl~FAhRYTq~vl~Dalvya~htgrg~~a~l~veDvrLA~at~v~~~F~p 89 (145)
T COG5094 20 IHLILRSL-GIEEYEPKVPLQLLEFAHRYTQDVLEDALVYAKHTGRGHIATLGVEDVRLALATKVGRHFVP 89 (145)
T ss_pred HHHHHHhc-CchhhCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCcccHHHHHHHHHHHhcCCcCC
Confidence 44445544 55678888999999999999999999999999998654 788899999999888877644
No 48
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=91.11 E-value=0.98 Score=42.55 Aligned_cols=109 Identities=12% Similarity=0.263 Sum_probs=81.0
Q ss_pred CcCCccCCHHHHHHHHHhh-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc-cCcccC
Q 009343 396 EFGNRILTKRSIQELVNQI-DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN-WNMTLP 473 (537)
Q Consensus 396 e~~nrILtKrKLqELVrqI-DP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn-WNI~IP 473 (537)
.+++--|.|.-++.+|..| +.+..+..|+.|+|.+.+=+||.-+...|-.+|...+..||-.+.|--.||.. |+-.|+
T Consensus 6 ~dDe~sLPKATVqKMvS~iLp~dl~ftKearei~in~cieFi~~lsseAne~ce~EaKKTIa~EHviKALenLef~eyi~ 85 (148)
T COG5150 6 NDDENSLPKATVQKMVSSILPKDLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKALENLEFEEYIE 85 (148)
T ss_pred ccccccCcHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHhccHHHHHH
Confidence 4566679999999999998 55779999999999999999999999999999999999999999998888752 332232
Q ss_pred CCCccc---ccc-----------cCCCCCc--hHHHHHHHHHHHHhhh
Q 009343 474 GFSGDE---IKT-----------FRKPLVC--DIHKERLAAIKKSVMA 505 (537)
Q Consensus 474 GfssDE---IR~-----------~RK~~pT--EaHKQRMALIRKsI~s 505 (537)
- .-++ .+. |++.-.+ |.|+|...|++.+..-
T Consensus 86 ~-~~e~~~n~k~~qK~ke~k~sKFk~SGls~eELlrQQeeLf~~ar~r 132 (148)
T COG5150 86 S-CMEEHENYKSYQKQKESKISKFKDSGLSMEELLRQQEELFQNARLR 132 (148)
T ss_pred H-HHHHHHHHHHHHhhchhhhhHHHhcCCCHHHHHHHHHHHHHHHHHH
Confidence 1 1111 122 2222222 5788888888875543
No 49
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription]
Probab=90.67 E-value=1.1 Score=41.36 Aligned_cols=59 Identities=17% Similarity=0.238 Sum_probs=47.6
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 407 LqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
|..|+=..+-...--.|..+.|-+++-|++.++|..|..+|-.|+. +.++|.+|+|.|.
T Consensus 15 ikslmYayGDvv~P~~dt~~~L~e~V~dY~~~~ctna~~~Aq~rnK--~k~eDfkfaLr~D 73 (126)
T COG5248 15 IKSLMYAYGDVVAPRYDTAEALHEYVLDYMSILCTNAHNMAQVRNK--TKTEDFKFALRRD 73 (126)
T ss_pred HHHHHHHhCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHhccc--chHHHHHHHHhhC
Confidence 4455544444455567888999999999999999999999997764 5789999999985
No 50
>KOG3901 consensus Transcription initiation factor IID subunit [Transcription]
Probab=90.27 E-value=1.4 Score=40.16 Aligned_cols=59 Identities=15% Similarity=0.338 Sum_probs=44.9
Q ss_pred HHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 406 SIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 406 KLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
.|.-|+=-..-...-=+|..++|-+|+=|||.++++.|..++ +-+.|.++|+.|.|.|.
T Consensus 14 dl~~mmYgfGDd~nP~~~tv~~Le~iV~~Yi~elt~~a~~~g---~rgk~~veD~~f~lRkD 72 (109)
T KOG3901|consen 14 DLRSMMYGFGDDVNPYPETVDLLEDIVLEYITELTHAAMEIG---KRGKVKVEDFKFLLRKD 72 (109)
T ss_pred HHHHHHHhcCCCCCccHhHHHHHHHHHHHHHHHHHHHHHHhc---ccCceeHHHHHHHHHhC
Confidence 355555544444445566778999999999999999999998 34557899999999884
No 51
>TIGR02902 spore_lonB ATP-dependent protease LonB. Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.
Probab=88.63 E-value=1.2 Score=48.07 Aligned_cols=65 Identities=18% Similarity=0.202 Sum_probs=51.7
Q ss_pred cCCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHH--HHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009343 401 ILTKRSIQELVNQID--PSERLDPDVEDILVDIAED--FVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (537)
Q Consensus 401 ILtKrKLqELVrqID--P~e~LD~DVEELLLeIADD--FVDsVvs~ACkLAKHRKSdTLEvKDVQLhLE 465 (537)
-|++..|.+|++.+- -+..|++++.++|.+.+.+ .+.+++..||.+|..++...|+.+||..+|+
T Consensus 262 pL~~eei~~Il~~~a~k~~i~is~~al~~I~~y~~n~Rel~nll~~Aa~~A~~~~~~~It~~dI~~vl~ 330 (531)
T TIGR02902 262 PLLDEEIKEIAKNAAEKIGINLEKHALELIVKYASNGREAVNIVQLAAGIALGEGRKRILAEDIEWVAE 330 (531)
T ss_pred CCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCcEEcHHHHHHHhC
Confidence 456677777777763 2357999999988877653 3567889999999999999999999999987
No 52
>smart00350 MCM minichromosome maintenance proteins.
Probab=87.63 E-value=2.1 Score=45.94 Aligned_cols=67 Identities=21% Similarity=0.282 Sum_probs=53.4
Q ss_pred CccCCHHHHHHHHHhhCC--CCCCCHHHHHHHHHHHHHH-------------------HHHHHHHHHHhhhhcCCCCcch
Q 009343 399 NRILTKRSIQELVNQIDP--SERLDPDVEDILVDIAEDF-------------------VESITMFGCSLAKHRKSDTLEA 457 (537)
Q Consensus 399 nrILtKrKLqELVrqIDP--~e~LD~DVEELLLeIADDF-------------------VDsVvs~ACkLAKHRKSdTLEv 457 (537)
..+++...|.+.+..+-. .-.|+++++++|.+++.+. ++.++..|..+||.|.++.|+.
T Consensus 415 ~~~~~~~~l~~yi~~ar~~~~P~ls~~~~~~i~~~y~~~R~~~~~~~~~~~~~~t~R~l~sliRla~A~A~l~~r~~V~~ 494 (509)
T smart00350 415 EVPISQEFLRKYIAYAREKIKPKLSEEAAEKLVKAYVDLRKEDSQSEARSSIPITVRQLESIIRLSEAHAKMRLSDVVEE 494 (509)
T ss_pred cccCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHhcccccccccccccCcCHHHHHHHHHHHHHHHHHcCCCccCH
Confidence 357888888777655533 2358999999999887763 2788999999999999999999
Q ss_pred hhHHHHHh
Q 009343 458 KDILVHLE 465 (537)
Q Consensus 458 KDVQLhLE 465 (537)
+||...++
T Consensus 495 ~Dv~~ai~ 502 (509)
T smart00350 495 ADVEEAIR 502 (509)
T ss_pred HHHHHHHH
Confidence 99987765
No 53
>COG5162 Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=87.34 E-value=2.7 Score=41.14 Aligned_cols=48 Identities=23% Similarity=0.423 Sum_probs=39.5
Q ss_pred HHHHHHHHHhhCCC------------------CCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q 009343 404 KRSIQELVNQIDPS------------------ERLDPDVEDILVDIAEDFVESITMFGCSLAKHRK 451 (537)
Q Consensus 404 KrKLqELVrqIDP~------------------e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRK 451 (537)
-+.|.||+..+|-. .+.|.-|..||.-+|-.||.||...|.++-|-|-
T Consensus 72 dktlee~l~~mDsy~PliPd~v~DYyl~k~Gf~~~D~rvKkLl~L~aqKFvsDiA~dayqYsrIr~ 137 (197)
T COG5162 72 DKTLEELLQNMDSYTPLIPDSVTDYYLEKAGFVTSDQRVKKLLSLLAQKFVSDIAVDAYQYSRIRQ 137 (197)
T ss_pred HHHHHHHHHhcccCCCCccHHHHHHHHHhcCceeccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 35688999999852 3567788899999999999999999988877775
No 54
>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily. Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.
Probab=87.18 E-value=2.2 Score=40.07 Aligned_cols=67 Identities=6% Similarity=0.048 Sum_probs=54.1
Q ss_pred ccCCHHHHHHHHHhh------CCCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 400 RILTKRSIQELVNQI------DPSERLDPDVEDILVDIAED---FVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 400 rILtKrKLqELVrqI------DP~e~LD~DVEELLLeIADD---FVDsVvs~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
.-|+...+.+++... +....|++++.+.|.++++- +|+.++..+...|..++.+.|+..||...+..
T Consensus 190 ~~l~~~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~~~~a~~~~~~~i~~~~v~~~~~~ 265 (269)
T TIGR03015 190 GPLDREETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRLLLSAFLEEKREIGGEEVREVIAE 265 (269)
T ss_pred CCCCHHHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 345667777766543 22346999999999999997 89999999999999999999999999887765
No 55
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=87.00 E-value=2.9 Score=41.80 Aligned_cols=66 Identities=15% Similarity=0.211 Sum_probs=51.1
Q ss_pred CCHHHHHHHHHhhC----CCCCCCHHHHHHHHHHHHH------HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 402 LTKRSIQELVNQID----PSERLDPDVEDILVDIAED------FVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 402 LtKrKLqELVrqID----P~e~LD~DVEELLLeIADD------FVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
+++..+.++++.-- ....+++++.+++.+++.. ++-+++..|+.+|+.|+.++|+.+||.-.+++.
T Consensus 207 y~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~~ 282 (394)
T PRK00411 207 YTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKS 282 (394)
T ss_pred CCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 45666666655431 1346899999999998854 445788999999999999999999999888875
No 56
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=86.72 E-value=2.5 Score=45.05 Aligned_cols=76 Identities=18% Similarity=0.264 Sum_probs=63.2
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCc-ccCCCCc
Q 009343 400 RILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNM-TLPGFSG 477 (537)
Q Consensus 400 rILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI-~IPGfss 477 (537)
.|.+|..|.++...+ +-+.||||+-.+|..=.+--|..||..|.++-.|-|.++|.+.||-..|.- .|. .+.||..
T Consensus 4 t~ws~et~KdvAesl-Gi~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~ALr~-lNVePLyGyd~ 80 (450)
T COG5095 4 TLWSKETLKDVAESL-GISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALRS-LNVEPLYGYDP 80 (450)
T ss_pred eeecHHHHHHHHHHc-CCcccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHHHHh-cCCCcccCCCC
Confidence 466788888888766 568899999999988888899999999999999999999999999988865 353 3556554
No 57
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=84.91 E-value=3.5 Score=40.76 Aligned_cols=66 Identities=9% Similarity=0.127 Sum_probs=51.2
Q ss_pred CCHHHHHHHHHhhC----CCCCCCHHHHHHHHHHHH------HHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 402 LTKRSIQELVNQID----PSERLDPDVEDILVDIAE------DFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 402 LtKrKLqELVrqID----P~e~LD~DVEELLLeIAD------DFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
+++..|.++|+..- ....+|+|+.+++.++++ ..+.+++..|+.+|..++.+.|+.+||.-.++..
T Consensus 199 ~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~~~ 274 (365)
T TIGR02928 199 YDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQEKI 274 (365)
T ss_pred CCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence 46777777776541 234699999999988885 3566788899999999999999999998777764
No 58
>smart00414 H2A Histone 2A.
Probab=84.66 E-value=3 Score=37.25 Aligned_cols=67 Identities=10% Similarity=0.177 Sum_probs=60.1
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 400 RILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 400 rILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
-++.=.+++.++++-.-..+++..+--.|..+-|-++.+|++.|...|+.-|...|..+||++.+..
T Consensus 8 L~fPVgRi~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~n 74 (106)
T smart00414 8 LQFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRN 74 (106)
T ss_pred ccCchHHHHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhccC
Confidence 3567778999999876678999999999999999999999999999999999999999999988765
No 59
>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=84.23 E-value=1.5 Score=43.24 Aligned_cols=67 Identities=19% Similarity=0.259 Sum_probs=55.2
Q ss_pred CccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC-CCcchhhHHHHHhh
Q 009343 399 NRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKS-DTLEAKDILVHLER 466 (537)
Q Consensus 399 nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKS-dTLEvKDVQLhLER 466 (537)
...|.|..|..|+.+|-... |++.|.=++.-||.-||-+||+.|..++..++. .-|-.+.|.-.+.|
T Consensus 110 rs~f~Ka~iKkL~~~itg~~-v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~rr 177 (195)
T KOG3219|consen 110 RSAFPKAQIKKLMSSITGQS-VSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAYRR 177 (195)
T ss_pred HhcCCHHHHHHHHHHHhCCc-cCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHHHH
Confidence 34678999999999998777 999999999999999999999999998877764 35666666544444
No 60
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=81.72 E-value=2.1 Score=43.47 Aligned_cols=49 Identities=24% Similarity=0.371 Sum_probs=42.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 419 RLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 419 ~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
-|..||--|+..+++.||+.++.+|.-.||..|..+|...||.-.+++.
T Consensus 127 MisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kS 175 (286)
T COG5208 127 MISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKS 175 (286)
T ss_pred heecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHH
Confidence 3455556788899999999999999999999999999999998888764
No 61
>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=81.63 E-value=3.8 Score=43.92 Aligned_cols=64 Identities=20% Similarity=0.331 Sum_probs=51.8
Q ss_pred CHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHH----HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 403 TKRSIQELVNQI--DPSERLDPDVEDILVDIAED----FVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 403 tKrKLqELVrqI--DP~e~LD~DVEELLLeIADD----FVDsVvs~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
+++.+.++++-= .....|++|+.|+|..|..+ |.-.+++.|...|..||..++++.||+.+++-
T Consensus 359 ~~~d~~~IL~iRc~EEdv~m~~~A~d~Lt~i~~~tsLRYai~Lit~a~~~~~krk~~~v~~~di~r~y~L 428 (454)
T KOG2680|consen 359 TEEDIKKILRIRCQEEDVEMNPDALDLLTKIGEATSLRYAIHLITAASLVCLKRKGKVVEVDDIERVYRL 428 (454)
T ss_pred cHHHHHHHHHhhhhhhccccCHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhcCceeehhHHHHHHHH
Confidence 566677666522 34568999999999999876 77889999999999999999999999765543
No 62
>KOG4336 consensus TBP-associated transcription factor Prodos [Transcription]
Probab=81.56 E-value=4.4 Score=42.65 Aligned_cols=69 Identities=10% Similarity=0.168 Sum_probs=55.2
Q ss_pred HHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCC
Q 009343 406 SIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFS 476 (537)
Q Consensus 406 KLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGfs 476 (537)
.+..|+.+. +-+.+++.++|-|++|.+.+|+.+...+--+|.|-|.......||.|.|-+ +||.|+-+.
T Consensus 10 VV~~Ll~~~-gfd~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li~-mnI~v~sL~ 78 (323)
T KOG4336|consen 10 VVSNLLKTK-GFDSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLIE-MNIKVSSLY 78 (323)
T ss_pred HHHHHHHHh-CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHH-hCCChhhhH
Confidence 445566654 335689999999999999999999988888888888888899999999976 688875543
No 63
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=81.22 E-value=2.7 Score=45.52 Aligned_cols=63 Identities=24% Similarity=0.363 Sum_probs=50.8
Q ss_pred CHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHH----HHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009343 403 TKRSIQELVNQI--DPSERLDPDVEDILVDIAED----FVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (537)
Q Consensus 403 tKrKLqELVrqI--DP~e~LD~DVEELLLeIADD----FVDsVvs~ACkLAKHRKSdTLEvKDVQLhLE 465 (537)
+++.|+++++-= ..+..||+|+-|.|.+|-.+ |.-+++.-|..+||.||+.+|+++||..+.|
T Consensus 362 ~~~EireIi~iRa~ee~i~l~~~Ale~L~~ig~etSLRYa~qLL~pa~iiA~~rg~~~V~~~dVe~a~~ 430 (450)
T COG1224 362 SREEIREIIRIRAKEEDIELSDDALEYLTDIGEETSLRYAVQLLTPASIIAKRRGSKRVEVEDVERAKE 430 (450)
T ss_pred CHHHHHHHHHHhhhhhccccCHHHHHHHHhhchhhhHHHHHHhccHHHHHHHHhCCCeeehhHHHHHHH
Confidence 677777777632 23458999999999998875 7778888888899999999999999976654
No 64
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=77.86 E-value=5.3 Score=44.80 Aligned_cols=78 Identities=9% Similarity=0.155 Sum_probs=57.2
Q ss_pred CHHHHHHHHHhhC------CCCCCCHHHHHHHHHHHHHHHH---------HHHHHHHHhhhhcC----CCCcchhhHHHH
Q 009343 403 TKRSIQELVNQID------PSERLDPDVEDILVDIAEDFVE---------SITMFGCSLAKHRK----SDTLEAKDILVH 463 (537)
Q Consensus 403 tKrKLqELVrqID------P~e~LD~DVEELLLeIADDFVD---------sVvs~ACkLAKHRK----SdTLEvKDVQLh 463 (537)
+...+.++++.+- -+..+++|+.+.+.++++.||. ++++.||..++-+. ...|+..||.-+
T Consensus 346 ~~~~~~~il~~~~~~~e~~~~v~i~~~al~~~~~ls~ryi~~r~~P~kai~lld~a~a~~~~~~~~~~~~~v~~~~i~~~ 425 (731)
T TIGR02639 346 SIEETVKILKGLKEKYEEFHHVKYSDEALEAAVELSARYINDRFLPDKAIDVIDEAGASFRLRPKAKKKANVSVKDIENV 425 (731)
T ss_pred CHHHHHHHHHHHHHHHHhccCcccCHHHHHHHHHhhhcccccccCCHHHHHHHHHhhhhhhcCcccccccccCHHHHHHH
Confidence 5555555555432 2357999999999999999984 46788888766543 346899999999
Q ss_pred HhhccCcccCCCCcccc
Q 009343 464 LERNWNMTLPGFSGDEI 480 (537)
Q Consensus 464 LERnWNI~IPGfssDEI 480 (537)
+++.-||.+..+..+|+
T Consensus 426 i~~~tgiP~~~~~~~~~ 442 (731)
T TIGR02639 426 VAKMAHIPVKTVSVDDR 442 (731)
T ss_pred HHHHhCCChhhhhhHHH
Confidence 99976887766665554
No 65
>PTZ00017 histone H2A; Provisional
Probab=75.57 E-value=6.9 Score=36.74 Aligned_cols=69 Identities=10% Similarity=0.165 Sum_probs=61.5
Q ss_pred CCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 398 GNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 398 ~nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
.+-.+.=.+|+.|+++-.-..+|...+--.|.-+.|-++.+|++.|...|+.-+...|..++|++.+..
T Consensus 24 agL~FPVgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~n 92 (134)
T PTZ00017 24 AGLQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIRN 92 (134)
T ss_pred CCcccchHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhccC
Confidence 345677889999999876778999999999999999999999999999999999999999999998864
No 66
>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=75.55 E-value=4 Score=40.81 Aligned_cols=70 Identities=26% Similarity=0.377 Sum_probs=48.3
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC---ccc----CCCCcccccccCCCCCc
Q 009343 417 SERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN---MTL----PGFSGDEIKTFRKPLVC 489 (537)
Q Consensus 417 ~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWN---I~I----PGfssDEIR~~RK~~pT 489 (537)
..+|++++|+.|..|+-|.|.||+ ||=+.+++++ .|+.+.+ +.| .||..++.. +...-
T Consensus 269 ~~~L~~~~e~~l~rivQEaltN~~-------rHa~A~~v~V-----~l~~~~~~l~l~V~DnG~Gf~~~~~~---~~~GL 333 (365)
T COG4585 269 LERLPPEAEDALFRIVQEALTNAI-------RHAQATEVRV-----TLERTDDELRLEVIDNGVGFDPDKEG---GGFGL 333 (365)
T ss_pred cccCChhHHHHHHHHHHHHHHHHH-------hccCCceEEE-----EEEEcCCEEEEEEEECCcCCCccccC---CCcch
Confidence 457899999999999999999985 6777776543 3444444 233 455555433 44566
Q ss_pred hHHHHHHHHHHH
Q 009343 490 DIHKERLAAIKK 501 (537)
Q Consensus 490 EaHKQRMALIRK 501 (537)
..-++|+.+|.=
T Consensus 334 ~~mreRv~~lgG 345 (365)
T COG4585 334 LGMRERVEALGG 345 (365)
T ss_pred hhHHHHHHHcCC
Confidence 788999987753
No 67
>PTZ00171 acyl carrier protein; Provisional
Probab=74.04 E-value=0.85 Score=42.56 Aligned_cols=35 Identities=23% Similarity=0.513 Sum_probs=29.5
Q ss_pred HHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009343 440 TMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 440 vs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (537)
+...+.+....+-|.|+.-||.+.||++||+.||-
T Consensus 90 I~~ds~~~~dLg~DSLd~veLv~~LEdeFgI~Ipd 124 (148)
T PTZ00171 90 ITPESNFVKDLGADSLDVVELLIAIEQEFNLTIPD 124 (148)
T ss_pred CCCCcchhhhcCCCHHHHHHHHHHHHHHHCCccCH
Confidence 44455666777999999999999999999999985
No 68
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=73.33 E-value=13 Score=36.01 Aligned_cols=65 Identities=14% Similarity=0.154 Sum_probs=50.0
Q ss_pred CCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 402 LTKRSIQELVNQID--PSERLDPDVEDILVDIAED---FVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 402 LtKrKLqELVrqID--P~e~LD~DVEELLLeIADD---FVDsVvs~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
++...+.++++++- -...+|+|+.+.|.+.++. ++..++..++.+|..++...++.++|.-.|+.
T Consensus 159 l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~~l~~ 228 (305)
T TIGR00635 159 YTVEELAEIVSRSAGLLNVEIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALKALEM 228 (305)
T ss_pred CCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHH
Confidence 56677777777663 2467999999888887653 56788888888888777788888888888876
No 69
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=72.98 E-value=10 Score=39.33 Aligned_cols=73 Identities=8% Similarity=0.041 Sum_probs=58.4
Q ss_pred CccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHH-H------HHHHHHHhhhhcCCCCcchhhHHHHHhhccCcc
Q 009343 399 NRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVE-S------ITMFGCSLAKHRKSDTLEAKDILVHLERNWNMT 471 (537)
Q Consensus 399 nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVD-s------Vvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~ 471 (537)
+.++.+.+|.++-+.+ +...+++++.+.+.+|+..+=. . ++..|..+|-.+|.+.|+.+||+....--+..+
T Consensus 232 ~~~~~~~~i~~a~~~~-~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~~aA~a~A~l~Gr~~V~~~Di~~~~~~vl~hR 310 (334)
T PRK13407 232 EDMQLRGRILGARARL-PQLKTPNTVLHDCAALCIALGSDGLRGELTLLRAARALAAFEGAEAVGRSHLRSVATMALSHR 310 (334)
T ss_pred cccCCHHHHHHHHHhc-CCcccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHHcCCCeeCHHHHHHHHHHhhhhh
Confidence 4578888998886665 7789999999999999988753 2 778888999999999999999976654444444
Q ss_pred c
Q 009343 472 L 472 (537)
Q Consensus 472 I 472 (537)
+
T Consensus 311 ~ 311 (334)
T PRK13407 311 L 311 (334)
T ss_pred c
Confidence 3
No 70
>KOG1659 consensus Class 2 transcription repressor NC2, alpha subunit (DRAP1) [Transcription]
Probab=71.48 E-value=14 Score=37.39 Aligned_cols=49 Identities=18% Similarity=0.268 Sum_probs=38.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 419 RLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 419 ~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
+|--.|=-++-.-.+=|++++|..+|+.++.|++++|...-|+-+++..
T Consensus 31 KvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~ 79 (224)
T KOG1659|consen 31 KVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESD 79 (224)
T ss_pred hhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhcc
Confidence 3333444556677788999999999999999999999988776666543
No 71
>PF00616 RasGAP: GTPase-activator protein for Ras-like GTPase; InterPro: IPR001936 Ras proteins are membrane-associated molecular switches that bind GTP and GDP and slowly hydrolyze GTP to GDP []. This intrinsic GTPase activity of ras is stimulated by a family of proteins collectively known as 'GAP' or GTPase-activating proteins [, ]. As it is the GTP bound form of ras which is active, these proteins are said to be down-regulators of ras. The Ras GTPase-activating proteins are quite large (from 765 residues for sar1 to 3079 residues for IRA2) but share only a limited (about 250 residues) region of sequence similarity, referred to as the 'catalytic domain' or rasGAP domain. Note: There are distinctly different GAPs for the rap and rho/rac subfamilies of ras-like proteins (reviewed in reference []) that do not share sequence similarity with ras GAPs.; GO: 0005096 GTPase activator activity, 0051056 regulation of small GTPase mediated signal transduction, 0005622 intracellular; PDB: 3BXJ_B 1WQ1_G 1WER_A 1NF1_A 3FAY_A.
Probab=71.25 E-value=26 Score=31.91 Aligned_cols=81 Identities=15% Similarity=0.177 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC------------------cccCCCCcccccccC
Q 009343 423 DVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN------------------MTLPGFSGDEIKTFR 484 (537)
Q Consensus 423 DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWN------------------I~IPGfssDEIR~~R 484 (537)
+-.+.|.+++++|++.|+.....+-..-+- -.+.|...+++.|. .-.|.+-.-+.-...
T Consensus 97 ~n~~~L~~~~~~~~~~i~~s~~~~P~~lr~---i~~~i~~~~~~~fp~~~~~~~~~~v~~fiflrfi~PAi~~P~~~~~~ 173 (197)
T PF00616_consen 97 ENLQNLRELCESFLDAIISSIDQIPPSLRY---ICKQIYEAVEKKFPDASPEEILSAVGGFIFLRFICPAIVSPELFGLV 173 (197)
T ss_dssp HHHHHHHHHHHHHHHHHHGGGGGS-HHHHH---HHHHHHHHHHHHTTTSSHCHHHHHHHHHHTTTTHHHHHHSTTTTTSS
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHhhHHHHH---HHHHHHHHHHHhccCchHHHHHHHHHHHHHHHHHHHHHCCHHHcCCC
Confidence 455788999999999998876544331110 12222333333331 001222222211112
Q ss_pred CCCCchHHHHHHHHHHHHhhhh
Q 009343 485 KPLVCDIHKERLAAIKKSVMAT 506 (537)
Q Consensus 485 K~~pTEaHKQRMALIRKsI~s~ 506 (537)
....++.++..|.+|-|.+..-
T Consensus 174 ~~~~~~~~~r~L~~isKvlq~l 195 (197)
T PF00616_consen 174 DKPPSPNARRNLTLISKVLQSL 195 (197)
T ss_dssp SS---HHHHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHH
Confidence 3456899999999999988763
No 72
>KOG3489 consensus Mitochondrial import inner membrane translocase, subunit TIM8 [Intracellular trafficking, secretion, and vesicular transport]
Probab=71.13 E-value=15 Score=32.64 Aligned_cols=50 Identities=26% Similarity=0.411 Sum_probs=43.5
Q ss_pred CHHHHHHHHHhh----------CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC
Q 009343 403 TKRSIQELVNQI----------DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKS 452 (537)
Q Consensus 403 tKrKLqELVrqI----------DP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKS 452 (537)
.|.++++.|.++ +++.+||...|.-|...+|.|||.-..-.-+||+-++.
T Consensus 23 qk~k~~~~VHqft~~CWdKCi~~~~sklds~~e~ClsnCV~RfiDts~~I~~r~~~~~~~ 82 (86)
T KOG3489|consen 23 QKQKFQEQVHQFTEICWDKCIEKPGSKLDSSEETCLSNCVNRFIDTSLFIVKRLAQMNQG 82 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCcccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 488899999887 67899999999999999999999988887888876654
No 73
>TIGR03772 anch_rpt_subst anchored repeat ABC transporter, substrate-binding protein. Members of this protein family are ABC transporter permease subunits as identified by pfam00950, but additionally contain the Actinobacterial insert domain described by TIGR03769. Some homologs (lacking the insert) have been described as transporters of manganese or of chelated iron. Members of this family typically are found along with an ATP-binding cassette protein, a permease, and an LPXTG-anchored protein with two or three copies of the TIGR03769 insert that occurs just once in this protein family.
Probab=70.11 E-value=9.7 Score=41.62 Aligned_cols=78 Identities=14% Similarity=0.261 Sum_probs=58.7
Q ss_pred CccCCHHHHHHHHHhh-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHH----Hhhh--hcCCCCcchhhHHHHHhhccCcc
Q 009343 399 NRILTKRSIQELVNQI-DPSERLDPDVEDILVDIAEDFVESITMFGC----SLAK--HRKSDTLEAKDILVHLERNWNMT 471 (537)
Q Consensus 399 nrILtKrKLqELVrqI-DP~e~LD~DVEELLLeIADDFVDsVvs~AC----kLAK--HRKSdTLEvKDVQLhLERnWNI~ 471 (537)
---|+-+....+++.| |.-.++|++-.+...+=++.|++.+-...- ++++ .++...|...|.--||+|.||+.
T Consensus 312 HvWlDP~na~~~a~~Ia~~LselDP~na~~Y~~Na~ay~~eL~~Ld~~~~~~la~ip~k~r~vvt~H~af~YLa~~YGL~ 391 (479)
T TIGR03772 312 HLWHNVKNAIAYVEVIRDKLIEVDPRGAQAYRSNASAYIHRLERLDTYVRRTIATIPPSRRHLITTHDAYSYLGQAYGLN 391 (479)
T ss_pred CcCcCHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccCCEEEEECCcHHHHHHHCCCe
Confidence 3456778888888887 445678888888888888888887765554 4443 24456788899999999999999
Q ss_pred cCCCC
Q 009343 472 LPGFS 476 (537)
Q Consensus 472 IPGfs 476 (537)
+-||.
T Consensus 392 ~~~~~ 396 (479)
T TIGR03772 392 IAGFV 396 (479)
T ss_pred EEeee
Confidence 88764
No 74
>PRK06508 acyl carrier protein; Provisional
Probab=69.09 E-value=5.4 Score=34.64 Aligned_cols=67 Identities=18% Similarity=0.087 Sum_probs=40.8
Q ss_pred HHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccccccCCCCCc--hHHHHHHHHHHHHhhhh
Q 009343 440 TMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKTFRKPLVC--DIHKERLAAIKKSVMAT 506 (537)
Q Consensus 440 vs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGfssDEIR~~RK~~pT--EaHKQRMALIRKsI~s~ 506 (537)
++.-..+-+--+-|.|++-||.+.||++||+.||.---..++........ ..=++=++.|.+.+++.
T Consensus 23 It~ds~~~edL~~DSLd~veli~~lE~eFgI~i~~ee~~~~~n~~~~~~~~~~~l~~~~~~i~~~~~~~ 91 (93)
T PRK06508 23 ITPESHTIDDLGIDSLDFLDIVFAIDKAFGIKLPLEQWTQEVNEGKVPTEEYFVLKNLCAKIDELVAAK 91 (93)
T ss_pred CCCCCcchhccCCCHHHHHHHHHHHHHHHCCccCHHHHHHhhcccccccchHHHHHHHHHHHHHHHHhh
Confidence 33334455566888999999999999999999886222222333322222 13444455677666654
No 75
>TIGR02442 Cob-chelat-sub cobaltochelatase subunit. A number of genomes (actinobacteria, cyanobacteria, betaproteobacteria and pseudomonads) which apparently biosynthesize B12, encode a cobN gene but are demonstrably lacking cobS and cobT. These genomes do, however contain a homolog (modelled here) of the magnesium chelatase subunits BchI/BchD family. Aside from the cyanobacteria (which have a separate magnesium chelatase trimer), these species do not make chlorins, so do not have any use for a magnesium chelatase. Furthermore, in nearly all cases the members of this family are proximal to either CobN itself or other genes involved in cobalt transport or B12 biosynthesis.
Probab=68.95 E-value=12 Score=41.60 Aligned_cols=56 Identities=16% Similarity=0.190 Sum_probs=45.0
Q ss_pred HHhhCCCCCCCHHHHHHHHHHHHHHH-------HHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 411 VNQIDPSERLDPDVEDILVDIAEDFV-------ESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 411 VrqIDP~e~LD~DVEELLLeIADDFV-------DsVvs~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
.+++-+...|++++.++|.+++.++- .-++..|..+|..++.+.|+.+||+..++-
T Consensus 241 ar~~~~~V~is~~~~~~l~~~~~~~~i~s~Ra~i~~~r~Ara~AaL~gr~~V~~~Dv~~A~~l 303 (633)
T TIGR02442 241 ARSLLPSVRISDSLIRFISELCIEFGVDGHRADIVMARAARALAALDGRRRVTAEDVREAAEL 303 (633)
T ss_pred HHHhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHHH
Confidence 34456778999999999999999873 346677778999999999999999655443
No 76
>TIGR02030 BchI-ChlI magnesium chelatase ATPase subunit I. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria.
Probab=68.89 E-value=14 Score=38.46 Aligned_cols=70 Identities=14% Similarity=0.074 Sum_probs=53.8
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH-------HHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVES-------ITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 402 LtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDs-------Vvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
+.+++|...-+. -+...+++++.+.+.+|+..+=.+ .+..|..+|..++.+.|+.+||+...+--+..++
T Consensus 238 ~~~~~I~~a~~~-~~~V~v~d~~~~~i~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~~dDv~~~a~~vL~HR~ 314 (337)
T TIGR02030 238 ALQAKIVNAQNL-LPQVTIPYDVLVKVAELCAELDVDGLRGELTLNRAAKALAAFEGRTEVTVDDIRRVAVLALRHRL 314 (337)
T ss_pred cCHHHHHHHHHH-hccCcCCHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHhC
Confidence 456666665443 477899999999999999987642 6677888899999999999999866665555443
No 77
>CHL00124 acpP acyl carrier protein; Validated
Probab=68.49 E-value=3.7 Score=33.20 Aligned_cols=30 Identities=13% Similarity=0.557 Sum_probs=24.8
Q ss_pred HhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009343 445 SLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 445 kLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (537)
.+...-+-+.|++-+|...||+.||+.|+-
T Consensus 30 ~l~~dlg~DSl~~~eli~~le~~f~i~i~~ 59 (82)
T CHL00124 30 NFTRDLGADSLDVVELVMAIEEKFDIEIPD 59 (82)
T ss_pred chhhhcCCcHHHHHHHHHHHHHHHCCccCH
Confidence 444445788899999999999999999984
No 78
>PLN00154 histone H2A; Provisional
Probab=68.32 E-value=14 Score=34.95 Aligned_cols=68 Identities=10% Similarity=0.110 Sum_probs=59.3
Q ss_pred CccCCHHHHHHHHHhhC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 399 NRILTKRSIQELVNQID-PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 399 nrILtKrKLqELVrqID-P~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
+-.+.=.+|+.|+++-. -.++|+..+--.|..+.|-++-+|++.|...|+.-|...|..++|++.+..
T Consensus 36 gL~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIrn 104 (136)
T PLN00154 36 GLQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 104 (136)
T ss_pred CccCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhccC
Confidence 34566778999999865 357999999999999999999999999999999999999999999988754
No 79
>PTZ00183 centrin; Provisional
Probab=67.51 E-value=44 Score=28.59 Aligned_cols=69 Identities=10% Similarity=0.160 Sum_probs=38.6
Q ss_pred CCcCCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHH----------HHHHHH------------HHHHHHHhhhhcCC
Q 009343 395 DEFGNRILTKRSIQELVNQIDPSERLDPDVEDILVDIA----------EDFVES------------ITMFGCSLAKHRKS 452 (537)
Q Consensus 395 ~e~~nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIA----------DDFVDs------------Vvs~ACkLAKHRKS 452 (537)
+.+++..|++..|..+++.++ ..++.+..+.|.... ++|+.. .+..++++.-..+.
T Consensus 27 D~~~~G~i~~~e~~~~l~~~g--~~~~~~~~~~l~~~~d~~~~g~i~~~eF~~~~~~~~~~~~~~~~l~~~F~~~D~~~~ 104 (158)
T PTZ00183 27 DTDGSGTIDPKELKVAMRSLG--FEPKKEEIKQMIADVDKDGSGKIDFEEFLDIMTKKLGERDPREEILKAFRLFDDDKT 104 (158)
T ss_pred CCCCCCcccHHHHHHHHHHhC--CCCCHHHHHHHHHHhCCCCCCcEeHHHHHHHHHHHhcCCCcHHHHHHHHHHhCCCCC
Confidence 345666788888888888773 234444333333332 245543 23444555555555
Q ss_pred CCcchhhHHHHHh
Q 009343 453 DTLEAKDILVHLE 465 (537)
Q Consensus 453 dTLEvKDVQLhLE 465 (537)
..|+..|+.-.|.
T Consensus 105 G~i~~~e~~~~l~ 117 (158)
T PTZ00183 105 GKISLKNLKRVAK 117 (158)
T ss_pred CcCcHHHHHHHHH
Confidence 5677777766665
No 80
>PRK05350 acyl carrier protein; Provisional
Probab=67.25 E-value=3.6 Score=33.70 Aligned_cols=26 Identities=23% Similarity=0.377 Sum_probs=22.9
Q ss_pred hcCCCCcchhhHHHHHhhccCcccCC
Q 009343 449 HRKSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 449 HRKSdTLEvKDVQLhLERnWNI~IPG 474 (537)
--+-+.|++-++.+.||+.||+.|+.
T Consensus 35 dlg~DSld~veli~~lE~~fgI~i~~ 60 (82)
T PRK05350 35 DLDLDSIDAVDLVVHLQKLTGKKIKP 60 (82)
T ss_pred hcCCCHHHHHHHHHHHHHHHCCccCH
Confidence 34788899999999999999999875
No 81
>PRK12449 acyl carrier protein; Provisional
Probab=66.48 E-value=3.7 Score=33.08 Aligned_cols=35 Identities=14% Similarity=0.373 Sum_probs=28.4
Q ss_pred HHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009343 440 TMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 440 vs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (537)
+.....+-..-+-+.|+.-++-..||..||+.||-
T Consensus 25 i~~~~~l~~dlg~DSl~~~~li~~lE~~f~i~i~~ 59 (80)
T PRK12449 25 ITEQTHLKDDLAVDSIELVEFIINVEDEFHIAIPD 59 (80)
T ss_pred cCCCCcHHHHcCCcHHHHHHHHHHHHHHhCCCCCH
Confidence 44455555666888999999999999999999875
No 82
>PLN00157 histone H2A; Provisional
Probab=64.89 E-value=13 Score=35.00 Aligned_cols=68 Identities=10% Similarity=0.136 Sum_probs=59.7
Q ss_pred CccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 399 NRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 399 nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
+-++.=-+|+.+|++-.-..+|...+--.|..+-|-++.+|++.|...|+.-|...|..++|++.+..
T Consensus 24 gL~FPVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~n 91 (132)
T PLN00157 24 GLQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVRN 91 (132)
T ss_pred CcccchHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhcccC
Confidence 44566678999999876678999999999999999999999999999999999999999999988754
No 83
>KOG1748 consensus Acyl carrier protein/NADH-ubiquinone oxidoreductase, NDUFAB1/SDAP subunit [Energy production and conversion; Lipid transport and metabolism; Secondary metabolites biosynthesis, transport and catabolism]
Probab=64.26 E-value=6 Score=37.09 Aligned_cols=63 Identities=27% Similarity=0.433 Sum_probs=48.1
Q ss_pred HHHHHHHHHHHHHHH---HHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccccccC
Q 009343 422 PDVEDILVDIAEDFV---ESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKTFR 484 (537)
Q Consensus 422 ~DVEELLLeIADDFV---DsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGfssDEIR~~R 484 (537)
++++|-++++...|- .+.+.-+..+.|--|.|.|+--.|.+.||.+||+.||---+|+|++.+
T Consensus 52 ~~v~~RVl~VVk~~dki~~~k~~~~s~f~~DLGlDSLD~VEiVMAlEEEFgiEIpd~dAdki~t~~ 117 (131)
T KOG1748|consen 52 KEVVDRVLDVVKKFDKIDPSKLTTDSDFFKDLGLDSLDTVEIVMALEEEFGIEIPDEDADKIKTVR 117 (131)
T ss_pred HHHHHHHHHHHHHhhcCCccccchhhHHHHhcCCcccccchhhhhhHHHhCCccCcchhhhhCCHH
Confidence 346666666665553 455666677778889999999999999999999999987777776543
No 84
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=62.84 E-value=11 Score=40.64 Aligned_cols=65 Identities=12% Similarity=0.155 Sum_probs=43.7
Q ss_pred CHHHHHHHHHhhCCCCCCCHHH-HHHHHHHHHHH----HHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 403 TKRSIQELVNQIDPSERLDPDV-EDILVDIAEDF----VESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 403 tKrKLqELVrqIDP~e~LD~DV-EELLLeIADDF----VDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
+.....++++..-....++++| .+.|+...+.| |..||..|+.+|-.++...|..+|+.-.+++.
T Consensus 355 d~~~R~~Il~~~~~k~~l~~dvdl~~la~~t~g~sgAdI~~i~~eA~~~Alr~~r~~Vt~~D~~~A~~~v 424 (438)
T PTZ00361 355 DEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICTEAGLLALRERRMKVTQADFRKAKEKV 424 (438)
T ss_pred CHHHHHHHHHHHHhcCCCCcCcCHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCCccCHHHHHHHHHHH
Confidence 3445555555443334454443 23344343333 67899999999999999999999999999985
No 85
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=62.79 E-value=5.4 Score=38.60 Aligned_cols=66 Identities=21% Similarity=0.349 Sum_probs=53.1
Q ss_pred HHHHHHHHhhCCCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcc
Q 009343 405 RSIQELVNQIDPSER-LDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMT 471 (537)
Q Consensus 405 rKLqELVrqIDP~e~-LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~ 471 (537)
.+++++|+ +|+... +.+|+.-++..-||.||..+-..+-..+-.|+..++..+|+--.+|..|-..
T Consensus 63 ~rik~vvk-l~pdl~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~kt~qr~d~D~ai~~~de~~ 129 (162)
T KOG1658|consen 63 ARIKQVVK-LDPDLTLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKRKTEQRRDYDTAIEAVDEFA 129 (162)
T ss_pred HHHHhhcc-CCcchhhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHhhhhhhhcccccccchHHHH
Confidence 34444554 355554 4566788899999999999999999999999999999999988888887755
No 86
>TIGR02031 BchD-ChlD magnesium chelatase ATPase subunit D. This model represents one of two ATPase subunits of the trimeric magnesium chelatase responsible for insertion of magnesium ion into protoporphyrin IX. This is an essential step in the biosynthesis of both chlorophyll and bacteriochlorophyll. This subunit is found in green plants, photosynthetic algae, cyanobacteria and other photosynthetic bacteria. Unlike subunit I (TIGR02030), this subunit is not found in archaea.
Probab=62.66 E-value=13 Score=41.15 Aligned_cols=72 Identities=13% Similarity=0.023 Sum_probs=53.9
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHH-------HHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 400 RILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVE-------SITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 400 rILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVD-------sVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
.++.+++|.+. +++-+...|++++.+.|++++-++=- .++..|..+|..++.+.|+.+||+..++=-+..++
T Consensus 185 ~~~~~~~i~~a-r~~~~~V~i~~~~~~~l~~~~~~~gv~s~Ra~i~~~r~ArA~Aal~gr~~V~~~Dv~~a~~lvl~hR~ 263 (589)
T TIGR02031 185 LELLRGQIEAA-RELLPQVTISAEQVKELVLTAASLGISGHRADLFAVRAAKAHAALHGRTEVTEEDLKLAVELVLLPRA 263 (589)
T ss_pred hHHHHHHHHHH-HHhcCCccCCHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhhhhc
Confidence 44556666554 44557789999999999999866532 34567778899999999999999888776665444
No 87
>cd01137 PsaA Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=62.42 E-value=13 Score=36.97 Aligned_cols=79 Identities=9% Similarity=0.132 Sum_probs=55.7
Q ss_pred cCCccCCHHHHHHHHHhhCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHH----Hhhh--hcCCCCcchhhHHHHHhhccC
Q 009343 397 FGNRILTKRSIQELVNQIDP-SERLDPDVEDILVDIAEDFVESITMFGC----SLAK--HRKSDTLEAKDILVHLERNWN 469 (537)
Q Consensus 397 ~~nrILtKrKLqELVrqIDP-~e~LD~DVEELLLeIADDFVDsVvs~AC----kLAK--HRKSdTLEvKDVQLhLERnWN 469 (537)
+----|.-.....+++.|.. -.++|++-++...+=++.|++.+-...- +|+. .++...|..-|.--||.|.||
T Consensus 116 dPH~Wldp~~~~~~a~~Ia~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~l~~~~~~~~~~v~~H~af~Y~~~~yG 195 (287)
T cd01137 116 DPHAWMSPKNAIIYVKNIAKALSEADPANAETYQKNAAAYKAKLKALDEWAKAKFATIPAEKRKLVTSEGAFSYFAKAYG 195 (287)
T ss_pred CCCcCcCHHHHHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccCEEEEecccHHHHHHHcC
Confidence 33345677777888887733 3477888788888888888777654444 3442 244557788899889999999
Q ss_pred cccCCC
Q 009343 470 MTLPGF 475 (537)
Q Consensus 470 I~IPGf 475 (537)
+.+-|+
T Consensus 196 l~~~~~ 201 (287)
T cd01137 196 LKEAYL 201 (287)
T ss_pred CeEeec
Confidence 997654
No 88
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=62.38 E-value=9.1 Score=41.26 Aligned_cols=74 Identities=23% Similarity=0.360 Sum_probs=47.1
Q ss_pred CccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhcc-CcccCCCC
Q 009343 399 NRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNW-NMTLPGFS 476 (537)
Q Consensus 399 nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnW-NI~IPGfs 476 (537)
++.|++.-+.|+++.+...... -.+|+++..+|+.|=-.+ .--+.|.|+.+.+..|+|..||-|++ ++.+|-.|
T Consensus 298 ~~~iTi~~v~e~L~~~~~~~~~-itie~I~~~Va~~y~v~~---~dl~s~~R~~~i~~~RqiamyL~r~lt~~Slp~IG 372 (408)
T COG0593 298 KRAITIDLVKEILKDLLRAGEK-ITIEDIQKIVAEYYNVKV---SDLLSKSRTRNIVRPRQIAMYLARELTNLSLPEIG 372 (408)
T ss_pred CccCcHHHHHHHHHHhhccccc-CCHHHHHHHHHHHhCCCH---HHhhccccccccchHHHHHHHHHHHHccCcHHHHH
Confidence 3356666666666666544333 556666666666662222 22367888888888999988888874 46666544
No 89
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=62.02 E-value=21 Score=35.18 Aligned_cols=75 Identities=17% Similarity=0.245 Sum_probs=51.1
Q ss_pred cCCHHHHHHHHHhhC-CCCCCCHHHHHHHHHHHHHHHHHHHHHH----HHhhhhcCCCCcchhhHHHHHhhccCcccCCC
Q 009343 401 ILTKRSIQELVNQID-PSERLDPDVEDILVDIAEDFVESITMFG----CSLAKHRKSDTLEAKDILVHLERNWNMTLPGF 475 (537)
Q Consensus 401 ILtKrKLqELVrqID-P~e~LD~DVEELLLeIADDFVDsVvs~A----CkLAKHRKSdTLEvKDVQLhLERnWNI~IPGf 475 (537)
-|+-.....+++.|. .-.++|++-.+...+=++.|+..+-..- .++++.++...|..-|.--||.+.||+.+-|.
T Consensus 116 Wldp~~~~~~a~~Ia~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~H~af~Y~~~~~gl~~~~~ 195 (282)
T cd01017 116 WLSPVLAIQQVENIKDALIKLDPDNKEYYEKNAAAYAKKLEALDQEYRAKLAKAKGKTFVTQHAAFGYLARRYGLKQIAI 195 (282)
T ss_pred ccCHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCeEEEecccHHHHHHHCCCeEEec
Confidence 456666666666663 2346777777777777777766654333 33454556667889999999999999997653
No 90
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=61.64 E-value=11 Score=42.55 Aligned_cols=31 Identities=23% Similarity=0.332 Sum_probs=21.7
Q ss_pred hhhhcCCCCcchhhHHHHHhhc-cCcccCCCC
Q 009343 446 LAKHRKSDTLEAKDILVHLERN-WNMTLPGFS 476 (537)
Q Consensus 446 LAKHRKSdTLEvKDVQLhLERn-WNI~IPGfs 476 (537)
+.|.|+.+.+.+|.|.+||-|+ +++.++-.|
T Consensus 545 ~s~~R~~~i~~aRqiAMYL~r~lt~~Sl~~IG 576 (617)
T PRK14086 545 CGTSRSRVLVTARQIAMYLCRELTDLSLPKIG 576 (617)
T ss_pred hCCCCCcccchHHHHHHHHHHHHcCCCHHHHH
Confidence 3455777888899998888887 446655433
No 91
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=61.64 E-value=16 Score=40.00 Aligned_cols=48 Identities=10% Similarity=0.137 Sum_probs=43.6
Q ss_pred CCCCHHHHHHHHHHHHHH------HHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009343 418 ERLDPDVEDILVDIAEDF------VESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (537)
Q Consensus 418 e~LD~DVEELLLeIADDF------VDsVvs~ACkLAKHRKSdTLEvKDVQLhLE 465 (537)
..||++++++|.+.++.| ++.|+.-|..+|..++++.|+.+||.-.|.
T Consensus 444 ~~l~~~~~~~l~~a~~~~~lS~R~~~rilrvArTiAdL~g~~~i~~~hv~eA~~ 497 (499)
T TIGR00368 444 CKLSAIDANDLEGALNKLGLSSRATHRILKVARTIADLKEEKNISREHLAEAIE 497 (499)
T ss_pred cCCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHh
Confidence 468999999999999998 889999999999999999999999976653
No 92
>PF00745 GlutR_dimer: Glutamyl-tRNAGlu reductase, dimerisation domain; InterPro: IPR015896 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents the helical dimerisation domain of glutamyl-tRNA reductase (1.2.1.70 from EC) []. This enzyme reduces glutamyl-tRNA to glutamate-1-semialdehyde during the first stage of tetrapyrrole biosynthesis by the C5 pathway [, ]. The enzyme requires NADPH as a cofactor.; GO: 0008883 glutamyl-tRNA reductase activity, 0050661 NADP binding, 0033014 tetrapyrrole biosynthetic process, 0055114 oxidation-reduction process; PDB: 1GPJ_A.
Probab=61.34 E-value=7.5 Score=32.18 Aligned_cols=62 Identities=15% Similarity=0.332 Sum_probs=33.3
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCc
Q 009343 404 KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNM 470 (537)
Q Consensus 404 KrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI 470 (537)
+..|..++++++ ++++.+++|-.+++.+++.+++.-....|....+. +..|+.-.|++-|++
T Consensus 39 ~~el~~~~~~l~----~~~~~~~~i~~~~~~~~~Kllh~p~~~Lr~~a~~~-~~~~~~~~l~~lF~l 100 (101)
T PF00745_consen 39 DEELERALKKLD----LDEDDEEVIEKLTRSLVNKLLHPPISNLREAAEEG-DGDEYLEALRKLFGL 100 (101)
T ss_dssp HHHHHHHHS-S--------------TTHHHHHHHHHHHHHHHHHHSS-TTT-T-THHHHHHHHHHHH
T ss_pred HHHHHHHHhhcc----CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CHHHHHHHHHHHhCC
Confidence 445555555533 88888888888999999999988888888754443 235555566666554
No 93
>PLN00156 histone H2AX; Provisional
Probab=60.41 E-value=20 Score=33.96 Aligned_cols=68 Identities=12% Similarity=0.167 Sum_probs=59.3
Q ss_pred CccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 399 NRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 399 nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
+-.+.=-+|+.+|++-.-..+|...+--.|..+.|-.+.+|++.|...|+..+...|..++|++.+..
T Consensus 27 gL~FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIrn 94 (139)
T PLN00156 27 GLQFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVRN 94 (139)
T ss_pred CcccchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhccC
Confidence 33556678999999876678999999899999999999999999999999999999999999988754
No 94
>cd06845 Bcl-2_like Apoptosis regulator proteins of the Bcl-2 family, named after B-cell lymphoma 2. This alignment model spans what have been described as Bcl-2 homology regions BH1, BH2, BH3, and BH4. Many members of this family have an additional C-terminal transmembrane segment. Some homologous proteins, which are not included in this model, may miss either the BH4 (Bax, Bak) or the BH2 (Bcl-X(S)) region, and some appear to only share the BH3 region (Bik, Bim, Bad, Bid, Egl-1). This family is involved in the regulation of the outer mitochondrial membrane's permeability and in promoting or preventing the release of apoptogenic factors, which in turn may trigger apoptosis by activating caspases. Bcl-2 and the closely related Bcl-X(L) are anti-apoptotic key regulators of programmed cell death. They are assumed to function via heterodimeric protein-protein interactions, binding pro-apoptotic proteins such as Bad (BCL2-antagonist of cell death), Bid, and Bim, by specifically interacting
Probab=60.38 E-value=19 Score=32.30 Aligned_cols=47 Identities=17% Similarity=0.363 Sum_probs=33.6
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH----------HHHHHHHhhhhcCCC
Q 009343 404 KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVES----------ITMFGCSLAKHRKSD 453 (537)
Q Consensus 404 KrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDs----------Vvs~ACkLAKHRKSd 453 (537)
++.+.+++++++ .-++.+.+.+.++|++..++ ++.|++.||+|-...
T Consensus 51 ~~~f~~~~~~l~---~~~~~~~~~f~~v~~~lf~dg~inWGRIval~~f~~~la~~~~~~ 107 (144)
T cd06845 51 RRLFENMCRQLN---ISPDNAYEVFQEVARELFEDGGINWGRIVALFAFGGRLAVKCVEQ 107 (144)
T ss_pred HHHHHHHHHHhC---CCcchHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHHHHHHc
Confidence 344556666665 33666888999999998887 567899998876544
No 95
>PRK08727 hypothetical protein; Validated
Probab=60.26 E-value=33 Score=33.05 Aligned_cols=64 Identities=13% Similarity=-0.012 Sum_probs=42.0
Q ss_pred CHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHH-H--HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 403 TKRSIQELVNQI--DPSERLDPDVEDILVDIAE-D--FVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 403 tKrKLqELVrqI--DP~e~LD~DVEELLLeIAD-D--FVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
....+.++++++ +.+..||+||.+.|++.++ | .+.++++.....++..+. .|++..|+-+|+++
T Consensus 163 ~~e~~~~iL~~~a~~~~l~l~~e~~~~La~~~~rd~r~~l~~L~~l~~~~~~~~~-~it~~~~~~~l~~~ 231 (233)
T PRK08727 163 DDVARAAVLRERAQRRGLALDEAAIDWLLTHGERELAGLVALLDRLDRESLAAKR-RVTVPFLRRVLEEG 231 (233)
T ss_pred CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHhhc
Confidence 455666666653 3467899999999999887 3 233345544433443333 58899998888765
No 96
>cd05022 S-100A13 S-100A13: S-100A13 domain found in proteins similar to S100A13. S100A13 is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100A13 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100A13 is involved in the cellular export of interleukin-1 (IL-1) and of fibroblast growth factor-1 (FGF-1), which plays an important role in angiogenesis and tissue regeneration. Export is based on the CuII-dependent formation of multiprotein complexes containing the S100A13 protein. Assembly of these complexes occurs near the inner surface of the plasma membrane. Binding of two Ca(II) ions per monomer triggers key conformational changes leading to the creation of two identical and symmetrical Cu(II)-binding sites on the surface of the protein, close to the interface between the two monomers. These Cu
Probab=60.10 E-value=30 Score=29.66 Aligned_cols=55 Identities=24% Similarity=0.316 Sum_probs=38.9
Q ss_pred cCCccCCHHHHHHHHHh-hCCCCCCC-HHHHHHHHHH---------HHHHHHHHHHHHHHhhhhcCC
Q 009343 397 FGNRILTKRSIQELVNQ-IDPSERLD-PDVEDILVDI---------AEDFVESITMFGCSLAKHRKS 452 (537)
Q Consensus 397 ~~nrILtKrKLqELVrq-IDP~e~LD-~DVEELLLeI---------ADDFVDsVvs~ACkLAKHRKS 452 (537)
+++..|++..|+.|+++ +..... + ++|+++|.++ -+||+.-|...++...+.|..
T Consensus 21 ~~~g~i~~~ELk~ll~~elg~~ls-~~~~v~~mi~~~D~d~DG~I~F~EF~~l~~~l~~~~~~~~~~ 86 (89)
T cd05022 21 GGKESLTASEFQELLTQQLPHLLK-DVEGLEEKMKNLDVNQDSKLSFEEFWELIGELAKAVKGEKHL 86 (89)
T ss_pred CCCCeECHHHHHHHHHHHhhhhcc-CHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHHHHHHHhhc
Confidence 56778999999999998 643222 3 6788887655 367888877777666665543
No 97
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=59.66 E-value=31 Score=35.05 Aligned_cols=76 Identities=14% Similarity=0.126 Sum_probs=55.4
Q ss_pred ccCCHHHHHHHHHhhC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhh----hhcCCCCcchhhHHHHHhhccCcccCC
Q 009343 400 RILTKRSIQELVNQID-PSERLDPDVEDILVDIAEDFVESITMFGCSLA----KHRKSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 400 rILtKrKLqELVrqID-P~e~LD~DVEELLLeIADDFVDsVvs~ACkLA----KHRKSdTLEvKDVQLhLERnWNI~IPG 474 (537)
--|.-.....+++.|. .-.++|++-++...+=+++|+..+-..--++. ..++...|..-|.--||.|.||+.+-|
T Consensus 147 iWldp~~~~~~a~~I~~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~l~~~~~~~~i~~H~af~Yf~~~ygl~~~~ 226 (311)
T PRK09545 147 IWLSPEIARATAVAIHDKLVELMPQSKAKLDANLKDFEAQLAQTDKQIGNQLAPVKGKGYFVFHDAYGYFEKHYGLTPLG 226 (311)
T ss_pred ccCCHHHHHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCcEEEECchHHHHHHhCCCceee
Confidence 3467777777777773 34578888888888888998887754444333 344555778889989999999999755
Q ss_pred C
Q 009343 475 F 475 (537)
Q Consensus 475 f 475 (537)
+
T Consensus 227 ~ 227 (311)
T PRK09545 227 H 227 (311)
T ss_pred e
Confidence 3
No 98
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=59.08 E-value=16 Score=38.37 Aligned_cols=29 Identities=21% Similarity=0.434 Sum_probs=22.0
Q ss_pred hhhhcCCCCcchhhHHHHHhhcc-CcccCC
Q 009343 446 LAKHRKSDTLEAKDILVHLERNW-NMTLPG 474 (537)
Q Consensus 446 LAKHRKSdTLEvKDVQLhLERnW-NI~IPG 474 (537)
+.|-|+.+.+.+|.|..||-|++ ++.++-
T Consensus 378 ~~~~R~~~~~~aR~iamyl~~~~~~~s~~~ 407 (450)
T PRK00149 378 KSKSRTRNIARPRQIAMYLAKELTDLSLPE 407 (450)
T ss_pred hCCCCCcccChHHHHHHHHHHHhcCCCHHH
Confidence 45668888888999988888875 566654
No 99
>PF07261 DnaB_2: Replication initiation and membrane attachment; InterPro: IPR006343 This entry represents a domain found in several bacterial replication initiation and membrane attachment proteins, DnaB and DnaD. The DnaD protein is a component of the PriA primosome. The PriA primosome functions to recruit the replication fork helicase onto the DNA []. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria []. The DnaB protein is essential for both replication initiation and membrane attachment of the origin region of the chromosome and Plasmid pUB110 in Bacillus subtilis. It is known that there are two different classes (DnaBI and DnaBII) in the DnaB mutants; DnaBI is essential for both chromosome and pUB110 replication, whereas DnaBII is necessary only for chromosome replication []. This domain tends to be found towards the C terminus of DnaB and DnaD proteins and is alpha helical in nature.; PDB: 2I5U_A 2ZC2_A.
Probab=58.96 E-value=40 Score=26.56 Aligned_cols=48 Identities=13% Similarity=0.062 Sum_probs=35.2
Q ss_pred CCCCCHHHHHHHHHHHH--HHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 417 SERLDPDVEDILVDIAE--DFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 417 ~e~LD~DVEELLLeIAD--DFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
...+.+-..+.|.++.| +|=.+||..||+.|..++... ++-|.-+|++
T Consensus 10 ~~~~s~~e~~~l~~~~~~~~~~~~~v~~ai~~~~~~~~~~--~~Yi~~Il~~ 59 (77)
T PF07261_consen 10 GRPPSPSEIEKLEKWIDDYGFSPEVVNEAIEYALENNKRS--FNYIEKILNN 59 (77)
T ss_dssp TSS--HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCT--S--HHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCCC--HHHHHHHHHH
Confidence 45777888888999999 999999999999999554443 6666666655
No 100
>PRK07360 FO synthase subunit 2; Reviewed
Probab=58.57 E-value=29 Score=36.04 Aligned_cols=76 Identities=16% Similarity=0.146 Sum_probs=49.4
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHHHHHHHHHH-HHHHHHHHHHHHhhhhcCCCCcchh-h--HHHHHhhccCcccCCCCcc
Q 009343 403 TKRSIQELVNQIDPSERLDPDVEDILVDIAE-DFVESITMFGCSLAKHRKSDTLEAK-D--ILVHLERNWNMTLPGFSGD 478 (537)
Q Consensus 403 tKrKLqELVrqIDP~e~LD~DVEELLLeIAD-DFVDsVvs~ACkLAKHRKSdTLEvK-D--VQLhLERnWNI~IPGfssD 478 (537)
..+.+.++++++-.++.|+.+=...|++..| +.++.+...|-++-++...+.|.+- . |.+.-..++|+.+=+|..+
T Consensus 3 ~~~~~~~~~~~~~~g~~ls~~e~~~Ll~~~~~~~l~~L~~~A~~ir~~~~G~~v~~~~~~~i~~Tn~C~~~C~fC~~~~~ 82 (371)
T PRK07360 3 TDQIFEDILERARKGKDLSKEDALELLETTEPRRIFEILELADRLRKEQVGDTVTYVVNRNINFTNICEGHCGFCAFRRD 82 (371)
T ss_pred chHHHHHHHHHHhcCCCCCHHHHHHHhcCCChHHHHHHHHHHHHHHHHhcCCeEEEEeccCcccchhhhcCCccCCcccC
Confidence 4556888888887778888775555555554 7788888888888877777766541 1 2233344556665555543
No 101
>PRK07639 acyl carrier protein; Provisional
Probab=58.33 E-value=3.5 Score=34.79 Aligned_cols=31 Identities=16% Similarity=0.270 Sum_probs=25.4
Q ss_pred HHhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009343 444 CSLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 444 CkLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (537)
..|-..-+-+.|++-++.++||.+||+.||-
T Consensus 30 ~~l~edL~lDSld~velv~~lE~~fgi~i~d 60 (86)
T PRK07639 30 MRLNEDLYIDSVMMLQLIVYIEMDVKLCVPE 60 (86)
T ss_pred CCcccccCCChHHHHHHHHHHHHHHCCccCH
Confidence 3444556788899999999999999999974
No 102
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=58.17 E-value=35 Score=33.97 Aligned_cols=76 Identities=16% Similarity=0.246 Sum_probs=57.0
Q ss_pred cCCHHHHHHHHHhhCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhh----hcCCCCcchhhHHHHHhhccCcccCCC
Q 009343 401 ILTKRSIQELVNQIDP-SERLDPDVEDILVDIAEDFVESITMFGCSLAK----HRKSDTLEAKDILVHLERNWNMTLPGF 475 (537)
Q Consensus 401 ILtKrKLqELVrqIDP-~e~LD~DVEELLLeIADDFVDsVvs~ACkLAK----HRKSdTLEvKDVQLhLERnWNI~IPGf 475 (537)
-|.-+.+..+++.|.. -..+|++-++...+=+++|++.+-..--++.+ .++...|..-|.--||.+.||+.+-++
T Consensus 124 Wldp~n~~~~a~~I~~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~H~af~Yl~~~~gl~~~~~ 203 (286)
T cd01019 124 WLSPENAAEVAQAVAEKLSALDPDNAATYAANLEAFNARLAELDATIKERLAPVKTKPFFVFHDAYGYFEKRYGLTQAGV 203 (286)
T ss_pred CCCHHHHHHHHHHHHHHHHHHCchhHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCeEEEecccHHHHHHHcCCceeee
Confidence 4788888888888844 35789999999988889998887765544333 334446777888899999999997664
Q ss_pred C
Q 009343 476 S 476 (537)
Q Consensus 476 s 476 (537)
.
T Consensus 204 ~ 204 (286)
T cd01019 204 F 204 (286)
T ss_pred e
Confidence 3
No 103
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=57.89 E-value=28 Score=30.18 Aligned_cols=47 Identities=19% Similarity=0.247 Sum_probs=42.5
Q ss_pred CCCCHHHHHHHHHHHHHH------HHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009343 418 ERLDPDVEDILVDIAEDF------VESITMFGCSLAKHRKSDTLEAKDILVHL 464 (537)
Q Consensus 418 e~LD~DVEELLLeIADDF------VDsVvs~ACkLAKHRKSdTLEvKDVQLhL 464 (537)
..||++++++|.++++.| ++.|+.-|--+|-.-+++.|+..||.-.|
T Consensus 41 ~~l~~~~~~~l~~~~~~~~lS~R~~~rilrvARTIADL~~~~~I~~~hi~EAl 93 (96)
T PF13335_consen 41 CPLSSEAKKLLEQAAEKLNLSARGYHRILRVARTIADLEGSERITREHIAEAL 93 (96)
T ss_pred cCCCHHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHhHcCCCCCCHHHHHHHH
Confidence 679999999999999998 68899999999999999999999997655
No 104
>PF04867 DUF643: Protein of unknown function (DUF643); InterPro: IPR006951 These are proteins of unknown function found in Borrelia burgdorferi (Lyme disease spirochete)
Probab=57.52 E-value=22 Score=32.67 Aligned_cols=36 Identities=14% Similarity=0.240 Sum_probs=29.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcc
Q 009343 421 DPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLE 456 (537)
Q Consensus 421 D~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLE 456 (537)
-+|++.-+++.+.+||++|+..--.+-||+++..++
T Consensus 54 i~eiind~l~p~k~fIkdvLKdk~li~kykn~kn~k 89 (114)
T PF04867_consen 54 INEIINDILDPAKKFIKDVLKDKYLIKKYKNSKNMK 89 (114)
T ss_pred HHHHHHHHhhHHHHHHHHHHhhhHHHHHHhccccce
Confidence 355666678899999999999999999999886443
No 105
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=57.28 E-value=32 Score=36.27 Aligned_cols=72 Identities=17% Similarity=0.157 Sum_probs=58.6
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHH-------HHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 400 RILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVE-------SITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 400 rILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVD-------sVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
..+.+.+|.++-+.+ +...+++++.+.|++|+..+=. -.+..|..+|-.++.+.|+..||+...+--+..++
T Consensus 249 ~~~~~~~I~~ar~~~-~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~pdDv~~~a~~vL~HR~ 327 (350)
T CHL00081 249 QEELRSKIVAAQNLL-PKVEIDYDLRVKISQICSELDVDGLRGDIVTNRAAKALAAFEGRTEVTPKDIFKVITLCLRHRL 327 (350)
T ss_pred cccCHHHHHHHHHhc-CCCccCHHHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHhC
Confidence 345788888876655 6789999999999999999753 35577778899999999999999888877777665
No 106
>PRK07117 acyl carrier protein; Validated
Probab=57.20 E-value=5.1 Score=33.64 Aligned_cols=38 Identities=13% Similarity=0.188 Sum_probs=28.4
Q ss_pred HHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccccc
Q 009343 444 CSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKT 482 (537)
Q Consensus 444 CkLAKHRKSdTLEvKDVQLhLERnWNI~IPGfssDEIR~ 482 (537)
..| +.-|.+.|++-||...||..||+.||---.+.+++
T Consensus 30 ~~l-~DLg~DSlD~veiv~~led~f~i~I~~~~~~~i~T 67 (79)
T PRK07117 30 DSL-VDLGANSMDRAEIVIMTLESLSLKIPLVEFAGAKN 67 (79)
T ss_pred CCh-hhcCCChHHHHHHHHHHHHHHCCccCHHHHHhcCC
Confidence 344 34689999999999999999999998633333433
No 107
>cd01018 ZntC Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains. In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=56.81 E-value=25 Score=34.44 Aligned_cols=76 Identities=11% Similarity=0.155 Sum_probs=52.3
Q ss_pred ccCCHHHHHHHHHhhC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHh----hhhcCCCCcchhhHHHHHhhccCcccCC
Q 009343 400 RILTKRSIQELVNQID-PSERLDPDVEDILVDIAEDFVESITMFGCSL----AKHRKSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 400 rILtKrKLqELVrqID-P~e~LD~DVEELLLeIADDFVDsVvs~ACkL----AKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (537)
--|+-.....+++.|. .-.++|++-.+...+=+++|++.+-...-.+ +..++...|...|.--||.|.||+.+-|
T Consensus 114 ~Wldp~~~~~~a~~I~~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~H~af~Y~~~~ygl~~~~ 193 (266)
T cd01018 114 IWLSPANAKIMAENIYEALAELDPQNATYYQANLDALLAELDALDSEIRTILSKLKQRAFMVYHPAWGYFARDYGLTQIP 193 (266)
T ss_pred cCcCHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCeEEEECchhHHHHHHcCCEEEe
Confidence 3467777777777773 3456777777777777777777665443333 3334444677889999999999999766
Q ss_pred C
Q 009343 475 F 475 (537)
Q Consensus 475 f 475 (537)
+
T Consensus 194 ~ 194 (266)
T cd01018 194 I 194 (266)
T ss_pred c
Confidence 4
No 108
>TIGR00764 lon_rel lon-related putative ATP-dependent protease. Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.
Probab=56.53 E-value=41 Score=37.63 Aligned_cols=59 Identities=17% Similarity=0.184 Sum_probs=42.8
Q ss_pred HHHHHHHHHhh---C-CCCCCCHHHHHHHHHHHH-------------HHHHHHHHHHHHhhhhcCCCCcchhhHHH
Q 009343 404 KRSIQELVNQI---D-PSERLDPDVEDILVDIAE-------------DFVESITMFGCSLAKHRKSDTLEAKDILV 462 (537)
Q Consensus 404 KrKLqELVrqI---D-P~e~LD~DVEELLLeIAD-------------DFVDsVvs~ACkLAKHRKSdTLEvKDVQL 462 (537)
++++.+++.+. + ....||+++.+.|++.+- .-+.+|+..|..+|+.++++.|+.+||.-
T Consensus 311 ~~~~~~~i~~~~~r~G~l~~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~A~~iA~~~~~~~I~~ehV~~ 386 (608)
T TIGR00764 311 RDKLVQFVAQEVKKDGRIPHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSSGKVYVTAEHVLK 386 (608)
T ss_pred HHHHHHHHHHHHHHhCCCCcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHHHHhcCCceecHHHHHH
Confidence 44455555543 2 234788987777765433 56788999999999999999999999975
No 109
>cd01145 TroA_c Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind their ligands in the cleft between these domains.
Probab=56.51 E-value=13 Score=35.06 Aligned_cols=76 Identities=9% Similarity=0.063 Sum_probs=53.8
Q ss_pred cCCHHHHHHHHHhhC-CCCCCCHHHHHHHHHHHHHHHHHHHHHH----HHhhhhcCCCCcchhhHHHHHhhccCcccCCC
Q 009343 401 ILTKRSIQELVNQID-PSERLDPDVEDILVDIAEDFVESITMFG----CSLAKHRKSDTLEAKDILVHLERNWNMTLPGF 475 (537)
Q Consensus 401 ILtKrKLqELVrqID-P~e~LD~DVEELLLeIADDFVDsVvs~A----CkLAKHRKSdTLEvKDVQLhLERnWNI~IPGf 475 (537)
-|.-.....+++.|. .-.++|++-++...+=+++|++.+-..- .++++..+...|..-|.--||.|.||+.+=|+
T Consensus 111 Wldp~~~~~~a~~I~~~L~~~dP~~~~~y~~N~~~~~~~l~~l~~~~~~~l~~~~~~~~v~~H~af~Y~~~~yGl~~~~~ 190 (203)
T cd01145 111 WLDPNNAPALAKALADALIELDPSEQEEYKENLRVFLAKLNKLLREWERQFEGLKGIQVVAYHPSYQYLADWLGIEVVAS 190 (203)
T ss_pred ecCHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCeEEEecccHHHHHHHcCCceeee
Confidence 567777777777773 3457788888888888888887765443 33444444445666899999999999997554
Q ss_pred C
Q 009343 476 S 476 (537)
Q Consensus 476 s 476 (537)
.
T Consensus 191 ~ 191 (203)
T cd01145 191 L 191 (203)
T ss_pred e
Confidence 3
No 110
>PRK07081 acyl carrier protein; Provisional
Probab=56.23 E-value=4.3 Score=33.94 Aligned_cols=24 Identities=13% Similarity=0.469 Sum_probs=21.8
Q ss_pred CCCCcchhhHHHHHhhccCcccCC
Q 009343 451 KSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 451 KSdTLEvKDVQLhLERnWNI~IPG 474 (537)
|-+.|++-++.++||+.||+.||-
T Consensus 32 GlDSl~~v~li~~lE~~f~I~i~~ 55 (83)
T PRK07081 32 GLSSLATVQLMLAIEDAFDIEIPD 55 (83)
T ss_pred CCCHHHHHHHHHHHHHHhCCcCCH
Confidence 678899999999999999999874
No 111
>TIGR02999 Sig-70_X6 RNA polymerase sigma factor, TIGR02999 family. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in a variety of species including Rhodopirellula baltica which encodes a paralogous group of five.
Probab=55.14 E-value=41 Score=30.02 Aligned_cols=88 Identities=9% Similarity=0.113 Sum_probs=54.0
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCC-cchhhH-HHHHhhccCcccCCCCcccccccC
Q 009343 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDT-LEAKDI-LVHLERNWNMTLPGFSGDEIKTFR 484 (537)
Q Consensus 407 LqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdT-LEvKDV-QLhLERnWNI~IPGfssDEIR~~R 484 (537)
+.+|+..+..+ | ++.+-+|.+.|...|..++.++.+.+..+. .+++|| +=++-|-|.-.++.|..+ ..++
T Consensus 4 ~~~li~~~~~g---d---~~a~~~l~~~~~~~l~~~~~~~~~~~~~~~~~~AeDlvQevfl~~~~~~~~~~~~~--~~~~ 75 (183)
T TIGR02999 4 VTELLQQWQNG---D---AAARDQLFPQLYQELRRIARRQLRRERSGQTLQTTALVHEAYLRLSDQDEQKWDDR--AHFF 75 (183)
T ss_pred HHHHHHHHHcC---C---HHHHHHHHHHHHHHHHHHHHHHhhcccccccchHHHHHHHHHHHHhhcccCCCCch--HHHH
Confidence 45666665433 2 567777888888888888888887665333 269997 567777886445555432 2344
Q ss_pred CCCCchHHHHHHHHHHHH
Q 009343 485 KPLVCDIHKERLAAIKKS 502 (537)
Q Consensus 485 K~~pTEaHKQRMALIRKs 502 (537)
.|.-+-+++.=+..+||.
T Consensus 76 ~wl~~i~~n~~~d~~R~~ 93 (183)
T TIGR02999 76 AAAAKAMRRILVDHARRR 93 (183)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 444444455555555553
No 112
>cd05128 RasGAP_GAP1_like The GAP1 family of Ras GTPase-activating proteins includes GAP1(m) (or RASA2), GAP1_IP4BP (or RASA3), Ca2+ -promoted Ras inactivator (CAPRI, or RASAL4), and Ras GTPase activating-like proteins (RASAL) or RASAL1. The members are characterized by a conserved domain structure comprising N-terminal tandem C2 domains, a highly conserved central RasGAP domain, and a C-terminal pleckstrin homology domain that is associated with a Bruton's tyrosine kinase motif. While this domain structure is conserved, a small change in the function of each individual domain and the interaction between domains has a marked effect on the regulation of each protein.
Probab=54.62 E-value=96 Score=32.28 Aligned_cols=74 Identities=18% Similarity=0.152 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc---------------------CCCCcccccccC
Q 009343 426 DILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL---------------------PGFSGDEIKTFR 484 (537)
Q Consensus 426 ELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I---------------------PGfssDEIR~~R 484 (537)
+.|.+++++|++.|++..+++-. +++.|--+|.+.-.-.+ |.+-+-+.-...
T Consensus 132 ~~L~~~~~~~~~~I~~S~~~~P~-------~lr~i~~~l~~~v~~kFp~~~~~~~~~V~gfiFLRfi~PAIvsP~~f~l~ 204 (315)
T cd05128 132 ENLRYYLDRLFEAITKSSVSCPT-------VMCDIFYQLRERVGERFPGDPDVQYLAVSSFLFLRFFAPAILSPKLFHLR 204 (315)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCH-------HHHHHHHHHHHHHHHHCCCCccchHHHHHHHHHHHHHhHHhcChHhcCCC
Confidence 67899999999999976654432 23333222222211112 222222211122
Q ss_pred CCCCchHHHHHHHHHHHHhhhh
Q 009343 485 KPLVCDIHKERLAAIKKSVMAT 506 (537)
Q Consensus 485 K~~pTEaHKQRMALIRKsI~s~ 506 (537)
...++...+.-|.+|-|.|..-
T Consensus 205 ~~~p~~~~rR~L~lIaKvLQnl 226 (315)
T cd05128 205 PHHADARTSRTLLLLSKAVQTL 226 (315)
T ss_pred CCCCCHHHHHHHHHHHHHHHHH
Confidence 3455677788899999988875
No 113
>KOG3598 consensus Thyroid hormone receptor-associated protein complex, subunit TRAP230 [Transcription]
Probab=54.61 E-value=2.5 Score=51.85 Aligned_cols=8 Identities=50% Similarity=0.580 Sum_probs=6.5
Q ss_pred cccccccc
Q 009343 191 QGMGVMGS 198 (537)
Q Consensus 191 Q~mG~mGs 198 (537)
|.||+-|+
T Consensus 1994 qa~g~~~~ 2001 (2220)
T KOG3598|consen 1994 QAMGNTSS 2001 (2220)
T ss_pred hccCCCCC
Confidence 78888777
No 114
>PF00493 MCM: MCM2/3/5 family This family extends the MCM domain of Prosite.; InterPro: IPR001208 MCM proteins are DNA-dependent ATPases required for the initiation of eukaryotic DNA replication [, , ]. In eukaryotes there is a family of six proteins, MCM2 to MCM7. They were first identified in yeast where most of them have a direct role in the initiation of chromosomal DNA replication by interacting directly with autonomously replicating sequences (ARS). They were thus called minichromosome maintenance proteins, MCM proteins []. This family is also present in the archebacteria in 1 to 4 copies. Methanocaldococcus jannaschii (Methanococcus jannaschii) has four members, MJ0363, MJ0961, MJ1489 and MJECL13. The "MCM motif" contains Walker-A and Walker-B type nucleotide binding motifs. The diagnostic sequence defining the MCMs is IDEFDKM. Only Mcm2 (aka Cdc19 or Nda1) has been subjected to mutational analysis in this region, and most mutations abolish its activity []. The presence of a putative ATP-binding domain implies that these proteins may be involved in an ATP-consuming step in the initiation of DNA replication in eukaryotes. The MCM proteins bind together in a large complex []. Within this complex, individual subunits associate with different affinities, and there is a tightly associated core of Mcm4 (Cdc21), Mcm6 (Mis5) and Mcm7 []. This core complex in human MCMs has been associated with helicase activity in vitro [], leading to the suggestion that the MCM proteins are the eukaryotic replicative helicase. Schizosaccharomyces pombe (Fission yeast) MCMs, like those in metazoans, are found in the nucleus throughout the cell cycle. This is in contrast to the Saccharomyces cerevisiae (Baker's yeast) in which MCM proteins move in and out of the nucleus during each cell cycle. The assembly of the MCM complex in S. pombe is required for MCM localisation, ensuring that only intact MCM complexes remain in the nucleus [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0006260 DNA replication; PDB: 3F8T_A 3F9V_A.
Probab=54.31 E-value=7.8 Score=39.49 Aligned_cols=63 Identities=16% Similarity=0.275 Sum_probs=45.8
Q ss_pred cCCHHH---HHHHHH-hhCCCCCCCHHHHHHHHHHHHH-----------------HHHHHHHHHHHhhhhcCCCCcchhh
Q 009343 401 ILTKRS---IQELVN-QIDPSERLDPDVEDILVDIAED-----------------FVESITMFGCSLAKHRKSDTLEAKD 459 (537)
Q Consensus 401 ILtKrK---LqELVr-qIDP~e~LD~DVEELLLeIADD-----------------FVDsVvs~ACkLAKHRKSdTLEvKD 459 (537)
.++... .-.++| .+.| .|++|++++|.++.-+ .+|.++..|...||.|-+++|+.+|
T Consensus 241 ~~~~~~lr~yI~yar~~~~P--~ls~ea~~~I~~~Yv~lR~~~~~~~~~~~iT~R~LeSLIRLseA~AKl~lr~~V~~~D 318 (331)
T PF00493_consen 241 PISEDLLRKYIAYARQNIHP--VLSEEAKELIINYYVELRKESKSNNKSIPITIRQLESLIRLSEAHAKLRLRDEVTEED 318 (331)
T ss_dssp TT-HCCCHHHHHHHHHHC----EE-HHCHHHHHHHHCCCCHCHHCHSS-B-SSCCCCCHHHHHHHHHHHCTTSSECSHHH
T ss_pred ccCHHHHHHHHHHHHhhccc--ccCHHHHHHHHHHHHHhcccccccccccccchhhHHHHHHHHHHHHHHhccCceeHHH
Confidence 454433 445556 5655 7999999999876421 4589999999999999999999999
Q ss_pred HHHHHh
Q 009343 460 ILVHLE 465 (537)
Q Consensus 460 VQLhLE 465 (537)
|..+++
T Consensus 319 v~~Ai~ 324 (331)
T PF00493_consen 319 VEEAIR 324 (331)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 987765
No 115
>PLN02641 anthranilate phosphoribosyltransferase
Probab=54.28 E-value=22 Score=37.17 Aligned_cols=48 Identities=15% Similarity=0.241 Sum_probs=37.6
Q ss_pred HHHHHHhhCCCCCCCHH-HHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCc
Q 009343 407 IQELVNQIDPSERLDPD-VEDILVDIAEDFVESITMFGCSLAKHRKSDTL 455 (537)
Q Consensus 407 LqELVrqIDP~e~LD~D-VEELLLeIADDFVDsVvs~ACkLAKHRKSdTL 455 (537)
+.++|++|..+..|+.| +++++-.|.|+ ++++--.|..+|-+-|.++.
T Consensus 4 ~~~~l~~l~~g~~Lt~eEa~~~~~~il~~-~~~~qigAfL~alr~kget~ 52 (343)
T PLN02641 4 FRQLIESLIQGTDLTEEEAEAALDFLLDD-ADEAQISAFLVLLRAKGETF 52 (343)
T ss_pred HHHHHHHHhCCCCCCHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHhCCCH
Confidence 67788888777777755 88999999998 88887778777776666653
No 116
>cd00454 Trunc_globin Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct from the three-over-three pattern found in other globins. A subset of these have been demonstrated to form homodimers.
Probab=54.00 E-value=61 Score=27.38 Aligned_cols=79 Identities=9% Similarity=0.105 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCC---CCccccc-ccCCCCCchHHHHHH-HHH
Q 009343 425 EDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPG---FSGDEIK-TFRKPLVCDIHKERL-AAI 499 (537)
Q Consensus 425 EELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPG---fssDEIR-~~RK~~pTEaHKQRM-ALI 499 (537)
++.|..|+|+|.+.|... ..++..-.. ++..++...|.+-|-..+-| |.+.+.+ .-+....+++|-.+. ..+
T Consensus 9 ~~~i~~lv~~FY~~i~~d-p~i~~~F~~--~~~~~~~~~~~~fl~~~~gg~~~y~g~~~~~~H~~~~I~~~~f~~~l~~l 85 (116)
T cd00454 9 EEAIRALVDRFYARVAAD-PRLGPIFPA--DDLEEHRAKLADFLTQVLGGPGLYRGHPMLRRHLPFPITEEEFDAWLELL 85 (116)
T ss_pred HHHHHHHHHHHHHHHhcC-hHHHHhcCC--cchHHHHHHHHHHHHHHcCCCCCCCCCChhhhhcCCCCCHHHHHHHHHHH
Confidence 477889999999997765 445555432 34677777777777666643 3333333 222334566666654 478
Q ss_pred HHHhhhh
Q 009343 500 KKSVMAT 506 (537)
Q Consensus 500 RKsI~s~ 506 (537)
+++++.-
T Consensus 86 ~~al~~~ 92 (116)
T cd00454 86 RDALDEL 92 (116)
T ss_pred HHHHHHh
Confidence 8887764
No 117
>PF10789 Phage_RpbA: Phage RNA polymerase binding, RpbA; InterPro: IPR019725 Upon infection, the RpbA encoded phage protein binds to the ADP-ribosylated core RNA polymerase and modulates function to preferentially bind T4 promoters. This is a non-essential protein to the phage life cycle.
Probab=53.98 E-value=5.7 Score=36.23 Aligned_cols=39 Identities=21% Similarity=0.368 Sum_probs=32.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcc
Q 009343 418 ERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLE 456 (537)
Q Consensus 418 e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLE 456 (537)
..||++|.|+-.+|..+|.++.+....++-+-++++.||
T Consensus 48 ~~iD~~V~~~wi~Lm~~~r~~sl~~Gak~V~~~g~~rle 86 (108)
T PF10789_consen 48 KEIDEDVSDKWIELMRKHREDSLAAGAKFVRVNGKERLE 86 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHccCceeccCCceecc
Confidence 468999999999999999999999888888877776543
No 118
>PRK09184 acyl carrier protein; Provisional
Probab=53.96 E-value=9.5 Score=32.76 Aligned_cols=28 Identities=11% Similarity=0.294 Sum_probs=24.4
Q ss_pred hhhcCCCCcchhhHHHHHhhccCcccCC
Q 009343 447 AKHRKSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 447 AKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (537)
...-+-+.|++-+|...||+.||+.|+.
T Consensus 37 ~~dLglDSld~velv~~lE~~fgi~i~~ 64 (89)
T PRK09184 37 GEGLGLDSIDILEIALVISKRYGFQLRS 64 (89)
T ss_pred cccCCCcHHHHHHHHHHHHHHHCCcCCC
Confidence 3446788999999999999999999985
No 119
>PF08546 ApbA_C: Ketopantoate reductase PanE/ApbA C terminal; InterPro: IPR013752 This is the C-terminal domain of 2-dehydropantoate 2-reductases also known as ketopantoate reductases, 1.1.1.169 from EC. The reaction catalysed by this enzyme is: (R)-pantoate + NADP(+) = 2-dehydropantoate + NADPH. AbpA catalyses the NADPH reduction of ketopantoic acid to pantoic acid in the alternative pyrimidine biosynthetic (APB) pathway []. ApbA and PanE are allelic []. ApbA, the ketopantoate reductase enzyme is required for the synthesis of thiamine via the APB biosynthetic pathway []. ; GO: 0016491 oxidoreductase activity, 0050661 NADP binding, 0055114 oxidation-reduction process; PDB: 1YJQ_A 1KS9_A 2OFP_A 1YON_A 2EW2_B 3EGO_B 3HN2_D 3GHY_B 3G17_E 3HWR_B ....
Probab=53.88 E-value=13 Score=31.75 Aligned_cols=37 Identities=16% Similarity=0.181 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 430 DIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 430 eIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
.-+.+++..++...+.+|+-.|.. |+.+++.-++++.
T Consensus 34 ~~~~~~~~~l~~E~~~va~a~G~~-l~~~~~~~~~~~~ 70 (125)
T PF08546_consen 34 PEARELIRALMREVIAVARALGIP-LDPDDLEEAIERL 70 (125)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTSS---HHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHhhcc-CcHHHHHHHHHHH
Confidence 345556666666666677666655 5555555555443
No 120
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=53.75 E-value=53 Score=36.85 Aligned_cols=70 Identities=11% Similarity=0.051 Sum_probs=55.2
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHH-------HHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFV-------ESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 402 LtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFV-------DsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
.++.+|.+.-+.+ ++..|++++.+.+.+++++|- ..++..|.-+|-.++.+.|+.+||+..++--+..++
T Consensus 179 ~~~~~I~~AR~rl-~~v~v~~~~l~~i~~~~~~~gv~S~Ra~i~llraARa~AaL~Gr~~V~~~dv~~Aa~lvL~hR~ 255 (584)
T PRK13406 179 IDADDIAAARARL-PAVGPPPEAIAALCAAAAALGIASLRAPLLALRAARAAAALAGRTAVEEEDLALAARLVLAPRA 255 (584)
T ss_pred CCHHHHHHHHHHH-ccCCCCHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHhhc
Confidence 3344555555555 578999999999999999985 467888889999999999999999887776665443
No 121
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=53.37 E-value=36 Score=34.12 Aligned_cols=66 Identities=8% Similarity=0.050 Sum_probs=48.3
Q ss_pred cCCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 401 ILTKRSIQELVNQID--PSERLDPDVEDILVDIAED---FVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 401 ILtKrKLqELVrqID--P~e~LD~DVEELLLeIADD---FVDsVvs~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
.++...+.++|+++- -+..+|+|+.+.|.+.++- ++..++...+.+|.-++...++..+|.-.|+.
T Consensus 179 ~~~~~e~~~il~~~~~~~~~~~~~~~~~~ia~~~~G~pR~a~~~l~~~~~~a~~~~~~~I~~~~v~~~l~~ 249 (328)
T PRK00080 179 FYTVEELEKIVKRSARILGVEIDEEGALEIARRSRGTPRIANRLLRRVRDFAQVKGDGVITKEIADKALDM 249 (328)
T ss_pred CCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH
Confidence 456777777777662 3567999998888877743 36677777777776666677889999888865
No 122
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=52.37 E-value=22 Score=36.67 Aligned_cols=100 Identities=11% Similarity=0.157 Sum_probs=60.9
Q ss_pred CCccCCHHHHHHHHHhhCCCCC-CCHHHHHHHH-------HHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009343 398 GNRILTKRSIQELVNQIDPSER-LDPDVEDILV-------DIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (537)
Q Consensus 398 ~nrILtKrKLqELVrqIDP~e~-LD~DVEELLL-------eIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWN 469 (537)
.+-.|+.+.|.-|++.++.+.. |..-+..+.. +|..+|+++++...+.. +...|++++|.-.+.+.||
T Consensus 284 ~~~~l~~e~l~~ia~~~~~~~r~l~~~l~~l~~~a~~~~~~it~~~~~~~L~~~~~~----~~~~it~~~I~~~Va~~~~ 359 (405)
T TIGR00362 284 EGLELPDEVLEFIAKNIRSNVRELEGALNRLLAYASLTGKPITLELAKEALKDLLRA----KKKEITIENIQEVVAKYYN 359 (405)
T ss_pred cCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHhccc----cCCCCCHHHHHHHHHHHcC
Confidence 3456788888888888876653 3333322211 12236777777665432 3345899999999999999
Q ss_pred cccCCCCcccccccCC-CCCchHHHHHHHHHHHHhhhh
Q 009343 470 MTLPGFSGDEIKTFRK-PLVCDIHKERLAAIKKSVMAT 506 (537)
Q Consensus 470 I~IPGfssDEIR~~RK-~~pTEaHKQRMALIRKsI~s~ 506 (537)
+.+ +||+.-+| .....+-.-=|-|.|+....+
T Consensus 360 v~~-----~~l~~~~r~~~~~~~R~~amyl~~~~~~~s 392 (405)
T TIGR00362 360 IKV-----SDLKSKKRTRNIVRPRQIAMYLAKELTDLS 392 (405)
T ss_pred CCH-----HHHhCCCCCcccchHHHHHHHHHHHHcCCC
Confidence 875 56654333 334444444455777665543
No 123
>CHL00176 ftsH cell division protein; Validated
Probab=51.97 E-value=64 Score=36.55 Aligned_cols=63 Identities=22% Similarity=0.284 Sum_probs=43.6
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHH-------HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 403 TKRSIQELVNQIDPSERLDPDVEDILVDIAED-------FVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 403 tKrKLqELVrqIDP~e~LD~DVEELLLeIADD-------FVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
+.+...++++..-....+++++ .|..||+. -|.++++.|+.+|..|+...|+.+||...++|.
T Consensus 354 d~~~R~~IL~~~l~~~~~~~d~--~l~~lA~~t~G~sgaDL~~lvneAal~a~r~~~~~It~~dl~~Ai~rv 423 (638)
T CHL00176 354 DREGRLDILKVHARNKKLSPDV--SLELIARRTPGFSGADLANLLNEAAILTARRKKATITMKEIDTAIDRV 423 (638)
T ss_pred CHHHHHHHHHHHHhhcccchhH--HHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHH
Confidence 4555555666554445555543 23344432 478899999999888888899999999999985
No 124
>PRK04195 replication factor C large subunit; Provisional
Probab=51.24 E-value=31 Score=36.79 Aligned_cols=69 Identities=16% Similarity=0.121 Sum_probs=49.4
Q ss_pred CCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 402 LTKRSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 402 LtKrKLqELVrqID--P~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
++.+.|.++|++|- .+..+|+++.+.|.+.+.-=+..++.....+|. +...|+..||...+.|.|...|
T Consensus 160 ~~~~~i~~~L~~i~~~egi~i~~eaL~~Ia~~s~GDlR~ain~Lq~~a~--~~~~it~~~v~~~~~~d~~~~i 230 (482)
T PRK04195 160 LSTRSIVPVLKRICRKEGIECDDEALKEIAERSGGDLRSAINDLQAIAE--GYGKLTLEDVKTLGRRDREESI 230 (482)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhc--CCCCCcHHHHHHhhcCCCCCCH
Confidence 45667777777763 456799999999998887777777777777665 3446788888766666665553
No 125
>cd03565 VHS_Tom1 VHS domain family, Tom1 subfamily; The VHS domain is an essential part of Tom1 (Target of myb1 - retroviral oncogene) protein. The VHS domain has a superhelical structure similar to the structure of the ARM repeats and is present at the very N-termini of proteins. It is a right-handed superhelix of eight alpha helices. The VHS domain has been found in a number of proteins, some of which have been implicated in intracellular trafficking and sorting. The VHS domain of the Tom1 protein is essential for the negative regulation of Interleukin-1 and Tumor Necrosis Factor-induced signaling pathways.
Probab=51.16 E-value=37 Score=31.19 Aligned_cols=18 Identities=11% Similarity=0.324 Sum_probs=9.9
Q ss_pred chhhHHHHHhhccCcccC
Q 009343 456 EAKDILVHLERNWNMTLP 473 (537)
Q Consensus 456 EvKDVQLhLERnWNI~IP 473 (537)
+||+-.+.|=++|...|.
T Consensus 101 ~Vk~kil~li~~W~~~f~ 118 (141)
T cd03565 101 IVQEKVLALIQAWADAFR 118 (141)
T ss_pred HHHHHHHHHHHHHHHHhC
Confidence 455555555555555543
No 126
>PRK13430 F0F1 ATP synthase subunit delta; Provisional
Probab=50.83 E-value=81 Score=31.87 Aligned_cols=29 Identities=7% Similarity=-0.049 Sum_probs=12.5
Q ss_pred HHHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009343 439 ITMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (537)
Q Consensus 439 Vvs~ACkLAKHRKSdTLEvKDVQLhLERnWN 469 (537)
+.+|.+.|+.++... .+.+|..++++.|+
T Consensus 167 ~~nfl~~lv~~~R~~--~l~~i~~~f~~l~~ 195 (271)
T PRK13430 167 TERLAEQAVGRPRGR--SIEEGLDELSNLAA 195 (271)
T ss_pred HHHHHHHHHhCCChh--hHHHHHHHHHHHHH
Confidence 334555555544332 23444444444433
No 127
>PLN00153 histone H2A; Provisional
Probab=50.78 E-value=33 Score=32.19 Aligned_cols=68 Identities=12% Similarity=0.180 Sum_probs=58.8
Q ss_pred CccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 399 NRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 399 nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
+-.+.=-+++.++++-.-.++|...+--.|..+-|-++.+|++.|...|+..|...|..+.|++.+..
T Consensus 22 gL~FpVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~n 89 (129)
T PLN00153 22 GLQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIRN 89 (129)
T ss_pred CcccchHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhccC
Confidence 44556678999999766677888888889999999999999999999999999999999999988754
No 128
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=50.65 E-value=62 Score=37.38 Aligned_cols=77 Identities=13% Similarity=0.194 Sum_probs=54.5
Q ss_pred CHHHHHHHHHhh------CCCCCCCHHHHHHHHHHHHHHHH---------HHHHHHHHhhhh----cCCCCcchhhHHHH
Q 009343 403 TKRSIQELVNQI------DPSERLDPDVEDILVDIAEDFVE---------SITMFGCSLAKH----RKSDTLEAKDILVH 463 (537)
Q Consensus 403 tKrKLqELVrqI------DP~e~LD~DVEELLLeIADDFVD---------sVvs~ACkLAKH----RKSdTLEvKDVQLh 463 (537)
+.....++++.+ ..+..|++++.+..+++++.||. ++++.||..++. ++..+|+..||.-+
T Consensus 350 s~~~~~~IL~~~~~~ye~~h~v~i~~~al~~a~~ls~ryi~~r~lPdKaidlldea~a~~~~~~~~~~~~~v~~~~i~~v 429 (758)
T PRK11034 350 SIEETVQIINGLKPKYEAHHDVRYTAKAVRAAVELAVKYINDRHLPDKAIDVIDEAGARARLMPVSKRKKTVNVADIESV 429 (758)
T ss_pred CHHHHHHHHHHHHHHhhhccCCCcCHHHHHHHHHHhhccccCccChHHHHHHHHHHHHhhccCcccccccccChhhHHHH
Confidence 445545555544 34678999999999999999875 478888865432 33456889999999
Q ss_pred HhhccCcccCCCCccc
Q 009343 464 LERNWNMTLPGFSGDE 479 (537)
Q Consensus 464 LERnWNI~IPGfssDE 479 (537)
+++.-||.+--+..+|
T Consensus 430 ~~~~tgip~~~~~~~~ 445 (758)
T PRK11034 430 VARIARIPEKSVSQSD 445 (758)
T ss_pred HHHHhCCChhhhhhhH
Confidence 9998887765444444
No 129
>cd00052 EH Eps15 homology domain; found in proteins implicated in endocytosis, vesicle transport, and signal transduction. The alignment contains a pair of EF-hand motifs, typically one of them is canonical and binds to Ca2+, while the other may not bind to Ca2+. A hydrophobic binding pocket is formed by residues from both EF-hand motifs. The EH domain binds to proteins containing NPF (class I), [WF]W or SWG (class II), or H[TS]F (class III) sequence motifs.
Probab=50.27 E-value=68 Score=23.81 Aligned_cols=20 Identities=10% Similarity=0.293 Sum_probs=14.0
Q ss_pred CCcCCccCCHHHHHHHHHhh
Q 009343 395 DEFGNRILTKRSIQELVNQI 414 (537)
Q Consensus 395 ~e~~nrILtKrKLqELVrqI 414 (537)
+.+++..|++..|.++++.+
T Consensus 9 D~~~~G~i~~~el~~~l~~~ 28 (67)
T cd00052 9 DPDGDGLISGDEARPFLGKS 28 (67)
T ss_pred CCCCCCcCcHHHHHHHHHHc
Confidence 44556677877788777765
No 130
>cd01016 TroA Metal binding protein TroA. These proteins have been shown to function as initial receptors in ABC transport of Zn2+ and possibly Fe3+ in many eubacterial species. The TroA proteins belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=50.23 E-value=42 Score=33.26 Aligned_cols=76 Identities=14% Similarity=0.237 Sum_probs=48.1
Q ss_pred CccCCHHHHHHHHHhh-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHH----Hhhh--hcCCCCcchhhHHHHHhhccCcc
Q 009343 399 NRILTKRSIQELVNQI-DPSERLDPDVEDILVDIAEDFVESITMFGC----SLAK--HRKSDTLEAKDILVHLERNWNMT 471 (537)
Q Consensus 399 nrILtKrKLqELVrqI-DP~e~LD~DVEELLLeIADDFVDsVvs~AC----kLAK--HRKSdTLEvKDVQLhLERnWNI~ 471 (537)
---|+-.....+++.| |.-.++|++-.+...+=++.|++.+-..-- +++. .++...+..-|.--||.|.||+.
T Consensus 102 H~Wldp~~~~~~a~~I~~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~l~~~~~~~~~~~t~H~af~Y~~~~ygl~ 181 (276)
T cd01016 102 HIWFDVKLWKYAVKAVAEVLSEKLPEHKDEFQANSEAYVEELDSLDAYAKKKIAEIPEQQRVLVTAHDAFGYFGRAYGFE 181 (276)
T ss_pred CcccCHHHHHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCchhcCeEEEecCcHHHHHHHcCCe
Confidence 3345666666666666 233456666677777777777766554444 3333 23334555678889999999999
Q ss_pred cCC
Q 009343 472 LPG 474 (537)
Q Consensus 472 IPG 474 (537)
+-|
T Consensus 182 ~~~ 184 (276)
T cd01016 182 VKG 184 (276)
T ss_pred Eec
Confidence 755
No 131
>PRK15380 pathogenicity island 1 protein SopD2; Provisional
Probab=49.37 E-value=23 Score=37.14 Aligned_cols=70 Identities=23% Similarity=0.386 Sum_probs=52.9
Q ss_pred CcCCccCCHHHHHHHHHhhCC--CCCCCHHHHHHHHHHHHHHHHHHH-------HHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 396 EFGNRILTKRSIQELVNQIDP--SERLDPDVEDILVDIAEDFVESIT-------MFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 396 e~~nrILtKrKLqELVrqIDP--~e~LD~DVEELLLeIADDFVDsVv-------s~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
+-++.||.|.+|++++.--|. -+.++.|-+|++++|++.+=+.|. .++..|-|.-..+. ++||..+-|-|
T Consensus 113 ~i~~~vI~q~~i~~iLN~sdn~i~k~M~~~E~eLFlkiC~~~G~~i~~~peLLq~~as~Lrk~V~~~~-~IK~aVY~lmR 191 (319)
T PRK15380 113 EIDGKVIDKCNLHRLLNVSENCIFKVMEEDEEELFFKICIKYGEKIARYPELLEGFANKLKDAVNEDD-DIKDEVYKLMR 191 (319)
T ss_pred EeCCEEeehhhHHHHhccchhheeeccchhHHHHHHHHHHHhccccccCHHHHHHHHHHHHHHhcccc-HHHHHHHHhhC
Confidence 578899999999999985554 358999999999999998766554 45666666666664 78877655544
No 132
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=48.85 E-value=30 Score=33.66 Aligned_cols=63 Identities=11% Similarity=0.075 Sum_probs=43.2
Q ss_pred CCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 402 LTKRSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 402 LtKrKLqELVrqID--P~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
++...+.++++++- .+..+++++.+.|++.+..=+..++...-++|. +.+.|+.+||..++.+
T Consensus 184 ~~~~~~~~~l~~~~~~~~~~~~~~al~~l~~~~~gdlr~l~~~l~~~~~--~~~~It~~~v~~~~~~ 248 (337)
T PRK12402 184 PTDDELVDVLESIAEAEGVDYDDDGLELIAYYAGGDLRKAILTLQTAAL--AAGEITMEAAYEALGD 248 (337)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH--cCCCCCHHHHHHHhCC
Confidence 45667777777762 345689999999998886555555555444552 2346899999887765
No 133
>PF01297 TroA: Periplasmic solute binding protein family; InterPro: IPR006127 This is a family of ABC transporter metal-binding lipoproteins. An example is the periplasmic zinc-binding protein TroA P96116 from SWISSPROT that interacts with an ATP-binding cassette transport system in Treponema pallidum and plays a role in the transport of zinc across the cytoplasmic membrane. Related proteins are found in both Gram-positive and Gram-negative bacteria. ; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2PS9_A 2PS0_A 2OSV_A 2OGW_A 2PS3_A 2PRS_B 3MFQ_C 3GI1_B 2OV3_A 1PQ4_A ....
Probab=48.63 E-value=22 Score=34.07 Aligned_cols=79 Identities=16% Similarity=0.265 Sum_probs=54.9
Q ss_pred CCccCCHHHHHHHHHhhCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHH----HhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 398 GNRILTKRSIQELVNQIDP-SERLDPDVEDILVDIAEDFVESITMFGC----SLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 398 ~nrILtKrKLqELVrqIDP-~e~LD~DVEELLLeIADDFVDsVvs~AC----kLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
----|.-..+..+++.|.. -.++|++-++...+=++.|++.+-...- .+++.++...|..-|.--||.+.||+.+
T Consensus 92 pH~Wldp~~~~~~~~~Ia~~L~~~~P~~~~~y~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~h~~~~Y~~~~~gl~~ 171 (256)
T PF01297_consen 92 PHVWLDPENAKKMAEAIADALSELDPANKDYYEKNAEKYLKELDELDAEIKEKLAKLPGRPVVVYHDAFQYFAKRYGLKV 171 (256)
T ss_dssp STGGGSHHHHHHHHHHHHHHHHHHTGGGHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSGGEEEEEESTTHHHHHHTT-EE
T ss_pred CchHHHHHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCeEEEEChHHHHHHHhcCCce
Confidence 3345577777777777733 3457888777777777777776655444 4555565667889999999999999997
Q ss_pred CCCC
Q 009343 473 PGFS 476 (537)
Q Consensus 473 PGfs 476 (537)
-|+-
T Consensus 172 ~~~~ 175 (256)
T PF01297_consen 172 IGVI 175 (256)
T ss_dssp EEEE
T ss_pred eeee
Confidence 6644
No 134
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=48.31 E-value=1.1e+02 Score=34.90 Aligned_cols=18 Identities=11% Similarity=0.193 Sum_probs=13.4
Q ss_pred CCCCCCHHHHHHHHHHHH
Q 009343 416 PSERLDPDVEDILVDIAE 433 (537)
Q Consensus 416 P~e~LD~DVEELLLeIAD 433 (537)
-+..|++||.++|++=.+
T Consensus 462 r~l~l~~eVi~yLa~r~~ 479 (617)
T PRK14086 462 EQLNAPPEVLEFIASRIS 479 (617)
T ss_pred cCCCCCHHHHHHHHHhcc
Confidence 357889999998876544
No 135
>PRK05828 acyl carrier protein; Validated
Probab=48.29 E-value=6.7 Score=33.35 Aligned_cols=26 Identities=31% Similarity=0.509 Sum_probs=23.4
Q ss_pred hcCCCCcchhhHHHHHhhccCcccCC
Q 009343 449 HRKSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 449 HRKSdTLEvKDVQLhLERnWNI~IPG 474 (537)
.-|-|.|++-++...||+.|||.||.
T Consensus 34 dLg~DSLd~velv~~lE~~f~I~i~~ 59 (84)
T PRK05828 34 ELKIDSLDMFSIIVSLESEFNIEFSD 59 (84)
T ss_pred hcCCCHHHHHHHHHHHHHHHCCCcCH
Confidence 35888999999999999999999875
No 136
>PRK14622 hypothetical protein; Provisional
Probab=48.25 E-value=11 Score=33.46 Aligned_cols=9 Identities=33% Similarity=1.062 Sum_probs=7.1
Q ss_pred CcccCCCCc
Q 009343 469 NMTLPGFSG 477 (537)
Q Consensus 469 NI~IPGfss 477 (537)
+|.||||++
T Consensus 95 g~~lPG~~~ 103 (103)
T PRK14622 95 GIKIPGIAG 103 (103)
T ss_pred CCCCCCCCC
Confidence 677999874
No 137
>cd05030 calgranulins Calgranulins: S-100 domain found in proteins belonging to the Calgranulin subgroup of the S100 family of EF-hand calcium-modulated proteins, including S100A8, S100A9, and S100A12 . Note that the S-100 hierarchy, to which this Calgranulin group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. These proteins are expressed mainly in granulocytes, and are involved in inflammation, allergy, and neuritogenesis, as well as in host-parasite response. Calgranulins are modulated not only by calcium, but also by other metals such as zinc and copper. Structural data suggested that calgranulins may exist in multiple structural forms, homodimers, as well as hetero-oligomers. For example, the S100A8/S100A9 complex called calprotectin plays important roles in the regulation of inflammatory processes, wound repair, and regulating zinc-dependent enzymes as well as microbial growth.
Probab=48.04 E-value=42 Score=28.00 Aligned_cols=45 Identities=22% Similarity=0.366 Sum_probs=27.5
Q ss_pred CcCCccCCHHHHHHHHHhhCCC----CCCCHHHHHHHHHH---------HHHHHHHHH
Q 009343 396 EFGNRILTKRSIQELVNQIDPS----ERLDPDVEDILVDI---------AEDFVESIT 440 (537)
Q Consensus 396 e~~nrILtKrKLqELVrqIDP~----e~LD~DVEELLLeI---------ADDFVDsVv 440 (537)
++.+..|++..|..|+...-+. ...+++++++|.++ -++||.-+.
T Consensus 21 ~~~~~~Is~~El~~ll~~~~g~~~t~~~~~~~v~~i~~~~D~d~dG~I~f~eF~~~~~ 78 (88)
T cd05030 21 KGHPDTLYKKEFKQLVEKELPNFLKKEKNQKAIDKIFEDLDTNQDGQLSFEEFLVLVI 78 (88)
T ss_pred CCCcccCCHHHHHHHHHHHhhHhhccCCCHHHHHHHHHHcCCCCCCcCcHHHHHHHHH
Confidence 3456789999999999743221 12246677766655 257776444
No 138
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=47.98 E-value=95 Score=33.52 Aligned_cols=34 Identities=12% Similarity=0.168 Sum_probs=17.8
Q ss_pred ccCCHHHHHHHHHhhCCCC-CCCHHHHHHHHHHHH
Q 009343 400 RILTKRSIQELVNQIDPSE-RLDPDVEDILVDIAE 433 (537)
Q Consensus 400 rILtKrKLqELVrqIDP~e-~LD~DVEELLLeIAD 433 (537)
..+++.+-.+||.+|-.+. .+++.+..+|..++|
T Consensus 316 p~i~~~~K~~ll~~l~~~~~~~~~~~~nfl~~lv~ 350 (445)
T PRK13428 316 YTVPADGRVALLRKVLGGASTVNPVTVALLSQTVE 350 (445)
T ss_pred CCCCHHHHHHHHHHHHhccccCCHHHHHHHHHHHH
Confidence 3445555555555553332 456666655555555
No 139
>cd05395 RasGAP_RASA4 Ras GTPase activating-like 4 protein (RASAL4), also known as Ca2+ -promoted Ras inactivator (CAPRI), is a member of the GAP1 family. Members of the GAP1 family are characterized by a conserved domain structure comprising N-terminal tandem C2 domains, a highly conserved central RasGAP domain, and a C-terminal pleckstrin-homology domain that is associated with a Bruton's tyrosine kinase motif. RASAL4, like RASAL, is a cytosolic protein that undergoes a rapid translocation to the plasma membrane in response to a receptor-mediated elevation in the concentration of intracellular free Ca2+ ([Ca2+]i). However, unlike RASAL, RASAL4 does not sense oscillations in [Ca2+]i.
Probab=47.80 E-value=1.1e+02 Score=32.47 Aligned_cols=74 Identities=11% Similarity=0.111 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCC-----------------------CCcccccc
Q 009343 426 DILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPG-----------------------FSGDEIKT 482 (537)
Q Consensus 426 ELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPG-----------------------fssDEIR~ 482 (537)
+.|.++++.|++.|++...++-. .+|.|--+|.+...-.+|+ .-+-+.-.
T Consensus 148 ~~L~~~~~~~l~~I~~S~~~~P~-------~iR~i~~~l~~~v~~rFp~~~~~~~~~~~VggFiFLRFicPAIvSP~~f~ 220 (337)
T cd05395 148 QLLQSYLGELLTAILQSASYCPL-------VIRAVFRQLFLRVQERFPDPQYRKVKFIAVTSFLCLRFFSPAIMSPKLFH 220 (337)
T ss_pred HHHHHHHHHHHHHHHHHHHhCcH-------HHHHHHHHHHHHHHHHCCCcchhhhHHHHHHHHHHHHHhccccCCchhcC
Confidence 56889999999999976544322 2333322222222222222 22222212
Q ss_pred cCCCCCchHHHHHHHHHHHHhhhh
Q 009343 483 FRKPLVCDIHKERLAAIKKSVMAT 506 (537)
Q Consensus 483 ~RK~~pTEaHKQRMALIRKsI~s~ 506 (537)
.....++...+.=|.+|-|.|..-
T Consensus 221 L~~~~p~~~~rR~LtLIAKvLQnL 244 (337)
T cd05395 221 LREKHADARTSRTLLLLAKAVQTV 244 (337)
T ss_pred ccCCCCCHHHHhHHHHHHHHHHHH
Confidence 234556677777888999988764
No 140
>PF06570 DUF1129: Protein of unknown function (DUF1129); InterPro: IPR009214 There are currently no experimental data for members of this group or their homologues. However, these proteins contain predicted integral membrane proteins (with several transmembrane segments).
Probab=47.06 E-value=22 Score=33.92 Aligned_cols=35 Identities=20% Similarity=0.368 Sum_probs=27.7
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH
Q 009343 404 KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVES 438 (537)
Q Consensus 404 KrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDs 438 (537)
++=+.+|.++++....=|+|+||+|.||.|+-||.
T Consensus 7 ~~y~~~l~~~L~~~~~~e~~~e~~L~eil~~Llea 41 (206)
T PF06570_consen 7 QEYIFDLRKYLRSSGVSEEEIEELLEEILPHLLEA 41 (206)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHH
Confidence 33466888888776777888999999999987773
No 141
>PF07030 DUF1320: Protein of unknown function (DUF1320); InterPro: IPR009752 This entry is represented by the Bacteriophage Mu, Gp36. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=47.03 E-value=53 Score=29.53 Aligned_cols=45 Identities=16% Similarity=0.237 Sum_probs=31.9
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 009343 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLA 447 (537)
Q Consensus 402 LtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLA 447 (537)
++...|.+|... +....+|+++.+..++-|+.+||..+..-..|.
T Consensus 11 ~~~~el~~ltd~-~~~~~~d~~~v~~Al~dA~~~Id~yL~~RY~lP 55 (130)
T PF07030_consen 11 FGEQELIQLTDD-DADGTIDPAVVEAALADASAEIDGYLRGRYDLP 55 (130)
T ss_pred cCHHHHHHHhcc-cccCCcCHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 344445554332 256789999999999999999999886554443
No 142
>COG4296 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=47.01 E-value=15 Score=35.24 Aligned_cols=62 Identities=23% Similarity=0.213 Sum_probs=35.4
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccccccCCCCCchHHHHHHHHH
Q 009343 421 DPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKTFRKPLVCDIHKERLAAI 499 (537)
Q Consensus 421 D~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGfssDEIR~~RK~~pTEaHKQRMALI 499 (537)
|++-.|-||..||+|+.+.+..+-..+++--.+- |.|+.+ -|+ --|| .....|..|+||+|=
T Consensus 53 D~~~~~s~l~~a~~f~rnql~~~k~~~~yaV~kl-------L~lknE--~Wl---eEDe-----~~iTpE~fk~Rm~Le 114 (156)
T COG4296 53 DGAGQDSLLVYADAFLRNQLRRDKPGLRYAVAKL-------LTLKNE--DWL---EEDE-----QPITPESFKERMALE 114 (156)
T ss_pred CCcchhhHHHHHHHHHHHHHHhcchHHHHHHHHH-------Hhcchh--hhh---hccC-----CccCHHHHHHHhhhh
Confidence 4557789999999999988765433222211111 222221 111 0122 355679999999974
No 143
>PRK04036 DNA polymerase II small subunit; Validated
Probab=46.88 E-value=38 Score=36.93 Aligned_cols=55 Identities=20% Similarity=0.297 Sum_probs=36.2
Q ss_pred HHHHhh-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCC--CcchhhHHHHH
Q 009343 409 ELVNQI-DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSD--TLEAKDILVHL 464 (537)
Q Consensus 409 ELVrqI-DP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSd--TLEvKDVQLhL 464 (537)
++|+++ +-+..++++|.++|.+.-++.+++++++.+.... .+.. .|+.+||.-.|
T Consensus 3 ~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 60 (504)
T PRK04036 3 EIVRKFLERGYLLSPEAYELLKELDEDDLSELIEKIKEGKP-DKADVIVIDSEDLEEFL 60 (504)
T ss_pred HHHHHHHHcCCCcCHHHHHHHHhccccCHHHHHHHHHhcCC-ccccEEEechHHhHHHh
Confidence 344443 4678999999999998866666666666554433 2222 67778887666
No 144
>TIGR01765 tspaseT_teng_N transposase, putative, N-terminal domain. This model represents the N-terminal region of a family of putative transposases found in the largest copy number in Thermoanaerobacter tengcongensis. The three homologs in Bacillus anthracis are each split into two ORFs and This model represents the upstream ORF.
Probab=46.83 E-value=27 Score=28.52 Aligned_cols=46 Identities=13% Similarity=0.281 Sum_probs=28.1
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009343 419 RLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (537)
Q Consensus 419 ~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWN 469 (537)
.+++|..++|+++++.|-+ ||..|-.|.-+.-..+|++..|.+.+.
T Consensus 7 ~~~~e~~~~L~~tm~~f~~-----A~n~~~~~~~e~~~~~~~k~~L~~l~y 52 (73)
T TIGR01765 7 NFEDKEKEYLLDLIRAFSS-----AVNFVIKRLLEGKSHSELKKELQRLYY 52 (73)
T ss_pred ecChhhHHHHHHHHHHHHH-----HHHHHHHHHHCCCChhHHHHHHHHHHh
Confidence 4567778999999999864 444443332222345666666666543
No 145
>PRK05087 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated
Probab=46.71 E-value=11 Score=31.70 Aligned_cols=24 Identities=25% Similarity=0.538 Sum_probs=20.7
Q ss_pred CCCCcchhhHHHHHhhccCcccCC
Q 009343 451 KSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 451 KSdTLEvKDVQLhLERnWNI~IPG 474 (537)
.-+.+++-++.+.||+.||+.||.
T Consensus 33 ~lDSl~~veli~~lE~~fgi~i~~ 56 (78)
T PRK05087 33 ILDSMGTVELLVELENRFDIEVPV 56 (78)
T ss_pred CcchHHHHHHHHHHHHHhCCccCh
Confidence 356788889999999999999975
No 146
>cd05137 RasGAP_CLA2_BUD2 CLA2/BUD2 functions as a GTPase-activating protein (GAP) for BUD1/RSR1 and is necessary for proper bud-site selection in yeast. BUD2 has sequence similarity to the catalytic domain of RasGAPs, and stimulates the hydrolysis of BUD1-GTP to BUD1-GDP. Elimination of Bud2p activity by mutation causes a random budding pattern with no growth defect. Overproduction of Bud2p also alters the budding pattern.
Probab=46.65 E-value=1.2e+02 Score=32.60 Aligned_cols=74 Identities=15% Similarity=0.169 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCC----------------------Cccccccc
Q 009343 426 DILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGF----------------------SGDEIKTF 483 (537)
Q Consensus 426 ELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGf----------------------ssDEIR~~ 483 (537)
+.|.+++++|++.|++..+++-. ++|.|--+|.+.-...+|+. -+-+.-..
T Consensus 199 ~~L~~~~~~~~~~I~~S~~~~P~-------~lR~i~~~lr~~v~~kfpd~~~~~~~~~Vg~FiFLRFicPAIvsP~~f~L 271 (395)
T cd05137 199 ERLISLTEEIWKRIANTSNDLPQ-------EIRHILKYIRAKLEDRYGDFLRTVVYNSISGFLFLRFFCPAILNPKLFGL 271 (395)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCH-------HHHHHHHHHHHHHHHHCCCchhhHHHHHHHHHHHHHHhccccCChhhcCC
Confidence 56899999999999988776543 34444333333222222322 22221112
Q ss_pred CCCCCchHHHHHHHHHHHHhhhh
Q 009343 484 RKPLVCDIHKERLAAIKKSVMAT 506 (537)
Q Consensus 484 RK~~pTEaHKQRMALIRKsI~s~ 506 (537)
.+..+++.-+.=|.+|-|.|..-
T Consensus 272 ~~~~p~~~~rRtLtLIAKvLQnL 294 (395)
T cd05137 272 LRDHPQPRAQRTLTLIAKVLQNL 294 (395)
T ss_pred CcCCCCHHHHHHHHHHHHHHHHH
Confidence 23445566666788888888775
No 147
>cd01020 TroA_b Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=46.43 E-value=26 Score=34.38 Aligned_cols=78 Identities=17% Similarity=0.207 Sum_probs=52.1
Q ss_pred cCCccCCHHHHHHHHHhh-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHh----hhhcCCCCcchhhHHHHHhhccCcc
Q 009343 397 FGNRILTKRSIQELVNQI-DPSERLDPDVEDILVDIAEDFVESITMFGCSL----AKHRKSDTLEAKDILVHLERNWNMT 471 (537)
Q Consensus 397 ~~nrILtKrKLqELVrqI-DP~e~LD~DVEELLLeIADDFVDsVvs~ACkL----AKHRKSdTLEvKDVQLhLERnWNI~ 471 (537)
+----|+......+++.| |.-.++|++-++...+=+++|++.+-...-++ ++.++...|..-|.--||++.||+.
T Consensus 94 dPH~Wldp~n~~~~a~~I~~~L~~~dP~~~~~y~~N~~~~~~~l~~l~~~~~~~~~~~~~~~~v~~H~af~Y~~~~yGl~ 173 (264)
T cd01020 94 NPHLWYDPETMSKVANALADALVKADPDNKKYYQANAKKFVASLKPLAAKIAELSAKYKGAPVAATEPVFDYLLDALGMK 173 (264)
T ss_pred CCceecCHhHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeEEEeCchHHHHHHHCCCc
Confidence 333456777777777766 33456677777777777777776655443333 3344456777889999999999998
Q ss_pred cCC
Q 009343 472 LPG 474 (537)
Q Consensus 472 IPG 474 (537)
+-+
T Consensus 174 ~~~ 176 (264)
T cd01020 174 ERT 176 (264)
T ss_pred ccC
Confidence 643
No 148
>cd05132 RasGAP_GAPA GAPA is an IQGAP-related protein and is predicted to bind to small GTPases, which are yet to be identified. IQGAP proteins are integral components of cytoskeletal regulation. Results from truncated GAPAs indicated that almost the entire region of GAPA homologous to IQGAP is required for cytokinesis in Dictyostelium. More members of the IQGAP family are emerging, and evidence suggests that there are both similarities and differences in their function.
Probab=46.01 E-value=90 Score=32.24 Aligned_cols=78 Identities=21% Similarity=0.239 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHh-------hhh------cCCCCcchhh----H-HHHHhhccCcccCCCCcccccccCCCC
Q 009343 426 DILVDIAEDFVESITMFGCSL-------AKH------RKSDTLEAKD----I-LVHLERNWNMTLPGFSGDEIKTFRKPL 487 (537)
Q Consensus 426 ELLLeIADDFVDsVvs~ACkL-------AKH------RKSdTLEvKD----V-QLhLERnWNI~IPGfssDEIR~~RK~~ 487 (537)
+.|.++++.|++.|+....++ ||+ ++....+-.+ | .|.+.|-.+ |.+-+-|.-......
T Consensus 123 ~~L~~~~~~fl~~I~~s~~~~P~~lR~i~~~l~~~~~~kfp~~~~~~~~~~vg~flflRfi~---PAIvsP~~fgl~~~~ 199 (331)
T cd05132 123 TQLIEICNRFLDTIISSLNRLPYGIRWICKQIRSLTKRKFPSATDAEICSLIGYFFFLRFIN---PAIVTPQAYMLVDGE 199 (331)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHhh---HHhcCchhcCCcCCC
Confidence 377899999999987765442 332 1111101001 1 233444433 222222211122234
Q ss_pred CchHHHHHHHHHHHHhhhh
Q 009343 488 VCDIHKERLAAIKKSVMAT 506 (537)
Q Consensus 488 pTEaHKQRMALIRKsI~s~ 506 (537)
+++..+.-|.+|-|.|..-
T Consensus 200 ~~~~~rrnL~lIaKvLQ~l 218 (331)
T cd05132 200 PSDTARKNLTLIAKMLQNL 218 (331)
T ss_pred CCHHHHHHHHHHHHHHHHH
Confidence 6777888899999999875
No 149
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=45.98 E-value=30 Score=37.07 Aligned_cols=28 Identities=29% Similarity=0.336 Sum_probs=21.2
Q ss_pred hhhhcCCCCcchhhHHHHHhhcc-CcccC
Q 009343 446 LAKHRKSDTLEAKDILVHLERNW-NMTLP 473 (537)
Q Consensus 446 LAKHRKSdTLEvKDVQLhLERnW-NI~IP 473 (537)
+-|-|+.+.+.+|.|.+||-|++ ++.++
T Consensus 377 ~s~~R~~~i~~~RqiamyL~r~~t~~sl~ 405 (450)
T PRK14087 377 DGKARSKSIVTARHIAMYLTKEILNHTLA 405 (450)
T ss_pred hCCCCCccccHHHHHHHHHHHHHcCCCHH
Confidence 45678888889999988888874 35554
No 150
>cd05391 RasGAP_p120GAP p120GAP is a negative regulator of Ras that stimulates hydrolysis of bound GTP to GDP. Once the Ras regulator p120GAP, a member of the GAP protein family, is recruited to the membrane, it is transiently immobilized to interact with Ras-GTP. The down regulation of Ras by p120GAP is a critical step in the regulation of many cellular processes, which is disrupted in approximately 30% of human cancers. p120GAP contains SH2, SH3, PH, calcium- and lipid-binding domains, suggesting its involvement in a complex network of cellular interactions in vivo.
Probab=45.68 E-value=1.2e+02 Score=31.58 Aligned_cols=74 Identities=19% Similarity=0.170 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCC---------------------CcccccccC
Q 009343 426 DILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGF---------------------SGDEIKTFR 484 (537)
Q Consensus 426 ELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGf---------------------ssDEIR~~R 484 (537)
+.|+.++++|++.|+...+++-. ++|.|--+|.+.-.-.+|+. -+-+.-...
T Consensus 126 ~~L~~~~~~~~~~I~~S~~~~P~-------~lr~i~~~l~~~v~~kfp~~~~~~~~~Vg~FiFLRFicPAIvsP~~f~L~ 198 (315)
T cd05391 126 EHLLNILSELVEKIFMAAEILPP-------TLRYIYGCLQKSVQAKWPTNTTMRTRVVSGFVFLRLICPAILNPRMFNII 198 (315)
T ss_pred HHHHHHHHHHHHHHHHhHHhCCH-------HHHHHHHHHHHHHHHHCCCchhhHHHHHHHHHHHHHhccccCChhhcCCc
Confidence 56899999999999988775543 45554444433333333331 111111112
Q ss_pred CCCCchHHHHHHHHHHHHhhhh
Q 009343 485 KPLVCDIHKERLAAIKKSVMAT 506 (537)
Q Consensus 485 K~~pTEaHKQRMALIRKsI~s~ 506 (537)
...++..-+.-|.+|-|.|..-
T Consensus 199 ~~~p~~~~rR~L~lIaKvLQnL 220 (315)
T cd05391 199 SDAPSPVACRTLMMVAKSVQNL 220 (315)
T ss_pred cCCCCHHHHHHHHHHHHHHHHH
Confidence 3345556667788899988775
No 151
>cd05130 RasGAP_Neurofibromin Neurofibromin is the product of the neurofibromatosis type 1 gene (NF1) and shares a region of similarity with catalytic domain of the mammalian p120RasGAP protein and an extended similarity with the Saccharomyces cerevisiae RasGAP proteins Ira1 and Ira2. Neurofibromin has been shown to function as a GAP (GTPase-activating protein) which inhibits low molecular weight G proteins such as Ras by stimulating their intrinsic GTPase activity. NF1 is a common genetic disorder characterized by various symptoms ranging from predisposition for the development of tumors to learning disability or mental retardation. Loss of neurofibromin activity can be correlated to the increase in Ras-GTP concentration in neurofibromas of NF1 of patients, supporting the notion that unregulated Ras signaling may contribute to their development.
Probab=45.45 E-value=85 Score=32.89 Aligned_cols=74 Identities=11% Similarity=0.082 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCC---------------------CCcccccccC
Q 009343 426 DILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPG---------------------FSGDEIKTFR 484 (537)
Q Consensus 426 ELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPG---------------------fssDEIR~~R 484 (537)
+.|.+++|+|++.|++..+++-. ++|.|--+|.+.-.-.+|+ +-+-+.-...
T Consensus 135 ~~L~~~~~~fl~~I~~S~~~~P~-------~lR~i~~~l~~~v~~kFP~~~~~~~~~Vg~fiFLRfi~PAIvsP~~f~l~ 207 (329)
T cd05130 135 RNLLQLTEKFFHAIINSSSEFPP-------QLRSVCHCLYQVVSQRFPNKAQNSIGAVGSAMFLRFINPAIVSPYEAGIL 207 (329)
T ss_pred HHHHHHHHHHHHHHHHhHHhCCH-------HHHHHHHHHHHHHHHHCCCcccchHHHHHHHHHHHHhhhhhCCccccCCC
Confidence 56899999999999997755443 3344333332222222333 1122211122
Q ss_pred CCCCchHHHHHHHHHHHHhhhh
Q 009343 485 KPLVCDIHKERLAAIKKSVMAT 506 (537)
Q Consensus 485 K~~pTEaHKQRMALIRKsI~s~ 506 (537)
...++..-+.-|.+|-|.|..-
T Consensus 208 ~~~p~~~~rR~L~lIAKvLQnl 229 (329)
T cd05130 208 DKKPPPRIERGLKLMSKILQSI 229 (329)
T ss_pred CCCCCHHHHhHHHHHHHHHHHH
Confidence 3345666777788999988765
No 152
>PF07516 SecA_SW: SecA Wing and Scaffold domain; InterPro: IPR011116 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane. SecA protein achieves this translocation, in association with SecY protein, in an ATP-dependent manner. This domain is composed of two C-terminal alpha helical subdomains: the wing and scaffold subdomains.; GO: 0017038 protein import, 0016020 membrane; PDB: 1NL3_B 1NKT_B 2FSG_B 2VDA_A 2FSH_A 2FSF_A 2FSI_A 2IPC_D 3JUX_A 3DIN_B ....
Probab=45.36 E-value=60 Score=31.01 Aligned_cols=48 Identities=19% Similarity=0.378 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 423 DVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 423 DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
++++.++++++++|++++..-|.--.+. +..+++++.-.|.+.|++.+
T Consensus 55 ~~~~~i~~~~~~~i~~~v~~~~~~~~~~--~~~~~~~l~~~l~~~~~~~~ 102 (214)
T PF07516_consen 55 DLEEIILEMIEDVIDDIVDEYIPEKDSP--EEWDIEGLKDFLNQNFNLDF 102 (214)
T ss_dssp CCHHHHHHHHHHHHHHHHHHHSSSSSSS--TSSCHHHHHHHHHHCSSSSS
T ss_pred ChHHHHHHHHHHHHHHHHHHHcccccCc--ccccHHHHHHHHHHHcCCCc
Confidence 3667777777777777777665443322 45678889889999998754
No 153
>TIGR00517 acyl_carrier acyl carrier protein. S (Ser) at position 37 in the seed alignment, in the motif DSLD, is the phosphopantetheine attachment site.
Probab=45.29 E-value=13 Score=29.77 Aligned_cols=25 Identities=20% Similarity=0.605 Sum_probs=22.1
Q ss_pred cCCCCcchhhHHHHHhhccCcccCC
Q 009343 450 RKSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 450 RKSdTLEvKDVQLhLERnWNI~IPG 474 (537)
-+-+.|++-++...||+.||+.||.
T Consensus 33 lglDSl~~veli~~lE~~f~i~i~~ 57 (77)
T TIGR00517 33 LGADSLDTVELVMALEEEFDIEIPD 57 (77)
T ss_pred cCCcHHHHHHHHHHHHHHHCCCCCH
Confidence 4678889999999999999999975
No 154
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=45.27 E-value=1e+02 Score=34.11 Aligned_cols=66 Identities=20% Similarity=0.223 Sum_probs=46.3
Q ss_pred CCHHHHHHHHHh--hCCC-------CCCCHHHHHHHHHHHHHHH---HHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009343 402 LTKRSIQELVNQ--IDPS-------ERLDPDVEDILVDIAEDFV---ESITMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (537)
Q Consensus 402 LtKrKLqELVrq--IDP~-------e~LD~DVEELLLeIADDFV---DsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWN 469 (537)
|+...|..+|++ .|.. ..||+++.++|++++|-=+ =+.++.+..++|..+ .+.+.+++-+|.|...
T Consensus 163 L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~aLN~LE~~~~~~~~~~--~~~~~~l~~~l~~~~~ 240 (436)
T COG2256 163 LSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRALNLLELAALSAEPDE--VLILELLEEILQRRSA 240 (436)
T ss_pred CCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHHHHHHHHHHHHhcCCCc--ccCHHHHHHHHhhhhh
Confidence 366777777777 3332 3477999999999977433 456778888887666 5557788777777543
No 155
>cd05135 RasGAP_RASAL Ras GTPase activating-like protein (RASAL) or RASAL1 is a member of the GAP1 family, and a Ca2+ sensor responding in-phase to repetitive Ca2+ signals by associating with the plasma membrane and deactivating Ras. It contains a conserved domain structure comprising N-terminal tandem C2 domains, a highly conserved central RasGAP domain, and a C-terminal pleckstrin-homology domain that is associated with a Bruton's tyrosine kinase motif. RASAL, like Ca2+ -promoted Ras inactivator (CAPRI, or RASAL4), is a cytosolic protein that undergoes a rapid translocation to the plasma membrane in response to receptor-mediated elevation in the concentration of intracellular free Ca2+, a translocation that activates its ability to function as a RasGAP. However, unlike RASAL4, RASAL undergoes an oscillatory translocation to the plasma membrane that occurs in synchrony with repetitive Ca2+ spikes.
Probab=45.08 E-value=1e+02 Score=32.40 Aligned_cols=21 Identities=10% Similarity=0.075 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 009343 426 DILVDIAEDFVESITMFGCSL 446 (537)
Q Consensus 426 ELLLeIADDFVDsVvs~ACkL 446 (537)
+.|.+++++|+|.|++..+++
T Consensus 149 ~~L~~~~~~~~~~I~~S~~~~ 169 (333)
T cd05135 149 EMLQGYLSSITDAIVGSVSQC 169 (333)
T ss_pred HHHHHHHHHHHHHHHhhHHhC
Confidence 568888999999988765443
No 156
>KOG1657 consensus CCAAT-binding factor, subunit C (HAP5) [Transcription]
Probab=45.07 E-value=41 Score=33.98 Aligned_cols=81 Identities=19% Similarity=0.300 Sum_probs=60.7
Q ss_pred CcCCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCC
Q 009343 396 EFGNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGF 475 (537)
Q Consensus 396 e~~nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGf 475 (537)
+..+..|...+|+.++|.=+-.-.|..|+--++...++-||+.+..++-..+..-+..+|.-+||.=++.+.-... |
T Consensus 69 d~~~~~lPlaRiKkimK~dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fd---F 145 (236)
T KOG1657|consen 69 DFKNHILPLARIKKIMKSDEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFD---F 145 (236)
T ss_pred chhhccCcHhhccccccccccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCcc---c
Confidence 4445555655555555432222367777778888999999999999999999999999999999999999876655 5
Q ss_pred Cccc
Q 009343 476 SGDE 479 (537)
Q Consensus 476 ssDE 479 (537)
..|.
T Consensus 146 L~Di 149 (236)
T KOG1657|consen 146 LRDI 149 (236)
T ss_pred eecc
Confidence 5554
No 157
>TIGR01688 dltC D-alanine--poly(phosphoribitol) ligase, subunit 2. This protein is part of the teichoic acid operon in gram-positive organisms. Gram positive organisms incorporate teichoic acid in their cell walls, and in the fatty acid residues of the glycolipid component of the outer layer of the cytoplasmic membrane. This gene, dltC, encodes the alanyl carrier protein.
Probab=45.06 E-value=11 Score=31.88 Aligned_cols=22 Identities=14% Similarity=0.530 Sum_probs=18.0
Q ss_pred CCcchhhHHHHHhhccCcccCC
Q 009343 453 DTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 453 dTLEvKDVQLhLERnWNI~IPG 474 (537)
+.+.+-++.+.||.+||+.||-
T Consensus 32 DS~~~v~Li~~lE~ef~I~i~~ 53 (73)
T TIGR01688 32 DSFGTVQLLLEIQNQFDIDVPI 53 (73)
T ss_pred hHHHHHHHHHHHHHHhCCccCH
Confidence 3456678889999999999985
No 158
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=44.96 E-value=22 Score=40.98 Aligned_cols=66 Identities=21% Similarity=0.333 Sum_probs=47.1
Q ss_pred HHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhh---------hcCCCCcchhhHHHHHhhccCccc
Q 009343 406 SIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAK---------HRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 406 KLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAK---------HRKSdTLEvKDVQLhLERnWNI~I 472 (537)
.+.+++.+.|.-..||+...|.|+.|+-||..-.+...|..|. .|-+. .+.--|--+|+..|+|..
T Consensus 710 a~~~I~~e~d~ii~ld~k~~e~l~~i~~df~~c~c~d~ce~~~~~lse~ii~lR~~g-k~p~~Isr~l~~~Ygi~a 784 (830)
T COG1202 710 ALLDILEEGDKIIELDPKLKEKLLLIYMDFLNCTCRDCCECAEQRLSEKIIELRIEG-KDPSQISRILEKRYGIQA 784 (830)
T ss_pred HHHHHHhchhhhhcCCHHHHHHHHHHHHHHhcCchhhhHHHHHHHHHHHHHHHHhcC-CCHHHHHHHHHHhhCeee
Confidence 4455666667667899999999999999997644444444443 34333 366678899999999875
No 159
>PRK07668 hypothetical protein; Validated
Probab=44.51 E-value=23 Score=36.08 Aligned_cols=34 Identities=15% Similarity=0.208 Sum_probs=26.9
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH
Q 009343 405 RSIQELVNQIDPSERLDPDVEDILVDIAEDFVES 438 (537)
Q Consensus 405 rKLqELVrqIDP~e~LD~DVEELLLeIADDFVDs 438 (537)
+=+.+|.+.+.....=|+|+||+|.|+.|+|+|.
T Consensus 8 efl~~L~~yL~~~glseeeieeiL~Ei~~hLlEg 41 (254)
T PRK07668 8 KFLDDTRVYLIAKGIKEEDIESFLEDAELHLIEG 41 (254)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH
Confidence 3356888888555566889999999999999873
No 160
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=44.33 E-value=85 Score=28.89 Aligned_cols=20 Identities=15% Similarity=0.479 Sum_probs=12.0
Q ss_pred cchhhHHHHHhhccCcccCC
Q 009343 455 LEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 455 LEvKDVQLhLERnWNI~IPG 474 (537)
.+||+-.+.|=.+|...+.+
T Consensus 99 ~~Vk~kil~li~~W~~~f~~ 118 (142)
T cd03569 99 EEVRQKILELIQAWALAFRN 118 (142)
T ss_pred HHHHHHHHHHHHHHHHHhCC
Confidence 45666666666666666543
No 161
>PHA02944 hypothetical protein; Provisional
Probab=44.25 E-value=18 Score=35.51 Aligned_cols=45 Identities=16% Similarity=0.241 Sum_probs=35.4
Q ss_pred CCHHHHHHHHHhh-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHh
Q 009343 402 LTKRSIQELVNQI-DPSERLDPDVEDILVDIAEDFVESITMFGCSL 446 (537)
Q Consensus 402 LtKrKLqELVrqI-DP~e~LD~DVEELLLeIADDFVDsVvs~ACkL 446 (537)
=.++++.+||++| -..+.|-+||+..+.|..-+.|..+++..+.-
T Consensus 44 g~~~dVk~vL~R~~~Aka~lPedVvKaaiesv~ehv~aa~~lg~~d 89 (180)
T PHA02944 44 GGEDDVKEVLRRIAQAKADLPEDVIKAAIESVAEHILSASELGLKD 89 (180)
T ss_pred ccHHHHHHHHHHHHHccCCCcHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 3578888888887 46778899999999988888888887765543
No 162
>smart00324 RhoGAP GTPase-activator protein for Rho-like GTPases. GTPase activator proteins towards Rho/Rac/Cdc42-like small GTPases. etter domain limits and outliers.
Probab=44.23 E-value=1.1e+02 Score=27.34 Aligned_cols=34 Identities=9% Similarity=0.203 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 434 DFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 434 DFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
+++.-++.+-.++++|...+..+++.|..++-.+
T Consensus 112 ~~L~~l~~~l~~i~~~~~~n~M~~~nLa~~f~P~ 145 (174)
T smart00324 112 ATLRYLLAHLNRVAEHSEENKMTARNLAIVFGPT 145 (174)
T ss_pred HHHHHHHHHHHHHHhccccCCCCHHHHHHHHhcc
Confidence 5566677788888888888888888877766554
No 163
>PRK14700 recombination factor protein RarA; Provisional
Probab=44.04 E-value=1.1e+02 Score=32.34 Aligned_cols=66 Identities=9% Similarity=0.041 Sum_probs=42.2
Q ss_pred CCHHHHHHHHHhhCC--------CCCCCHHHHHHHHHHHHH---HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 402 LTKRSIQELVNQIDP--------SERLDPDVEDILVDIAED---FVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 402 LtKrKLqELVrqIDP--------~e~LD~DVEELLLeIADD---FVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
|++..|.++|++.-. ...||+|+.+.|.+++|- +.=++++.+|.++...+...|+.++|+-.+.+.
T Consensus 39 L~~~di~~il~ral~~~~~~~~~~~~i~~~al~~ia~~a~GDaR~aLN~LE~a~~~~~~~~~~~it~~~~~~~~~~~ 115 (300)
T PRK14700 39 LSLVATQKLIEKALSQDEVLAKHKFKIDDGLYNAMHNYNEGDCRKILNLLERMFLISTRGDEIYLNKELFDQAVGET 115 (300)
T ss_pred CCHHHHHHHHHHHHHhhhccCCcCCCcCHHHHHHHHHhcCCHHHHHHHHHHHHHhhccccCCCccCHHHHHHHHhHH
Confidence 356666666665521 257999999999999873 333566777764432222247888887766653
No 164
>PTZ00252 histone H2A; Provisional
Probab=43.76 E-value=61 Score=30.75 Aligned_cols=68 Identities=10% Similarity=0.183 Sum_probs=56.7
Q ss_pred CccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhc--CCCCcchhhHHHHHhh
Q 009343 399 NRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHR--KSDTLEAKDILVHLER 466 (537)
Q Consensus 399 nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHR--KSdTLEvKDVQLhLER 466 (537)
+-.+.=-+++.++++-.-.++|...+--.|..+-|-.+.+|++.|...|+.+ |..-|..++|++.+..
T Consensus 23 GL~FPVgRi~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIrN 92 (134)
T PTZ00252 23 GLIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVRH 92 (134)
T ss_pred CccCchHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhccC
Confidence 4456677899999987767899999888999999999999999999999764 4567889999988754
No 165
>cd03197 GST_C_mPGES2 GST_C family; microsomal Prostaglandin E synthase Type 2 (mPGES2) subfamily; mPGES2 is a membrane-anchored dimeric protein containing a CXXC motif which catalyzes the isomerization of PGH2 to PGE2. Unlike cytosolic PGE synthase (cPGES) and microsomal PGES Type 1 (mPGES1), mPGES2 does not require glutathione (GSH) for its activity, although its catalytic rate is increased two- to four-fold in the presence of DTT, GSH, or other thiol compounds. PGE2 is widely distributed in various tissues and is implicated in the sleep/wake cycle, relaxation/contraction of smooth muscle, excretion of sodium ions, maintenance of body temperature, and mediation of inflammation. mPGES2 contains an N-terminal hydrophobic domain which is membrane associated and a C-terminal soluble domain with a GST-like structure. The C-terminus contains two structural domains a N-terminal thioredoxin-fold domain and a C-terminal alpha helical domain. The GST active site is located in a cleft between t
Probab=43.55 E-value=33 Score=32.48 Aligned_cols=52 Identities=15% Similarity=0.178 Sum_probs=36.9
Q ss_pred HHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHH
Q 009343 408 QELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVH 463 (537)
Q Consensus 408 qELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLh 463 (537)
--+-+.+-....|++|+.+.|.+-+|+|++.+... -+--+.+.+.+=||-++
T Consensus 64 ~~isk~lkk~~~i~~D~r~~L~~a~~~w~~~~~~~----~~FlaGd~ptIADisvy 115 (149)
T cd03197 64 YLISKYLKKPRLLQDDVREWLYDALNTWVAALGKD----RQFHGGSKPNLADLAVY 115 (149)
T ss_pred HHHHHHhccccCCCchHHHHHHHHHHHHHHHhcCC----CCccCCCCCCHHHHHHH
Confidence 33444455556788999999999999999875442 12334577999999654
No 166
>PLN02690 Agmatine deiminase
Probab=43.31 E-value=25 Score=37.44 Aligned_cols=70 Identities=23% Similarity=0.242 Sum_probs=49.7
Q ss_pred HHHHHHHhhhhcCCCCcchhhHHHHHhhccC----cccCC-CCccc-----ccccCC------------CCCchHHHHHH
Q 009343 439 ITMFGCSLAKHRKSDTLEAKDILVHLERNWN----MTLPG-FSGDE-----IKTFRK------------PLVCDIHKERL 496 (537)
Q Consensus 439 Vvs~ACkLAKHRKSdTLEvKDVQLhLERnWN----I~IPG-fssDE-----IR~~RK------------~~pTEaHKQRM 496 (537)
+++..|.|-.+|+-+ |.-.+|.-.|++.+| ||||| +..|+ |..+-| ....+.|.+++
T Consensus 174 ltTe~clln~nRNP~-lsk~~ie~~Lk~~LGv~kvIWL~~g~~~DddTdGHID~larFv~~~tvl~~~~~d~~d~~y~~~ 252 (374)
T PLN02690 174 LTTEECLLNPNRNPH-LTKEEIEEELKEYLGVEKVIWLPRGLYGDDDTNGHVDNMCCFARPGVVLLSWTDDEDDPQYERS 252 (374)
T ss_pred EEehhhhcCCCCCCC-CCHHHHHHHHHHHhCCCEEEEeCCCcCCCCCCCccceeeEEecCCCEEEEEecCCCCCccHHHH
Confidence 678899999999988 789999999999998 56884 55543 222211 12335677888
Q ss_pred HHHHHHhhhhhhh
Q 009343 497 AAIKKSVMATEVA 509 (537)
Q Consensus 497 ALIRKsI~s~~~a 509 (537)
...++.|+....+
T Consensus 253 ~~~~~~L~~~~da 265 (374)
T PLN02690 253 VEALSILSNTTDA 265 (374)
T ss_pred HHHHHHHHhhhhc
Confidence 8877777765443
No 167
>PRK09862 putative ATP-dependent protease; Provisional
Probab=42.00 E-value=74 Score=35.24 Aligned_cols=48 Identities=10% Similarity=0.152 Sum_probs=42.2
Q ss_pred CCCCHHHHHHHHHHHHHH------HHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009343 418 ERLDPDVEDILVDIAEDF------VESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (537)
Q Consensus 418 e~LD~DVEELLLeIADDF------VDsVvs~ACkLAKHRKSdTLEvKDVQLhLE 465 (537)
..+++++.++|.+.+++| .+.++.-|-.+|..++++.|+..||...|+
T Consensus 437 ~~l~~~~~~~l~~~~~~~~lS~Ra~~rlLrvARTiADL~g~~~V~~~hv~eAl~ 490 (506)
T PRK09862 437 CKLESEDARWLEETLIHLGLSIRAWQRLLKVARTIADIDQSDIITRQHLQEAVS 490 (506)
T ss_pred hCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHH
Confidence 578889999888888877 678888999999999999999999988876
No 168
>PRK06620 hypothetical protein; Validated
Probab=41.96 E-value=1e+02 Score=29.62 Aligned_cols=46 Identities=13% Similarity=-0.047 Sum_probs=23.9
Q ss_pred CCCCCHHHHHHHHHHHH---HHHHHHHHHHHHhhhhcCCCCcchhhHHHH
Q 009343 417 SERLDPDVEDILVDIAE---DFVESITMFGCSLAKHRKSDTLEAKDILVH 463 (537)
Q Consensus 417 ~e~LD~DVEELLLeIAD---DFVDsVvs~ACkLAKHRKSdTLEvKDVQLh 463 (537)
...|++||.+.|++-++ ..++++++....+|+.++. .|++..|+-+
T Consensus 164 ~l~l~~ev~~~L~~~~~~d~r~l~~~l~~l~~~~~~~~~-~it~~~~~~~ 212 (214)
T PRK06620 164 SVTISRQIIDFLLVNLPREYSKIIEILENINYFALISKR-KITISLVKEV 212 (214)
T ss_pred CCCCCHHHHHHHHHHccCCHHHHHHHHHHHHHHHHHcCC-CCCHHHHHHH
Confidence 45688888888877654 2333444443333443442 2555544433
No 169
>cd02191 FtsZ FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at the site of bacterial cell division, which is required for constriction of cell membrane and cell envelope to yield two daughter cells.
Probab=41.90 E-value=70 Score=32.75 Aligned_cols=76 Identities=11% Similarity=0.088 Sum_probs=52.7
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHH---------HHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 402 LTKRSIQELVNQIDPSERLDPDVEDI---------LVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 402 LtKrKLqELVrqIDP~e~LD~DVEEL---------LLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
....-|++|.+.+|--..||.|..-- -.+.+|+.|-..+..-..+-++.+.-.+++.||.-.|+. =|+.+
T Consensus 135 NA~~~l~~L~~~~D~~iv~dN~~L~~~~~~~~~~~af~~~N~~ia~~i~~it~~i~~~g~invD~~dv~~~l~~-~G~a~ 213 (303)
T cd02191 135 NAAEGFQTLVREVDNLMVIPNEKLRQIGEKASLEGAFDHADEVLVRAVGGLFGAIEIEGEINVDFADVKNVMDG-GGVAM 213 (303)
T ss_pred hHHHHHHHHHHhCCEEEEEehHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHhhccCCcccCCHHHHHHHhcc-CCeEE
Confidence 34556888888888766666653211 234566666666666666777888889999999999965 47777
Q ss_pred CCCCcc
Q 009343 473 PGFSGD 478 (537)
Q Consensus 473 PGfssD 478 (537)
=||+..
T Consensus 214 ig~g~~ 219 (303)
T cd02191 214 VGYGSE 219 (303)
T ss_pred EEEEEe
Confidence 777643
No 170
>TIGR01560 put_DNA_pack uncharacterized phage protein (possible DNA packaging). This model describes a small (~ 100 amino acids) protein found in phage and in putative prophage regions of a number of bacterial genomes. Members have been annotated in some cases as a possible DNA packaging protein, but the source of this annotation was not traced during construction of this model.
Probab=41.83 E-value=49 Score=27.87 Aligned_cols=36 Identities=19% Similarity=0.446 Sum_probs=27.3
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 009343 405 RSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFG 443 (537)
Q Consensus 405 rKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~A 443 (537)
..|+.-+ +||..+ |++.++.+++-|.++|.+.+...
T Consensus 3 ~~vK~~L-rId~d~--dD~li~~~i~aA~~~i~~~ig~~ 38 (91)
T TIGR01560 3 DEVKLSL-RIDHDD--DDELIKLMIAAAQDYIQSAIGTG 38 (91)
T ss_pred HHHHhHh-cCCCCc--cHHHHHHHHHHHHHHHHHHhCCC
Confidence 3455555 578775 89999999999999998876543
No 171
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=41.81 E-value=68 Score=33.78 Aligned_cols=61 Identities=11% Similarity=0.135 Sum_probs=48.0
Q ss_pred CHHHHHHHHHhh----CCCCCCCHHHHHHHHHHHHHHH------HHHHHHHHHhhhhcCCCCcchhhHHHH
Q 009343 403 TKRSIQELVNQI----DPSERLDPDVEDILVDIAEDFV------ESITMFGCSLAKHRKSDTLEAKDILVH 463 (537)
Q Consensus 403 tKrKLqELVrqI----DP~e~LD~DVEELLLeIADDFV------DsVvs~ACkLAKHRKSdTLEvKDVQLh 463 (537)
+...|.+.|++= -....+|++|.++...++...- -+++..|+.+|..+++.++...||...
T Consensus 191 ~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~eiAe~~~~~~v~~~~v~~a 261 (366)
T COG1474 191 TAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGEIAEREGSRKVSEDHVREA 261 (366)
T ss_pred CHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHhhCCCCcCHHHHHHH
Confidence 445555555431 2356899999999998887644 689999999999999999999999777
No 172
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=41.68 E-value=30 Score=40.30 Aligned_cols=65 Identities=9% Similarity=0.110 Sum_probs=40.6
Q ss_pred cCCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009343 401 ILTKRSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (537)
Q Consensus 401 ILtKrKLqELVrqID--P~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLE 465 (537)
.|+.+.|.++|++|- .+..+|+++.++|+++++.=+.++++..=+|+..-+.+.|+.+||.-.|.
T Consensus 178 ~l~~~~l~~~L~~il~~EGv~id~eal~lLa~~sgGdlR~Al~eLEKLia~~~~~~IT~e~V~allg 244 (824)
T PRK07764 178 LVPPEVMRGYLERICAQEGVPVEPGVLPLVIRAGGGSVRDSLSVLDQLLAGAGPEGVTYERAVALLG 244 (824)
T ss_pred CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCCCCCHHHHHHHhc
Confidence 456777888887763 24567999999988887764444444433444333345577776654443
No 173
>PF12767 SAGA-Tad1: Transcriptional regulator of RNA polII, SAGA, subunit; InterPro: IPR024738 The yeast Spt-Ada-Gcn5-Acetyl (SAGA) transferase complex is a multifunctional coactivator involved in multiple cellular processes [], including regulation of transcription by RNA polymerase II [, ]. It is formed of five major modular subunits and shows a high degree of structural conservation to human TFTC and STAGA []. This entry represents Ada1 (known as Tada1 in higher eukaryotes), one of the subunits that constitute the SAGA core. It also functions as a component of the SALSA and SLIK complexes. ; GO: 0070461 SAGA-type complex
Probab=41.67 E-value=69 Score=31.64 Aligned_cols=50 Identities=14% Similarity=0.170 Sum_probs=36.8
Q ss_pred CccCCHHHHHHHHHhhC---CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 009343 399 NRILTKRSIQELVNQID---PSERLDPDVEDILVDIAEDFVESITMFGCSLAK 448 (537)
Q Consensus 399 nrILtKrKLqELVrqID---P~e~LD~DVEELLLeIADDFVDsVvs~ACkLAK 448 (537)
..+-.-..|.+-+..|. +-+.+++|+-++|.--.|.|+.+|+...+.++|
T Consensus 200 ~~LPD~~~L~~Rm~~ia~e~GL~gvs~~~a~ll~~ale~~LK~lI~s~l~~~r 252 (252)
T PF12767_consen 200 GELPDTQSLRKRMEQIAWEHGLGGVSDDCANLLNLALEVHLKNLIKSCLDLVR 252 (252)
T ss_pred CcCCCHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 34444444444444432 235899999999999999999999999998875
No 174
>PF02881 SRP54_N: SRP54-type protein, helical bundle domain; InterPro: IPR013822 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the N-terminal helical bundle domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 1J8M_F 1J8Y_F 2J37_W 2OG2_A 3B9Q_A 2V3C_C 3NDB_B 1ZU5_B 1ZU4_A 1WGW_A ....
Probab=41.62 E-value=1.2e+02 Score=24.13 Aligned_cols=36 Identities=28% Similarity=0.505 Sum_probs=22.1
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHHHHHHHH------HHHHHHHHHHHHHHHH
Q 009343 400 RILTKRSIQELVNQIDPSERLDPDVEDILV------DIAEDFVESITMFGCS 445 (537)
Q Consensus 400 rILtKrKLqELVrqIDP~e~LD~DVEELLL------eIADDFVDsVvs~ACk 445 (537)
.+++++.|.+++.+ +|++|+ ++|++||++|-...+.
T Consensus 16 ~~~~~~~i~~~l~e----------le~~Li~aDVg~~~a~~i~~~ik~~~~~ 57 (75)
T PF02881_consen 16 IFLTEKDIEEFLEE----------LEEALIEADVGVEVAEKIIENIKKKLIK 57 (75)
T ss_dssp SSCTHHHHHHHHHH----------HHHHHHHTTTSHHHHHHHHHHHHHHHHC
T ss_pred ccccHHhHHHHHHH----------HHHHHHHcCcCHHHHHHHHHHHHHHHhc
Confidence 44567777666664 366665 5677777776664444
No 175
>PF13565 HTH_32: Homeodomain-like domain
Probab=40.97 E-value=32 Score=27.12 Aligned_cols=35 Identities=17% Similarity=0.461 Sum_probs=27.3
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 421 DPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 421 D~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
|+|+++.|++++++.- ....+.|.-+|+++||+.+
T Consensus 32 ~~e~~~~i~~~~~~~p-----------------~wt~~~i~~~L~~~~g~~~ 66 (77)
T PF13565_consen 32 DPEQRERIIALIEEHP-----------------RWTPREIAEYLEEEFGISV 66 (77)
T ss_pred cHHHHHHHHHHHHhCC-----------------CCCHHHHHHHHHHHhCCCC
Confidence 7888777777766432 5789999999999999876
No 176
>PHA02839 Il-24-like protein; Provisional
Probab=40.80 E-value=68 Score=31.10 Aligned_cols=73 Identities=18% Similarity=0.294 Sum_probs=50.2
Q ss_pred CCCCCCCcCCccCCHHHHHHH--------HHh--------h---CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 009343 390 AGTESDEFGNRILTKRSIQEL--------VNQ--------I---DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHR 450 (537)
Q Consensus 390 ~~~~~~e~~nrILtKrKLqEL--------Vrq--------I---DP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHR 450 (537)
.-++++.-+-++|+|+.|++. ++. | =-+..+|..+..-+.-||+.|+--+-..--+-.|..
T Consensus 42 VQAkD~~~~VRILr~evLqnIq~aE~CCflr~LLrFYLDrVFKnYqs~~~~~~ilRsiSSLANSFL~I~K~lq~~~~~~~ 121 (156)
T PHA02839 42 VQADDVDHNLRILTPALLNNITVSETCFFIYDMFELYLNDVFVKYTNTALKLNILKSLSSVANNFLAIFNKVKKRRVKKN 121 (156)
T ss_pred hcccCcccceEEcCHHHHhcCCccceeHHHHHHHHHHHHHHHHhccCCccchHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 455677788899998554431 111 1 013456788999999999999876666555666777
Q ss_pred CCCCcchhhHHH
Q 009343 451 KSDTLEAKDILV 462 (537)
Q Consensus 451 KSdTLEvKDVQL 462 (537)
+-++||+|.+.+
T Consensus 122 ~~~~~~~~~~~~ 133 (156)
T PHA02839 122 NVNVLEIKKLLL 133 (156)
T ss_pred Ccceeeehhhhe
Confidence 778888888754
No 177
>cd08324 CARD_NOD1_CARD4 Caspase activation and recruitment domain similar to that found in NOD1. Caspase activation and recruitment domain (CARD) found in human NOD1 (CARD4) and similar proteins. NOD1 is a member of the Nod-like receptor (NLR) family, which plays a central role in the innate immune response. NLRs typically contain an N-terminal effector domain, a central nucleotide-binding domain and a C-terminal ligand-binding region of several leucine-rich repeats (LRRs). In NOD1, as well as NOD2, the N-terminal effector domain is a CARD. Nod1-CARD has been shown to interact with the CARD domain of the downstream effector RICK (RIP2, CARDIAK), a serine/threonine kinase. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form hom
Probab=40.80 E-value=31 Score=30.55 Aligned_cols=31 Identities=26% Similarity=0.440 Sum_probs=22.3
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHH
Q 009343 405 RSIQELVNQIDPSERLDPDVEDILVDIAEDFVE 437 (537)
Q Consensus 405 rKLqELVrqIDP~e~LD~DVEELLLeIADDFVD 437 (537)
|+|-+||+ .+++..-+--.++|.+++|+|||
T Consensus 49 RkLld~v~--akG~~~k~~F~~iL~e~~~~y~~ 79 (85)
T cd08324 49 RKILDLVQ--SKGEEVSEYFLYLLQQLADAYVD 79 (85)
T ss_pred HHHHHHHH--hcCchHHHHHHHHHHHHHHhhhh
Confidence 44555555 25556666788999999999997
No 178
>PRK00982 acpP acyl carrier protein; Provisional
Probab=40.79 E-value=25 Score=28.00 Aligned_cols=30 Identities=20% Similarity=0.542 Sum_probs=24.1
Q ss_pred HhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009343 445 SLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 445 kLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (537)
.+-.--|-|.|.+-+|...||+.||+.|+-
T Consensus 28 ~l~~dlglDSl~~~~li~~le~~f~i~i~~ 57 (78)
T PRK00982 28 SFVDDLGADSLDTVELVMALEEEFGIEIPD 57 (78)
T ss_pred chHhhcCCCHHHHHHHHHHHHHHHCCCcCH
Confidence 343335788889999999999999999874
No 179
>PHA00440 host protein H-NS-interacting protein
Probab=40.79 E-value=62 Score=29.43 Aligned_cols=44 Identities=20% Similarity=0.318 Sum_probs=36.8
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHh
Q 009343 403 TKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSL 446 (537)
Q Consensus 403 tKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkL 446 (537)
=++.|.+|.+.++.++.+|+--.++|.+-.-+=.|-++.|+++-
T Consensus 25 ~~e~l~~Lak~v~~GE~~~~~~re~lvqaLT~G~egai~F~~k~ 68 (98)
T PHA00440 25 LEEDILDLAKQAGAGEEVNPKDKELLVQALTHGPEGAAAFAVRQ 68 (98)
T ss_pred HHHHHHHHHhhcCCcccCChHHHHHHHHHHhhChHHHHHHHHHH
Confidence 36779999999999999999999999887777777777777653
No 180
>cd02202 FtsZ_type2 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at the site of bacterial cell division, which is required for constriction of cell membrane and cell envelope to yield two daughter cells.
Probab=40.58 E-value=68 Score=33.48 Aligned_cols=76 Identities=14% Similarity=0.172 Sum_probs=47.0
Q ss_pred HHHHHHHHHhhCCCCCCCHHHH-HH------HHHHHHHHHHHHHHHHHHhh-----hhcCCCCcchhhHHHHHhhccCcc
Q 009343 404 KRSIQELVNQIDPSERLDPDVE-DI------LVDIAEDFVESITMFGCSLA-----KHRKSDTLEAKDILVHLERNWNMT 471 (537)
Q Consensus 404 KrKLqELVrqIDP~e~LD~DVE-EL------LLeIADDFVDsVvs~ACkLA-----KHRKSdTLEvKDVQLhLERnWNI~ 471 (537)
..-|++|.+.+|.-..||.|.. +. -.+.+|+-|-.++..-...- +..+.-.+++.||.-.|+. +++.
T Consensus 151 ~~~l~~L~~~~D~viv~dNd~L~~~~~~~~~~f~~~N~~Ia~~i~~l~~~~r~~~~~~~g~invD~~dv~~~L~~-~G~~ 229 (349)
T cd02202 151 ARSLDALSEEADAIILFDNDAWKRKGESVEEAYDRINEEIARRIGLLLRAGEANAGDSVGESVLDASEVINTLSG-GGFA 229 (349)
T ss_pred HHHHHHHHHhCCEEEEEehHHHhhhccchHHHHHHHHHHHHHHHHHHHHhhhcccCCCCCeEeccHHHHHHHhcc-CCeE
Confidence 4568888888888777777642 11 12333333333332222222 2255667999999999965 6999
Q ss_pred cCCCCcccc
Q 009343 472 LPGFSGDEI 480 (537)
Q Consensus 472 IPGfssDEI 480 (537)
+-||+..+.
T Consensus 230 ~iG~g~~~~ 238 (349)
T cd02202 230 TIGYAREDL 238 (349)
T ss_pred EEEEEEEcc
Confidence 999986543
No 181
>PRK08172 putative acyl carrier protein IacP; Validated
Probab=40.15 E-value=11 Score=31.63 Aligned_cols=33 Identities=18% Similarity=0.269 Sum_probs=26.9
Q ss_pred HHHHhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009343 442 FGCSLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 442 ~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (537)
....|..--+-+.|++-|+.+.||.+||+.|+.
T Consensus 26 ~d~~l~~dL~~DSld~v~lv~~lEe~F~I~i~~ 58 (82)
T PRK08172 26 GQTHLVEDLYADSLDLIDIVFGLSEEFDISCNE 58 (82)
T ss_pred CCcchhhhcCCCHHHHHHHHHHHHHHHCCCcCH
Confidence 344555556788899999999999999999976
No 182
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=39.91 E-value=86 Score=34.68 Aligned_cols=66 Identities=12% Similarity=0.183 Sum_probs=45.5
Q ss_pred CHHHHHHHHHhhC------CCCCCCHHHHHHHHHHHH-----------HHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009343 403 TKRSIQELVNQID------PSERLDPDVEDILVDIAE-----------DFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (537)
Q Consensus 403 tKrKLqELVrqID------P~e~LD~DVEELLLeIAD-----------DFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLE 465 (537)
+...+..+++-|. .-..||.++...|++.+- ..|.+++..|.-+|+..+.+.|+..||+-.|+
T Consensus 425 ~~e~~~~~~~~i~~~~~~~~L~~~~~~Av~~li~~~~R~~q~kLsl~~~~l~~ll~EA~~~A~~~~~~~I~~~~V~~Ai~ 504 (509)
T PF13654_consen 425 TEENIRQYARFIASICQKEGLPPFDRSAVARLIEYSARLDQDKLSLRFSWLADLLREANYWARKEGAKVITAEHVEQAIE 504 (509)
T ss_dssp -HHHHHHHHHHHHHHHHHHSS--BBHHHHHHHHHHHHHCC-SEEE--HHHHHHHHHHHHHHHHHCT-SSB-HHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhCCEeCCCHHHHHHHHHHHHHHHHHhCCCccCHHHHHHHHH
Confidence 4555554444442 234788888888877654 47899999999999999999999999999998
Q ss_pred hcc
Q 009343 466 RNW 468 (537)
Q Consensus 466 RnW 468 (537)
..+
T Consensus 505 ~r~ 507 (509)
T PF13654_consen 505 ERR 507 (509)
T ss_dssp H--
T ss_pred ccc
Confidence 754
No 183
>COG0236 AcpP Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=39.82 E-value=9.5 Score=31.16 Aligned_cols=25 Identities=20% Similarity=0.514 Sum_probs=22.6
Q ss_pred cCCCCcchhhHHHHHhhccCcccCC
Q 009343 450 RKSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 450 RKSdTLEvKDVQLhLERnWNI~IPG 474 (537)
-+-+.|++-+|-+.||+.||+.||.
T Consensus 35 lg~DSld~veLi~~lE~~f~i~i~~ 59 (80)
T COG0236 35 LGLDSLDLVELVMALEEEFGIEIPD 59 (80)
T ss_pred cCccHHHHHHHHHHHHHHHCCcCCH
Confidence 4778899999999999999999986
No 184
>PF08625 Utp13: Utp13 specific WD40 associated domain; InterPro: IPR013934 A large ribonuclear protein complex is required for the processing of the small-ribosomal-subunit rRNA - the small-subunit (SSU) processome [, ]. This preribosomal complex contains the U3 snoRNA and at least 40 proteins, which have the following properties: They are nucleolar. They are able to coimmunoprecipitate with the U3 snoRNA and Mpp10 (a protein specific to the SSU processome). They are required for 18S rRNA biogenesis. There appears to be a linkage between polymerase I transcription and the formation of the SSU processome; as some, but not all, of the SSU processome components are required for pre-rRNA transcription initiation. These SSU processome components have been termed t-Utps. They form a pre-complex with pre-18S rRNA in the absence of snoRNA U3 and other SSU processome components. It has been proposed that the t-Utp complex proteins are both rDNA and rRNA binding proteins that are involved in the initiation of pre18S rRNA transcription. Initially binding to rDNA then associating with the 5' end of the nascent pre18S rRNA. The t-Utpcomplex forms the nucleus around which the rest of the SSU processome components, including snoRNA U3, assemble []. From electron microscopy the SSU processome may correspond to the terminal knobs visualized at the 5' ends of nascent 18S rRNA. Utp13 is a nucleolar protein and component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA []. Upt13 is also a component of the Pwp2 complex that forms part of a stable particle subunit independent of the U3 small nucleolar ribonucleoprotein that is essential for the initial assembly steps of the 90S pre-ribosome []. Components of the Pwp2 complex are: Utp1 (Pwp2), Utp6, Utp12 (Dip2), Utp13, Utp18, and Utp21. The relationship between the Pwp2 complex and the t-Utps complex [] that also associates with the 5' end of nascent pre-18S rRNA is unclear. ; GO: 0006364 rRNA processing, 0032040 small-subunit processome
Probab=39.82 E-value=87 Score=29.14 Aligned_cols=39 Identities=21% Similarity=0.440 Sum_probs=22.8
Q ss_pred hHHHHHhhccCc----ccCCCCc--ccccccCCCCCchHHHHHHH-HHHHH
Q 009343 459 DILVHLERNWNM----TLPGFSG--DEIKTFRKPLVCDIHKERLA-AIKKS 502 (537)
Q Consensus 459 DVQLhLERnWNI----~IPGfss--DEIR~~RK~~pTEaHKQRMA-LIRKs 502 (537)
-|..+|=+.|.. .+||+.. |.+.+| +|-|.+|+. +++|+
T Consensus 85 ~vL~~il~~~~~~~L~~~~~~~~~le~lipY-----teRH~~Rl~~L~q~s 130 (141)
T PF08625_consen 85 RVLNAILKSHPPEELLKIPGLKEILEALIPY-----TERHFQRLDRLLQKS 130 (141)
T ss_pred HHHHHHHHhCCHHHHHccccHHHHHHHHhhh-----HHHHHHHHHHHHHHH
Confidence 344455555553 3566553 334444 689999998 55553
No 185
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=39.69 E-value=34 Score=40.54 Aligned_cols=95 Identities=20% Similarity=0.193 Sum_probs=61.2
Q ss_pred CHHHHHHHHHhhCCCCCC-CHH-HHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCc---
Q 009343 403 TKRSIQELVNQIDPSERL-DPD-VEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSG--- 477 (537)
Q Consensus 403 tKrKLqELVrqIDP~e~L-D~D-VEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGfss--- 477 (537)
...||.++|+..|.++.+ |-| +.++|.+- +..+.|..|||.++.. ..+-||+++.+.||..-|==++.
T Consensus 446 d~~kL~efI~~~~~g~~~fd~e~al~Ilr~s------nyl~~a~~LA~k~~~h-e~vl~ille~~~ny~eAl~yi~slp~ 518 (933)
T KOG2114|consen 446 DVEKLTEFISKCDKGEWFFDVETALEILRKS------NYLDEAELLATKFKKH-EWVLDILLEDLHNYEEALRYISSLPI 518 (933)
T ss_pred chHHHHHHHhcCCCcceeeeHHHHHHHHHHh------ChHHHHHHHHHHhccC-HHHHHHHHHHhcCHHHHHHHHhcCCH
Confidence 578899999998865544 322 44444432 5667888999988884 57999999999998865422221
Q ss_pred cc----ccccCCCCCchHHHHHHHHHHHHhh
Q 009343 478 DE----IKTFRKPLVCDIHKERLAAIKKSVM 504 (537)
Q Consensus 478 DE----IR~~RK~~pTEaHKQRMALIRKsI~ 504 (537)
+| +..|.|+.-...=++=|+++...+.
T Consensus 519 ~e~l~~l~kyGk~Ll~h~P~~t~~ili~~~t 549 (933)
T KOG2114|consen 519 SELLRTLNKYGKILLEHDPEETMKILIELIT 549 (933)
T ss_pred HHHHHHHHHHHHHHHhhChHHHHHHHHHHHh
Confidence 22 2446666666555666664444443
No 186
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=39.65 E-value=1.2e+02 Score=31.48 Aligned_cols=51 Identities=10% Similarity=-0.055 Sum_probs=37.9
Q ss_pred CCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 416 PSERLDPDVEDILVDIAED---FVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 416 P~e~LD~DVEELLLeIADD---FVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
....|++||.+.|.+-.+. -++.++..-|..|+..+.. |++..++-+|+..
T Consensus 284 ~~~~l~~e~l~~ia~~~~~~~r~l~~~l~~l~~~a~~~~~~-it~~~~~~~L~~~ 337 (405)
T TIGR00362 284 EGLELPDEVLEFIAKNIRSNVRELEGALNRLLAYASLTGKP-ITLELAKEALKDL 337 (405)
T ss_pred cCCCCCHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHhCCC-CCHHHHHHHHHHh
Confidence 3678999998888876652 3556778888888776654 7888888888764
No 187
>cd05136 RasGAP_DAB2IP The DAB2IP family of Ras GTPase-activating proteins includes DAB2IP, nGAP, and Syn GAP. Disabled 2 interactive protein, (DAB2IP; also known as ASK-interacting protein 1 (AIP1)), is a member of the GTPase-activating proteins, down-regulates Ras-mediated signal pathways, and mediates TNF-induced activation of ASK1-JNK signaling pathways. The mechanism by which TNF signaling is coupled to DAB2IP is not known.
Probab=39.54 E-value=2.1e+02 Score=29.76 Aligned_cols=76 Identities=12% Similarity=0.084 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcc-------------------cCCCCcccccccC
Q 009343 424 VEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMT-------------------LPGFSGDEIKTFR 484 (537)
Q Consensus 424 VEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~-------------------IPGfssDEIR~~R 484 (537)
..+.|.+++|.|++.|++..+++-. ++|.|--+|...+.-+ -|.+-+-+.-...
T Consensus 125 n~~~L~~~~~~~~~~I~~S~~~~P~-------~lR~i~~~lr~~~~~~~~~~~~~~~Vg~fiFLRFi~PAIvsP~~f~l~ 197 (309)
T cd05136 125 HQANLRMCCELAWCKIINSHCVFPA-------ELREVFASWRERCEDRGREDIADRLISASLFLRFLCPAILSPSLFNLT 197 (309)
T ss_pred HHHHHHHHHHHHHHHHHHhHHhCCH-------HHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHhccccCCchhcCCC
Confidence 4578999999999999987766543 2233322222211100 0222222211112
Q ss_pred CCCCchHHHHHHHHHHHHhhhh
Q 009343 485 KPLVCDIHKERLAAIKKSVMAT 506 (537)
Q Consensus 485 K~~pTEaHKQRMALIRKsI~s~ 506 (537)
...+++.-+.-|.+|-|.|..-
T Consensus 198 ~~~p~~~~rR~LtlIAKvLQnl 219 (309)
T cd05136 198 QEYPSPRTARTLTLIAKVIQNL 219 (309)
T ss_pred CCCCChHHhhhHHHHHHHHHHH
Confidence 2345666777788999988775
No 188
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=39.42 E-value=70 Score=33.41 Aligned_cols=61 Identities=13% Similarity=0.106 Sum_probs=37.9
Q ss_pred CCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHhhh-hcCCCCcchhhHHH
Q 009343 402 LTKRSIQELVNQID--PSERLDPDVEDILVDIAED---FVESITMFGCSLAK-HRKSDTLEAKDILV 462 (537)
Q Consensus 402 LtKrKLqELVrqID--P~e~LD~DVEELLLeIADD---FVDsVvs~ACkLAK-HRKSdTLEvKDVQL 462 (537)
|+...|.+.++++- .+..||+++.++|.++++. .+.+.++..|.++. +-....|+.+||.-
T Consensus 186 l~~~ei~~~l~~~~~~~g~~i~~~al~~l~~~s~g~lr~a~~~L~kl~~~~~~~~~~~~It~~~v~~ 252 (397)
T PRK14955 186 IPLEEIQQQLQGICEAEGISVDADALQLIGRKAQGSMRDAQSILDQVIAFSVESEGEGSIRYDKVAE 252 (397)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccccCCCCccCHHHHHH
Confidence 34555555555442 3457999999999999987 44455556666664 12234667766643
No 189
>PRK08150 enoyl-CoA hydratase; Provisional
Probab=39.40 E-value=3 Score=40.60 Aligned_cols=66 Identities=18% Similarity=0.059 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccccccCCCCCchHHHHHHHHHHH
Q 009343 433 EDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKTFRKPLVCDIHKERLAAIKK 501 (537)
Q Consensus 433 DDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGfssDEIR~~RK~~pTEaHKQRMALIRK 501 (537)
|++++.+...+-+||+. ..+-+.-++-.|.+.|+..+-.....|.....+...+++++++|..+.+
T Consensus 181 ~~l~~~a~~~a~~la~~---~~~a~~~~K~~l~~~~~~~~~~~~~~e~~~~~~~~~s~d~~eg~~af~~ 246 (255)
T PRK08150 181 GEALDKAMELARRIAQN---APLTNFAVLNALPRIADMSADDGLFVESLMAAVAQSAPEAKERLRAFLE 246 (255)
T ss_pred hHHHHHHHHHHHHHHhC---CHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHhcCHHHHHHHHHHhc
Confidence 34555555555555443 2222333333444444433211111122333445557788888776543
No 190
>PTZ00465 rhoptry-associated protein 1 (RAP-1); Provisional
Probab=39.04 E-value=11 Score=42.24 Aligned_cols=66 Identities=14% Similarity=0.248 Sum_probs=48.3
Q ss_pred HHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH-----------hhhhcCCCCcchhhHHHHHhhccC-cccC
Q 009343 408 QELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCS-----------LAKHRKSDTLEAKDILVHLERNWN-MTLP 473 (537)
Q Consensus 408 qELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACk-----------LAKHRKSdTLEvKDVQLhLERnWN-I~IP 473 (537)
++++..++-...|.+|..+.|..+-|+|+|+||..+-. +++=...+.|.+.-|.+-+++.|- +.+|
T Consensus 48 D~~i~a~~~~~~i~~dM~~~l~~~~e~~vD~VC~~~~E~s~Cr~~V~~YV~RCk~gDCLTID~VkyP~n~eyqpL~LP 125 (565)
T PTZ00465 48 DTLMTLRDHMHNITKDMKHVLSNGREQIVNDVCSNAPEDSNCREVVNNYADRCEMYGCFTIDNVKYPLYQEYQPLSLP 125 (565)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhCchHHHHHHHhCCCchhhHHHHHHHHHHHhccCCceeeehhhccccCCCCCCCCC
Confidence 35555555668899999999999999999999987543 344456677777777777777654 5555
No 191
>PF01432 Peptidase_M3: Peptidase family M3 This Prosite motif covers only the active site. This family belongs to family M3 of the peptidase classification.; InterPro: IPR001567 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M3 (clan MA(E)), subfamilies M3A and M3B. The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. The Thimet oligopeptidase family, is a large family of archaeal, bacterial and eukaryotic oligopeptidases that cleave medium sized peptides. The group contains: mitochondrial intermediate peptidase (3.4.24.59 from EC) Neurolysin, mitochondrial precursor, (3.4.24.16 from EC) Thimet oligopeptidase (3.4.24.15 from EC) Dipeptidyl carboxypeptidase (3.4.15.5 from EC) Oligopeptidase A (3.4.24.70 from EC) Oligoendopeptidase F ; GO: 0004222 metalloendopeptidase activity, 0006508 proteolysis; PDB: 2QR4_B 3CE2_A 1Y79_1 2H1J_A 2H1N_A 2O36_A 1S4B_P 2O3E_A 1I1I_P.
Probab=38.84 E-value=55 Score=34.20 Aligned_cols=54 Identities=17% Similarity=0.111 Sum_probs=42.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhh----hcCCC-CcchhhHHHHHhhcc
Q 009343 415 DPSERLDPDVEDILVDIAEDFVESITMFGCSLAK----HRKSD-TLEAKDILVHLERNW 468 (537)
Q Consensus 415 DP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAK----HRKSd-TLEvKDVQLhLERnW 468 (537)
+......++|.++|.+++++..+.+....-.++| ..|.+ +|+.=|+.|+.++.-
T Consensus 61 ~~m~~~~~~v~~fL~~~~~~~~p~~~~~~~~l~~~~~~~~g~~~~l~~wD~~y~~~~~~ 119 (458)
T PF01432_consen 61 DKMAKNPENVLDFLDELVKKLKPLLERELELLKKLKKKRLGLEKKLRPWDVAYYMEQYR 119 (458)
T ss_dssp TSTTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSSBBGGGHHHHHHHHH
T ss_pred hhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccccccchhHHHhhHHH
Confidence 3457788899999999999888877777777776 77777 899999987766644
No 192
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=38.77 E-value=45 Score=30.13 Aligned_cols=31 Identities=19% Similarity=0.417 Sum_probs=18.9
Q ss_pred CCCHH-HHHHHHHHH-HHHHHHHHHHHHHhhhhc
Q 009343 419 RLDPD-VEDILVDIA-EDFVESITMFGCSLAKHR 450 (537)
Q Consensus 419 ~LD~D-VEELLLeIA-DDFVDsVvs~ACkLAKHR 450 (537)
-++++ ++++|-+|. .+||||. .+|..+++.+
T Consensus 39 g~~~~~i~~vl~~l~~~~~ldD~-~~a~~~~~~~ 71 (157)
T PRK00117 39 GFSEEVIEAVLDRLKEEGLLDDE-RFAESFVRSR 71 (157)
T ss_pred CCCHHHHHHHHHHHHHcCCCCHH-HHHHHHHHHH
Confidence 34555 444444443 4578777 7887777766
No 193
>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH. HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.
Probab=38.75 E-value=86 Score=33.59 Aligned_cols=32 Identities=16% Similarity=0.222 Sum_probs=26.5
Q ss_pred HHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 436 VESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 436 VDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
|++++..|+.+|-.++...|+.+|+.-.|++.
T Consensus 264 l~~l~~eA~~~a~~~~~~~i~~~~l~~a~~~~ 295 (495)
T TIGR01241 264 LANLLNEAALLAARKNKTEITMNDIEEAIDRV 295 (495)
T ss_pred HHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence 67777788777777777889999999999975
No 194
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=38.47 E-value=1.2e+02 Score=29.73 Aligned_cols=67 Identities=9% Similarity=0.068 Sum_probs=44.5
Q ss_pred CCHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcc
Q 009343 402 LTKRSIQELVNQI--DPSERLDPDVEDILVDIAED---FVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMT 471 (537)
Q Consensus 402 LtKrKLqELVrqI--DP~e~LD~DVEELLLeIADD---FVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~ 471 (537)
++++.+.++|+++ +-+..|++++.+.|++.... ++.+-++.-|.++..+ .|+..||.-.+-..-...
T Consensus 146 ~~~~~~~~~i~~~~~~~g~~i~~~a~~~L~~~~~~d~~~l~~El~KL~l~~~~~---~It~~~I~~~i~~~~~~~ 217 (340)
T PRK05574 146 PKEAELPQWIQQRLKQQGLQIDAAALQLLAERVEGNLLALAQELEKLALLYPDG---KITLEDVEEAVPDSARFD 217 (340)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCchHHHHHHHHHHHHhhcCCC---CCCHHHHHHHHhhhhcCC
Confidence 5677777777666 34668999999999998864 4444455555555432 289999976665544333
No 195
>TIGR01446 DnaD_dom DnaD and phage-associated domain. This model represents the conserved domain of DnaD, part of Bacillus subtilis replication restart primosome, and of a number of phage-associated proteins. Members, both chromosomal or phage-associated, are found in the Bacillus/Clostridium group of Gram-positive bacteria.
Probab=38.32 E-value=1.4e+02 Score=23.77 Aligned_cols=46 Identities=17% Similarity=0.018 Sum_probs=33.1
Q ss_pred CCCHHHHHHHHHHHHHHH--HHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 419 RLDPDVEDILVDIAEDFV--ESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 419 ~LD~DVEELLLeIADDFV--DsVvs~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
.|.+--.+.|.++.|+|- .+|+..||+.|..++. ..++=|.-+|++
T Consensus 12 ~ls~~e~~~i~~~~~~~~~~~evI~~ai~~a~~~~~--~~~~Yi~~Il~~ 59 (73)
T TIGR01446 12 MLSPFEMEDLKYWLDEFGNSPELIKEALKEAVSNNK--ANYKYIDAILNN 59 (73)
T ss_pred CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC--CCHHHHHHHHHH
Confidence 577778888889999976 6999999999987533 344545444443
No 196
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=38.05 E-value=1.3e+02 Score=28.92 Aligned_cols=68 Identities=12% Similarity=0.174 Sum_probs=45.6
Q ss_pred CCHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 402 LTKRSIQELVNQI--DPSERLDPDVEDILVDIAED---FVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 402 LtKrKLqELVrqI--DP~e~LD~DVEELLLeIADD---FVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
++.+.+.++|+++ .-+..||+++.+.|++.++. .+.+-++.-|.+++.+ .|+.+||.-++...-...+
T Consensus 111 ~~~~~~~~~i~~~~~~~g~~i~~~a~~~l~~~~~~d~~~l~~el~KL~~~~~~~---~It~e~I~~~~~~~~~~~i 183 (302)
T TIGR01128 111 PKEQELPRWIQARLKKLGLRIDPDAVQLLAELVEGNLLAIAQELEKLALYAPDG---KITLEDVEEAVSDSARFNV 183 (302)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHhhCCCC---CCCHHHHHHHHhhhhcCCH
Confidence 5677777777766 34668999999999988864 3444455555555433 5899999776655444433
No 197
>PF04983 RNA_pol_Rpb1_3: RNA polymerase Rpb1, domain 3; InterPro: IPR007066 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). This domain, domain 3, represents the pore domain. The 3' end of RNA is positioned close to this domain. The pore delimited by this domain is thought to act as a channel through which nucleotides enter the active site and/or where the 3' end of the RNA may be extruded during back-tracking [, ].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 1ZYR_D 1SMY_D 2A68_N 2O5J_D 3AOH_N 2O5I_D 2CW0_N 2A6H_N 2A69_D 3EQL_D ....
Probab=37.86 E-value=16 Score=32.82 Aligned_cols=47 Identities=19% Similarity=0.342 Sum_probs=33.9
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhH
Q 009343 404 KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDI 460 (537)
Q Consensus 404 KrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDV 460 (537)
|+.+.+|+..| .++.=.+.|-+|+|++-..+++.|.++|.. |-++||
T Consensus 112 k~~~~~li~~i---------~~~yG~~~~~~~ld~i~~lg~~~~t~~GfS-vgi~D~ 158 (158)
T PF04983_consen 112 KKSLGSLIHQI---------YREYGPEATVQFLDAIKRLGFRYLTRSGFS-VGIDDM 158 (158)
T ss_dssp CSHTTCHHHHH---------HHHSHHHHHHHHHHHHHHHHHHHHHHHTBB--SGGGC
T ss_pred ccchhhHHHHH---------HHHHCHHHHHHHHHHHHHHHHHHHHHcCee-EecccC
Confidence 44444555544 333335778899999999999999999976 678885
No 198
>PRK06249 2-dehydropantoate 2-reductase; Provisional
Probab=37.68 E-value=29 Score=34.51 Aligned_cols=28 Identities=11% Similarity=-0.154 Sum_probs=12.0
Q ss_pred HHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009343 436 VESITMFGCSLAKHRKSDTLEAKDILVHL 464 (537)
Q Consensus 436 VDsVvs~ACkLAKHRKSdTLEvKDVQLhL 464 (537)
+..++...+.+|+-.+-+ ++..++..++
T Consensus 225 ~~~~~~E~~~va~a~Gi~-~~~~~~~~~~ 252 (313)
T PRK06249 225 IRALMAEVIQGAAACGHT-LPEGYADHML 252 (313)
T ss_pred HHHHHHHHHHHHHhcCCC-CChhHHHHHH
Confidence 334444445555544443 3333343333
No 199
>PF04371 PAD_porph: Porphyromonas-type peptidyl-arginine deiminase; InterPro: IPR007466 Peptidyl-arginine deiminase (PAD) enzymes catalyse the deimination of the guanidino group from carboxy-terminal arginine residues of various peptides to produce ammonia. PAD from Porphyromonas gingivalis (Bacteroides gingivalis) (PPAD) appears to be evolutionarily unrelated to mammalian PAD (IPR004303 from INTERPRO), which is a metalloenzyme. PPAD is thought to belong to the same superfamily as aminotransferase and arginine deiminase, and to form an alpha/beta propeller structure. This family has previously been named PPADH (Porphyromonas peptidyl-arginine deiminase homologs) []. The predicted catalytic residues in PPAD (Q9RQJ2 from SWISSPROT) are Asp130, Asp187, His236, Asp238 and Cys351 []. These are absolutely conserved with the exception of Asp187 which is absent in two family members. PPAD is also able to catalyse the deimination of free L-arginine, but has primarily peptidyl-arginine specificity. It may have a FMN cofactor [].; PDB: 2Q3U_A 1VKP_A 3H7C_X 3H7K_A 2EWO_K 1ZBR_B 1XKN_A 2JER_B 3HVM_A 2CMU_A.
Probab=37.64 E-value=23 Score=36.52 Aligned_cols=69 Identities=29% Similarity=0.338 Sum_probs=44.6
Q ss_pred HHHHHHhhhhcCCCCcchhhHHHHHhhccCc----ccC-CCCccc-----ccccC------------CCCCchHHHHHHH
Q 009343 440 TMFGCSLAKHRKSDTLEAKDILVHLERNWNM----TLP-GFSGDE-----IKTFR------------KPLVCDIHKERLA 497 (537)
Q Consensus 440 vs~ACkLAKHRKSdTLEvKDVQLhLERnWNI----~IP-GfssDE-----IR~~R------------K~~pTEaHKQRMA 497 (537)
++..|.|..+|+.. +.-.+|.-.|+|.+|+ ||| |+-.++ |..+- -....+.+.+++.
T Consensus 152 ~Te~~ll~~nRNp~-~s~~eie~~L~~~lG~~kviwL~~g~~~~d~t~GHiD~~arFv~~~~vl~~~~~d~~d~~~~~~~ 230 (329)
T PF04371_consen 152 TTESCLLNPNRNPG-LSKAEIEAELKRYLGVEKVIWLPHGLLGDDDTDGHIDGIARFVDPGTVLVSRCDDPSDPNYERLE 230 (329)
T ss_dssp EEHHHHTSTTTSTT-S-HHHHHHHHHHHHT-SEEEEESS-STTTTTTSS-GGGTEEEEETTEEEEEE-S-TTSTTHHHHH
T ss_pred EEeeeEecCccCcc-CCHHHHHHHHHHHhCCCEEEEecCCcCCCCCcCCccceeEEecCCCEEEEEecCCCCCcCHHHHH
Confidence 46799999999888 6888999999999994 588 643333 11111 1122345678999
Q ss_pred HHHHHhhhhhhh
Q 009343 498 AIKKSVMATEVA 509 (537)
Q Consensus 498 LIRKsI~s~~~a 509 (537)
.+++.|+....+
T Consensus 231 ~~~~~L~~~~da 242 (329)
T PF04371_consen 231 ENLEILSAATDA 242 (329)
T ss_dssp HHHHHHHT-B-T
T ss_pred HHHHHHHhhhcc
Confidence 999988876543
No 200
>PF00452 Bcl-2: Apoptosis regulator proteins, Bcl-2 family; InterPro: IPR000712 Apoptosis, or programmed cell death (PCD), is a common and evolutionarily conserved property of all metazoans []. In many biological processes, apoptosis is required to eliminate supernumerary or dangerous (such as pre-cancerous) cells and to promote normal development. Dysregulation of apoptosis can, therefore, contribute to the development of many major diseases including cancer, autoimmunity and neurodegenerative disorders. In most cases, proteins of the caspase family execute the genetic programme that leads to cell death. Bcl-2 proteins are central regulators of caspase activation, and play a key role in cell death by regulating the integrity of the mitochondrial and endoplasmic reticulum (ER) membranes []. At least 20 Bcl-2 proteins have been reported in mammals, and several others have been identified in viruses. Bcl-2 family proteins fall roughly into three subtypes, which either promote cell survival (anti-apoptotic) or trigger cell death (pro-apoptotic). All members contain at least one of four conserved motifs, termed Bcl-2 Homology (BH) domains. Bcl-2 subfamily proteins, which contain at least BH1 and BH2, promote cell survival by inhibiting the adapters needed for the activation of caspases. Pro-apoptotic members potentially exert their effects by displacing the adapters from the pro-survival proteins; these proteins belong either to the Bax subfamily, which contain BH1-BH3, or to the BH3 subfamily, which mostly only feature BH3 []. Thus, the balance between antagonistic family members is believed to play a role in determining cell fate. Members of the wider Bcl-2 family, which also includes Bcl-x, Bcl-w and Mcl-1, are described by their similarity to Bcl-2 protein, a member of the pro-survival Bcl-2 subfamily []. Full-length Bcl-2 proteins feature all four BH domains, seven alpha-helices, and a C-terminal hydrophobic motif that targets the protein to the outer mitochondrial membrane, ER and nuclear envelope. Active cell suicide (apoptosis) is induced by events such as growth factor withdrawal and toxins. It is controlled by regulators, which have either an inhibitory effect on programmed cell death (anti-apoptotic) or block the protective effect of inhibitors (pro-apoptotic) [, ]. Many viruses have found a way of countering defensive apoptosis by encoding their own anti-apoptosis genes preventing their target-cells from dying too soon. All proteins belonging to the Bcl-2 family [] contain either a BH1, BH2, BH3, or BH4 domain. All anti-apoptotic proteins contain BH1 and BH2 domains, some of them contain an additional N-terminal BH4 domain (Bcl-2, Bcl-x(L), Bcl-w), which is never seen in pro-apoptotic proteins, except for Bcl-x(S). On the other hand, all pro-apoptotic proteins contain a BH3 domain (except for Bad) necessary for dimerisation with other proteins of Bcl-2 family and crucial for their killing activity, some of them also contain BH1 and BH2 domains (Bax, Bak). The BH3 domain is also present in some anti-apoptotic protein, such as Bcl-2 or Bcl-x(L). Proteins that are known to contain these domains include vertebrate Bcl-2 (alpha and beta isoforms) and Bcl-x (isoforms (Bcl-x(L) and Bcl-x(S)); mammalian proteins Bax and Bak; mouse protein Bid; Xenopus laevis proteins Xr1 and Xr11; human induced myeloid leukemia cell differentiation protein MCL1 and Caenorhabditis elegans protein ced-9.; GO: 0042981 regulation of apoptosis; PDB: 2WH6_A 1K3K_A 1AF3_A 3PK1_B 2K7W_A 1F16_A 3PL7_C 2VM6_A 3I1H_A 3MQP_A ....
Probab=37.62 E-value=78 Score=26.40 Aligned_cols=49 Identities=18% Similarity=0.294 Sum_probs=35.5
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH----------HHHHHHHhhhhcCCCCc
Q 009343 405 RSIQELVNQIDPSERLDPDVEDILVDIAEDFVES----------ITMFGCSLAKHRKSDTL 455 (537)
Q Consensus 405 rKLqELVrqIDP~e~LD~DVEELLLeIADDFVDs----------Vvs~ACkLAKHRKSdTL 455 (537)
+.+.+++++++- .-++++.+.+.+++++..++ ++.|++.||++-..+..
T Consensus 14 ~~f~~~~~~l~~--~~~~~~~~~f~~v~~~lf~d~~inWGRIval~~f~~~l~~~~~~~~~ 72 (101)
T PF00452_consen 14 DFFENMLNQLNI--NTPDNAYETFNEVAEELFEDGGINWGRIVALFAFAGALAVECKERGR 72 (101)
T ss_dssp HHHHHHHHHHCS--SSTTTHHHHHHHHHHHHTTTSSTCHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred HHHHHHHHHhCC--CCcchHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHcCC
Confidence 347778887753 12333888888888888877 78899999998776654
No 201
>PRK13531 regulatory ATPase RavA; Provisional
Probab=37.30 E-value=1.8e+02 Score=32.64 Aligned_cols=70 Identities=13% Similarity=0.200 Sum_probs=53.7
Q ss_pred CccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHH-------------HHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009343 399 NRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDF-------------VESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (537)
Q Consensus 399 nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDF-------------VDsVvs~ACkLAKHRKSdTLEvKDVQLhLE 465 (537)
..+|+...|.+|-+.|+ ...|+++|.|.+++|++.- .-.++..+-..|-..|.+.|...||++...
T Consensus 204 ~~vis~eel~~lq~~v~-~V~v~d~v~eyI~~L~~~lr~~r~~~~~SpR~~~~l~~~akA~A~l~GR~~V~p~Dv~ll~~ 282 (498)
T PRK13531 204 SLQITDEEYQQWQKEIG-KITLPDHVFELIFQLRQQLDALPNAPYVSDRRWKKAIRLLQASAFFSGRDAIAPIDLILLKD 282 (498)
T ss_pred cCCCCHHHHHHHHHHhc-ceeCCHHHHHHHHHHHHHHhcCCCCCCcCcHHHHHHHHHHHHHHHHCCCCCCCHHHHHHhHH
Confidence 46799999999988885 5799999999999998631 123455566667788999999999995444
Q ss_pred hccC
Q 009343 466 RNWN 469 (537)
Q Consensus 466 RnWN 469 (537)
--|+
T Consensus 283 vL~H 286 (498)
T PRK13531 283 CLWH 286 (498)
T ss_pred Hhcc
Confidence 4565
No 202
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=37.30 E-value=80 Score=29.24 Aligned_cols=38 Identities=16% Similarity=0.144 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009343 428 LVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (537)
Q Consensus 428 LLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLE 465 (537)
.-.-.+=|+..||..+|+.|+...+..+.++-|+-..+
T Consensus 50 askalE~Fl~~iv~~s~k~aR~~~skR~t~e~lk~a~~ 87 (113)
T COG5247 50 ASKALEMFLTEIVGLSLKEARKKSSKRMTSEFLKRATE 87 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHh
Confidence 44555679999999999999999999887765544443
No 203
>smart00760 Bac_DnaA_C Bacterial dnaA protein helix-turn-helix domain. Could be involved in DNA-binding.
Probab=37.25 E-value=14 Score=28.86 Aligned_cols=47 Identities=30% Similarity=0.466 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc-cCcccC
Q 009343 424 VEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN-WNMTLP 473 (537)
Q Consensus 424 VEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn-WNI~IP 473 (537)
+++++-.+|+.| +|-. .--+.+-|+.+.++++.|..+|-++ +|+.+.
T Consensus 2 ~~~I~~~Va~~~--~i~~-~~i~s~~R~~~~~~aR~iamyla~~~~~~sl~ 49 (60)
T smart00760 2 IEEIIEAVAEYF--GVKP-EDLKSKSRKREIVLARQIAMYLARELTDLSLP 49 (60)
T ss_pred HHHHHHHHHHHh--CCCH-HHHhcCCCCcchhHHHHHHHHHHHHHHCCCHH
Confidence 567777778877 3322 2246777888889999999999887 666654
No 204
>PRK08136 glycosyl transferase family protein; Provisional
Probab=37.19 E-value=45 Score=34.67 Aligned_cols=50 Identities=14% Similarity=0.219 Sum_probs=37.3
Q ss_pred HHHHHHhhCCC----CCCCHH-HHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcc
Q 009343 407 IQELVNQIDPS----ERLDPD-VEDILVDIAEDFVESITMFGCSLAKHRKSDTLE 456 (537)
Q Consensus 407 LqELVrqIDP~----e~LD~D-VEELLLeIADDFVDsVvs~ACkLAKHRKSdTLE 456 (537)
+.++|++|.-+ ..|+.| +++++..|.|.-++++--.|..+|-+-|.+|.|
T Consensus 3 ~~~~i~~l~~G~~~~~~Lt~eEA~~~~~~il~g~~~~~qi~AfL~alr~KgET~e 57 (317)
T PRK08136 3 YAKIIKEIGRGKNGARDLDRDTARALYGAMLDGRVPDLELGAILIALRIKGESEA 57 (317)
T ss_pred HHHHHHHHHCCCCCCCCcCHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCCCHH
Confidence 45566666555 667654 888999998888888888888888777777644
No 205
>PRK15379 pathogenicity island 1 effector protein SopD; Provisional
Probab=37.02 E-value=37 Score=35.81 Aligned_cols=70 Identities=17% Similarity=0.311 Sum_probs=53.1
Q ss_pred CcCCccCCHHHHHHHHHhhCC--CCCCCHHHHHHHHHHHHHHHHHHH-------HHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 396 EFGNRILTKRSIQELVNQIDP--SERLDPDVEDILVDIAEDFVESIT-------MFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 396 e~~nrILtKrKLqELVrqIDP--~e~LD~DVEELLLeIADDFVDsVv-------s~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
+-++.||.+.+|++++.--|. -+.++.|-+|++++|++.+=+.|. .+|..|-|.-..+. ++||..+-|-|
T Consensus 113 ~IG~~VI~qsni~~iln~s~n~i~~~m~~~e~elflkic~~~g~~i~~~pellq~~~~~lr~~v~~~~-~ik~~vy~~mr 191 (317)
T PRK15379 113 MVGDTVISQSNIKDILNISDDAVIESMSREERQLFLQICEVIGAKMTWHPELLQESISTLRKEVTGNA-QIKAAVYEMMR 191 (317)
T ss_pred EECCEEEeeccHHHHhccchhheeeccchhHHHHHHHHHHHhccccccCHHHHHHHHHHHHHHhcccc-HHHHHHHHhhC
Confidence 578899999999999985443 357999999999999998766554 46666766666664 78887655544
No 206
>COG3935 DnaD Putative primosome component and related proteins [DNA replication, recombination, and repair]
Probab=36.72 E-value=92 Score=31.92 Aligned_cols=45 Identities=16% Similarity=-0.054 Sum_probs=36.3
Q ss_pred CCCHHHHHHHHHHHHHHH--HHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009343 419 RLDPDVEDILVDIAEDFV--ESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (537)
Q Consensus 419 ~LD~DVEELLLeIADDFV--DsVvs~ACkLAKHRKSdTLEvKDVQLhLE 465 (537)
-|.+==+|.|....|||= .+||..||+.|..++.. ..+=|.-+|.
T Consensus 141 ~lsP~e~E~L~~wld~d~~~~elI~~ALkeAv~~gK~--n~~YI~~IL~ 187 (246)
T COG3935 141 MLSPFEIEDLQKWLDEDSHDPELIKAALKEAVENGKL--NFKYIDAILR 187 (246)
T ss_pred cCCchhHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCc--cHHHHHHHHH
Confidence 577777788889999999 99999999999998877 4565555553
No 207
>PRK13342 recombination factor protein RarA; Reviewed
Probab=36.60 E-value=81 Score=32.96 Aligned_cols=65 Identities=17% Similarity=0.171 Sum_probs=41.7
Q ss_pred cCCHHHHHHHHHhh----CCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 401 ILTKRSIQELVNQI----DPSE-RLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 401 ILtKrKLqELVrqI----DP~e-~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
-|++..+.++++++ +.+. .+++++.+.|+++++.-+..+++..-.++.. .+.|+.+||.-.+++.
T Consensus 150 ~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le~~~~~--~~~It~~~v~~~~~~~ 219 (413)
T PRK13342 150 PLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLELAALG--VDSITLELLEEALQKR 219 (413)
T ss_pred CCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHc--cCCCCHHHHHHHHhhh
Confidence 34566777777765 2233 7999999999998865444433333333322 4568999998888764
No 208
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=36.21 E-value=51 Score=34.98 Aligned_cols=65 Identities=15% Similarity=0.173 Sum_probs=42.1
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHH-HHHHHHHHHH----HHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 403 TKRSIQELVNQIDPSERLDPDVE-DILVDIAEDF----VESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 403 tKrKLqELVrqIDP~e~LD~DVE-ELLLeIADDF----VDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
++..-.++++.+.....+++||. +.|.+..+.| |..||..|+..|-.++...|+.+|+.-.|++.
T Consensus 317 ~~~~R~~Il~~~~~~~~l~~dvd~~~la~~t~g~sgaDI~~l~~eA~~~A~r~~~~~i~~~df~~A~~~v 386 (398)
T PTZ00454 317 DRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKISAADIAAICQEAGMQAVRKNRYVILPKDFEKGYKTV 386 (398)
T ss_pred CHHHHHHHHHHHHhcCCCCcccCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHcCCCccCHHHHHHHHHHH
Confidence 34444455555544444554432 2233333333 77888888888888888899999999998885
No 209
>PRK05883 acyl carrier protein; Validated
Probab=35.98 E-value=27 Score=29.91 Aligned_cols=30 Identities=17% Similarity=0.174 Sum_probs=23.5
Q ss_pred HhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009343 445 SLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 445 kLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (537)
.|..--+-+.|+.-++.+.||+.||+.|+-
T Consensus 39 ~l~~dlg~DSL~~v~lv~~lE~~fgI~i~~ 68 (91)
T PRK05883 39 RLVDDVGLDSVAFAVGMVAIEERLGVALSE 68 (91)
T ss_pred chhhccCCChHHHHHHHHHHHHHHCCCcCH
Confidence 344445677888888899999999999865
No 210
>PF08429 PLU-1: PLU-1-like protein; InterPro: IPR013637 This domain is found in the central region of lysine-specific demethylases, which are nuclear proteins that may have a role in DNA-binding and transcription, and are associated with malignant cancer phenotypes []. The domain is also found in various other Jumonji/ARID domain-containing proteins (see IPR013129 from INTERPRO, IPR001606 from INTERPRO). ; GO: 0016706 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors, 0055114 oxidation-reduction process
Probab=35.97 E-value=1.2e+02 Score=30.58 Aligned_cols=73 Identities=18% Similarity=0.264 Sum_probs=40.9
Q ss_pred cCCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHH---HHHHHHHHHHHHHHhhhhcCCCCcchhhH--HHHHhhccCcc
Q 009343 397 FGNRILTKRSIQELVNQIDPSERLDPDVEDILVDI---AEDFVESITMFGCSLAKHRKSDTLEAKDI--LVHLERNWNMT 471 (537)
Q Consensus 397 ~~nrILtKrKLqELVrqIDP~e~LD~DVEELLLeI---ADDFVDsVvs~ACkLAKHRKSdTLEvKDV--QLhLERnWNI~ 471 (537)
.....++=..|..||.+++.-...-+| .+.|.++ +++|.+.+-..-.. +.. .++.++ .+..-..||+.
T Consensus 78 ~~~~~~~l~~l~~Ll~e~~~L~~~~pE-i~~L~~l~~~ve~f~~~a~~~L~~----~~~--~~~~~le~Ll~~g~s~~v~ 150 (335)
T PF08429_consen 78 KSRNKLTLEELEALLEEIESLPFDCPE-IDQLKELLEEVEEFQSRAQEALSD----PES--PSLEELEELLEEGESFGVD 150 (335)
T ss_pred cccccCCHHHHHHHHHHHhcCCeeCch-HHHHHHHHHHHHHHHHHHHHHHhc----ccc--CCHHHHHHHHHhcccCcee
Confidence 345667888899999999765555466 3334444 44555444332222 122 223333 25555667777
Q ss_pred cCCCC
Q 009343 472 LPGFS 476 (537)
Q Consensus 472 IPGfs 476 (537)
||.+.
T Consensus 151 lpel~ 155 (335)
T PF08429_consen 151 LPELD 155 (335)
T ss_pred ChhHH
Confidence 77653
No 211
>PF13551 HTH_29: Winged helix-turn helix
Probab=35.94 E-value=1.1e+02 Score=25.04 Aligned_cols=41 Identities=10% Similarity=0.261 Sum_probs=23.8
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH-hhccCccc
Q 009343 420 LDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL-ERNWNMTL 472 (537)
Q Consensus 420 LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhL-ERnWNI~I 472 (537)
||++.++.|++++++. ... +...+..+.|..+| |+.|++.|
T Consensus 58 l~~~~~~~l~~~~~~~-----------p~~-g~~~~t~~~l~~~l~~~~~~~~~ 99 (112)
T PF13551_consen 58 LSEEQRAQLIELLREN-----------PPE-GRSRWTLEELAEWLIEEEFGIDV 99 (112)
T ss_pred CCHHHHHHHHHHHHHC-----------CCC-CCCcccHHHHHHHHHHhccCccC
Confidence 6777777666655532 222 22345667776665 77777664
No 212
>PRK09281 F0F1 ATP synthase subunit alpha; Validated
Probab=35.94 E-value=47 Score=36.74 Aligned_cols=34 Identities=21% Similarity=0.398 Sum_probs=23.9
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH
Q 009343 405 RSIQELVNQIDPSERLDPDVEDILVDIAEDFVES 438 (537)
Q Consensus 405 rKLqELVrqIDP~e~LD~DVEELLLeIADDFVDs 438 (537)
.+..++++.||.+..||+++++.|.++..+|++.
T Consensus 466 ~~~~~~~~~I~~~~~l~~~~~~~L~~~i~~~~~~ 499 (502)
T PRK09281 466 SNHADLLEEIRETKDLSDEIEAKLKAAIEEFKKT 499 (502)
T ss_pred HhhHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 3445666677777777777777777777777764
No 213
>TIGR00962 atpA proton translocating ATP synthase, F1 alpha subunit. The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. The alpha-subunit contains a highly conserved adenine-specific noncatalytic nucleotide-binding domain. The conserved amino acid sequence is Gly-X-X-X-X-Gly-Lys. Proton translocating ATP synthase F1, alpha subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), B subunit.
Probab=35.80 E-value=48 Score=36.67 Aligned_cols=35 Identities=17% Similarity=0.451 Sum_probs=26.5
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH
Q 009343 404 KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVES 438 (537)
Q Consensus 404 KrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDs 438 (537)
+.+..+++++||.+..||+++++.|.++..+|++.
T Consensus 464 ~~~~~~~~~~i~~~~~l~~~~~~~L~~~i~~~~~~ 498 (501)
T TIGR00962 464 DANHPDILEEINTKKKLTEELEDKLKEALKNFKKT 498 (501)
T ss_pred HHhhHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHh
Confidence 34455777777777888888888888888888764
No 214
>cd05023 S-100A11 S-100A11: S-100A11 domain found in proteins similar to S100A11. S100A11 is a member of the S-100 domain family within EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100A11 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control . S100 proteins have also been associated with a variety of pathological events, including neoplastic transformation and neurodegenerative diseases such as Alzheimer's, usually via over expression of the protein. S100A11 is expressed in smooth muscle and other tissues and involves in calcium-dependent membrane aggregation, which is important for cell vesiculation . As is the case for many other S100 proteins, S
Probab=35.71 E-value=1.1e+02 Score=26.06 Aligned_cols=46 Identities=13% Similarity=0.218 Sum_probs=31.1
Q ss_pred CccCCHHHHHHHHHhhCC---CCCCC-HHHHHHHHHH---------HHHHHHHHHHHHH
Q 009343 399 NRILTKRSIQELVNQIDP---SERLD-PDVEDILVDI---------AEDFVESITMFGC 444 (537)
Q Consensus 399 nrILtKrKLqELVrqIDP---~e~LD-~DVEELLLeI---------ADDFVDsVvs~AC 444 (537)
+..|+|..|..|+..--+ ...++ .+++++|.++ -+|||.-|...|+
T Consensus 25 ~~~Ls~~Elk~ll~~e~~~~~~~~~~~~~~~~ll~~~D~d~DG~I~f~EF~~l~~~l~~ 83 (89)
T cd05023 25 SYQLSKTEFLSFMNTELASFTKNQKDPGVLDRMMKKLDLNSDGQLDFQEFLNLIGGLAV 83 (89)
T ss_pred cCeECHHHHHHHHHHhhhHhhcCCCCHHHHHHHHHHcCCCCCCcCcHHHHHHHHHHHHH
Confidence 458999999999988644 23455 5677777765 4678765554433
No 215
>PRK13551 agmatine deiminase; Provisional
Probab=35.65 E-value=30 Score=36.61 Aligned_cols=70 Identities=24% Similarity=0.218 Sum_probs=48.8
Q ss_pred HHHHHHHhhhhcCCCCcchhhHHHHHhhccC----cccC-CCCcccc----cccC------------CCCCchHHHHHHH
Q 009343 439 ITMFGCSLAKHRKSDTLEAKDILVHLERNWN----MTLP-GFSGDEI----KTFR------------KPLVCDIHKERLA 497 (537)
Q Consensus 439 Vvs~ACkLAKHRKSdTLEvKDVQLhLERnWN----I~IP-GfssDEI----R~~R------------K~~pTEaHKQRMA 497 (537)
+++..|.|-.+|+-+ +.-.+|.-.|++.+| |||| |+..|+- ..+- .....+.|..++.
T Consensus 165 ltTe~clln~nRNP~-ls~~~ie~~Lk~~LGv~kvIWL~~g~~~DdTdGHiD~~arFv~~~~vl~~~~~d~~d~~~~~~~ 243 (362)
T PRK13551 165 LTTEECLLNPNRNPH-LTKEQIEQLLRDYLGVEKVIWLPDGIYNDETDGHVDNVCCFVRPGEVALAWTDDENDPQYARSK 243 (362)
T ss_pred EEEhhhhcCCCCCCC-CCHHHHHHHHHHHHCCCEEEEECCCCCCCCCCcchhheEEeeCCCEEEEEecCCCCCccHHHHH
Confidence 477889999999887 789999999999998 5677 5555442 1111 1223345668888
Q ss_pred HHHHHhhhhhhh
Q 009343 498 AIKKSVMATEVA 509 (537)
Q Consensus 498 LIRKsI~s~~~a 509 (537)
.+++.++....+
T Consensus 244 ~~~~~L~~~~da 255 (362)
T PRK13551 244 AALEVLENTTDA 255 (362)
T ss_pred HHHHHHHhhhhc
Confidence 888877775443
No 216
>COG4286 Uncharacterized conserved protein related to MYG1 family [Function unknown]
Probab=35.57 E-value=25 Score=36.99 Aligned_cols=40 Identities=23% Similarity=0.328 Sum_probs=28.8
Q ss_pred HHHHHHHHhhCCC---CCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 009343 405 RSIQELVNQIDPS---ERLDPDVEDILVDIAEDFVESITMFGC 444 (537)
Q Consensus 405 rKLqELVrqIDP~---e~LD~DVEELLLeIADDFVDsVvs~AC 444 (537)
+.|-+||+-..+. +.-|++--..-|.+|+||++++....|
T Consensus 143 ~sl~~iv~~~np~~~~e~~~d~~F~~al~~a~~~l~~~~~~~~ 185 (306)
T COG4286 143 RSLPDIVESFNPDWSDEDADDEGFLEALAFASDFLDNLFKTIV 185 (306)
T ss_pred cchHHHHHhcCCCcCCCCcchHHHHHHHHHHHHHHHHHHHHHH
Confidence 3488888877543 345555555567899999999988877
No 217
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=35.44 E-value=59 Score=36.32 Aligned_cols=54 Identities=17% Similarity=0.308 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHHH-----------HHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCc
Q 009343 423 DVEDILVDIAEDFVE-----------SITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSG 477 (537)
Q Consensus 423 DVEELLLeIADDFVD-----------sVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGfss 477 (537)
+.+++|.+|.|++.+ -+...||+.|...|. .|..+.+.--|++-..+..|-...
T Consensus 532 ~~~~~l~ell~~l~~~~~~~~~~~~~~las~ACr~AIk~g~-~Ls~~E~~~Ll~~L~~~~~P~~CP 596 (617)
T PRK00095 532 ELEELIRDLLDELAEEGDSDTLKERELLATMACHGAIRAGR-RLTLEEMNALLRQLEATENPGTCP 596 (617)
T ss_pred CHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhccC-CCCHHHHHHHHHHHHhcccccCCC
Confidence 356666666655433 478999999987665 488888888888877788876553
No 218
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=35.40 E-value=1.6e+02 Score=27.63 Aligned_cols=62 Identities=10% Similarity=0.005 Sum_probs=38.0
Q ss_pred CHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHH---HHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009343 403 TKRSIQELVNQI--DPSERLDPDVEDILVDIAE---DFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (537)
Q Consensus 403 tKrKLqELVrqI--DP~e~LD~DVEELLLeIAD---DFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLE 465 (537)
+.+.+.++++++ +-...|++++.++|++-.+ ..+.+|++.--..|+..| ..|++..|+-+|+
T Consensus 158 ~~~~~~~~l~~~~~~~~v~l~~~al~~L~~~~~gn~~~l~~~l~~l~~~~~~~~-~~i~~~~~~~~l~ 224 (227)
T PRK08903 158 SDADKIAALKAAAAERGLQLADEVPDYLLTHFRRDMPSLMALLDALDRYSLEQK-RPVTLPLLREMLA 224 (227)
T ss_pred CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHh
Confidence 444455566554 3356889998888887555 233445555444566666 3577777776665
No 219
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=35.10 E-value=1.6e+02 Score=31.82 Aligned_cols=19 Identities=11% Similarity=0.279 Sum_probs=12.4
Q ss_pred CcchhhHHHHHhhccCccc
Q 009343 454 TLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 454 TLEvKDVQLhLERnWNI~I 472 (537)
.+.+++|+-...+.||+.+
T Consensus 351 ~~t~~~I~~~Va~~~~v~~ 369 (445)
T PRK12422 351 RLTPSKIIRAVAQYYGVSP 369 (445)
T ss_pred CCCHHHHHHHHHHHhCCCH
Confidence 3566667666677776664
No 220
>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]
Probab=34.98 E-value=1.1e+02 Score=31.14 Aligned_cols=67 Identities=9% Similarity=0.083 Sum_probs=46.5
Q ss_pred CHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009343 403 TKRSIQELVNQI--DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (537)
Q Consensus 403 tKrKLqELVrqI--DP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWN 469 (537)
..++|.++|++. .-+.+||+|+.++|++..+.=+..+...--+|+-..+...|+..||+-.+.+.-.
T Consensus 141 ~~~~l~~~i~~~~~~~~l~i~~~a~~~L~~~~~~nl~~i~~Ei~KL~l~~~~~~I~~~~V~~~v~~~~~ 209 (334)
T COG1466 141 DEAELPQWIKKRAKELGLKIDQEAIQLLLEALGGNLLAIAQEIEKLALYAGDKEITLEDVEEVVSDVAE 209 (334)
T ss_pred CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCcHHHHHHHHHHHHHhCCCCcCCHHHHHHHHhcccc
Confidence 445566666655 3467999999999998887544444444455555555558999999888877543
No 221
>cd06457 M3A_MIP Peptidase M3 mitochondrial intermediate peptidase (MIP; EC 3.4.24.59) belongs to the widespread subfamily M3A, that show similarity to the Thimet oligopeptidase (TOP). It is one of three peptidases responsible for the proteolytic processing of both, nuclear and mitochondrial encoded precursor polypeptides targeted to the various subcompartments of the mitochondria. It cleaves intermediate-size proteins initially processed by mitochondrial processing peptidase (MPP) to yield a processing intermediate with a typical N-terminal octapeptide that is sequentially cleaved by MIP to mature-size protein. MIP cleaves precursor proteins of respiratory components, including subunits of the electron transport chain and tri-carboxylic acid cycle enzymes, and components of the mitochondrial genetic machinery, including ribosomal proteins, translation factors, and proteins required for mitochondrial DNA metabolism. It has been suggested that the human MIP (HMIP polypeptide; gene symbo
Probab=34.86 E-value=56 Score=34.90 Aligned_cols=62 Identities=10% Similarity=0.083 Sum_probs=36.7
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC------CCCcchhhHHHHHhhccCcccCCCCccccccc
Q 009343 421 DPDVEDILVDIAEDFVESITMFGCSLAKHRK------SDTLEAKDILVHLERNWNMTLPGFSGDEIKTF 483 (537)
Q Consensus 421 D~DVEELLLeIADDFVDsVvs~ACkLAKHRK------SdTLEvKDVQLhLERnWNI~IPGfssDEIR~~ 483 (537)
.++|.++|.+|++.-..-+-...-.|++..+ .+.|+.=|+-|+.|+.-...+ .+..++++.|
T Consensus 62 pe~v~~fL~~l~~~~~p~~~~e~~~L~~~~~~~~~~~~~~L~pwD~~yy~~~~~~~~~-~~d~~~l~~Y 129 (458)
T cd06457 62 PENVMEFLTELSEKLRPRAEEELAVLRDMKRKVLGKPLSSLAPWDRDYYTGQYRQSRF-DSEPSNLSPY 129 (458)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCCCHHHHHHHHHHHHHhhc-CCChHHhccc
Confidence 4668888888877766555554443444333 336888899888887533332 2344445444
No 222
>TIGR02881 spore_V_K stage V sporulation protein K. Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.
Probab=34.70 E-value=1.4e+02 Score=28.95 Aligned_cols=32 Identities=13% Similarity=0.107 Sum_probs=21.2
Q ss_pred CCHHHHHHHHHhhCC--CCCCCHHHHHHHHHHHH
Q 009343 402 LTKRSIQELVNQIDP--SERLDPDVEDILVDIAE 433 (537)
Q Consensus 402 LtKrKLqELVrqIDP--~e~LD~DVEELLLeIAD 433 (537)
++...|.++++.+-. ...+++++.+.|.+.++
T Consensus 178 ~~~~el~~Il~~~~~~~~~~l~~~a~~~l~~~~~ 211 (261)
T TIGR02881 178 YTVEELMEIAERMVKEREYKLTEEAKWKLREHLY 211 (261)
T ss_pred CCHHHHHHHHHHHHHHcCCccCHHHHHHHHHHHH
Confidence 356666666666622 45688888888877654
No 223
>TIGR00382 clpX endopeptidase Clp ATP-binding regulatory subunit (clpX). A member of the ATP-dependent proteases, ClpX has ATP-dependent chaperone activity and is required for specific ATP-dependent proteolytic activities expressed by ClpPX. The gene is also found to be involved in stress tolerance in Bacillus subtilis and is essential for the efficient acquisition of genes specifying type IA and IB restriction.
Probab=34.43 E-value=39 Score=36.41 Aligned_cols=68 Identities=12% Similarity=0.136 Sum_probs=48.2
Q ss_pred HHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhh--HHHHHhhccCcccCCCCcccc
Q 009343 409 ELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKD--ILVHLERNWNMTLPGFSGDEI 480 (537)
Q Consensus 409 ELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKD--VQLhLERnWNI~IPGfssDEI 480 (537)
||+.+||--..|++--+|.|.+|+++..+.++..-.++-+.++-+ |++.| +.+..++.|+ +.||+..+
T Consensus 304 EflgRld~Iv~f~pL~~~~L~~Il~~~~n~l~kq~~~~l~~~gi~-L~~t~~a~~~Ia~~~~~---~~~GAR~L 373 (413)
T TIGR00382 304 EFIGRLPVIATLEKLDEEALIAILTKPKNALVKQYQALFKMDNVE-LDFEEEALKAIAKKALE---RKTGARGL 373 (413)
T ss_pred HHhCCCCeEeecCCCCHHHHHHHHHHHHHHHHHHHHHHhccCCeE-EEECHHHHHHHHHhCCC---CCCCchHH
Confidence 677778877788888888899999999988888877777777766 55544 2444455555 44665443
No 224
>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda. Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.
Probab=34.35 E-value=1.6e+02 Score=27.04 Aligned_cols=62 Identities=10% Similarity=-0.017 Sum_probs=33.5
Q ss_pred CHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHH---HHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009343 403 TKRSIQELVNQID--PSERLDPDVEDILVDIAE---DFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (537)
Q Consensus 403 tKrKLqELVrqID--P~e~LD~DVEELLLeIAD---DFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLE 465 (537)
++..+.++++.+- -...+++++.++|.+... ..+.+|++.+-.++..++. +|+++.|+-+||
T Consensus 160 ~~~e~~~~l~~~~~~~~~~~~~~~l~~L~~~~~gn~r~L~~~l~~~~~~~~~~~~-~i~~~~~~~~~~ 226 (226)
T TIGR03420 160 SDEEKIAALQSRAARRGLQLPDEVADYLLRHGSRDMGSLMALLDALDRASLAAKR-KITIPFVKEVLA 226 (226)
T ss_pred CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHhC
Confidence 4455555555442 245688888888876443 1233444443333333343 477777766554
No 225
>cd05026 S-100Z S-100Z: S-100Z domain found in proteins similar to S100Z. S100Z is a member of the S100 domain family within the EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100Z group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately.S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control. S100Z is normally expressed in various tissues, with its highest level of expression being in spleen and leukocytes. The function of S100Z remains unclear. Preliminary structural data suggests that S100Z is homodimer, however a heterodimer with S100P has been reported. S100Z is capable of binding calcium ions. When calcium binds to S110Z, the protein experiences a conformational change, which exposes hydrophobic surfac
Probab=34.30 E-value=1.4e+02 Score=25.23 Aligned_cols=47 Identities=26% Similarity=0.359 Sum_probs=29.6
Q ss_pred cCCc-cCCHHHHHHHHHhhCC----CCCCCHHHHHHHHHH---------HHHHHHHHHHHH
Q 009343 397 FGNR-ILTKRSIQELVNQIDP----SERLDPDVEDILVDI---------AEDFVESITMFG 443 (537)
Q Consensus 397 ~~nr-ILtKrKLqELVrqIDP----~e~LD~DVEELLLeI---------ADDFVDsVvs~A 443 (537)
+++. .|++..|.+|++..-+ ...-+.+|+++|.++ -+|||.-+...+
T Consensus 23 dgdg~~Is~~EL~~ll~~~~~~~~~~~~~~~~v~~i~~elD~n~dG~Idf~EF~~l~~~l~ 83 (93)
T cd05026 23 EGDRYKLSKGELKELLQRELTDFLSSQKDPMLVDKIMNDLDSNKDNEVDFNEFVVLVAALT 83 (93)
T ss_pred CCCCCEECHHHHHHHHHHHhHHhcccccCHHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHH
Confidence 3444 5999999999977422 112445677877777 356766554443
No 226
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=34.16 E-value=68 Score=30.55 Aligned_cols=98 Identities=19% Similarity=0.208 Sum_probs=56.4
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhh-------hcCCCCcchhhHHHHHhhccCcccC---
Q 009343 404 KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAK-------HRKSDTLEAKDILVHLERNWNMTLP--- 473 (537)
Q Consensus 404 KrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAK-------HRKSdTLEvKDVQLhLERnWNI~IP--- 473 (537)
-.+|..|-++| ..+|..+.++|..|.+ +.+.+..+|..++ ......|+++||.=|-.|-=....+
T Consensus 28 ~~~I~~L~~e~---~~ld~~i~~~~~~L~~--~~~~L~~~~~~~~~~~~~~~~~~~~~v~~~eLL~YA~rISk~t~~p~~ 102 (188)
T PF10018_consen 28 QARIQQLRAEI---EELDEQIRDILKQLKE--ARKELRTLPDQADEKLKSIPKAEKRPVDYEELLSYAHRISKFTSAPPT 102 (188)
T ss_pred HHHHHHHHHHH---HHHHHHHHHHHHHHHH--HHHHHHHHHHHhhhccccccccccCCCCHHHHHHHHHHHHHhcCCCCC
Confidence 34566666665 6788888899888876 5666777773333 3344567888885443332111111
Q ss_pred ---------CCCc-ccccccCCCCCchHHHHHHHHHHHHhhhh
Q 009343 474 ---------GFSG-DEIKTFRKPLVCDIHKERLAAIKKSVMAT 506 (537)
Q Consensus 474 ---------Gfss-DEIR~~RK~~pTEaHKQRMALIRKsI~s~ 506 (537)
+|.. .-...+..+-|+|+...|-.|-.-.+...
T Consensus 103 ~~~~~~~P~~~~~~~~~~~~~~PwP~Ed~mR~G~L~~~~~~~~ 145 (188)
T PF10018_consen 103 FPSGSIAPNNWQPGPPSGDFFRPWPQEDQMRRGMLAQLQLLAE 145 (188)
T ss_pred CCCCCcCCcccccccccccccCCCCCHHHHHHhHHHhhhhhhh
Confidence 1110 11223455668888877776666555544
No 227
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=34.08 E-value=1.5e+02 Score=26.88 Aligned_cols=61 Identities=15% Similarity=0.079 Sum_probs=37.8
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhH-HHHHhhccC
Q 009343 403 TKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDI-LVHLERNWN 469 (537)
Q Consensus 403 tKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDV-QLhLERnWN 469 (537)
+-..+.+||..+..+ | ++.+-+|.+.|-..|..+++++.+.+..+..+++|| |=.+-+-|.
T Consensus 7 ~~~~~~~l~~~~~~g---d---~~a~~~l~~~~~~~l~~~~~~~~~~~~~~~~~aeDlvQe~fi~l~~ 68 (189)
T PRK09648 7 TGEELDALVAEAVAG---D---RRALREVLEIIRPLVVRYCRARLGGVERPGLSADDVAQEVCLAVIT 68 (189)
T ss_pred CchHHHHHHHHHHcC---C---HHHHHHHHHHHHHHHHHHHHHHhcccccCCCCHHHHHHHHHHHHHH
Confidence 445667777766443 2 455666677777777777777766555445577887 434444454
No 228
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=33.94 E-value=63 Score=34.78 Aligned_cols=31 Identities=10% Similarity=0.217 Sum_probs=24.3
Q ss_pred hhhhcCCCCcchhhHHHHHhhcc-CcccCCCC
Q 009343 446 LAKHRKSDTLEAKDILVHLERNW-NMTLPGFS 476 (537)
Q Consensus 446 LAKHRKSdTLEvKDVQLhLERnW-NI~IPGfs 476 (537)
+-|.|+.+.+.+|+|.+||-|++ ++.+|-.|
T Consensus 373 ~s~~R~~~i~~~Rqiamyl~r~~t~~s~~~IG 404 (445)
T PRK12422 373 LGRSQSREYVLPRQVAMYLCRQKLSLSYVKIG 404 (445)
T ss_pred hcCCCCcccccHHHHHHHHHHHhcCCCHHHHH
Confidence 56779999999999999998875 46665444
No 229
>cd05394 RasGAP_RASA2 RASA2 (or GAP1(m)) is a member of the GAP1 family of Ras GTPase-activating proteins that includes GAP1_IP4BP (or RASA3), CAPRI, and RASAL. In vitro, RASA2 has been shown to bind inositol 1,3,4,5-tetrakisphosphate (IP4), the water soluble inositol head group of the lipid second messenger phosphatidylinositol 3,4,5-trisphosphate (PIP3). In vivo studies also demonstrated that RASA2 binds PIP3, and it is recruited to the plasma membrane following agonist stimulation of PI 3-kinase. Furthermore, the membrane translocation is a consequence of the ability of its pleckstrin homology (PH) domain to bind PIP3.
Probab=33.60 E-value=2.4e+02 Score=29.91 Aligned_cols=76 Identities=14% Similarity=0.038 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCC---------------------Cccccccc
Q 009343 425 EDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGF---------------------SGDEIKTF 483 (537)
Q Consensus 425 EELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGf---------------------ssDEIR~~ 483 (537)
.+.|..++++|++.|++.++.+-. ++++|--+|.+.-.-++|+. -+-+.-..
T Consensus 130 ~~~L~~~~~~~~~~I~~S~~~~P~-------~lr~i~~~lr~~v~~rFp~~~~~~~~aVsgFlFLRF~cPAIlSP~lf~L 202 (313)
T cd05394 130 KENLRYYVDKVFFCIVKSSMSCPT-------VMCDIFYSLRHMAVKRFPNDPHVQYSAVSSFVFLRFFAVAVVSPHTFHL 202 (313)
T ss_pred HHHHHHHHHHHHHHHHhCcccCcH-------HHHHHHHHHHHHHHHHCCChHhhHHHHHHHHHHHHHhhhhhcCcccccc
Confidence 377889999999999988776543 35555444433333333332 11111111
Q ss_pred CCCCCchHHHHHHHHHHHHhhhhh
Q 009343 484 RKPLVCDIHKERLAAIKKSVMATE 507 (537)
Q Consensus 484 RK~~pTEaHKQRMALIRKsI~s~~ 507 (537)
....+++.=+.-|-||-|.|..-.
T Consensus 203 ~~~~p~~~~~RtLtLIaKvLQnLA 226 (313)
T cd05394 203 RPHHPDAQTSRTLTLISKTIQTLG 226 (313)
T ss_pred cCCCCChhhhHHHHHHHHHHHHHh
Confidence 233445544556789999988753
No 230
>PF13022 HTH_Tnp_1_2: Helix-turn-helix of insertion element transposase; PDB: 2AO9_I.
Probab=33.57 E-value=70 Score=30.63 Aligned_cols=95 Identities=16% Similarity=0.181 Sum_probs=42.0
Q ss_pred CHHHHHHHHHhhCCCCC------C-CHHHHHHHHHHHHHHHHHHHHHH--HHhhhhcCCCCcchhhHHHHHhhccCcccC
Q 009343 403 TKRSIQELVNQIDPSER------L-DPDVEDILVDIAEDFVESITMFG--CSLAKHRKSDTLEAKDILVHLERNWNMTLP 473 (537)
Q Consensus 403 tKrKLqELVrqIDP~e~------L-D~DVEELLLeIADDFVDsVvs~A--CkLAKHRKSdTLEvKDVQLhLERnWNI~IP 473 (537)
.|+-+.++..+|.-+.. - +.+-.+.+-++||+|+++-.... ..+=+-++.+. .+|-|.|+|++. |
T Consensus 33 ~r~T~~eiAee~Gis~~tLYrWr~~~~~Fiey~n~la~~~~~~~~~eVy~~L~~~i~~~~~-svKaieLflk~~-G---- 106 (142)
T PF13022_consen 33 ERRTQAEIAEEVGISRSTLYRWRQQNKAFIEYKNELADRFLSSHREEVYTQLMKKIRGGQP-SVKAIELFLKRH-G---- 106 (142)
T ss_dssp --S-HHHHHHHHTS-HHHHHHHHHH-HHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHSSS---HHHHHHHHHHT-T----
T ss_pred ccchHHHHHHHhCCCHHHHHHHHhcCHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhCCCc-cHHHHHHHHHHc-C----
Confidence 36667778877754321 1 33577888888888887765554 33334445653 799999999995 4
Q ss_pred CCCcc--cccccC--CCCCchHHHHHHHHHHHHhh
Q 009343 474 GFSGD--EIKTFR--KPLVCDIHKERLAAIKKSVM 504 (537)
Q Consensus 474 GfssD--EIR~~R--K~~pTEaHKQRMALIRKsI~ 504 (537)
.-.| +|.... +...+++-..++..|.|.|+
T Consensus 107 -LLtDrq~V~~~~~~~~~sne~i~~eie~l~~~~~ 140 (142)
T PF13022_consen 107 -LLTDRQEVEDTVEDGERSNEDIEKEIEELDKLLD 140 (142)
T ss_dssp ---EEEEEEEEE-----------------------
T ss_pred -cccceeeeeeecccCccchHHHHHHHHHHHHHhc
Confidence 4444 333222 12344667777777776654
No 231
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=33.56 E-value=48 Score=35.45 Aligned_cols=69 Identities=14% Similarity=0.105 Sum_probs=51.6
Q ss_pred HHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhh-H-HHHHhhccCcccCCCCcccc
Q 009343 408 QELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKD-I-LVHLERNWNMTLPGFSGDEI 480 (537)
Q Consensus 408 qELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKD-V-QLhLERnWNI~IPGfssDEI 480 (537)
=||+.+||--..|++--+|.|.+|+++-.+.++..-.++.++++.+ |++.| + .+..++-|+. +||...+
T Consensus 297 PEflgRld~iv~f~~L~~~~L~~Il~~~~~~l~~q~~~~l~~~~i~-L~~t~~al~~Ia~~~~~~---~~GAR~L 367 (412)
T PRK05342 297 PEFIGRLPVVATLEELDEEALVRILTEPKNALVKQYQKLFEMDGVE-LEFTDEALEAIAKKAIER---KTGARGL 367 (412)
T ss_pred HHHhCCCCeeeecCCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCcE-EEECHHHHHHHHHhCCCC---CCCCchH
Confidence 3777888888888888889999999999999999888888888877 45544 3 3445555664 4676544
No 232
>PRK12710 flgJ flagellar rod assembly protein/muramidase FlgJ; Provisional
Probab=33.42 E-value=50 Score=34.53 Aligned_cols=42 Identities=21% Similarity=0.231 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 430 DIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 430 eIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
+..++||+.|.-.|.++||.-|-.- .|.=-|-+||-.||-.+
T Consensus 128 ~~~~~FI~~i~p~A~~~a~~~Gv~p-Sv~iAQAaLESGWGks~ 169 (291)
T PRK12710 128 SVVDDFVKSVWPTAKQAASLIGLDP-KLLVAQAALETGWGKFV 169 (291)
T ss_pred ccHHHHHHHHHHHHHHHHHHhCcCh-HHHHHHHHHHccCCccc
Confidence 6679999999999999999888774 45555889999999664
No 233
>PRK05803 sporulation sigma factor SigK; Reviewed
Probab=33.39 E-value=1.4e+02 Score=28.53 Aligned_cols=68 Identities=10% Similarity=0.066 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHhhhhcCCCCcchhhH-HHHHhhccCcccCCCCcccccccCCCCCchHHHHHHHHHHHH
Q 009343 434 DFVESITMFGCSLAKHRKSDTLEAKDI-LVHLERNWNMTLPGFSGDEIKTFRKPLVCDIHKERLAAIKKS 502 (537)
Q Consensus 434 DFVDsVvs~ACkLAKHRKSdTLEvKDV-QLhLERnWNI~IPGfssDEIR~~RK~~pTEaHKQRMALIRKs 502 (537)
++++.-....+.+|.++-.+..+++|| |=.+-+-|.. +..|..+....++-|.-.-.+..-+..+||.
T Consensus 53 ~l~~~y~~~l~~~a~~~~~~~~daeDlvQE~fi~l~~~-~~~f~~~~~~~f~~wl~~i~rn~~id~~Rk~ 121 (233)
T PRK05803 53 ILIERNLRLVAHIVKKFENTGEDVDDLISIGTIGLIKA-IESFDAGKGTKLATYAARCIENEILMHLRNL 121 (233)
T ss_pred HHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHH-HHhcCcccCCChHHHHHHHHHHHHHHHHHHH
Confidence 344444444444555544455578898 3344455552 2334433222233344444444445555554
No 234
>PHA03181 helicase-primase primase subunit; Provisional
Probab=32.94 E-value=67 Score=37.61 Aligned_cols=40 Identities=13% Similarity=0.238 Sum_probs=32.7
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 009343 404 KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGC 444 (537)
Q Consensus 404 KrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~AC 444 (537)
|+.|.+|+++|-.....++++|+ |++.+.|++|.++..|.
T Consensus 607 k~~Ls~lL~~i~~~~~~~~~l~~-~~~~a~~~cd~Lv~~AF 646 (764)
T PHA03181 607 KEALSTLLEEICLCNDTDESLLT-IQEKVQKVFEELLYMAF 646 (764)
T ss_pred HHHHHHHHHHHHhccCCcccHHH-HHHHHHHHHHHHHHHHH
Confidence 88999999999877777776666 67777888888888776
No 235
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=32.85 E-value=66 Score=36.67 Aligned_cols=59 Identities=10% Similarity=0.092 Sum_probs=38.1
Q ss_pred CCHHHHHHHHHhhCC--CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHH
Q 009343 402 LTKRSIQELVNQIDP--SERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDIL 461 (537)
Q Consensus 402 LtKrKLqELVrqIDP--~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQ 461 (537)
|+...|.+.|++|-. +..||+++.++|.++++-=+.++++..-+++.+ +.+.|+.+||.
T Consensus 178 Ls~~eL~~~L~~il~~egi~id~eal~lIA~~s~GdlR~Al~lLeqll~~-g~~~It~d~V~ 238 (624)
T PRK14959 178 LSEAGLEAHLTKVLGREGVDYDPAAVRLIARRAAGSVRDSMSLLGQVLAL-GESRLTIDGAR 238 (624)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cCCCcCHHHHH
Confidence 456666666666533 346999999999998886566555555455433 44467776653
No 236
>PF08157 NUC129: NUC129 domain; InterPro: IPR012579 This C-terminal domain is found in a novel family of hypothetical nucleolar proteins [].; GO: 0005634 nucleus
Probab=32.82 E-value=1e+02 Score=26.23 Aligned_cols=46 Identities=24% Similarity=0.341 Sum_probs=32.1
Q ss_pred CHHHHHHHHHHHHHHHHHH----------HHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009343 421 DPDVEDILVDIAEDFVESI----------TMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (537)
Q Consensus 421 D~DVEELLLeIADDFVDsV----------vs~ACkLAKHRKSdTLEvKDVQLhLERnWN 469 (537)
|.++.++..+.|+|||.+. ++.-..|+..|... +---|+| +.+.|+
T Consensus 8 d~~l~~~~QqaAk~Fi~~~LYGpgsnRTT~N~flSL~NKr~~v--KkAAvQF-v~k~Wg 63 (63)
T PF08157_consen 8 DQSLRDSQQQAAKDFIQSRLYGPGSNRTTVNEFLSLANKRLPV--KKAAVQF-VNKSWG 63 (63)
T ss_pred cchhhhHHHHHHHHHHHHhccCCCCCcccHHHHhhhhhccccc--HHHHHHH-HhhccC
Confidence 6788999999999999875 45566677766654 2334444 566675
No 237
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=32.79 E-value=1.2e+02 Score=32.01 Aligned_cols=17 Identities=12% Similarity=0.134 Sum_probs=13.0
Q ss_pred CCCCCHHHHHHHHHHHH
Q 009343 417 SERLDPDVEDILVDIAE 433 (537)
Q Consensus 417 ~e~LD~DVEELLLeIAD 433 (537)
...|++||.|+|.+-++
T Consensus 297 ~~~l~~e~l~~ia~~~~ 313 (450)
T PRK00149 297 GIDLPDEVLEFIAKNIT 313 (450)
T ss_pred CCCCCHHHHHHHHcCcC
Confidence 56799999888876544
No 238
>TIGR03380 agmatine_aguA agmatine deiminase. Members of this family are agmatine deiminase (3.5.3.12), as characterized in Pseudomonas aeruginosa and plants. Related deiminases include the peptidyl-arginine deiminase (3.5.3.15) as found in Porphyromonas gingivalis.
Probab=32.75 E-value=38 Score=35.84 Aligned_cols=69 Identities=22% Similarity=0.206 Sum_probs=48.3
Q ss_pred HHHHHHHhhhhcCCCCcchhhHHHHHhhccC----cccC-CCCcccc----cccCC------------CCCchHHHHHHH
Q 009343 439 ITMFGCSLAKHRKSDTLEAKDILVHLERNWN----MTLP-GFSGDEI----KTFRK------------PLVCDIHKERLA 497 (537)
Q Consensus 439 Vvs~ACkLAKHRKSdTLEvKDVQLhLERnWN----I~IP-GfssDEI----R~~RK------------~~pTEaHKQRMA 497 (537)
+++..|.|-.+|+-+ +.-.+|.-.|++.+| |||| |+..|+- ..+-| ....+.|..++.
T Consensus 162 ltTe~clln~nRNP~-ls~~eIe~~Lk~~LGv~kviWL~~g~~~DdTdGHID~~arFv~~~tvl~~~~~d~~d~~~~~~~ 240 (357)
T TIGR03380 162 LTTEECLLSEGRNPH-LTKEQIEEKLKDYLGVEKVIWLPDGLYNDETNGHVDNLCCFVRPGEVALSWTDDESDPQYEISK 240 (357)
T ss_pred EEEhhhhcCCCCCCC-CCHHHHHHHHHHHHCCCEEEEECCCCCCCCCCCcceeeEEEeCCCEEEEEecCCCCCccHHHHH
Confidence 578899999999987 788999999999998 6677 5555441 11111 123345777888
Q ss_pred HHHHHhhhhhh
Q 009343 498 AIKKSVMATEV 508 (537)
Q Consensus 498 LIRKsI~s~~~ 508 (537)
.+++.++....
T Consensus 241 ~~~~~L~~~~d 251 (357)
T TIGR03380 241 EAYDVLSNTTD 251 (357)
T ss_pred HHHHHHHhhhh
Confidence 88777776543
No 239
>cd00043 CYCLIN Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB is a transcription factor that binds the TATA box. Cyclins, TFIIB and RB contain 2 copies of the domain.
Probab=32.55 E-value=1.7e+02 Score=21.90 Aligned_cols=33 Identities=12% Similarity=0.353 Sum_probs=25.4
Q ss_pred HHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH
Q 009343 406 SIQELVNQIDPSERLDPDVEDILVDIAEDFVES 438 (537)
Q Consensus 406 KLqELVrqIDP~e~LD~DVEELLLeIADDFVDs 438 (537)
.+.+++.++-....+++++..+=..++|.|+..
T Consensus 4 ~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~ 36 (88)
T cd00043 4 TPLDFLRRVAKALGLSPETLTLAVNLLDRFLLD 36 (88)
T ss_pred hHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHh
Confidence 445555666556689999999999999999874
No 240
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=32.36 E-value=93 Score=35.01 Aligned_cols=62 Identities=11% Similarity=0.116 Sum_probs=40.9
Q ss_pred CCHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009343 402 LTKRSIQELVNQI--DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL 464 (537)
Q Consensus 402 LtKrKLqELVrqI--DP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhL 464 (537)
+....|.+.|++| ..+..+|+++.++|+++++--+.+++...=+++.+ +...|+.+||.-.|
T Consensus 191 l~~~el~~~L~~i~~kegi~i~~eAl~lIa~~a~Gdlr~al~~Ldkli~~-g~g~It~e~V~~ll 254 (598)
T PRK09111 191 IEADVLAAHLSRIAAKEGVEVEDEALALIARAAEGSVRDGLSLLDQAIAH-GAGEVTAEAVRDML 254 (598)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhh-cCCCcCHHHHHHHh
Confidence 4566777777776 33568999999999998886666665554444433 23457777776544
No 241
>PF14842 FliG_N: FliG N-terminal domain; PDB: 3HJL_A 3AJC_A 3USY_B.
Probab=32.36 E-value=87 Score=27.39 Aligned_cols=33 Identities=15% Similarity=0.411 Sum_probs=16.7
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHH
Q 009343 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVE 437 (537)
Q Consensus 402 LtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVD 437 (537)
|+.+.++.|.++|.....+|.+.. .++.+||.+
T Consensus 30 l~~~ei~~i~~~ma~l~~v~~~~~---~~Vl~EF~~ 62 (108)
T PF14842_consen 30 LDEEEIERISREMAKLGSVSPEEV---EEVLEEFYD 62 (108)
T ss_dssp S-HHHHHHHHHHHHT-----HHHH---HHHHHHHHH
T ss_pred CCHHHHHHHHHHHHccCCCCHHHH---HHHHHHHHH
Confidence 466777788887766666666643 334455555
No 242
>PF15601 Imm42: Immunity protein 42
Probab=32.23 E-value=38 Score=31.83 Aligned_cols=27 Identities=15% Similarity=0.218 Sum_probs=21.7
Q ss_pred HHHHHHHH-------HHHHHHHHHHhhhhcCCCC
Q 009343 428 LVDIAEDF-------VESITMFGCSLAKHRKSDT 454 (537)
Q Consensus 428 LLeIADDF-------VDsVvs~ACkLAKHRKSdT 454 (537)
+..|+|-| +-+|+..||..|+..+.+.
T Consensus 98 i~~L~~yFvt~dG~~~f~~l~~a~~~a~~~~~~v 131 (134)
T PF15601_consen 98 ITSLSDYFVTSDGKDLFEVLFRALESAIEEKVDV 131 (134)
T ss_pred CCcHHHHhcCcchhhHHHHHHHHHHHHHhcCCCe
Confidence 56788888 5688999999998887764
No 243
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=32.21 E-value=99 Score=28.17 Aligned_cols=40 Identities=10% Similarity=0.027 Sum_probs=21.6
Q ss_pred HHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 009343 410 LVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKH 449 (537)
Q Consensus 410 LVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKH 449 (537)
|.+++-+....|.....+.|+..+|++.+.+-.+=+|...
T Consensus 31 ~~~~~~~k~~~~~~~~~~aL~~l~~~l~~~iV~~kel~~~ 70 (101)
T PF09943_consen 31 FREKASKKLYGDVPEDLAALLSLEDYLHEGIVYKKELERL 70 (101)
T ss_pred HHHHHhhhcccChhhHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 4444555555555555556666666666555544444433
No 244
>KOG3341 consensus RNA polymerase II transcription factor complex subunit [Transcription]
Probab=32.19 E-value=1.4e+02 Score=30.83 Aligned_cols=63 Identities=19% Similarity=0.258 Sum_probs=39.1
Q ss_pred HHHHHHHHHhh--CCCCCCCHHHHHHHH--HHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 404 KRSIQELVNQI--DPSERLDPDVEDILV--DIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 404 KrKLqELVrqI--DP~e~LD~DVEELLL--eIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
|+++++|+..| ||...-+..-.++|. |+.-+..-.|+ ..|.++||++..-|++.+|.-||-+.
T Consensus 63 R~~Fq~Mca~IGvDPlas~kgfw~~~lgvgdFYYelgVqvi-EvC~at~~~nGGlislqel~~~l~~~ 129 (249)
T KOG3341|consen 63 RNQFQEMCASIGVDPLASGKGFWAELLGVGDFYYELGVQVI-EVCLATKHTNGGLISLQELCNHLLQR 129 (249)
T ss_pred HHHHHHHHHHcCCCccccCcchHHHHhhhHHHHHHHhhHHH-HHHHHhhcccCCeeeHHHHHHHHHHH
Confidence 56788888877 776665544333221 22222222333 47999999999989998887655443
No 245
>KOG1087 consensus Cytosolic sorting protein GGA2/TOM1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=32.08 E-value=1.2e+02 Score=33.68 Aligned_cols=68 Identities=13% Similarity=0.251 Sum_probs=45.0
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHH------HHHH---------HHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 403 TKRSIQELVNQIDPSERLDPDVE------DILV---------DIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 403 tKrKLqELVrqIDP~e~LD~DVE------ELLL---------eIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
.|..+..|.|+|-.+.. .++. |+++ +||+ ++|+...+++.|.... .++||+-.|+|=+.
T Consensus 36 ~~eAvralkKRi~~k~s--~vq~lALtlLE~cvkNCG~~fh~~Va~---k~fL~emVk~~k~~~~-~~~Vr~kiL~LI~~ 109 (470)
T KOG1087|consen 36 PKEAVRALKKRLNSKNS--KVQLLALTLLETCVKNCGYSFHLQVAS---KEFLNEMVKRPKNKPR-DLKVREKILELIDT 109 (470)
T ss_pred cHHHHHHHHHHhccCCc--HHHHHHHHHHHHHHHhhhHHHHHHHHH---HHHHHHHHhccccCCc-chhHHHHHHHHHHH
Confidence 56778888888864333 2211 1111 3333 2445558889998864 46899999999999
Q ss_pred cCcccCCCC
Q 009343 468 WNMTLPGFS 476 (537)
Q Consensus 468 WNI~IPGfs 476 (537)
|+..|+|-+
T Consensus 110 W~~af~~~~ 118 (470)
T KOG1087|consen 110 WQQAFCGPD 118 (470)
T ss_pred HHHHccCCC
Confidence 999998833
No 246
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=32.05 E-value=1.1e+02 Score=34.85 Aligned_cols=44 Identities=14% Similarity=0.239 Sum_probs=32.2
Q ss_pred CCCCHHHHHHHHHHHH-------------HHHHHHHHHHHHhhhhcCCCCcchhhHH
Q 009343 418 ERLDPDVEDILVDIAE-------------DFVESITMFGCSLAKHRKSDTLEAKDIL 461 (537)
Q Consensus 418 e~LD~DVEELLLeIAD-------------DFVDsVvs~ACkLAKHRKSdTLEvKDVQ 461 (537)
..||+++.+.|++.+- .-|.+++..|..+|+.++.+.++.+||.
T Consensus 338 ~~f~~eAVa~LI~~~~R~ag~r~~lsl~~~~l~~l~r~a~~~a~~~~~~~i~~~~v~ 394 (637)
T PRK13765 338 PHFDRDAVEEIIREAKRRAGRKGHLTLKLRDLGGLVRVAGDIARSEGAELTTAEHVL 394 (637)
T ss_pred CCCCHHHHHHHHHHHHHHhCCccccccCHHHHHHHHHHHHHHHHhhccceecHHHHH
Confidence 4688887777766443 2355688888888888888888877765
No 247
>TIGR00524 eIF-2B_rel eIF-2B alpha/beta/delta-related uncharacterized proteins. This model, eIF-2B_rel, describes half of a superfamily, where the other half consists of eukaryotic translation initiation factor 2B (eIF-2B) subunits alpha, beta, and delta. It is unclear whether the eIF-2B_rel set is monophyletic, or whether they are all more closely related to each other than to any eIF-2B subunit because the eIF-2B clade is highly derived. Members of this branch of the family are all uncharacterized with respect to function and are found in the Archaea, Bacteria, and Eukarya, although a number are described as putative translation intiation factor components. Proteins found by eIF-2B_rel include at least three clades, including a set of uncharacterized eukaryotic proteins, a set found in some but not all Archaea, and a set universal so far among the Archaea and closely related to several uncharacterized bacterial proteins.
Probab=32.04 E-value=73 Score=32.85 Aligned_cols=27 Identities=11% Similarity=0.138 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 009343 422 PDVEDILVDIAEDFVESITMFGCSLAK 448 (537)
Q Consensus 422 ~DVEELLLeIADDFVDsVvs~ACkLAK 448 (537)
+++.+.|++-+|+|+++.+...-++|+
T Consensus 84 ~~~k~~l~~~~~~~~~e~~~~~~~Ia~ 110 (303)
T TIGR00524 84 EEAKESLLREAIEIIEEDLETNRKIGE 110 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567889999999999977764333333
No 248
>PRK08402 replication factor A; Reviewed
Probab=31.73 E-value=75 Score=33.76 Aligned_cols=59 Identities=19% Similarity=0.237 Sum_probs=41.1
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHH-HHHHHHHHHHHHHHHHHHHHHHhhhhcCCC--------CcchhhHH
Q 009343 400 RILTKRSIQELVNQIDPSERLDPD-VEDILVDIAEDFVESITMFGCSLAKHRKSD--------TLEAKDIL 461 (537)
Q Consensus 400 rILtKrKLqELVrqIDP~e~LD~D-VEELLLeIADDFVDsVvs~ACkLAKHRKSd--------TLEvKDVQ 461 (537)
.+|+|..|.|++.+. ..||.+ +++.|-++.++|=-+.-..+..+|+.-|.+ .+.++||.
T Consensus 2 ~~~~~~~i~e~~~~~---~~vs~eei~~~l~~lv~~~~~~e~~A~~~ia~e~G~~~~~~~~~~~~kI~dl~ 69 (355)
T PRK08402 2 TVLTKEEIIERIERK---TGMSREEIEEKIREIMKEEGISEHAAALLLAEELGVNLEGEEEAPLMHISDLV 69 (355)
T ss_pred ccccHHHHHHHHHHh---hCCCHHHHHHHHHHHHHHcCCCHHHHHHHHHHHhCCCccCCCccCccCHHHcc
Confidence 479999999999987 236654 788888888887533333677777766653 35577774
No 249
>cd05127 RasGAP_IQGAP_related This family represents IQ motif containing GTPase activating protein (IQGAP) which associated with the Ras GTP-binding protein. A primary function of IQGAP proteins is to modulate cytoskeletal architecture. There are three known IQGAP family members: IQGAP1, IQGAP2 and IQGAP3. Human IQGAP1 and IQGAP2 share 62% indentity. IQGAPs are multi-domain molecules having a calponin-homology (CH) domain which binds F-actin, IQGAP-specific repeats, a single WW domain, four IQ motifs that mediate interactions with calmodulin, and a RasGAP related domain that binds active Rho family GTPases. IQGAP is an essential regulator of cytoskeletal function. IQGAP1 negatively regulates Ras family GTPases by stimulating their intrinsic GTPase activity, the protein actually lacks GAP activity. Both IQGAP1 and IQGAP2 specifically bind to Cdc42 and Rac1, but not to RhoA. Despite of their similarities to part of the sequence of RasGAP, neither IQGAP1 nor IQGAP2 interacts with Ras. IQGA
Probab=31.48 E-value=3.4e+02 Score=27.74 Aligned_cols=20 Identities=10% Similarity=0.107 Sum_probs=16.4
Q ss_pred CCchHHHHHHHHHHHHhhhh
Q 009343 487 LVCDIHKERLAAIKKSVMAT 506 (537)
Q Consensus 487 ~pTEaHKQRMALIRKsI~s~ 506 (537)
.+++..+.-|.+|-|.|...
T Consensus 198 ~~~~~~rrnL~~iaKvLq~l 217 (325)
T cd05127 198 SPTPDQRRNLGEVAKVLQQA 217 (325)
T ss_pred CCCHHHHhhHHHHHHHHHHH
Confidence 34778888999999988875
No 250
>PF02898 NO_synthase: Nitric oxide synthase, oxygenase domain; InterPro: IPR004030 Nitric oxide synthase (1.14.13.39 from EC) (NOS) enzymes produce nitric oxide (NO) by catalysing a five-electron oxidation of a guanidino nitrogen of L-arginine (L-Arg). Oxidation of L-Arg to L-citrulline occurs via two successive monooxygenation reactions producing N(omega)-hydroxy-L-arginine as an intermediate. 2 mol of O(2) and 1.5 mol of NADPH are consumed per mole of NO formed []. Arginine-derived NO synthesis has been identified in mammals, fish, birds, invertebrates, plants, and bacteria []. Best studied are mammals, where three distinct genes encode NOS isozymes: neuronal (nNOS or NOS-1), cytokine-inducible (iNOS or NOS-2) and endothelial (eNOS or NOS-3) []. iNOS and nNOS are soluble and found predominantly in the cytosol, while eNOS is membrane associated. The enzymes exist as homodimers, each monomer consisting of two major domains: an N-terminal oxygenase domain, which belongs to the class of haem-thiolate proteins, and a C-terminal reductase domain, which is homologous to NADPH:P450 reductase (1.6.2.4 from EC). The interdomain linker between the oxygenase and reductase domains contains a calmodulin (CaM)-binding sequence. NOSs are the only enzymes known to simultaneously require five bound cofactors animal NOS isozymes are catalytically self-sufficient. The electron flow in the NO synthase reaction is: NADPH --> FAD --> FMN --> haem --> O(2). eNOS localisation to endothelial membranes is mediated by cotranslational N-terminal myristoylation and post-translational palmitoylation []. The subcellular localisation of nNOS in skeletal muscle is mediated by anchoring of nNOS to dystrophin. nNOS contains an additional N-terminal domain, the PDZ domain []. Some bacteria, like Bacillus halodurans, Bacillus subtilis or Deinococcus radiodurans, contain homologs of NOS oxygenase domain. The pattern is directed against the N-terminal haem binding site. This entry represents the oxygenase domain of NOS.; GO: 0004517 nitric-oxide synthase activity, 0006809 nitric oxide biosynthetic process, 0055114 oxidation-reduction process; PDB: 2FBZ_X 2AMO_A 2AN0_A 1M7V_A 2FC1_A 2FC2_B 1M7Z_A 2AN2_A 2ORS_A 1QW5_B ....
Probab=31.33 E-value=1e+02 Score=33.57 Aligned_cols=19 Identities=21% Similarity=0.490 Sum_probs=14.8
Q ss_pred CchHHHHHHHHHHHHhhhh
Q 009343 488 VCDIHKERLAAIKKSVMAT 506 (537)
Q Consensus 488 pTEaHKQRMALIRKsI~s~ 506 (537)
.+++|..|++.|++.|+.+
T Consensus 28 ~~~~~~~Rl~ev~~ei~~t 46 (372)
T PF02898_consen 28 GSEAHERRLEEVRREIETT 46 (372)
T ss_dssp TCHHHHHHHHHHHHHHHHH
T ss_pred cchHHHHHHHHHHhhhcCC
Confidence 3567888888888888775
No 251
>PRK00979 tetrahydromethanopterin S-methyltransferase subunit H; Provisional
Probab=31.33 E-value=1.3e+02 Score=31.71 Aligned_cols=100 Identities=10% Similarity=0.062 Sum_probs=65.5
Q ss_pred CCcCCccCCHHHHHHHHHhhCCC---------CCCCHHHHHHHHHHHHHHHH-------------HHHHHHHHhhhhcC-
Q 009343 395 DEFGNRILTKRSIQELVNQIDPS---------ERLDPDVEDILVDIAEDFVE-------------SITMFGCSLAKHRK- 451 (537)
Q Consensus 395 ~e~~nrILtKrKLqELVrqIDP~---------e~LD~DVEELLLeIADDFVD-------------sVvs~ACkLAKHRK- 451 (537)
+++...++.|.+=.+|+++.... ..+=-|-+|+|.++.|.+.+ +|++.|+++++.-+
T Consensus 42 ~D~~~G~FDk~~Ae~Li~~~~elsd~tg~p~~~~v~~~~~eam~k~I~~v~~~~d~Pl~IDSt~p~a~eaaLk~~~e~G~ 121 (308)
T PRK00979 42 SDEKKGIFDKEKAEALINRQEELSDKTGNPALLDVVGESPEAMEKYIDFVSEITDLPFLIDSTSPEARIAAAKYATELGL 121 (308)
T ss_pred eccccCccCHHHHHHHHHHHHHHHHHhCCCeEEEEecChHHHHHHHHHHHHhcCCCCEEEeCCCHHHHHHHHHHhhhcCC
Confidence 35677789999999999988421 11222334455566655544 78899999998633
Q ss_pred -------CCCcchhhHHHHHhhccCcc-cCCCCcccccccCCCCCchHHHHHHHHHHHH
Q 009343 452 -------SDTLEAKDILVHLERNWNMT-LPGFSGDEIKTFRKPLVCDIHKERLAAIKKS 502 (537)
Q Consensus 452 -------SdTLEvKDVQLhLERnWNI~-IPGfssDEIR~~RK~~pTEaHKQRMALIRKs 502 (537)
|=.+|.+|-.|-|-|+|++. +=++.-|+- .+ .=..||+++++.
T Consensus 122 ~gR~IiNSIn~e~~~eel~llk~yg~aavIvLa~d~~------~p--t~e~Rl~i~~~~ 172 (308)
T PRK00979 122 ADRAIYNSINPSIEEEEIEALKESDIKAAIVLAFDPM------DP--SVEGRLKMLEEG 172 (308)
T ss_pred CCceEEEeccCCCCHHHHHHHHHhCCceEEEEEcCCC------CC--CHHHHHHHHHhc
Confidence 55677777778899999955 434444431 22 345788888873
No 252
>PF09860 DUF2087: Uncharacterized protein conserved in bacteria (DUF2087); InterPro: IPR018656 This domain, found in various hypothetical prokaryotic proteins and transcriptional activators, has no known function.
Probab=31.20 E-value=57 Score=27.40 Aligned_cols=30 Identities=20% Similarity=0.532 Sum_probs=24.4
Q ss_pred HHHHHHhhCCCCCCCH-HHHHHHHHHHHHHH
Q 009343 407 IQELVNQIDPSERLDP-DVEDILVDIAEDFV 436 (537)
Q Consensus 407 LqELVrqIDP~e~LD~-DVEELLLeIADDFV 436 (537)
|..|+..++++..+++ ||-++|..+.|||+
T Consensus 17 L~~l~~~f~~g~~y~E~EVN~~L~~~~~D~a 47 (71)
T PF09860_consen 17 LEYLASRFEPGREYSEKEVNEILKRFFDDYA 47 (71)
T ss_pred HHHHHHhCCCCCccCHHHHHHHHHHHcccHH
Confidence 5677778888888776 59999999988886
No 253
>TIGR00988 hip integration host factor, beta subunit. This protein forms a site-specific DNA-binding heterodimer with the homologous integration host factor alpha subunit. It is closely related to the DNA-binding protein HU.
Probab=31.04 E-value=67 Score=26.91 Aligned_cols=19 Identities=16% Similarity=0.317 Sum_probs=12.7
Q ss_pred HHhhccCcccCCCCccccc
Q 009343 463 HLERNWNMTLPGFSGDEIK 481 (537)
Q Consensus 463 hLERnWNI~IPGfssDEIR 481 (537)
+|.+.+.+.|+|||.=+++
T Consensus 36 ~L~~g~~V~l~gfG~F~~~ 54 (94)
T TIGR00988 36 ALAQGDRIEIRGFGSFSLH 54 (94)
T ss_pred HHHcCCeEEEcCcEEEEEE
Confidence 4556777888888865443
No 254
>PLN03214 probable enoyl-CoA hydratase/isomerase; Provisional
Probab=30.97 E-value=24 Score=35.15 Aligned_cols=100 Identities=13% Similarity=0.148 Sum_probs=50.2
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHH-HHHH-H-HHH--HHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009343 400 RILTKRSIQELVNQIDPSERLDPD-VEDI-L-VDI--AEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (537)
Q Consensus 400 rILtKrKLqELVrqIDP~e~LD~D-VEEL-L-LeI--ADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (537)
+++.+.+-.+|+-.- ..|+.+ ++++ | -++ .|++.+.+..++.+|++. ..+-++-++..|.+.|+..+..
T Consensus 162 ~~~G~~~a~~llltg---~~~~a~eA~~~Glv~~vv~~~~l~~~a~~~a~~l~~~---~~~a~~~~K~~l~~~~~~~l~~ 235 (278)
T PLN03214 162 RVIDRKVAESLLLRG---RLVRPAEAKQLGLIDEVVPAAALMEAAASAMERALKL---PSAARAATKALLREEFSAAWEA 235 (278)
T ss_pred HhcCHHHHHHHHHcC---CccCHHHHHHcCCCcEecChHHHHHHHHHHHHHHHcC---CHHHHHHHHHHHHhhHHHHHHH
Confidence 456777777776532 333322 2211 1 112 144444455555455432 2334555555565555554433
Q ss_pred CCcccccccCCCCCchHHHHHHHHHHHHhhh
Q 009343 475 FSGDEIKTFRKPLVCDIHKERLAAIKKSVMA 505 (537)
Q Consensus 475 fssDEIR~~RK~~pTEaHKQRMALIRKsI~s 505 (537)
....|.+...+...++++++.+..+-+-++.
T Consensus 236 ~~~~e~~~~~~~~~s~d~~egi~aflek~~~ 266 (278)
T PLN03214 236 YYEEEAKGGWKMLSEPSIIKALGGVMERLSS 266 (278)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHHHhh
Confidence 3333444444556688888888866544444
No 255
>COG5566 Uncharacterized conserved protein [Function unknown]
Probab=30.79 E-value=1.1e+02 Score=29.28 Aligned_cols=59 Identities=17% Similarity=0.198 Sum_probs=42.2
Q ss_pred HHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009343 406 SIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (537)
Q Consensus 406 KLqELVrqID--P~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWN 469 (537)
++..|+..+| |+..+...+.++|.+++|.|.-.+.....+-++ .. .++-|.+.|-++||
T Consensus 15 ~~~aLfd~lD~ip~d~l~klwps~Lsev~eV~~ael~~a~ie~~g----k~-~alk~v~~l~~y~G 75 (137)
T COG5566 15 KDSALFDFLDLIPGDNLRKLWPSLLSEVHEVFLAELEDAGIEDNG----KP-LALKLVFKLMEYGG 75 (137)
T ss_pred hhhhhhhhhccCCchhHHHhhHHHHHHHHHHHHHHHHHHhhhhcc----Cc-hHHHHHHHHHHHcC
Confidence 4556666554 566777888899999999888877776666555 22 35667788888888
No 256
>PF09123 DUF1931: Domain of unknown function (DUF1931); InterPro: IPR015207 This entry represents a set of hypothetical bacterial proteins containing a core of six alpha-helices, where one central helix is surrounded by the other five. The exact function of this family has not, as yet, been determined []. ; PDB: 1WWS_A 1WWI_A 1R4V_A.
Probab=30.60 E-value=34 Score=32.51 Aligned_cols=55 Identities=16% Similarity=0.245 Sum_probs=38.5
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHH
Q 009343 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILV 462 (537)
Q Consensus 407 LqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQL 462 (537)
|+.|.|.. .+.-+|++=.+-+.+++++=+.|++..|.+-||..+.++|+..|+=+
T Consensus 1 fe~lFR~a-a~LdvdK~d~~r~~d~V~~Kl~DLl~va~~~Ak~ngRdvI~~~DLPI 55 (138)
T PF09123_consen 1 FERLFRKA-AGLDVDKNDAKRYSDFVEKKLYDLLLVAQENAKANGRDVIEPRDLPI 55 (138)
T ss_dssp HHHHHHHH-HS----HHHHHHHHHHHHHHHHHCCCCHHHHHHHTT-SEE-GGGS--
T ss_pred ChHHHHHH-hccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeeccccCCc
Confidence 34566654 34567777777788999999999999999999999999999888743
No 257
>PF02885 Glycos_trans_3N: Glycosyl transferase family, helical bundle domain Prosite entry for Thymidine and pyrimidine-nucleoside phosphorylases; InterPro: IPR017459 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. The glycosyl transferase family includes anthranilate phosphoribosyltransferase (TrpD, 2.4.2.18 from EC) and thymidine phosphorylase (2.4.2.2 from EC). All these proteins can transfer a phosphorylated ribose substrate. Thymidine phosphorylase (2.4.2.2 from EC) catalyses the reversible phosphorolysis of thymidine, deoxyuridine and their analogues to their respective bases and 2-deoxyribose 1-phosphate. This enzyme regulates the availability of thymidine and is therefore essential to nucleic acid metabolism. This N-terminal domain is found in various family 3 glycosyl transferases, including anthranilate phosphoribosyltransferase (TrpD, 2.4.2.18 from EC) and thymidine phosphorylase (2.4.2.2 from EC). All these proteins can transfer a phosphorylated ribose substrate. Thymidine phosphorylase catalyses the reversible phosphorolysis of thymidine, deoxyuridine and their analogues to their respective bases and 2-deoxyribose 1-phosphate. This enzyme regulates the availability of thymidine and is therefore essential to nucleic acid metabolism.; PDB: 2DSJ_B 2ELC_B 2BPQ_A 1ZVW_B 3QR9_B 1V8G_B 2WK5_C 2J0F_C 2WK6_B 1UOU_A ....
Probab=30.48 E-value=29 Score=27.72 Aligned_cols=47 Identities=17% Similarity=0.270 Sum_probs=30.7
Q ss_pred HHHHHHhhCCCCCCCHH-HHHHHHHHHHHHHHHHHHHHHHhhhhcCCC
Q 009343 407 IQELVNQIDPSERLDPD-VEDILVDIAEDFVESITMFGCSLAKHRKSD 453 (537)
Q Consensus 407 LqELVrqIDP~e~LD~D-VEELLLeIADDFVDsVvs~ACkLAKHRKSd 453 (537)
|.++|+++-.+..|+.| +++++-.|.|+=++++--.|...|-+-|..
T Consensus 2 ~~~~l~~l~~g~~Ls~~e~~~~~~~i~~g~~s~~qiaAfL~al~~kge 49 (66)
T PF02885_consen 2 IKEILKKLRDGEDLSREEAKAAFDAILDGEVSDAQIAAFLMALRMKGE 49 (66)
T ss_dssp HHHHHHHHHTT----HHHHHHHHHHHHTTSS-HHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHcCCCCCHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCc
Confidence 56777777666777765 888888898888888888888777664444
No 258
>PF11247 DUF2675: Protein of unknown function (DUF2675) ; InterPro: IPR022611 Members in this family of proteins include Bacteriophage T7 gene 5.5; they have no known function.
Probab=30.27 E-value=1.1e+02 Score=27.91 Aligned_cols=42 Identities=17% Similarity=0.237 Sum_probs=34.1
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 009343 404 KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCS 445 (537)
Q Consensus 404 KrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACk 445 (537)
.+.|-+|++.++.++++|.--.++|..-..+=.|-++.|..+
T Consensus 26 ~e~ll~Lak~v~~GE~~~~~~re~l~qaLT~G~egav~f~~k 67 (98)
T PF11247_consen 26 EEDLLELAKKVGAGEKVSGFQREMLVQALTHGPEGAVAFVVK 67 (98)
T ss_pred HHHHHHHHhhcCCccccCHHHHHHHHHHHhcChHHHHHHHHH
Confidence 467889999999999999988888887777667777776655
No 259
>COG4749 Uncharacterized protein conserved in archaea [Function unknown]
Probab=30.20 E-value=52 Score=32.63 Aligned_cols=105 Identities=15% Similarity=0.242 Sum_probs=65.1
Q ss_pred cCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc--CCCCcc
Q 009343 401 ILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL--PGFSGD 478 (537)
Q Consensus 401 ILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I--PGfssD 478 (537)
+.+.++...-|.+|-. ..||++-||... +.+..+|+|+-.+.++-+.-++..|.-.|..-.||+-.++.+ +-|+.+
T Consensus 8 FYsq~Rw~NWl~r~rE-~elde~~ee~~~-vf~nm~dDViiAclki~~a~~~~~isk~~Av~ele~Ird~vlae~df~dE 85 (196)
T COG4749 8 FYSQSRWSNWLNRIRE-TELDEDNEETFA-VFDNMLDDVIIACLKIIRAVKEREISKADAVKELEKIRDLVLAEHDFGDE 85 (196)
T ss_pred HHHHHHHHHHHHHHHH-hhcCCcchHHHH-HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhhccCCCCchH
Confidence 4455666667777643 377777666554 667777788777777666666666666666677888777765 677765
Q ss_pred cccccC-------CC----------CCchHHHHHHHHHHHHhhhhh
Q 009343 479 EIKTFR-------KP----------LVCDIHKERLAAIKKSVMATE 507 (537)
Q Consensus 479 EIR~~R-------K~----------~pTEaHKQRMALIRKsI~s~~ 507 (537)
++...- |. -.-+..+.-+++||..+++..
T Consensus 86 dk~~l~d~vqtSl~avl~sfe~Yv~g~~~~~as~~el~kaAv~aEa 131 (196)
T COG4749 86 DKNELFDFVQTSLKAVLLSFELYVEGKISDKASFEELLKAAVKAEA 131 (196)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHh
Confidence 532100 00 001224456788888888764
No 260
>smart00047 LYZ2 Lysozyme subfamily 2. Eubacterial enzymes distantly related to eukaryotic lysozymes.
Probab=30.17 E-value=69 Score=29.63 Aligned_cols=40 Identities=15% Similarity=0.062 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 432 AEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 432 ADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
.++||+.|+..|.++++.-+--. .+-=-|.+||-.||-..
T Consensus 8 ~~~fi~~~~~~A~~~~~~~gi~~-Sv~iAQAiLESgwG~S~ 47 (147)
T smart00047 8 TLEFVGKIFNEAQKAYQINGVYP-SILIAQAALESGWGTSK 47 (147)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCH-HHHHHHHHHHcCCCCCC
Confidence 46899999999999998766441 23334889999999763
No 261
>PRK05870 enoyl-CoA hydratase; Provisional
Probab=30.16 E-value=48 Score=32.14 Aligned_cols=94 Identities=13% Similarity=0.031 Sum_probs=43.6
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHH-HHHH--HHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC-cccCCC
Q 009343 400 RILTKRSIQELVNQIDPSERLDPD-VEDI--LVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN-MTLPGF 475 (537)
Q Consensus 400 rILtKrKLqELVrqIDP~e~LD~D-VEEL--LLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWN-I~IPGf 475 (537)
+++..++..+|+-. +..|+.+ +.++ +-+++|++.+.+...+-++|+. ...-++-++..|.+.|+ ..+-..
T Consensus 149 ~~~G~~~a~~l~lt---g~~~~a~eA~~~Glv~~vv~~l~~~a~~~a~~la~~---~~~a~~~~K~~~~~~~~~~~l~~~ 222 (249)
T PRK05870 149 RAVGPQVARAALLF---GMRFDAEAAVRHGLALMVADDPVAAALELAAGPAAA---PRELVLATKASMRATASLAQHAAA 222 (249)
T ss_pred hhhCHHHHHHHHHh---CCccCHHHHHHcCCHHHHHhhHHHHHHHHHHHHHhC---CHHHHHHHHHHHHhccccCCHHHH
Confidence 44566677777752 2344433 2222 2223344444454444445443 22334445555555544 332111
Q ss_pred CcccccccCCCCCchHHHHHHHHH
Q 009343 476 SGDEIKTFRKPLVCDIHKERLAAI 499 (537)
Q Consensus 476 ssDEIR~~RK~~pTEaHKQRMALI 499 (537)
-..|...+.+...++++++.++..
T Consensus 223 ~~~e~~~~~~~~~~~d~~eg~~af 246 (249)
T PRK05870 223 VEFELGPQAASVQSPEFAARLAAA 246 (249)
T ss_pred HHHHHHHHHHHhcChhHHHHHHHH
Confidence 112333444455567777766543
No 262
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=29.92 E-value=1.8e+02 Score=33.41 Aligned_cols=73 Identities=15% Similarity=0.112 Sum_probs=52.0
Q ss_pred CCCcCCccCCHHHHHHHHHhhC---CCCCCCHHHHHHHHHHHHH-------------HHHHHHHHHHHhhhhcCCCCcch
Q 009343 394 SDEFGNRILTKRSIQELVNQID---PSERLDPDVEDILVDIAED-------------FVESITMFGCSLAKHRKSDTLEA 457 (537)
Q Consensus 394 ~~e~~nrILtKrKLqELVrqID---P~e~LD~DVEELLLeIADD-------------FVDsVvs~ACkLAKHRKSdTLEv 457 (537)
.+...+.....+-++-++++|. ..-.||.++.+.|...|.. .+-+++..|+-+|+-.+.+.|+.
T Consensus 310 ~~m~~~~~nr~k~~~~~~q~v~~d~~ip~~~~~Av~~li~~a~R~Ag~~~~Ltl~~rdl~~lv~~A~~ia~~~~~~~I~a 389 (647)
T COG1067 310 DTMPITDANRSKLVQFYVQELARDGNIPHLDKDAVEELIREAARRAGDQNKLTLRLRDLGNLVREAGDIAVSEGRKLITA 389 (647)
T ss_pred CCCCCChHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhccccceeccCHHHHHHHHHHhhHHHhcCCcccCcH
Confidence 3334444445555666677773 3357888877777776665 35578889999999999999999
Q ss_pred hhHHHHHhh
Q 009343 458 KDILVHLER 466 (537)
Q Consensus 458 KDVQLhLER 466 (537)
+||.-.|++
T Consensus 390 e~Ve~a~~~ 398 (647)
T COG1067 390 EDVEEALQK 398 (647)
T ss_pred HHHHHHHHh
Confidence 999888876
No 263
>PRK06245 cofG FO synthase subunit 1; Reviewed
Probab=29.70 E-value=5.9e+02 Score=25.80 Aligned_cols=21 Identities=14% Similarity=0.026 Sum_probs=13.8
Q ss_pred CCCCCchHHHHHHHHHHHHhh
Q 009343 484 RKPLVCDIHKERLAAIKKSVM 504 (537)
Q Consensus 484 RK~~pTEaHKQRMALIRKsI~ 504 (537)
++..+.+...+|+..|+...+
T Consensus 144 ~~~~~~~~~~~~l~~i~~a~~ 164 (336)
T PRK06245 144 HRGSPGKDPELRLETIENAGK 164 (336)
T ss_pred ccCCCCCCHHHHHHHHHHHHH
Confidence 555566667777777776543
No 264
>PF13690 CheX: Chemotaxis phosphatase CheX; PDB: 3HM4_B 3H4Y_A 3H2D_A 3IIC_B.
Probab=29.67 E-value=1.2e+02 Score=25.39 Aligned_cols=40 Identities=10% Similarity=0.207 Sum_probs=24.8
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 009343 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGC 444 (537)
Q Consensus 402 LtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~AC 444 (537)
+.|+-..+|++.+ ..+ ++|.+|.+.+.+-||.+-|+-.+.
T Consensus 19 ~~~~~a~~la~~m-g~~--~~~~~e~~~da~~El~NiI~G~~~ 58 (94)
T PF13690_consen 19 FDEELAKKLASAM-GEE--EEEDDEMVQDALGELANIIAGNAK 58 (94)
T ss_dssp E-HHHHHHHHHHH-SSS---SSHHHHHHHHHHHHHHHHHHHHH
T ss_pred ECHHHHHHHHHHh-CCC--CcchhHHHHHHHHHHHHHHHHHHH
Confidence 3688888999988 322 444666666666666665555444
No 265
>PF03885 DUF327: Protein of unknown function (DUF327); InterPro: IPR005585 The proteins in this family are around 140-170 residues in length. The proteins contain many conserved residues, with the most conserved motifs found in the central and C-terminal region. The function of these proteins is unknown. ; PDB: 2P61_A 2QUP_A.
Probab=29.60 E-value=50 Score=30.50 Aligned_cols=50 Identities=20% Similarity=0.345 Sum_probs=25.8
Q ss_pred HHHHHHHHHhhCCC-----CCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCC
Q 009343 404 KRSIQELVNQIDPS-----ERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSD 453 (537)
Q Consensus 404 KrKLqELVrqIDP~-----e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSd 453 (537)
...|++|+.+||.. ...+.+-...-.++.-+|++.|+..+.++-++++-+
T Consensus 42 ~e~L~~Ll~~I~~~G~~L~~~~t~~~l~~YK~~Vk~Fl~~~v~~~~~l~~~~~~~ 96 (147)
T PF03885_consen 42 EEELQELLDEIDEQGERLAESPTLENLKRYKELVKQFLKEVVKNGYKLEEESSWD 96 (147)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHT-----
T ss_pred HHHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHHHheeehcccCC
Confidence 36677777777531 122222233344677777777777777777666654
No 266
>PF08165 FerA: FerA (NUC095) domain; InterPro: IPR012560 The ferlin gene family are characterised by multiple tandem C2 domains and a C-terminal transmembrane domain. They are found in a wide range of species and their function remains unknown, however, mutations in its two most well-characterised members, dysferlin and otoferlin, have been implicated in human disease []. This is central domain A in proteins of the Ferlin family [].; GO: 0016021 integral to membrane
Probab=29.53 E-value=63 Score=26.81 Aligned_cols=38 Identities=8% Similarity=0.235 Sum_probs=23.7
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHH
Q 009343 421 DPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDIL 461 (537)
Q Consensus 421 D~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQ 461 (537)
+.++.++.+++-|++|+|+-. .|-.-++...+..-|.+
T Consensus 9 ~~~l~~~~~~lLdqlIeD~~~---pLP~~~~~~~~t~LD~~ 46 (66)
T PF08165_consen 9 EEELAELWLKLLDQLIEDCSK---PLPSLEGKPNATELDRQ 46 (66)
T ss_pred HHHHHHHHHHHHHHHHHHhcC---CCCCCCCCCCCCHHHHH
Confidence 456888999999999999644 33333333334444443
No 267
>PF04129 Vps52: Vps52 / Sac2 family ; InterPro: IPR007258 Vps52 complexes with Vps53 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=29.51 E-value=39 Score=36.77 Aligned_cols=88 Identities=19% Similarity=0.258 Sum_probs=52.9
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHH--HHHHHHHHHHHHHHHHhhhhc----CCCCcchhhHHHHHhhccCcc---c
Q 009343 402 LTKRSIQELVNQIDPSERLDPDVEDILV--DIAEDFVESITMFGCSLAKHR----KSDTLEAKDILVHLERNWNMT---L 472 (537)
Q Consensus 402 LtKrKLqELVrqIDP~e~LD~DVEELLL--eIADDFVDsVvs~ACkLAKHR----KSdTLEvKDVQLhLERnWNI~---I 472 (537)
=+|+++.+.|..+=....|.+++.+.|. ++-|+||.++++.-.++.... ..+.--++||.-.||+--... |
T Consensus 66 ~Nrk~~~~~L~~~i~~i~ipP~lI~~I~~~~v~e~~~~~~~~~~~k~~~~~~~~~~~~~~a~~d~~~~Le~L~~ka~~ri 145 (508)
T PF04129_consen 66 KNRKAVEEKLSPFIDDIVIPPDLIRSICEGPVNEQYIEELLELLKKKIFFSKDQSFKDSKAIKDVKPELEKLKNKAVERI 145 (508)
T ss_pred HhHHHHHHHHHHHHHHHcCCHHHHHhHhcCCCCHHHHHHHHHHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHHH
Confidence 3566666666655445678888777777 466778888777666554432 233445788887777643322 2
Q ss_pred CCCCcccccccCCCCCc
Q 009343 473 PGFSGDEIKTFRKPLVC 489 (537)
Q Consensus 473 PGfssDEIR~~RK~~pT 489 (537)
--|-.+.|+..|++..+
T Consensus 146 r~fl~~kI~~lr~~~tn 162 (508)
T PF04129_consen 146 RDFLLKKIKSLRKPKTN 162 (508)
T ss_pred HHHHHHHHHHHcCCCCc
Confidence 23334556666666544
No 268
>CHL00017 ndhH NADH dehydrogenase subunit 7
Probab=29.51 E-value=1.7e+02 Score=31.41 Aligned_cols=59 Identities=12% Similarity=0.136 Sum_probs=36.0
Q ss_pred CHHHHHHHHHhhCCC-------------CCCCHHHHHHHHHHHHHHHHHHHH-------HHHHhhhhcCCCCcchhhHH
Q 009343 403 TKRSIQELVNQIDPS-------------ERLDPDVEDILVDIAEDFVESITM-------FGCSLAKHRKSDTLEAKDIL 461 (537)
Q Consensus 403 tKrKLqELVrqIDP~-------------e~LD~DVEELLLeIADDFVDsVvs-------~ACkLAKHRKSdTLEvKDVQ 461 (537)
-|.+|.+|+.+|.++ .-|+++.++.++++.|+|-+++.+ .-.-+++-++--+|..+|..
T Consensus 137 ~RE~il~~~e~itG~R~~~~~~~~GGv~~Dl~~~~~~~i~~~l~~~~~~~~~~~~l~~~n~i~~~R~~gvGvl~~~~A~ 215 (393)
T CHL00017 137 ERELIYDLFEAATGMRMMHNYFRIGGVAADLPYGWIDKCLDFCDYFLTGVAEYQKLITRNPIFLERVEGVGIIGGEEAI 215 (393)
T ss_pred HHHHHHHHHHHhcCcccccCceeecccccCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCchHHHhcCCEEecCHHHHH
Confidence 377888888888542 245566666666666665444433 33335566666677777763
No 269
>PRK12711 flgJ flagellar rod assembly protein/muramidase FlgJ; Reviewed
Probab=29.40 E-value=58 Score=35.49 Aligned_cols=41 Identities=24% Similarity=0.209 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccC
Q 009343 432 AEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLP 473 (537)
Q Consensus 432 ADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IP 473 (537)
-++||+.|...|.+++|..+-.- ++-=-|-+||-.||-..-
T Consensus 215 ~~~FI~~Iap~Aqkvak~yGI~P-SV~IAQAALESGWG~S~L 255 (392)
T PRK12711 215 PEGFVAKIWTHAQKAARELGVDP-RALVAQAALETGWGRRGI 255 (392)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCH-HHHHHHHHHHccCCcccc
Confidence 38999999999999999888764 233368999999986653
No 270
>cd06571 Bac_DnaA_C C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple copies of DnaA, which is an ATPase, bind to 9-mers at the origin and form an initial complex in which the DNA strands are being separated in an ATP-dependent step.
Probab=29.28 E-value=41 Score=28.27 Aligned_cols=47 Identities=32% Similarity=0.392 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhcc-CcccCC
Q 009343 425 EDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNW-NMTLPG 474 (537)
Q Consensus 425 EELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnW-NI~IPG 474 (537)
++++-.+|+.| .| ...--+.+-|+.+.+.++.|.+||-+++ |+.+.-
T Consensus 2 ~~Ii~~Va~~~--~v-~~~~i~~~~R~~~~~~aR~ia~yl~~~~~~~s~~~ 49 (90)
T cd06571 2 ELIIEAVAEYF--GI-SVEDLRSKSRKKEIALARQIAMYLARELTGLSLPE 49 (90)
T ss_pred HHHHHHHHHHh--CC-CHHHHhcCCCCcCcchHHHHHHHHHHHHhCCCHHH
Confidence 56677778888 33 3444467778889999999999998885 666543
No 271
>cd08790 DED_DEDD Death Effector Domain of DEDD. Death Effector Domain (DED) found in DEDD. DEDD has been shown to block mitotic progression by inhibiting Cdk1 and to be involved in regulating the insulin signaling cascade. DEDD can bind to itself, to DEDD2, and to the two tandem DED-containing caspases, caspase-8 and -10. In general, DEDs comprise a subfamily of the Death Domain (DD) superfamily. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including PYRIN and CARD (Caspase activation and recruitment domain). They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=29.12 E-value=1.2e+02 Score=27.58 Aligned_cols=50 Identities=18% Similarity=0.294 Sum_probs=39.0
Q ss_pred HHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 406 SIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 406 KLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
.|++++..|| +.||.+=.|+|.-++.|||.+ .+..+.=+.+|+-+.||+.
T Consensus 4 ~lh~~l~~I~--e~L~~~DveaLkFLc~D~i~~----------~~~e~i~s~~~Lf~~Lee~ 53 (97)
T cd08790 4 SLHRMFDIVG--THLTHRDVRVLSFLFVDVIDD----------YERGLIRSGRDFLLALERQ 53 (97)
T ss_pred hHHHHHHHHH--HhcCHHHHHHHHHHhHHHhhh----------hhccCcCcHHHHHHHHHHc
Confidence 4889999885 688999999999999999963 2222333588999999986
No 272
>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau. This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.
Probab=29.03 E-value=97 Score=30.59 Aligned_cols=63 Identities=11% Similarity=0.147 Sum_probs=35.7
Q ss_pred CCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009343 402 LTKRSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (537)
Q Consensus 402 LtKrKLqELVrqID--P~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLE 465 (537)
++...|.++|+++- .+..+|+++.++|+++++.-+..+....=+++.+-+ ..|+.+||+-.+.
T Consensus 176 ~~~~~l~~~l~~~~~~~g~~i~~~a~~~l~~~~~g~~~~a~~~lekl~~~~~-~~it~~~v~~~~~ 240 (355)
T TIGR02397 176 IPLEDIVERLKKILDKEGIKIEDEALELIARAADGSLRDALSLLDQLISFGN-GNITYEDVNELLG 240 (355)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCChHHHHHHHHHHHhhcC-CCCCHHHHHHHhC
Confidence 35566666665532 345789999888888876444433333323332222 3477777765554
No 273
>KOG2018 consensus Predicted dinucleotide-utilizing enzyme involved in molybdopterin and thiamine biosynthesis [Posttranslational modification, protein turnover, chaperones]
Probab=28.96 E-value=1e+02 Score=33.63 Aligned_cols=66 Identities=11% Similarity=0.139 Sum_probs=44.4
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC--cccCCCCcccccccC
Q 009343 418 ERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN--MTLPGFSGDEIKTFR 484 (537)
Q Consensus 418 e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWN--I~IPGfssDEIR~~R 484 (537)
..||+-+-.-=+++.|..+...+..+.++--.-.. .|+++||-++.|.-|. -.|+|++.|++-..|
T Consensus 306 ~pmepi~~~nrlk~Yd~i~q~l~~e~~r~g~n~er-~l~leev~YiVeEv~~GrS~i~~~st~kltlvr 373 (430)
T KOG2018|consen 306 YPMEPIENKNRLKHYDLIHQRLIEEMTRYGTNAER-ELDLEEVSYIVEEVFHGRSAISGTSTDKLTLVR 373 (430)
T ss_pred CCCCcccccchhHHHHHHHHHHHHHHHHhCCCccc-cccHHHHHHHHHHHHcCCCCCCCcccceeEEEe
Confidence 44444433333566666666666666666544333 7999999999999998 447899998765443
No 274
>TIGR00496 frr ribosome recycling factor. This model finds only eubacterial proteins. Mitochondrial and/or chloroplast forms might be expected but are not currently known. This protein was previously called ribosome releasing factor. By releasing ribosomes from mRNA at the end of protein biosynthesis, it prevents inappropriate translation from 3-prime regions of the mRNA and frees the ribosome for new rounds of translation. EGAD|53116|YHR038W is part of the frr superfamily.
Probab=28.93 E-value=1e+02 Score=29.65 Aligned_cols=18 Identities=6% Similarity=0.475 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 009343 424 VEDILVDIAEDFVESITM 441 (537)
Q Consensus 424 VEELLLeIADDFVDsVvs 441 (537)
+|+-|-+|+|+||..|=.
T Consensus 147 ~~~~iQkltd~~i~~id~ 164 (176)
T TIGR00496 147 LQEEIQKLTDEYIKKIDE 164 (176)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 466677788888877644
No 275
>PF08367 M16C_assoc: Peptidase M16C associated; InterPro: IPR013578 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This domain appears in eukaryotes as well as bacteria and tends to be found near the C terminus of metalloproteases and related sequences belonging to MEROPS peptidase family M16 (subfamily M16C, clan ME). These include: eupitrilysin, falcilysin, PreP peptidase, CYM1 peptidase and subfamily M16C non-peptidase homologues.; GO: 0008237 metallopeptidase activity, 0008270 zinc ion binding, 0006508 proteolysis; PDB: 2FGE_B 3S5I_A 3S5H_A 3S5M_A 3S5K_A.
Probab=28.91 E-value=1.4e+02 Score=29.24 Aligned_cols=65 Identities=23% Similarity=0.223 Sum_probs=46.1
Q ss_pred HHHHHHHHhhCCCCCCCHH--HHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcc
Q 009343 405 RSIQELVNQIDPSERLDPD--VEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMT 471 (537)
Q Consensus 405 rKLqELVrqIDP~e~LD~D--VEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~ 471 (537)
.++-+|+++|=-+..+|+. ..++|.++..++..+|+..+-.+|..|-...+... ..+-|.-+||.
T Consensus 174 ~~~~~ll~eil~~~~f~d~~rl~~ll~~~~s~~~~~i~~~Gh~~A~~ra~s~~s~~--~~~~e~~~Gl~ 240 (248)
T PF08367_consen 174 DEAFELLSEILTETDFDDKERLKELLKELKSDMESSIISSGHSYAMSRASSYLSRS--GALDELWSGLS 240 (248)
T ss_dssp HHHHHHHHHHHHCB-TT-HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHCCCTT-HH--HHHHHHHHSHH
T ss_pred HHHHHHHHHHHhccCCCcHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCHH--HHHHHHHcCHH
Confidence 4567788887555667766 78999999999999999999999999999976433 33344444443
No 276
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=28.77 E-value=49 Score=27.07 Aligned_cols=19 Identities=21% Similarity=0.289 Sum_probs=7.3
Q ss_pred HHHHhhhhcCCCCcchhhH
Q 009343 442 FGCSLAKHRKSDTLEAKDI 460 (537)
Q Consensus 442 ~ACkLAKHRKSdTLEvKDV 460 (537)
+.+++|+.+..+..|++||
T Consensus 13 ~v~~~~~~~~~~~~~~~D~ 31 (158)
T TIGR02937 13 LLYRYARRYLGDDADAEDL 31 (158)
T ss_pred HHHHHHHHHhCCHhHHHHH
Confidence 3333333333333444444
No 277
>cd03567 VHS_GGA VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins. The VHS domain has a superhelical structure similar to the structure of the ARM (Armadillo) repeats and is present at the N-termini of proteins. GGA proteins have a multidomain structure consisting of an N-terminal VHS domain linked by a short proline-rich linker to a GAT (GGA and TOM) domain, which is followed by a long flexible linker to the C-terminal appendage, GAE (gamma-adaptin ear) domain. The VHS domain of GGA proteins binds to the acidic-cluster dileucine (DxxLL) motif found on the cytoplasmic tails of cargo proteins trafficked between the trans-Golgi network and the endosomal system.
Probab=28.55 E-value=1e+02 Score=28.62 Aligned_cols=47 Identities=17% Similarity=0.338 Sum_probs=27.8
Q ss_pred HHHHHHHH-HHHHHHHHHHHHHhhhhcC-CCCcchhhHHHHHhhccCcccC
Q 009343 425 EDILVDIA-EDFVESITMFGCSLAKHRK-SDTLEAKDILVHLERNWNMTLP 473 (537)
Q Consensus 425 EELLLeIA-DDFVDsVvs~ACkLAKHRK-SdTLEvKDVQLhLERnWNI~IP 473 (537)
..+.++|| ++|+++++...- .|+.+ ....+||+=.+.|=+.|...|+
T Consensus 71 ~~fh~evas~~Fl~el~kl~~--~k~~~~~~~~~Vk~kil~li~~W~~~f~ 119 (139)
T cd03567 71 ERFHSEVGKFRFLNELIKLVS--PKYLGSRTSEKVKTKIIELLYSWTLELP 119 (139)
T ss_pred HHHHHHHHhHHHHHHHHHHhc--cccCCCCCCHHHHHHHHHHHHHHHHHhc
Confidence 45667777 677776554331 12211 2235777777777788887664
No 278
>PRK09087 hypothetical protein; Validated
Probab=28.29 E-value=2.7e+02 Score=27.07 Aligned_cols=50 Identities=24% Similarity=0.074 Sum_probs=31.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHH---HHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 416 PSERLDPDVEDILVDIAEDFVESITM---FGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 416 P~e~LD~DVEELLLeIADDFVDsVvs---~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
-...|++||.+.|++-++.=+..+.. .--+.|+.++. .|++..|+-+|+.
T Consensus 169 ~~~~l~~ev~~~La~~~~r~~~~l~~~l~~L~~~~~~~~~-~it~~~~~~~l~~ 221 (226)
T PRK09087 169 RQLYVDPHVVYYLVSRMERSLFAAQTIVDRLDRLALERKS-RITRALAAEVLNE 221 (226)
T ss_pred cCCCCCHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHHh
Confidence 35789999999998876654444443 22233333343 3778888777764
No 279
>PF00346 Complex1_49kDa: Respiratory-chain NADH dehydrogenase, 49 Kd subunit; InterPro: IPR001135 This entry represents subunit D (NuoD) of NADH-quinone oxidoreductase (1.6.99.5 from EC), and subunit H (NdhH) of NAD(P)H-quinone oxidoreductase (1.6.5.- from EC). NADH-quinone (Q) oxidoreductase is a large and complex redox proton pump, which utilises the free energy derived from oxidation of NADH with lipophilic electron/proton carrier Q to translocate protons across the membrane to generate an electrochemical proton gradient []. Subunit D (NuoD) is a 49kDa polypeptide that appears to be evolutionarily important in determining the physiological function of complex I/NDH-1 [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0048038 quinone binding, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 2FUG_V 3M9S_4 3I9V_4 3IAS_4 3IAM_4 2YBB_4.
Probab=28.27 E-value=1.7e+02 Score=29.89 Aligned_cols=57 Identities=16% Similarity=0.263 Sum_probs=36.0
Q ss_pred HHHHHHHHHhhCC-------------CCCCCHHHHHHHHHHHHHHHHHHHHHHHH-------hhhhcCCCCcchhhH
Q 009343 404 KRSIQELVNQIDP-------------SERLDPDVEDILVDIAEDFVESITMFGCS-------LAKHRKSDTLEAKDI 460 (537)
Q Consensus 404 KrKLqELVrqIDP-------------~e~LD~DVEELLLeIADDFVDsVvs~ACk-------LAKHRKSdTLEvKDV 460 (537)
|.+|.+|+.+|.+ ..-|+++..+.|+++.|+|-+.+-+.--. +.+.++--+|+.+|.
T Consensus 15 RE~il~l~e~~tG~R~~~~~~~~GGV~~Dl~~~~~~~i~~~l~~~~~~~~~~~~l~~~n~~~~~R~~gvGvls~e~A 91 (272)
T PF00346_consen 15 REKILDLFERITGNRMHRSYIRPGGVRRDLPDGWLEDILEFLDEFEKRVEEYEDLLLDNPIFRDRLRGVGVLSAEDA 91 (272)
T ss_dssp HHHHHHHHHHHHSSSSS-TTBESSBBSS---TTHHHHHHHHHHHHHHHHHHHHHHHHSSSCHHHHHSSSS-BSHHHH
T ss_pred HHHHHHhcCcccceeeeecCCCccCccccCchhHHHHHHHHHHHHHHHHHHHHHhhccCcchhhccCCEeEECHHHH
Confidence 7788888888843 24567777777777777666555544433 556667778887776
No 280
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=28.16 E-value=1.5e+02 Score=28.68 Aligned_cols=63 Identities=11% Similarity=0.092 Sum_probs=36.6
Q ss_pred CCHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 402 LTKRSIQELVNQI--DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 402 LtKrKLqELVrqI--DP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
++...|.+.++.+ ..+..|++++.+.|++.++--+..+++..-+++.. .+.|+.+||...+.+
T Consensus 161 l~~~ei~~~l~~~~~~~~~~i~~~al~~l~~~~~gd~r~~~~~l~~~~~~--~~~it~~~v~~~~~~ 225 (319)
T PRK00440 161 LKKEAVAERLRYIAENEGIEITDDALEAIYYVSEGDMRKAINALQAAAAT--GKEVTEEAVYKITGT 225 (319)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHc--CCCCCHHHHHHHhCC
Confidence 4455555555554 23457899998888888764444444333333332 245677777655543
No 281
>PF13499 EF-hand_7: EF-hand domain pair; PDB: 1TCF_A 2TN4_A 1TN4_A 1A2X_A 2CT9_B 2OTG_B 2OS8_B 1SNL_A 3O4Y_A 3J04_E ....
Probab=28.15 E-value=1.9e+02 Score=21.83 Aligned_cols=29 Identities=3% Similarity=-0.029 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHhhhhcCCCCcchhhHH
Q 009343 433 EDFVESITMFGCSLAKHRKSDTLEAKDIL 461 (537)
Q Consensus 433 DDFVDsVvs~ACkLAKHRKSdTLEvKDVQ 461 (537)
++.++.++...++.+--.+...|+..+..
T Consensus 35 ~~~~~~~~~~~~~~~D~d~dG~i~~~Ef~ 63 (66)
T PF13499_consen 35 DEESDEMIDQIFREFDTDGDGRISFDEFL 63 (66)
T ss_dssp HHHHHHHHHHHHHHHTTTSSSSEEHHHHH
T ss_pred HHHHHHHHHHHHHHhCCCCcCCCcHHHHh
Confidence 66666676776777777777778777763
No 282
>PRK09103 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=27.93 E-value=1.3e+02 Score=35.09 Aligned_cols=33 Identities=15% Similarity=0.073 Sum_probs=25.9
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCC
Q 009343 421 DPDVEDILVDIAEDFVESITMFGCSLAKHRKSD 453 (537)
Q Consensus 421 D~DVEELLLeIADDFVDsVvs~ACkLAKHRKSd 453 (537)
++|+.++.-+|++..-...+..+|+|||.||.-
T Consensus 530 S~eA~~l~~~i~e~i~~~A~~aS~eLAkErG~f 562 (758)
T PRK09103 530 DGSANNLTHKTFEAIQYYLLKASNELAKEQGAC 562 (758)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 455667777777777778889999999999854
No 283
>PRK10569 NAD(P)H-dependent FMN reductase; Provisional
Probab=27.86 E-value=53 Score=31.26 Aligned_cols=26 Identities=15% Similarity=0.362 Sum_probs=21.1
Q ss_pred hCCCCCCCHHHHHHHHHHHHHHHHHH
Q 009343 414 IDPSERLDPDVEDILVDIAEDFVESI 439 (537)
Q Consensus 414 IDP~e~LD~DVEELLLeIADDFVDsV 439 (537)
.|.+..+|+++++.|-+++|+|++-+
T Consensus 147 ~d~~~~~d~~~~~rl~~~~~~~~~~~ 172 (191)
T PRK10569 147 YHHQPQFTPNLQTRLDEALETFWQAL 172 (191)
T ss_pred cccccccCHHHHHHHHHHHHHHHHHH
Confidence 35566789999999999999998644
No 284
>PRK02079 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional
Probab=27.59 E-value=1e+02 Score=26.66 Aligned_cols=24 Identities=25% Similarity=0.536 Sum_probs=15.6
Q ss_pred HHHHHhhCCCCCCCHHHHHHHHHHHHHH
Q 009343 408 QELVNQIDPSERLDPDVEDILVDIAEDF 435 (537)
Q Consensus 408 qELVrqIDP~e~LD~DVEELLLeIADDF 435 (537)
.++++.||+.. .|+|++..|+++|
T Consensus 39 ~~Iw~~~DG~~----tv~eIi~~L~~~y 62 (88)
T PRK02079 39 GEILGLIDGKR----TVAAIIAELQQQF 62 (88)
T ss_pred HHHHHHccCCC----CHHHHHHHHHHHc
Confidence 35677778744 5566666666666
No 285
>KOG2389 consensus Predicted bromodomain transcription factor [Transcription]
Probab=27.56 E-value=1.6e+02 Score=31.96 Aligned_cols=64 Identities=11% Similarity=0.244 Sum_probs=50.6
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 402 LtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
|.|-.....+..|. ...++.-+.|.|-+++-.||-++...|-+++-|-+.--..+.||.+.|+-
T Consensus 30 la~~avaQIcqslg-~~~~~~sale~Ltd~~~qyvQ~lgk~a~~~~n~anR~epnl~Div~Al~d 93 (353)
T KOG2389|consen 30 LARVAVAQICQSLG-YSSTQNSALETLTDVLQQYVQNLGKTAHRYSNLANRTEPNLFDIVLALQD 93 (353)
T ss_pred HHHHHHHHHHHhcC-CcccccHHHHHHHHHHHHHHHHHHhhhhhhhhhcCCCCccHHHHHHHHHH
Confidence 34445555555553 35666668999999999999999999999999998888888999888875
No 286
>PRK12921 2-dehydropantoate 2-reductase; Provisional
Probab=27.56 E-value=65 Score=31.17 Aligned_cols=32 Identities=9% Similarity=0.095 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009343 433 EDFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (537)
Q Consensus 433 DDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLE 465 (537)
.+.+..++...|++|+..|.+ ++-.++..+++
T Consensus 213 ~~l~~~~~~E~~~v~~a~G~~-~~~~~~~~~~~ 244 (305)
T PRK12921 213 RDLARALLRECLAVARAEGAP-LRDDVVEEIVK 244 (305)
T ss_pred HHHHHHHHHHHHHHHHHcCCC-CChhHHHHHHH
Confidence 345556666778888887765 34344444443
No 287
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=27.50 E-value=1.3e+02 Score=33.74 Aligned_cols=64 Identities=9% Similarity=0.107 Sum_probs=40.8
Q ss_pred HHHHHHHHhhCCCCCCCHHHH-HHHHHHHHH----HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhcc
Q 009343 405 RSIQELVNQIDPSERLDPDVE-DILVDIAED----FVESITMFGCSLAKHRKSDTLEAKDILVHLERNW 468 (537)
Q Consensus 405 rKLqELVrqIDP~e~LD~DVE-ELLLeIADD----FVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnW 468 (537)
....++++..-....+++++. +.|.+..+- =|.+++..|..+|..++.+.|+..|+.-.++|-|
T Consensus 325 ~~R~~Il~~~~~~~~l~~~~d~~~la~~t~G~sgadl~~l~~eAa~~a~r~~~~~i~~~d~~~a~~~v~ 393 (644)
T PRK10733 325 RGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGNKRVVSMVEFEKAKDKIM 393 (644)
T ss_pred HHHHHHHHHHhhcCCCCCcCCHHHHHhhCCCCCHHHHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHh
Confidence 334445554433444444432 223333322 5778899999999999999999999988887653
No 288
>PRK13343 F0F1 ATP synthase subunit alpha; Provisional
Probab=27.42 E-value=80 Score=35.15 Aligned_cols=31 Identities=19% Similarity=0.181 Sum_probs=18.6
Q ss_pred HHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH
Q 009343 408 QELVNQIDPSERLDPDVEDILVDIAEDFVES 438 (537)
Q Consensus 408 qELVrqIDP~e~LD~DVEELLLeIADDFVDs 438 (537)
.++++.|+....|+++.++.|.++..+|++.
T Consensus 469 ~~~~~~i~~~~~l~~~~~~~l~~~~~~~~~~ 499 (502)
T PRK13343 469 AALSLALESPRELDEAWLAALEEILREAGER 499 (502)
T ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHHHHHHh
Confidence 3445555555666666666666666666543
No 289
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=27.37 E-value=1.6e+02 Score=32.82 Aligned_cols=65 Identities=23% Similarity=0.240 Sum_probs=40.2
Q ss_pred HHHHHhhhhcCCCCcchhhHHHHHhhccCcc--------cCCCCcccccccCCCCCchHHHHHHHHHHHHhhhhh
Q 009343 441 MFGCSLAKHRKSDTLEAKDILVHLERNWNMT--------LPGFSGDEIKTFRKPLVCDIHKERLAAIKKSVMATE 507 (537)
Q Consensus 441 s~ACkLAKHRKSdTLEvKDVQLhLERnWNI~--------IPGfssDEIR~~RK~~pTEaHKQRMALIRKsI~s~~ 507 (537)
+.+-++++.-.....+++|+.-.|+.--+|- |||++. .........+|.-.+|+..|=.+|--.|
T Consensus 313 e~a~~~~~kl~~g~FtL~Df~~Ql~~m~kmGpl~~ll~miPG~~~--~~~~~~~~~~e~~~kr~~aIi~SMT~~E 385 (451)
T COG0541 313 EEAEKLAEKLKKGKFTLEDFLEQLEQMKKMGPLSKLLSMIPGMGM--KDSDKDIELDEKKLKRIEAIIDSMTPEE 385 (451)
T ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHHHHccCCHHHHHHhCCCCCC--CCchhhhhccHHHHHHHHHHHHcCCHHH
Confidence 5566666655555689999988888766653 899981 1111223345666666666655555544
No 290
>PF13963 Transpos_assoc: Transposase-associated domain
Probab=27.36 E-value=60 Score=27.00 Aligned_cols=34 Identities=24% Similarity=0.330 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHH---------HHhhhhcCCCCcchhhHHHHHhhc
Q 009343 432 AEDFVESITMFG---------CSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 432 ADDFVDsVvs~A---------CkLAKHRKSdTLEvKDVQLhLERn 467 (537)
+++||+-+.... |.-+|+++. ++..||..||-++
T Consensus 21 v~~Fi~~A~~~~~~~~~i~CPC~~C~N~~~--~~~~~V~~HL~~~ 63 (77)
T PF13963_consen 21 VEEFIDFAFSNPSNDNMIRCPCRKCKNEKR--QSRDDVHEHLVCR 63 (77)
T ss_pred HHHHHHHHHhcccCCCceECCchhhccCcc--CCHHHHHHHHHHh
Confidence 456666665544 566777776 6899999999875
No 291
>KOG3902 consensus Histone acetyltransferase PCAF/SAGA, subunit SUPT3H/SPT3 [Transcription]
Probab=27.32 E-value=4e+02 Score=28.86 Aligned_cols=60 Identities=22% Similarity=0.269 Sum_probs=39.0
Q ss_pred HHHHHHHHHhhCCCCCCCHHHH--HHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009343 404 KRSIQELVNQIDPSERLDPDVE--DILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (537)
Q Consensus 404 KrKLqELVrqIDP~e~LD~DVE--ELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLE 465 (537)
+-.|+.++-.. ++.-|+-+| .|+-+++--=|-.++-.+.++|-.|++..|..+|+.|-+.
T Consensus 27 ~veiQqmmf~s--Gei~~P~pett~Lved~V~gqvie~l~qa~eia~lrgsr~Itpedliflir 88 (352)
T KOG3902|consen 27 RVEIQQMMFQS--GEIPDPLPETTNLVEDNVRGQVIESLVQANEIADLRGSRSITPEDLIFLIR 88 (352)
T ss_pred HHHHHHHHHHh--CCCCCCcHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCccccChHHHHHHhh
Confidence 33455555543 233334444 3444555555566777899999999999999999966543
No 292
>PLN02353 probable UDP-glucose 6-dehydrogenase
Probab=27.30 E-value=1.6e+02 Score=32.26 Aligned_cols=73 Identities=3% Similarity=-0.039 Sum_probs=49.5
Q ss_pred HHHHHHHHHhhC---CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc----cCcccCCCC
Q 009343 404 KRSIQELVNQID---PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN----WNMTLPGFS 476 (537)
Q Consensus 404 KrKLqELVrqID---P~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn----WNI~IPGfs 476 (537)
.++|.+|.+.+- .-...+.++-|+..-+.+-|.+--+.|+..||+.-..--+++.||.-.+... |++--||+|
T Consensus 188 ~~~~~~lY~~~~~~~~i~~~s~~~AE~~K~~eN~~ra~~Iaf~NEla~lce~~giD~~eV~~~~~~d~rig~~~l~PG~G 267 (473)
T PLN02353 188 VQALKDVYAHWVPEERIITTNLWSAELSKLAANAFLAQRISSVNAMSALCEATGADVSQVSHAVGKDSRIGPKFLNASVG 267 (473)
T ss_pred HHHHHHHHHHhhcCCCEEecCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHhCCCCcCCCCCCCCCCC
Confidence 456778888774 3346788899999999999988888777766655444445666665555544 455556654
No 293
>COG1705 FlgJ Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=27.30 E-value=71 Score=32.00 Aligned_cols=40 Identities=18% Similarity=0.203 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcc
Q 009343 431 IAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMT 471 (537)
Q Consensus 431 IADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~ 471 (537)
-.+.||+.+...|..+++..+-.. .+.=.|-+||-+||-.
T Consensus 42 ~~~~Fi~~i~~~A~~~~~~~gi~~-Si~iAQAiLESgwGks 81 (201)
T COG1705 42 SQQAFIDKIAPAAQPLAQEYGILP-SITIAQAILESGWGKS 81 (201)
T ss_pred hHHHHHHHHHHHHHHHHHHhCCCH-HHHHHHHHHHcCCcch
Confidence 456799999999999999888774 4555689999999976
No 294
>PRK08215 sporulation sigma factor SigG; Reviewed
Probab=27.22 E-value=1.6e+02 Score=28.67 Aligned_cols=59 Identities=10% Similarity=0.099 Sum_probs=36.3
Q ss_pred cCCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhH-HHHHh
Q 009343 397 FGNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDI-LVHLE 465 (537)
Q Consensus 397 ~~nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDV-QLhLE 465 (537)
....+|++..+.+|+..+..+ |.+ .+-+|.+.|..-|...+.++. .+..++.|| |-.+-
T Consensus 14 ~~~~~l~~~~~~~l~~~~~~g---d~~---a~~~l~~~~~~~v~~~a~~~~----~~~~~aeDlvQe~~i 73 (258)
T PRK08215 14 SKLPVLKNEEMRELFERMQNG---DKE---AREKLINGNLRLVLSVIQRFN----NRGENVDDLFQVGCI 73 (258)
T ss_pred CCCCCCCHHHHHHHHHHHHcC---CHH---HHHHHHHHHHHHHHHHHHHHh----CCCCCHHHHHHHHHH
Confidence 444688999999999987422 332 344555555555555555554 445688998 43333
No 295
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=27.03 E-value=3.5e+02 Score=29.29 Aligned_cols=15 Identities=0% Similarity=0.142 Sum_probs=12.5
Q ss_pred CCCHHHHHHHHHHHH
Q 009343 419 RLDPDVEDILVDIAE 433 (537)
Q Consensus 419 ~LD~DVEELLLeIAD 433 (537)
.|++||.++|.+.++
T Consensus 296 ~l~~evl~~Ia~~~~ 310 (450)
T PRK14087 296 EVTEEAINFISNYYS 310 (450)
T ss_pred CCCHHHHHHHHHccC
Confidence 699999999887665
No 296
>PRK08444 hypothetical protein; Provisional
Probab=27.02 E-value=95 Score=32.59 Aligned_cols=100 Identities=17% Similarity=0.192 Sum_probs=56.5
Q ss_pred ccCCHHHHHHHHHhhCC----------CCCCC---HHHHHHHHHHHHHHH--HHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009343 400 RILTKRSIQELVNQIDP----------SERLD---PDVEDILVDIAEDFV--ESITMFGCSLAKHRKSDTLEAKDILVHL 464 (537)
Q Consensus 400 rILtKrKLqELVrqIDP----------~e~LD---~DVEELLLeIADDFV--DsVvs~ACkLAKHRKSdTLEvKDVQLhL 464 (537)
-.|+...|.+.+++... +..-+ +.++|++..|-++|- .--+-.+..+....++.-+..+|+.-.|
T Consensus 78 y~ls~eeI~~~a~~a~~~G~~ei~iv~G~~p~~~~e~y~e~ir~Ik~~~p~i~i~a~s~~Ei~~~a~~~g~~~~e~l~~L 157 (353)
T PRK08444 78 YTMSHEEILEIVKNSVKRGIKEVHIVSAHNPNYGYEWYLEIFKKIKEAYPNLHVKAMTAAEVDFLSRKFGKSYEEVLEDM 157 (353)
T ss_pred ccCCHHHHHHHHHHHHHCCCCEEEEeccCCCCCCHHHHHHHHHHHHHHCCCceEeeCCHHHHHHHHHHcCCCHHHHHHHH
Confidence 36899999888887621 11111 225566666665552 1111223333444444556788887777
Q ss_pred hhccCc-ccCCCCcccc---cccCCCCCchHHHHHHHHHHH
Q 009343 465 ERNWNM-TLPGFSGDEI---KTFRKPLVCDIHKERLAAIKK 501 (537)
Q Consensus 465 ERnWNI-~IPGfssDEI---R~~RK~~pTEaHKQRMALIRK 501 (537)
+.. |+ ++||-+ .|| +-+++.+++....+|...|.|
T Consensus 158 keA-Gl~~~~g~~-aEi~~~~vr~~I~p~k~~~~~~~~i~~ 196 (353)
T PRK08444 158 LEY-GVDSMPGGG-AEIFDEEVRKKICKGKVSSERWLEIHK 196 (353)
T ss_pred HHh-CcccCCCCC-chhcCHHHHhhhCCCCCCHHHHHHHHH
Confidence 664 54 788843 444 234566777777777666644
No 297
>PF07253 Gypsy: Gypsy protein; InterPro: IPR009882 This family consists of several Gypsy/Env proteins from Drosophila and Ceratitis fruit fly species. Gypsy is an endogenous retrovirus of Drosophila melanogaster. Phylogenetic studies suggest that occasional horizontal transfer events of gypsy occur between Drosophila species. Gypsy possesses infective properties associated with the products of the envelope gene that might be at the origin of these interspecies transfers [].
Probab=26.97 E-value=2.1e+02 Score=32.07 Aligned_cols=53 Identities=19% Similarity=0.181 Sum_probs=34.3
Q ss_pred hCCCCCCCHHHHHHHHHHHHHHHHHH--HHHHHHhhhhc--CCCCcchhhHHHHHhh
Q 009343 414 IDPSERLDPDVEDILVDIAEDFVESI--TMFGCSLAKHR--KSDTLEAKDILVHLER 466 (537)
Q Consensus 414 IDP~e~LD~DVEELLLeIADDFVDsV--vs~ACkLAKHR--KSdTLEvKDVQLhLER 466 (537)
++.....++...+.||.=+--|.++| +.+||.|||-- ++.-|+-+||+-.|+.
T Consensus 145 ~~~~~~~~~h~~~~ll~r~~ii~~~i~~i~~ai~lAk~~ivn~~iLd~~el~~i~~~ 201 (472)
T PF07253_consen 145 IKGDSVDTDHLATTLLHRNRIIKEEIQNIIRAIQLAKLNIVNSNILDHEELKSILSE 201 (472)
T ss_pred hcccccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChhhcChHHHHHHHHh
Confidence 34455556667777764222222222 77999999974 4557888888888877
No 298
>PRK13556 azoreductase; Provisional
Probab=26.95 E-value=92 Score=29.37 Aligned_cols=39 Identities=31% Similarity=0.423 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCccccc
Q 009343 429 VDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIK 481 (537)
Q Consensus 429 LeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGfssDEIR 481 (537)
..|++.|++.+.. +|. ..+|++.|| |++.||.++.|++.
T Consensus 20 ~~l~~~~~~~~~~------~~~-~~~V~~~DL-------~~~~~P~~~~~~~~ 58 (208)
T PRK13556 20 VKLYEAFLASYKE------AHP-NDTVVELDL-------YKEELPYVGVDMIN 58 (208)
T ss_pred HHHHHHHHHHHHH------hCC-CCeEEEEeC-------CCCCCCCCCHHHHH
Confidence 3566677765442 233 346788887 77888988887653
No 299
>PRK00373 V-type ATP synthase subunit D; Reviewed
Probab=26.89 E-value=48 Score=31.93 Aligned_cols=73 Identities=21% Similarity=0.277 Sum_probs=39.3
Q ss_pred HHHHHHHHHhh----CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH-hhhhcCCCCcchhhHHHHHhhccCcccCCCCc
Q 009343 404 KRSIQELVNQI----DPSERLDPDVEDILVDIAEDFVESITMFGCS-LAKHRKSDTLEAKDILVHLERNWNMTLPGFSG 477 (537)
Q Consensus 404 KrKLqELVrqI----DP~e~LD~DVEELLLeIADDFVDsVvs~ACk-LAKHRKSdTLEvKDVQLhLERnWNI~IPGfss 477 (537)
|+|.+.|+.++ +.-..+.+++++.+.+..+.|..-...++-. +.....+ .....+|....+.-+|..||-|..
T Consensus 31 k~Krd~L~~e~~~~~~~~~~~r~~~~~~~~~a~~~l~~a~~~~G~~~~~~~~~~-~~~~~~v~~~~~ni~GV~vP~~~~ 108 (204)
T PRK00373 31 KDKRDELIMEFFDILDEAKKLREEVEEELEEAYKDFLMARAVEGSLAVEEAAAS-PKESLEVDVSSKNIMGVVVPVIEL 108 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCHHHHHHHHhC-CCCCceEEEEeEEEEEEEeceEEe
Confidence 45555555554 2223344445555544444444444333321 1111112 345677778888999999999887
No 300
>PRK14127 cell division protein GpsB; Provisional
Probab=26.88 E-value=93 Score=28.36 Aligned_cols=19 Identities=21% Similarity=0.165 Sum_probs=14.4
Q ss_pred CCchHHHHHHHHHHHHhhh
Q 009343 487 LVCDIHKERLAAIKKSVMA 505 (537)
Q Consensus 487 ~pTEaHKQRMALIRKsI~s 505 (537)
..+-++.+||.-+-|.+=.
T Consensus 85 ~tn~DiLKRls~LEk~VFg 103 (109)
T PRK14127 85 ATNYDILKRLSNLEKHVFG 103 (109)
T ss_pred cchHHHHHHHHHHHHHHhc
Confidence 3556899999988886654
No 301
>cd02888 RNR_II_dimer Class II ribonucleotide reductase, dimeric form. Ribonucleotide reductase (RNR) catalyzes the reductive synthesis of deoxyribonucleotides from their corresponding ribonucleotides. It provides the precursors necessary for DNA synthesis. RNRs are separated into three classes based on their metallocofactor usage. Class I RNRs, found in eukaryotes, bacteria, and bacteriophage, use a diiron-tyrosyl radical. Class II RNRs, found in bacteria, bacteriophage, algae and archaea, use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs, found in anaerobic bacteria, bacteriophage, and archaea, use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. Many organisms have more than one class of RNR present in their genomes. All three RNRs have a ten-stranded alpha-beta barrel domain that is structurally similar to the domain of PFL (pyruvate formate lyase). Class II RNRs are found in bacteria that can live under both aerobic and anaerobic conditions. Many, bu
Probab=26.77 E-value=2.4e+02 Score=30.74 Aligned_cols=32 Identities=16% Similarity=0.163 Sum_probs=26.0
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC
Q 009343 421 DPDVEDILVDIAEDFVESITMFGCSLAKHRKS 452 (537)
Q Consensus 421 D~DVEELLLeIADDFVDsVvs~ACkLAKHRKS 452 (537)
++|+.++.-+|++..-...+..+|+|||.||.
T Consensus 315 S~ea~~~~~~i~~~i~~~a~~aS~~LA~e~G~ 346 (464)
T cd02888 315 SEEARELAERIMSFIRDAAYRASAELAKERGP 346 (464)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCc
Confidence 35667777777777777889999999999996
No 302
>PF02867 Ribonuc_red_lgC: Ribonucleotide reductase, barrel domain; InterPro: IPR000788 Ribonucleotide reductase (1.17.4.1 from EC) [, ] catalyzes the reductive synthesis of deoxyribonucleotides from their corresponding ribonucleotides. It provides the precursors necessary for DNA synthesis. RNRs divide into three classes on the basis of their metallocofactor usage. Class I RNRs, found in eukaryotes, bacteria, bacteriophage and viruses, use a diiron-tyrosyl radical, Class II RNRs, found in bacteria, bacteriophage, algae and archaea, use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs, found in anaerobic bacteria and bacteriophage, use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. Many organisms have more than one class of RNR present in their genomes. Ribonucleotide reductase is an oligomeric enzyme composed of a large subunit (700 to 1000 residues) and a small subunit (300 to 400 residues) - class II RNRs are less complex, using the small molecule B12 in place of the small chain []. The reduction of ribonucleotides to deoxyribonucleotides involves the transfer of free radicals, the function of each metallocofactor is to generate an active site thiyl radical. This thiyl radical then initiates the nucleotide reduction process by hydrogen atom abstraction from the ribonucleotide []. The radical-based reaction involves five cysteines: two of these are located at adjacent anti-parallel strands in a new type of ten-stranded alpha/beta-barrel; two others reside at the carboxyl end in a flexible arm; and the fifth, in a loop in the centre of the barrel, is positioned to initiate the radical reaction []. There are several regions of similarity in the sequence of the large chain of prokaryotes, eukaryotes and viruses spread across 3 domains: an N-terminal domain common to the mammalian and bacterial enzymes; a C-terminal domain common to the mammalian and viral ribonucleotide reductases; and a central domain common to all three [].; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0006260 DNA replication, 0055114 oxidation-reduction process, 0005971 ribonucleoside-diphosphate reductase complex; PDB: 1DQ3_A 1XJN_A 1XJK_A 3O0O_B 1XJF_A 3O0Q_A 1XJJ_A 1XJG_A 1XJM_B 3O0N_B ....
Probab=26.53 E-value=1.4e+02 Score=32.77 Aligned_cols=33 Identities=18% Similarity=0.151 Sum_probs=29.2
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCC
Q 009343 421 DPDVEDILVDIAEDFVESITMFGCSLAKHRKSD 453 (537)
Q Consensus 421 D~DVEELLLeIADDFVDsVvs~ACkLAKHRKSd 453 (537)
++|+.++..+|++..-...+..+|+|||+|+.=
T Consensus 308 S~ea~~~~~~i~e~i~~~a~~aS~~LA~e~G~~ 340 (538)
T PF02867_consen 308 SEEARELADEIFEHIYYAAYRASVELAKERGPF 340 (538)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-SS
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHhccCCcC
Confidence 478999999999999999999999999999964
No 303
>cd03561 VHS VHS domain family; The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It has a superhelical structure similar to that of the ARM (Armadillo) repeats and is present at the N-termini of proteins involved in intracellular membrane trafficking. There are four general groups of VHS domain containing proteins based on their association with other domains. The first group consists of proteins of the STAM/EAST/Hbp family which has the domain composition VHS-SH3-ITAM. The second consists of proteins with a FYVE domain C-terminal to VHS. The third consists of GGA proteins with a domain composition VHS-GAT (GGA and TOM)-GAE (gamma-adaptin ear) domain. The fourth consists of proteins with a VHS domain alone or with domains other than those mentioned above. In GGA proteins, VHS domains are involved in cargo recognition in trans-Golgi, thereby having a general me
Probab=26.52 E-value=1.3e+02 Score=26.87 Aligned_cols=46 Identities=15% Similarity=0.359 Sum_probs=31.8
Q ss_pred HHHHHHHH-HHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCC
Q 009343 426 DILVDIAE-DFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGF 475 (537)
Q Consensus 426 ELLLeIAD-DFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGf 475 (537)
.+..+|++ +|+++++. +++.+.....+||+-.+.|=.+|...+++.
T Consensus 71 ~f~~~i~s~~fl~~l~~----l~~~~~~~~~~Vk~kil~ll~~W~~~f~~~ 117 (133)
T cd03561 71 PFHLQVADKEFLLELVK----IAKNSPKYDPKVREKALELILAWSESFGGH 117 (133)
T ss_pred HHHHHHhhHHHHHHHHH----HhCCCCCCCHHHHHHHHHHHHHHHHHhcCC
Confidence 36678888 88888543 333332334578888888889999987764
No 304
>cd05392 RasGAP_Neurofibromin_like Neurofibromin-like proteins include the Saccharomyces cerevisiae RasGAP proteins Ira1 and Ira2, the closest homolog of neurofibromin, which is responsible for the human autosomal dominant disease neurofibromatosis type I (NF1). The RasGAP Ira1/2 proteins are negative regulators of the Ras-cAMP signaling pathway and conserved from yeast to human. In yeast Ras proteins are activated by GEFs, and inhibited by two GAPs, Ira1 and Ira2. Ras proteins activate the cAMP/protein kinase A (PKA) pathway, which controls metabolism, stress resistance, growth, and meiosis. Recent studies showed that the kelch proteins Gpb1 and Gpb2 inhibit Ras activity via association with Ira1 and Ira2. Gpb1/2 bind to a conserved C-terminal domain of Ira1/2, and loss of Gpb1/2 results in a destabilization of Ira1 and Ira2, leading to elevated levels of Ras2-GTP and uninhibited cAMP-PKA signaling. Since the Gpb1/2 binding domain on Ira1/2 is conserved in the human neurofibromin prote
Probab=26.34 E-value=3.9e+02 Score=27.27 Aligned_cols=21 Identities=19% Similarity=0.309 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 009343 426 DILVDIAEDFVESITMFGCSL 446 (537)
Q Consensus 426 ELLLeIADDFVDsVvs~ACkL 446 (537)
+.|.+++++|++.|+....++
T Consensus 126 ~~L~~~~~~~l~~I~~s~~~~ 146 (323)
T cd05392 126 DLLEKYCQKFIDAIISSLDRF 146 (323)
T ss_pred HHHHHHHHHHHHHHHHhHHhC
Confidence 568899999999999866444
No 305
>PRK07415 NAD(P)H-quinone oxidoreductase subunit H; Validated
Probab=26.29 E-value=5.8e+02 Score=27.56 Aligned_cols=59 Identities=14% Similarity=0.077 Sum_probs=34.9
Q ss_pred CHHHHHHHHHhhCCCC--------------CCCHHHHHHHHHHHHHHHHHH-------HHHHHHhhhhcCCCCcchhhHH
Q 009343 403 TKRSIQELVNQIDPSE--------------RLDPDVEDILVDIAEDFVESI-------TMFGCSLAKHRKSDTLEAKDIL 461 (537)
Q Consensus 403 tKrKLqELVrqIDP~e--------------~LD~DVEELLLeIADDFVDsV-------vs~ACkLAKHRKSdTLEvKDVQ 461 (537)
-|.++.+|+.+|.++- -|+++..+.++++.|+|-.++ +....-+++.++--+|..+|..
T Consensus 137 ~RE~il~~~e~itG~R~~~~~~~~~GGV~~Dl~~~~~~~i~~~l~~~~~~~~~~~~l~~~n~~~~~R~~gvGvl~~~~A~ 216 (394)
T PRK07415 137 EREMIYDLWEAATGQRLINNNYFRIGGVAADLPYGWLEKCLDFCDYFGPKIDEYEKLITNNPIFRRRIEGLGTISREEAI 216 (394)
T ss_pred HHHHHHHHHHHhccccccccCceeeCccccCCCHHHHHHHHHHHHHHHHHHHHHHHHHhCCchHHHhcCCEeecCHHHHH
Confidence 3677777777775422 345566665555555554333 3334445667777777777763
No 306
>smart00544 MA3 Domain in DAP-5, eIF4G, MA-3 and other proteins. Highly alpha-helical. May contain repeats and/or regions similar to MIF4G domains Ponting (TIBS) "Novel eIF4G domain homologues" in press
Probab=26.04 E-value=88 Score=26.38 Aligned_cols=46 Identities=15% Similarity=0.156 Sum_probs=19.1
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHH-HHHHHHHHHHHHHhhhhc
Q 009343 404 KRSIQELVNQIDPSERLDPDVEDILVDIA-EDFVESITMFGCSLAKHR 450 (537)
Q Consensus 404 KrKLqELVrqIDP~e~LD~DVEELLLeIA-DDFVDsVvs~ACkLAKHR 450 (537)
|+++..+|.+--...-+++.+ +.|.+|- .+|..+|+..+...|-++
T Consensus 2 ~k~i~~~l~ey~~~~D~~ea~-~~l~~L~~~~~~~~vv~~~i~~~le~ 48 (113)
T smart00544 2 KKKIFLIIEEYLSSGDTDEAV-HCLLELKLPEQHHEVVKVLLTCALEE 48 (113)
T ss_pred hhHHHHHHHHHHHcCCHHHHH-HHHHHhCCCcchHHHHHHHHHHHHcC
Confidence 455666665543222222222 2222221 135555555555544444
No 307
>TIGR02923 AhaC ATP synthase A1, C subunit. The A1/A0 ATP synthase is homologous to the V-type (V1/V0, vacuolar) ATPase, but functions in the ATP synthetic direction as does the F1/F0 ATPase of bacteria. The C subunit is part of the hydrophilic A1 "stalk" complex (AhaABCDEFG) which is the site of ATP generation and is coupled to the membrane-embedded proton translocating A0 complex.
Probab=25.99 E-value=1.1e+02 Score=30.33 Aligned_cols=48 Identities=15% Similarity=0.160 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHH-hhhhcCC-----------CCcchhhHHHHHhhccCcccCCCCccccc
Q 009343 430 DIAEDFVESITMFGCS-LAKHRKS-----------DTLEAKDILVHLERNWNMTLPGFSGDEIK 481 (537)
Q Consensus 430 eIADDFVDsVvs~ACk-LAKHRKS-----------dTLEvKDVQLhLERnWNI~IPGfssDEIR 481 (537)
...|.++|+++...++ ++|+.-. ..+|+++|..+++-..+ |+..|+||
T Consensus 280 ~~~E~~~d~~~~~~~~~~~~~~~~~~~~~~~yl~~ke~Ei~nlr~I~~gk~~----~l~~e~I~ 339 (343)
T TIGR02923 280 AVFERALDEYLIKMATKLSLRYPLSVGPVLGYILKKEREVRNLRAIARGKEE----GLPPEEIK 339 (343)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCchHHHHHHHHHHHHHHHHHHHHHHHHHc----CCCHHHHH
Confidence 3444455555555553 3444443 24577777666665432 55556654
No 308
>PRK06585 holA DNA polymerase III subunit delta; Reviewed
Probab=25.76 E-value=1.8e+02 Score=29.21 Aligned_cols=69 Identities=14% Similarity=0.198 Sum_probs=45.7
Q ss_pred CCHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 402 LTKRSIQELVNQI--DPSERLDPDVEDILVDIAED---FVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 402 LtKrKLqELVrqI--DP~e~LD~DVEELLLeIADD---FVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
+..+.|.++|++. .-+..||+++.++|++.+.. -+.+-++.-|.++. +..+|+.+||.-.+-..-...|
T Consensus 142 ~~~~~l~~~i~~~~~~~g~~i~~~a~~~L~~~~g~dl~~l~~EleKL~ly~~--~~~~It~edV~~lv~~~~e~~i 215 (343)
T PRK06585 142 DDERDLARLIDDELAEAGLRITPDARALLVALLGGDRLASRNEIEKLALYAH--GKGEITLDDVRAVVGDASALSL 215 (343)
T ss_pred CCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcC--CCCCCCHHHHHHHhCCcccccH
Confidence 4566667777666 45679999999999999886 44444444444443 2346999999776655444433
No 309
>smart00337 BCL BCL (B-Cell lymphoma); contains BH1, BH2 regions. (BH1, BH2, (BH3 (one helix only)) and not BH4(one helix only)). Involved in apoptosis regulation
Probab=25.68 E-value=1.2e+02 Score=26.08 Aligned_cols=43 Identities=14% Similarity=0.258 Sum_probs=29.2
Q ss_pred HHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH----------HHHHHHHhhhhcC
Q 009343 406 SIQELVNQIDPSERLDPDVEDILVDIAEDFVES----------ITMFGCSLAKHRK 451 (537)
Q Consensus 406 KLqELVrqIDP~e~LD~DVEELLLeIADDFVDs----------Vvs~ACkLAKHRK 451 (537)
.+.+|+++++- =++++.+.+.++|++..+| ++.|++.||++-.
T Consensus 15 ~f~~~~~~l~~---~~~~~~~~f~~Va~~lf~dg~inWGRIval~~F~~~la~~~~ 67 (100)
T smart00337 15 AFSSFSAQLHV---TPGTAIELFGEVATELFSDGNINWGRVVALLSFGGALAVKLV 67 (100)
T ss_pred HHHHHHHHhCC---CcccHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHH
Confidence 34455555443 2456788889999887655 4788999998753
No 310
>PRK05720 mtnA methylthioribose-1-phosphate isomerase; Reviewed
Probab=25.63 E-value=1.3e+02 Score=31.86 Aligned_cols=29 Identities=14% Similarity=0.157 Sum_probs=24.0
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 009343 421 DPDVEDILVDIAEDFVESITMFGCSLAKH 449 (537)
Q Consensus 421 D~DVEELLLeIADDFVDsVvs~ACkLAKH 449 (537)
.+++.+.|++-+++|+++.+...-++++|
T Consensus 111 ~~~~~~~l~~~a~~~~~e~~~~~~~I~~~ 139 (344)
T PRK05720 111 GAERKAALEEEAIEIHEEDVEINRAIGEH 139 (344)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788999999999999999766666665
No 311
>PRK14903 16S rRNA methyltransferase B; Provisional
Probab=25.58 E-value=1.3e+02 Score=32.17 Aligned_cols=64 Identities=20% Similarity=0.194 Sum_probs=40.3
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHH--HHHH-----HHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 403 TKRSIQELVNQIDPSERLDPDVEDILVDIAED--FVES-----ITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 403 tKrKLqELVrqIDP~e~LD~DVEELLLeIADD--FVDs-----Vvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
.+..|+.+|+++-...+||+.+..+|.-=+.+ |.++ +++.++.|||.++...+ |.-|...+.|+
T Consensus 52 ~~~~lD~~i~~~~~~~~l~~~~r~iLr~~~yel~~~~~~p~~aavneaV~lak~~~~~~f-VNaVLr~~~r~ 122 (431)
T PRK14903 52 KEELLDWYINQLLKKKDIPPAVRVALRMGAYQLLFMNSVPDYAAVSETVKLVKNENFKKL-VNAVLRRLRTV 122 (431)
T ss_pred HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhccCCCcceeHHHHHHHHhccchHHH-HHHHHHHHHHh
Confidence 35566777777644447899888776644444 3344 88999999997644332 45555555554
No 312
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=25.55 E-value=3.6e+02 Score=28.92 Aligned_cols=97 Identities=6% Similarity=0.033 Sum_probs=0.0
Q ss_pred CHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHH--------------------------HHHHHHHHHHHHhhhhcCCCC
Q 009343 403 TKRSIQELVNQI--DPSERLDPDVEDILVDIAE--------------------------DFVESITMFGCSLAKHRKSDT 454 (537)
Q Consensus 403 tKrKLqELVrqI--DP~e~LD~DVEELLLeIAD--------------------------DFVDsVvs~ACkLAKHRKSdT 454 (537)
...-+.+++++. +....|++||.+.|.+-.+ +|+..++... +...++...
T Consensus 264 d~e~r~~IL~~~~~~~~~~l~~ev~~~Ia~~~~~~~R~L~g~l~~l~~~~~~~~~~it~~~a~~~L~~~--~~~~~~~~~ 341 (440)
T PRK14088 264 DEETRKKIARKMLEIEHGELPEEVLNFVAENVDDNLRRLRGAIIKLLVYKETTGEEVDLKEAILLLKDF--IKPNRVKAM 341 (440)
T ss_pred CHHHHHHHHHHHHHhcCCCCCHHHHHHHHhccccCHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH--hccccccCC
Q ss_pred cchhhHHHHHhhccCcccCCCCcccccccCCC-CCchHHHHHHHHHHHHhhhh
Q 009343 455 LEAKDILVHLERNWNMTLPGFSGDEIKTFRKP-LVCDIHKERLAAIKKSVMAT 506 (537)
Q Consensus 455 LEvKDVQLhLERnWNI~IPGfssDEIR~~RK~-~pTEaHKQRMALIRKsI~s~ 506 (537)
|.+++|+-...+.||+.+ +||+.-+|. ....+-.-=|-|.|+....+
T Consensus 342 i~~~~I~~~V~~~~~i~~-----~~l~s~~R~~~i~~aR~iamyl~r~~~~~s 389 (440)
T PRK14088 342 DPIDELIEIVAKVTGVSR-----EEILSNSRNVKALLARRIGMYVAKNYLGSS 389 (440)
T ss_pred CCHHHHHHHHHHHcCCcH-----HHHhCCCCCccccHHHHHHHHHHHHHhCCC
No 313
>PF06576 DUF1133: Protein of unknown function (DUF1133); InterPro: IPR010557 This family consists of a number of hypothetical proteins from Escherichia coli O157:H7 and Salmonella typhi. The function of this family is unknown.
Probab=25.54 E-value=1.1e+02 Score=30.34 Aligned_cols=50 Identities=24% Similarity=0.315 Sum_probs=37.6
Q ss_pred cCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHH---------------HHHHHHHHHHHHhhhhcCC
Q 009343 401 ILTKRSIQELVNQIDPSERLDPDVEDILVDIAE---------------DFVESITMFGCSLAKHRKS 452 (537)
Q Consensus 401 ILtKrKLqELVrqIDP~e~LD~DVEELLLeIAD---------------DFVDsVvs~ACkLAKHRKS 452 (537)
-|+|.+|.|.++++-...--.+|.|.+|.||-+ -|||.||.... ++|.+.
T Consensus 54 kitKtaI~~aLr~mkKsGi~k~EL~~~~~eil~gK~kS~La~ctD~Eal~iDrVI~~vL--~~~~gl 118 (176)
T PF06576_consen 54 KITKTAINEALRRMKKSGISKPELEAFLREILNGKQKSWLAFCTDDEALFIDRVIGEVL--AEHPGL 118 (176)
T ss_pred cccHHHHHHHHHHHHHhcCCcHHHHHHHHHHhCcccccccceecchHHHHHHHHHHHHH--HhCcch
Confidence 468999999999998888888888888888753 38888876653 445443
No 314
>PF07464 ApoLp-III: Apolipophorin-III precursor (apoLp-III); InterPro: IPR010009 This family consists of several insect apolipoprotein-III sequences. Exchangeable apolipoproteins constitute a functionally important family of proteins that play critical roles in lipid transport and lipoprotein metabolism. Apolipophorin III (apoLp-III) is a prototypical exchangeable apolipoprotein found in many insect species that functions in transport of diacylglycerol (DAG) from the fat body lipid storage depot to flight muscles in the adult life stage [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0005576 extracellular region; PDB: 1EQ1_A.
Probab=25.54 E-value=1.2e+02 Score=28.98 Aligned_cols=25 Identities=12% Similarity=0.179 Sum_probs=15.9
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHH
Q 009343 418 ERLDPDVEDILVDIAEDFVESITMF 442 (537)
Q Consensus 418 e~LD~DVEELLLeIADDFVDsVvs~ 442 (537)
....++++++|.++.|+|++.+-.-
T Consensus 120 ~~~~e~l~~~~K~~~D~~~k~~~~~ 144 (155)
T PF07464_consen 120 EGANEKLQPAIKQAYDDAVKAAQKV 144 (155)
T ss_dssp -SS-GGGHHHHHHHHHHHHHHHHHH
T ss_pred HhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 6677777777777777777665443
No 315
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=25.51 E-value=2.3e+02 Score=29.33 Aligned_cols=68 Identities=12% Similarity=0.204 Sum_probs=48.3
Q ss_pred ccCCHHHHHHHHHhh--------------CCCCCCCHHHHHHHHHHHHHHH------------HHHHHHHHHhhhhcCCC
Q 009343 400 RILTKRSIQELVNQI--------------DPSERLDPDVEDILVDIAEDFV------------ESITMFGCSLAKHRKSD 453 (537)
Q Consensus 400 rILtKrKLqELVrqI--------------DP~e~LD~DVEELLLeIADDFV------------DsVvs~ACkLAKHRKSd 453 (537)
..|.-+.+++|++.+ |+-..||.+....|+++.+++. +.|...-..-|.+=.-.
T Consensus 91 ~~I~id~iR~l~~~~~~~p~~~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~ 170 (325)
T PRK08699 91 LQIKIDAVREIIDNVYLTSVRGGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLP 170 (325)
T ss_pred CCcCHHHHHHHHHHHhhCcccCCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCC
Confidence 458888888888776 5567899999999999999873 33333333334444456
Q ss_pred CcchhhHHHHHhhc
Q 009343 454 TLEAKDILVHLERN 467 (537)
Q Consensus 454 TLEvKDVQLhLERn 467 (537)
.++..|+.-.|+++
T Consensus 171 ~~~~~~~~~~L~~~ 184 (325)
T PRK08699 171 APSHEEALAYLRER 184 (325)
T ss_pred CCCHHHHHHHHHhc
Confidence 67788888788765
No 316
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=25.38 E-value=1.5e+02 Score=32.66 Aligned_cols=67 Identities=12% Similarity=0.123 Sum_probs=45.1
Q ss_pred cCCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009343 401 ILTKRSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (537)
Q Consensus 401 ILtKrKLqELVrqID--P~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWN 469 (537)
-|+...|.++|++|- .+..+|+++.++|.++++.-+.++++.-=+++.. .+.|+..||.-.+...|.
T Consensus 174 ~ls~~el~~~L~~i~~~egi~i~~~Al~~ia~~s~GdlR~aln~Lekl~~~--~~~It~~~V~~~l~~~~~ 242 (504)
T PRK14963 174 RLTEEEIAGKLRRLLEAEGREAEPEALQLVARLADGAMRDAESLLERLLAL--GTPVTRKQVEEALGLPPQ 242 (504)
T ss_pred CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhc--CCCCCHHHHHHHHCCCcH
Confidence 467888888887763 3567899999999999987666665544443333 235777777665554444
No 317
>PRK12322 NADH dehydrogenase subunit D; Provisional
Probab=25.38 E-value=3.2e+02 Score=29.09 Aligned_cols=58 Identities=10% Similarity=0.104 Sum_probs=35.7
Q ss_pred CHHHHHHHHHhhCCC-------------CCCCHHHHHHHHHHHHHHHHHHHHH-------HHHhhhhcCCCCcchhhH
Q 009343 403 TKRSIQELVNQIDPS-------------ERLDPDVEDILVDIAEDFVESITMF-------GCSLAKHRKSDTLEAKDI 460 (537)
Q Consensus 403 tKrKLqELVrqIDP~-------------e~LD~DVEELLLeIADDFVDsVvs~-------ACkLAKHRKSdTLEvKDV 460 (537)
-|.++.+|+..+-++ ..|+++.++.++++.|+|-..+-+. -.-+.+-++--+|..+|.
T Consensus 133 ~RE~i~~~~e~~tG~R~~~~~~~~GGv~~dl~~~~~~~i~~~l~~~~~~~~~~~~~~~~n~~~~~R~~gvGvl~~~~A 210 (366)
T PRK12322 133 EREMIINLLNELCGARLTFNYMRIGGVKWDAPDGWIEKVKEFVPYMREQLAGYHDLVTGNEIFLNRVKGVGIYSAEEA 210 (366)
T ss_pred HHHHHHHHHHHhhCccccccccccCCccccCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCchHHHhcCCeeecCHHHH
Confidence 477888888887442 2456677777777777654444333 333456666667766665
No 318
>PF10273 WGG: Pre-rRNA-processing protein TSR2; InterPro: IPR019398 The pre-rRNA-processing protein TSR2 is required for 20S pre-rRNA processing []. This family contains a distinctive WGG motif.
Probab=25.23 E-value=64 Score=27.46 Aligned_cols=38 Identities=24% Similarity=0.357 Sum_probs=19.3
Q ss_pred CHHHHHHHHHhh-----CCCCCCCHHHHHHHHHHHHHHHHHHH
Q 009343 403 TKRSIQELVNQI-----DPSERLDPDVEDILVDIAEDFVESIT 440 (537)
Q Consensus 403 tKrKLqELVrqI-----DP~e~LD~DVEELLLeIADDFVDsVv 440 (537)
++.|.+.|+..| +.+...-+|+||+|.++.|+-.+-++
T Consensus 29 s~~K~~~l~~~i~~~f~~~~~~~~~~le~~L~~~m~~eF~~~~ 71 (82)
T PF10273_consen 29 SQEKADWLAEVIVDWFTENKDPDADDLEDFLEDIMDDEFNTVV 71 (82)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhHcCcee
Confidence 355555555544 22233345566666666654444444
No 319
>COG1480 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]
Probab=25.22 E-value=1.3e+02 Score=35.00 Aligned_cols=75 Identities=17% Similarity=0.287 Sum_probs=56.7
Q ss_pred CCcCCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcc----hhhHHHHHhhccC
Q 009343 395 DEFGNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLE----AKDILVHLERNWN 469 (537)
Q Consensus 395 ~e~~nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLE----vKDVQLhLERnWN 469 (537)
.+-.+...+.++-.++...+++....|-|.++.+.++.|+|++.+.+---.+.+|-+.++-. ++-++=+|.|+.|
T Consensus 60 ~si~d~~~Tee~~k~~~~sv~~~y~~~~e~t~~~v~~~~~~~~~i~~vk~~~e~~~~~~~e~~~~~v~~~~~~l~~~~n 138 (700)
T COG1480 60 GSIEDEKATEEERKAASDSVEPVYKRDAEITQNIVQLYQNFFDAINEVKRSLEENEDENTEYSLKQVKQLKDRLLRDTN 138 (700)
T ss_pred ceechhhhhHHHHHHHHhccchhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhcccchhhHHHHHHHHHHHHHHHhhhcc
Confidence 44556677888999999999999999999999999999999998887664455554444211 2345556778777
No 320
>PRK05708 2-dehydropantoate 2-reductase; Provisional
Probab=25.20 E-value=1.2e+02 Score=30.35 Aligned_cols=6 Identities=50% Similarity=0.916 Sum_probs=2.3
Q ss_pred cccccc
Q 009343 193 MGVMGS 198 (537)
Q Consensus 193 mG~mGs 198 (537)
.|-||+
T Consensus 10 aGaiG~ 15 (305)
T PRK05708 10 AGSLGS 15 (305)
T ss_pred CCHHHH
Confidence 333443
No 321
>CHL00059 atpA ATP synthase CF1 alpha subunit
Probab=25.13 E-value=1.1e+02 Score=34.07 Aligned_cols=31 Identities=13% Similarity=0.295 Sum_probs=22.5
Q ss_pred HHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH
Q 009343 408 QELVNQIDPSERLDPDVEDILVDIAEDFVES 438 (537)
Q Consensus 408 qELVrqIDP~e~LD~DVEELLLeIADDFVDs 438 (537)
.+++++|+....|+++.++.|.++..+|++.
T Consensus 448 ~~~~~~i~~~~~~~~~~~~~l~~~~~~~~~~ 478 (485)
T CHL00059 448 PQFQEIISSTKTFTEEAEALLKEAIQEQLEL 478 (485)
T ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 3556666667778888888888877777765
No 322
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=25.11 E-value=1.2e+02 Score=33.59 Aligned_cols=63 Identities=11% Similarity=0.120 Sum_probs=38.5
Q ss_pred CCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009343 402 LTKRSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (537)
Q Consensus 402 LtKrKLqELVrqID--P~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLE 465 (537)
++...|.+.++++- .+..||+++.++|.++++.=+..++...-+|+.+. .+.|+.+||+-.+.
T Consensus 179 l~~~el~~~L~~~a~~egl~i~~eal~~La~~s~Gdlr~al~~LekL~~y~-~~~It~e~V~~ll~ 243 (585)
T PRK14950 179 HSVADMAAHLRKIAAAEGINLEPGALEAIARAATGSMRDAENLLQQLATTY-GGEISLSQVQSLLG 243 (585)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhc-CCCCCHHHHHHHhc
Confidence 34555666666552 34568999988888888754455555544555543 34577777754433
No 323
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=25.01 E-value=1.9e+02 Score=30.24 Aligned_cols=65 Identities=15% Similarity=0.173 Sum_probs=41.8
Q ss_pred CHHHHHHHHHhhCCCCCCCHH-HHHHHHHHHHHH----HHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 403 TKRSIQELVNQIDPSERLDPD-VEDILVDIAEDF----VESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 403 tKrKLqELVrqIDP~e~LD~D-VEELLLeIADDF----VDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
+.....++++..-....++++ ..+.|.++++.| |..++..|+.+|-.++.+.|+.+|+.-.+++-
T Consensus 303 ~~~~R~~Il~~~~~~~~~~~~~~~~~la~~t~g~sgadl~~l~~eA~~~a~~~~~~~i~~~d~~~A~~~~ 372 (389)
T PRK03992 303 DEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAICTEAGMFAIRDDRTEVTMEDFLKAIEKV 372 (389)
T ss_pred CHHHHHHHHHHHhccCCCCCcCCHHHHHHHcCCCCHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 445555566655444445432 223344444433 56788888888888888889999998888774
No 324
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=24.77 E-value=1.4e+02 Score=33.03 Aligned_cols=62 Identities=10% Similarity=0.098 Sum_probs=38.9
Q ss_pred CCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009343 402 LTKRSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL 464 (537)
Q Consensus 402 LtKrKLqELVrqID--P~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhL 464 (537)
++...|.+.+++|- .+..+|+++.++|.+.++.=+.+++..--+++-+-+ +.|+.+||.-.|
T Consensus 175 l~~~el~~~L~~ia~~Egi~i~~eAL~lIa~~s~GslR~alslLdqli~y~~-~~It~e~V~~ll 238 (491)
T PRK14964 175 IPTDKLVEHLVDIAKKENIEHDEESLKLIAENSSGSMRNALFLLEQAAIYSN-NKISEKSVRDLL 238 (491)
T ss_pred ccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhcC-CCCCHHHHHHHH
Confidence 35555666666652 356899999999999886545444444333333333 368888886543
No 325
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=24.71 E-value=1.6e+02 Score=30.23 Aligned_cols=11 Identities=18% Similarity=0.169 Sum_probs=5.4
Q ss_pred HHHHHHHHHHH
Q 009343 424 VEDILVDIAED 434 (537)
Q Consensus 424 VEELLLeIADD 434 (537)
.+++|..+++.
T Consensus 219 p~~~i~r~~~~ 229 (310)
T PRK00423 219 PIDYVPRFASE 229 (310)
T ss_pred HHHHHHHHHHH
Confidence 44555555553
No 326
>PRK06347 autolysin; Reviewed
Probab=24.71 E-value=80 Score=35.78 Aligned_cols=38 Identities=13% Similarity=0.178 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCc
Q 009343 432 AEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNM 470 (537)
Q Consensus 432 ADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI 470 (537)
.++||+.|...|.++||..+--- .|.=-|-+||-.||-
T Consensus 150 ~~~FI~~i~~~A~~~~~~~gi~a-Sv~iAQAiLESgwG~ 187 (592)
T PRK06347 150 VQSFIQTIQASSSQIAAENDLYA-SVMIAQAILESAYGT 187 (592)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCh-HHHHHHHHHHccCCc
Confidence 47999999999999999888553 455558899998875
No 327
>PF01385 OrfB_IS605: Probable transposase; InterPro: IPR001959 This entry represents a conserved region of a probable transposase family, which is found in a number of uncharacterised bacterial proteins. A novel insertion sequence (IS)-like element of the Bacillus PS3 (Thermophilic bacterium PS-3) that promotes expression of the alanine carrier protein-encoding gene belongs to this entry, including IS891 [], IS1136 [], and IS1341 []. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=24.67 E-value=93 Score=28.34 Aligned_cols=35 Identities=14% Similarity=0.172 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhH
Q 009343 426 DILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDI 460 (537)
Q Consensus 426 ELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDV 460 (537)
+=+..+.+||+..|+..-++.|...+.++|.++|+
T Consensus 189 ~k~~~~~~d~~hk~s~~iV~~~~~~~ve~l~~~~l 223 (227)
T PF01385_consen 189 RKIRNRRKDFLHKVSKKIVKEADEIGVEDLVVEDL 223 (227)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCeEeeCccEeCCC
Confidence 34457789999999999999999999999999987
No 328
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=24.34 E-value=1.7e+02 Score=34.24 Aligned_cols=62 Identities=10% Similarity=0.093 Sum_probs=37.7
Q ss_pred CCHHHHHHHHHhhCC--CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009343 402 LTKRSIQELVNQIDP--SERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL 464 (537)
Q Consensus 402 LtKrKLqELVrqIDP--~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhL 464 (537)
|+...|.+.|++|-. +..||+++.++|.++++-=+.++++..-+++.+ +...|+.+||.-.|
T Consensus 178 Ls~eeI~~~L~~Il~kEgi~id~eAL~~Ia~~A~GslRdAlnLLDqaia~-g~g~It~e~V~~lL 241 (709)
T PRK08691 178 MTAQQVADHLAHVLDSEKIAYEPPALQLLGRAAAGSMRDALSLLDQAIAL-GSGKVAENDVRQMI 241 (709)
T ss_pred CCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHHhCCCHHHHHHHHHHHHHh-cCCCcCHHHHHHHH
Confidence 456666666666633 457899999999999885444444443333333 33456666665443
No 329
>PF12422 Condensin2nSMC: Condensin II non structural maintenance of chromosomes subunit; InterPro: IPR024741 Subunit G2 is a non-SMC subunit of condensin II, which is involved in maintenance of the structural integrity of chromosomes. Condensin II is made up of SMC (structural maintenance of chromosomes) and non-SMC subunits. The non-SMC subunits bind to the catalytic ends of the SMC subunit dimer. The condensin holocomplex is able to introduce superhelical tension into DNA in an ATP hydrolysis- dependent manner, resulting in the formation of positive supercoils in the presence of topoisomerase I and of positive knots in the presence of topoisomerase II [].; GO: 0005634 nucleus
Probab=24.31 E-value=76 Score=29.46 Aligned_cols=41 Identities=10% Similarity=0.171 Sum_probs=29.5
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 009343 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFG 443 (537)
Q Consensus 402 LtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~A 443 (537)
+.=.+++++|..+-. .+.+.+|+++|+++.+-++...+..+
T Consensus 91 ~~~~~~R~~L~~f~~-~k~~~~v~~mL~rl~~PiL~r~L~~~ 131 (152)
T PF12422_consen 91 PLHSKFREVLLSFHS-QKKRKGVDEMLLRLYEPILWRALQAA 131 (152)
T ss_pred HhHHHHHHHHHHHHh-cccccchHHHHHHHHHHHHHHHHcCC
Confidence 344556666666633 44899999999999998888777544
No 330
>PRK06256 biotin synthase; Validated
Probab=24.22 E-value=1.2e+02 Score=30.58 Aligned_cols=52 Identities=17% Similarity=0.210 Sum_probs=27.8
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcc
Q 009343 405 RSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLE 456 (537)
Q Consensus 405 rKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLE 456 (537)
..|.+|++++-.++.|+.|-...|++..++-++++...|-++-++...+.++
T Consensus 5 ~~~~~~~~~~~~g~~~~~~e~~~ll~~~~~~~~~L~~~A~~~r~~~~g~~v~ 56 (336)
T PRK06256 5 DDILKLARKLLEGEGLTKEEALALLEIPDDDLLELLAAAYEVRKHFCGKKVK 56 (336)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHcCChHHHHHHHHHHHHHHHHhCCCeEE
Confidence 3456666666555555555333344443555666666665555555544443
No 331
>PF01934 DUF86: Protein of unknown function DUF86; InterPro: IPR008201 This entry describes prokaryotic proteins of unknown function.; PDB: 1YLM_A.
Probab=24.15 E-value=2.6e+02 Score=23.82 Aligned_cols=52 Identities=17% Similarity=0.169 Sum_probs=23.3
Q ss_pred HHHHHHHhhCCCCCC-CHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcch
Q 009343 406 SIQELVNQIDPSERL-DPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEA 457 (537)
Q Consensus 406 KLqELVrqIDP~e~L-D~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEv 457 (537)
+|.+++..++..+-+ |....+++......-++.++.-++.+++.++....+-
T Consensus 7 ~i~~~~~~~~~eef~~d~~~~~av~~~l~~~~e~~~di~~~i~~~~~~~~p~~ 59 (119)
T PF01934_consen 7 RIKEFTEGISREEFLSDRMLQDAVERNLQLIIEAIIDIAKHIISEEGLGKPGS 59 (119)
T ss_dssp -------------TT-SHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT----SS
T ss_pred chhhhhccccHHHHhcCHHHHHHHHHHHHHHHHHHhhhHHHHHHHhCCCCCcc
Confidence 345555455543333 5666677777777777777777777777666665433
No 332
>TIGR02541 flagell_FlgJ flagellar rod assembly protein/muramidase FlgJ. The N-terminal region of this protein acts directly in flagellar rod assembly. The C-terminal region is a flagellum-specific muramidase (peptidoglycan hydrolase) required for formation of the outer membrane L ring.
Probab=24.10 E-value=85 Score=32.72 Aligned_cols=43 Identities=16% Similarity=0.136 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 429 VDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 429 LeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
...-++||+.++..|.++||.-+-.. ++-=-|-+||-.||-..
T Consensus 145 ~~~~~~Fi~~i~p~A~~~a~~~Gip~-sv~iAQAaLESGWG~s~ 187 (294)
T TIGR02541 145 PGHPKSFVNSMLPHARKAAQQLGVPP-HLILAQAALESGWGQRQ 187 (294)
T ss_pred cCCHHHHHHHHHHHHHHHHHHhCCCH-HHHHHHHHHHccCCccc
Confidence 35568999999999999999888664 45555889999997554
No 333
>PRK06246 fumarate hydratase; Provisional
Probab=24.03 E-value=1.3e+02 Score=31.34 Aligned_cols=46 Identities=20% Similarity=0.255 Sum_probs=25.4
Q ss_pred CCHHHHHHHHHhh--CCCCCCCHHHHHHHHH--------HHHHHHHHHHHHHHHhh
Q 009343 402 LTKRSIQELVNQI--DPSERLDPDVEDILVD--------IAEDFVESITMFGCSLA 447 (537)
Q Consensus 402 LtKrKLqELVrqI--DP~e~LD~DVEELLLe--------IADDFVDsVvs~ACkLA 447 (537)
|...+|.+.|+++ +....|.+||.+.|.+ +|..+++.+++.+.--+
T Consensus 4 i~~~~i~~~v~~~~~~a~~~lp~Dv~~~l~~a~~~E~s~~ak~~l~~ileN~~iA~ 59 (280)
T PRK06246 4 IHVEDIIEAVAELCIEANYYLPDDVKEALKKAYEKEESPIGKEILKAILENAEIAK 59 (280)
T ss_pred ccHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhccChhHHHHHHHHHHHHHHHh
Confidence 4444555555543 3456677777777766 55555555555544333
No 334
>cd04400 RhoGAP_fBEM3 RhoGAP_fBEM3: RhoGAP (GTPase-activator [GAP] protein for Rho-like small GTPases) domain of fungal BEM3-like proteins. Bem3 is a GAP protein of Cdc42, and is specifically involved in the control of the initial assembly of the septin ring in yeast bud formation. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=23.98 E-value=2.9e+02 Score=25.95 Aligned_cols=33 Identities=6% Similarity=0.229 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 435 FVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 435 FVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
.+.-++.+-.++++|.+.+...++.+..++--+
T Consensus 136 ~L~~L~~~L~~V~~~s~~NkM~~~NLa~vf~P~ 168 (190)
T cd04400 136 LLYVLFSFLRKIIEHSDVNKMNLRNVCIVFSPT 168 (190)
T ss_pred HHHHHHHHHHHHHHhccccCCChHHhhhhcCCC
Confidence 445566777788888888877777776664443
No 335
>PRK06030 hypothetical protein; Provisional
Probab=23.97 E-value=1.5e+02 Score=27.48 Aligned_cols=85 Identities=13% Similarity=0.057 Sum_probs=48.1
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC-CCCcchhhHHHHHhhccC-cccCCCCc---cc-------ccccCC
Q 009343 418 ERLDPDVEDILVDIAEDFVESITMFGCSLAKHRK-SDTLEAKDILVHLERNWN-MTLPGFSG---DE-------IKTFRK 485 (537)
Q Consensus 418 e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRK-SdTLEvKDVQLhLERnWN-I~IPGfss---DE-------IR~~RK 485 (537)
+.|-..+++++..+|+.|- |. .+--+.|-|+ .+.+.++.|.+||-|++- +.++-.|. .+ ++..++
T Consensus 19 ~~i~~t~d~Ii~~Va~~f~--I~-~~di~sk~R~rk~i~~aRqIAMYL~r~~~~~sl~~IG~~FGRDHSTV~haikkIe~ 95 (124)
T PRK06030 19 ERLIELCEAVIDLLALAFG--VS-GAEIASPLRGRREVSRIRQIAMYVAHVSLGWPMNEVALAFGRDRTTVGHACHTVED 95 (124)
T ss_pred chhhcCHHHHHHHHHHHhC--CC-HHHHhCCCCCCcccchHHHHHHHHHHHHcCCCHHHHHHHHCCChhHHHHHHHHHHH
Confidence 3443355677777777772 22 2333566776 788899999999988763 54432221 11 111222
Q ss_pred CCCchHHHHHHHHHHHHhhh
Q 009343 486 PLVCDIHKERLAAIKKSVMA 505 (537)
Q Consensus 486 ~~pTEaHKQRMALIRKsI~s 505 (537)
...+++-+..+..|++.|+.
T Consensus 96 ~~~d~~lk~~v~~L~~~l~~ 115 (124)
T PRK06030 96 LRDDAAFDARVSVLERIVNS 115 (124)
T ss_pred HhhCHHHHHHHHHHHHHHHH
Confidence 22345566666666666644
No 336
>PRK06075 NADH dehydrogenase subunit D; Validated
Probab=23.96 E-value=4.4e+02 Score=28.22 Aligned_cols=57 Identities=7% Similarity=0.137 Sum_probs=33.9
Q ss_pred HHHHHHHHHhhCCC-------------CCCCHHHHHHHHHHHHHHHHHHHHHHHH-------hhhhcCCCCcchhhH
Q 009343 404 KRSIQELVNQIDPS-------------ERLDPDVEDILVDIAEDFVESITMFGCS-------LAKHRKSDTLEAKDI 460 (537)
Q Consensus 404 KrKLqELVrqIDP~-------------e~LD~DVEELLLeIADDFVDsVvs~ACk-------LAKHRKSdTLEvKDV 460 (537)
|+.+.+|+..|.++ ..|+++-.+.|+++.|.|-+.+-+..-. +++.++--+|..+|+
T Consensus 134 RE~~~~l~e~itG~R~~~~~~~~GGv~~dl~~~~~~~i~~~l~~~~~~~~~~~~~~~~n~~~~~R~~gvGvl~~~~A 210 (392)
T PRK06075 134 REKLLDLYEAVTGARMHHAYIRPGGVRRDLPDGLLEDIRDFLDYFPKRLDDYETLLTDNRIWKQRLVGVGVVSKERA 210 (392)
T ss_pred HHHHHHHHHHHcCCCcccCceecCceecCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCchHHHhcCcEeecCHHHH
Confidence 67788888887542 2466666666666555555554444333 444556666766665
No 337
>PRK05684 flgJ flagellar rod assembly protein/muramidase FlgJ; Validated
Probab=23.94 E-value=85 Score=33.06 Aligned_cols=42 Identities=17% Similarity=0.179 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 430 DIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 430 eIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
.-.++||+.|...|.++||.-|-.. .+-=-|-+||-.||-..
T Consensus 150 ~s~~~FI~~i~p~A~~~a~~~GIp~-svilAQAaLESGWG~s~ 191 (312)
T PRK05684 150 GSSDDFVARLSPPAQKAAQQSGVPH-HLLLAQAALESGWGQRE 191 (312)
T ss_pred CCHHHHHHHHHHHHHHHHHHhCcCH-HHHHHHHHHhccCCccc
Confidence 4458999999999999999887664 44445889999997553
No 338
>cd01936 Ntn_CA Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and 7-aminocephalosporanic acid (7-ACA), which can be used to synthesize semi-synthetic penicillins and cephalosporins, respectively. While both PGA and CA have a conserved Ntn (N-terminal nucleophile) hydrolase fold and the structural similarity at their active sites is very high, their sequence similarity to other Ntn's is low.
Probab=23.88 E-value=1.7e+02 Score=31.78 Aligned_cols=64 Identities=13% Similarity=0.312 Sum_probs=32.9
Q ss_pred HHHHHHHHHhhCCCCCCCHH-HHHHHHH----HHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 404 KRSIQELVNQIDPSERLDPD-VEDILVD----IAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 404 KrKLqELVrqIDP~e~LD~D-VEELLLe----IADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
-.++++|+.++....+++.+ ++++.+| +|+.|++.++. +|.. ......++++. +.+=++||...
T Consensus 337 ~~Ri~~ll~~~~~~~~~t~~d~~~~q~D~~~~~a~~l~~~L~~-~~~~---~~~~~~~~~~a-~~~L~~WD~~~ 405 (469)
T cd01936 337 SLRTRMGLEELQPGGRFTLEELQALKFDNRLYLAERVLPDLLA-ACAA---SDDAAADLAAA-CAVLAAWDRTA 405 (469)
T ss_pred HHHHHHHHhhcccCCCCCHHHHHHHhhCccchhHHHHHHHHHH-HHhh---cCCCCHHHHHH-HHHHHHhcCCC
Confidence 44677888766334456544 6666665 45566655543 3432 11222234444 33444688653
No 339
>KOG2948 consensus Predicted metal-binding protein [General function prediction only]
Probab=23.88 E-value=1.3e+02 Score=32.15 Aligned_cols=69 Identities=23% Similarity=0.396 Sum_probs=41.3
Q ss_pred HHHHHHHHhh--CCCCCCCHHH----HHHHHHHHHHHHHHHHHHHHH-----------hhhhcCCC---Ccch-------
Q 009343 405 RSIQELVNQI--DPSERLDPDV----EDILVDIAEDFVESITMFGCS-----------LAKHRKSD---TLEA------- 457 (537)
Q Consensus 405 rKLqELVrqI--DP~e~LD~DV----EELLLeIADDFVDsVvs~ACk-----------LAKHRKSd---TLEv------- 457 (537)
-.|-++|.++ |+++.=|++. .+++--+-.||++.|-.-+|. |||.-+.+ .|.+
T Consensus 148 ~~l~~rv~~~N~~w~e~~~~~~~e~F~~Am~~vg~ef~~~v~~~~~sWlPar~~v~~ai~er~~~d~sG~i~v~~~~cPW 227 (327)
T KOG2948|consen 148 TSLSHRVGRFNPDWNEDSDDDEDERFQRAMDLVGKEFVNSVKFYANSWLPARELVEEAIAERFDVDPSGIILVLKQFCPW 227 (327)
T ss_pred cchHHHHhhcCCCcccCcchhHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHhcCCCCCceEEEecCCCch
Confidence 3455666655 4454322333 345555667899888877753 33332321 2222
Q ss_pred hhHHHHHhhccCcccC
Q 009343 458 KDILVHLERNWNMTLP 473 (537)
Q Consensus 458 KDVQLhLERnWNI~IP 473 (537)
||..|.||+++|+...
T Consensus 228 k~hlfelE~e~~ie~~ 243 (327)
T KOG2948|consen 228 KEHLFELEKEYKIEVK 243 (327)
T ss_pred HHHHHHHHHHhCCCcc
Confidence 8999999999998865
No 340
>PF14677 FANCI_S3: FANCI solenoid 3; PDB: 3S51_A 3S4Z_A 3S4W_A.
Probab=23.83 E-value=2.3e+02 Score=28.16 Aligned_cols=54 Identities=11% Similarity=0.287 Sum_probs=34.8
Q ss_pred HHHHHHHHHhhCCCC-CCC--HHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHH
Q 009343 404 KRSIQELVNQIDPSE-RLD--PDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILV 462 (537)
Q Consensus 404 KrKLqELVrqIDP~e-~LD--~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQL 462 (537)
.+|+.++++.||... .-+ .|+.+.+.++-+.|-+.+.++-- ...+....|++.+
T Consensus 114 ~~k~~~FL~~i~~~~~~~~~~~d~~~~i~~~I~~f~r~~~~~~s-----~~~e~~~~K~~~~ 170 (219)
T PF14677_consen 114 PDKFSQFLSAIDMTDDNAEEEKDLTERIQFQIRQFQRELENFLS-----SEEEDFNSKEAVL 170 (219)
T ss_dssp GGGHHHHHHHTS----STTTT-HHHHHHHHHHHHHHHHHHHHHH-----S--SS--SHHHHH
T ss_pred hHHHHHHHHHhccccCCccccccHHHHHHHHHHHHHHHHhhccc-----cccccccchhHHH
Confidence 578999999998642 222 58999999999999998887644 3344445566543
No 341
>TIGR02850 spore_sigG RNA polymerase sigma-G factor. Members of this family comprise the Firmicutes lineage endospore formation-specific sigma factor SigG. It is also desginated stage III sporulation protein G (SpoIIIG). This protein is rather closely related to sigma-F (SpoIIAC), another sporulation sigma factor.
Probab=23.76 E-value=1.9e+02 Score=28.11 Aligned_cols=54 Identities=9% Similarity=0.089 Sum_probs=34.3
Q ss_pred cCCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhH
Q 009343 397 FGNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDI 460 (537)
Q Consensus 397 ~~nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDV 460 (537)
....+|++....+|+..+-.+ |. +.+-+|.+.|..-|...|.++. .+..++.||
T Consensus 11 ~~~~~l~~~~~~~li~~~~~g---d~---~a~~~L~~~~~~~v~~~a~~~~----~~~~~aeDl 64 (254)
T TIGR02850 11 SKLPVLKNQEMRELFIRMQSG---DT---TAREKLINGNLRLVLSVIQRFN----NRGEYVDDL 64 (254)
T ss_pred cCCCCCCHHHHHHHHHHHHcC---CH---HHHHHHHHHhHHHHHHHHHHHh----CCCCCHHHH
Confidence 456788999999999877322 32 3455555666665555555544 344678888
No 342
>KOG0406 consensus Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]
Probab=23.67 E-value=1.6e+02 Score=30.01 Aligned_cols=55 Identities=15% Similarity=0.222 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhh-cCCCCc-----chhhHHHHHhhccCcccCCCCcc
Q 009343 424 VEDILVDIAEDFVESITMFGCSLAKH-RKSDTL-----EAKDILVHLERNWNMTLPGFSGD 478 (537)
Q Consensus 424 VEELLLeIADDFVDsVvs~ACkLAKH-RKSdTL-----EvKDVQLhLERnWNI~IPGfssD 478 (537)
-+.+..++--+|||+++..++....- ++.+.. |+..+.-+||+++.-.=+.|+++
T Consensus 95 y~Ra~arfwa~~id~~~~~~~~~~~~~~~~e~~~~~~~e~~e~l~~lE~el~k~k~~fgG~ 155 (231)
T KOG0406|consen 95 YERAQARFWAEYIDKKVFFVGRFVVAAKGGEEQEAAKEELREALKVLEEELGKGKDFFGGE 155 (231)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHhhcCchHHHHHHHHHHHHHHHHHHHHhcCCCCCCCC
Confidence 55566666666666655544433322 222222 36667778888877444445543
No 343
>PRK12712 flgJ flagellar rod assembly protein/muramidase FlgJ; Provisional
Probab=23.61 E-value=91 Score=33.43 Aligned_cols=40 Identities=13% Similarity=0.078 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 432 AEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 432 ADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
.++||+.|...|.++||.-|-.. .|-=-|-+||-.||-.+
T Consensus 197 ~~~FI~~l~p~A~~aa~~~Gi~p-sv~lAQAaLESGWGks~ 236 (344)
T PRK12712 197 VSAFVARMAGPAEAASRASGVPA-RLIVGQAALESGWGRRE 236 (344)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCh-HHHHHHHHHHccCCccc
Confidence 39999999999999999988664 45555899999998654
No 344
>PF09869 DUF2096: Uncharacterized protein conserved in archaea (DUF2096); InterPro: IPR017098 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=23.53 E-value=1.8e+02 Score=28.68 Aligned_cols=66 Identities=26% Similarity=0.373 Sum_probs=37.9
Q ss_pred HHHHHHHHHH---HHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc-cCccc---CCCCcccccccCCCCCchHHHHHH
Q 009343 424 VEDILVDIAE---DFVESITMFGCSLAKHRKSDTLEAKDILVHLERN-WNMTL---PGFSGDEIKTFRKPLVCDIHKERL 496 (537)
Q Consensus 424 VEELLLeIAD---DFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn-WNI~I---PGfssDEIR~~RK~~pTEaHKQRM 496 (537)
|.+.|++||| |+.+.-++...+..+ |. +|+.|.+.+. ||-.+ +||.. .|-....+.|.+|+
T Consensus 61 vQ~~L~~l~d~~~d~~~~~l~km~kA~r--gE-----~~~~fp~~kS~Fn~~v~~p~~~~~-----iRv~l~~~i~~erl 128 (169)
T PF09869_consen 61 VQSILFDLCDEGEDYRKKWLDKMKKASR--GE-----LVFEFPLKKSKFNPEVKAPPGFET-----IRVKLKKPIQEERL 128 (169)
T ss_pred HHHHHHHHHhccHHHHHHHHHHHHHHhc--cc-----hhhcCcchhhhhhhhcCCCCCcee-----EEEecCccchHHHH
Confidence 5677788887 666666665544433 22 3455555553 33222 34333 23345668899999
Q ss_pred HHHHH
Q 009343 497 AAIKK 501 (537)
Q Consensus 497 ALIRK 501 (537)
..|-.
T Consensus 129 ~ei~E 133 (169)
T PF09869_consen 129 QEISE 133 (169)
T ss_pred HHHHH
Confidence 88754
No 345
>PF07697 7TMR-HDED: 7TM-HD extracellular; InterPro: IPR011624 This entry represents the extracellular domain of the 7TM-HD (7TM Receptors with HD hydrolase) protein family []. These proteins are known or predicted, to posses metal-dependent phospohydrolase activity.
Probab=23.44 E-value=2e+02 Score=26.51 Aligned_cols=54 Identities=26% Similarity=0.402 Sum_probs=42.9
Q ss_pred CccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHH-------HHhhhhcCC
Q 009343 399 NRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFG-------CSLAKHRKS 452 (537)
Q Consensus 399 nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~A-------CkLAKHRKS 452 (537)
+...++++-++.+..|.+-..+|+++.+-+.+-.++|++.+.... -.|.+++-+
T Consensus 21 D~~~t~~~r~~a~~~v~pvy~~d~~~~~~~~~~~~~~f~~i~~~~~~~~~~~~~l~~~~~~ 81 (222)
T PF07697_consen 21 DEEATEQRRQEAAESVPPVYDFDPEVAEEVINRLEEFFEEIREIRQDSESEKDQLEKIKQS 81 (222)
T ss_pred CHHHHHHHHHHHHhcCCcceecCcHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHhhch
Confidence 456688889999999999999999999988888888887776665 455555444
No 346
>PRK08084 DNA replication initiation factor; Provisional
Probab=23.41 E-value=3.5e+02 Score=26.17 Aligned_cols=18 Identities=22% Similarity=0.228 Sum_probs=14.5
Q ss_pred CCCCCCHHHHHHHHHHHH
Q 009343 416 PSERLDPDVEDILVDIAE 433 (537)
Q Consensus 416 P~e~LD~DVEELLLeIAD 433 (537)
-+..|++||.+.|++-++
T Consensus 183 ~~~~l~~~v~~~L~~~~~ 200 (235)
T PRK08084 183 RGFELPEDVGRFLLKRLD 200 (235)
T ss_pred cCCCCCHHHHHHHHHhhc
Confidence 357889999999888776
No 347
>KOG1103 consensus Predicted coiled-coil protein [Function unknown]
Probab=23.35 E-value=2.2e+02 Score=31.56 Aligned_cols=64 Identities=25% Similarity=0.335 Sum_probs=46.6
Q ss_pred CcCCccCCHHHHHHHHHhhCCCCCCCHHHHHHHH--HHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcc
Q 009343 396 EFGNRILTKRSIQELVNQIDPSERLDPDVEDILV--DIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMT 471 (537)
Q Consensus 396 e~~nrILtKrKLqELVrqIDP~e~LD~DVEELLL--eIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~ 471 (537)
|.+-.-|+|..|..|+.-+.+....-+||+|.|. +--|-||+ ||+ ..+.+.|-...|.|.|.|.
T Consensus 6 eqgvnd~Sk~ELl~LfS~lEGEleARd~VIdaLKraqhkd~fiE---------~kY---GK~NinDP~~ALqRDf~~l 71 (561)
T KOG1103|consen 6 EQGVNDFSKDELLKLFSFLEGELEARDDVIDALKRAQHKDLFIE---------AKY---GKLNINDPFAALQRDFAIL 71 (561)
T ss_pred hccccccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHH---------Hhh---cccccCChHHHHHHHHHHH
Confidence 3444558899999999988888888899999987 34455665 232 2356788888888877654
No 348
>PRK13940 glutamyl-tRNA reductase; Provisional
Probab=23.32 E-value=1.8e+02 Score=31.17 Aligned_cols=62 Identities=18% Similarity=0.294 Sum_probs=31.0
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 405 RSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 405 rKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
..|..++++++ .+++.++.|-+++..+++.+++.-....|.-..+- +. ++.-.|++-||+.|
T Consensus 351 ~el~r~~~~l~----~~~~~~~~i~~~~~~~~~kllh~P~~~lk~~~~~~-~~-~~~~~~~~lf~l~~ 412 (414)
T PRK13940 351 LSLEKSLAKIR----NGKDAEEIIKRFAYEIKKKVLHYPVVGMKEASKQG-RS-DCLVCMKRMFGLNV 412 (414)
T ss_pred HHHHHHHhhcC----CCccHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC-hH-HHHHHHHHHhCCCC
Confidence 33444444442 24445555555555566666665555555422121 11 33346777777655
No 349
>smart00323 RasGAP GTPase-activator protein for Ras-like GTPases. All alpha-helical domain that accelerates the GTPase activity of Ras, thereby "switching" it into an "off" position. Improved domain limits from structure.
Probab=23.26 E-value=3.1e+02 Score=28.16 Aligned_cols=71 Identities=15% Similarity=0.159 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHH-----------------------HHHhhccCcccCCCCcccccc
Q 009343 426 DILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDIL-----------------------VHLERNWNMTLPGFSGDEIKT 482 (537)
Q Consensus 426 ELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQ-----------------------LhLERnWNI~IPGfssDEIR~ 482 (537)
+.|.+++++|++.|+.....+-. ++|.|- |.+-|-+ .|.+-+-+.-.
T Consensus 150 ~~L~~~~~~~~~~I~~s~~~~P~-------~lr~i~~~l~~~~~~kfp~~~~~~~~v~~fiFLRfi---~PAIvsP~~~~ 219 (344)
T smart00323 150 ENLLQYVERLFDAIINSSDRLPY-------GLRDICKQLRQAAEKRFPDADVIYKAVSSFVFLRFF---CPAIVSPKLFN 219 (344)
T ss_pred HHHHHHHHHHHHHHHHhHHhCcH-------HHHHHHHHHHHHHHHHCCCcccchhHHHHHHHHHHh---hhHhCChHhhC
Confidence 57889999999999875544332 122221 2222322 23333322211
Q ss_pred cCCCCCchHHHHHHHHHHHHhhhh
Q 009343 483 FRKPLVCDIHKERLAAIKKSVMAT 506 (537)
Q Consensus 483 ~RK~~pTEaHKQRMALIRKsI~s~ 506 (537)
.....+++..+.-|.+|-|.|..-
T Consensus 220 l~~~~~~~~~rr~L~liaKvLQ~l 243 (344)
T smart00323 220 LVDEHPDPTTRRTLTLIAKVLQNL 243 (344)
T ss_pred CCCCCCChhhhhhHHHHHHHHHHH
Confidence 222345677788888999988875
No 350
>PRK08305 spoVFB dipicolinate synthase subunit B; Reviewed
Probab=23.26 E-value=1.5e+02 Score=29.28 Aligned_cols=75 Identities=16% Similarity=0.251 Sum_probs=48.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcCCCCc----------c-hhhHHHHHhhccCcccCCCCcccccccCCCCCchHHH
Q 009343 425 EDILVDIAEDFVESITMFGCSLAKHRKSDTL----------E-AKDILVHLERNWNMTLPGFSGDEIKTFRKPLVCDIHK 493 (537)
Q Consensus 425 EELLLeIADDFVDsVvs~ACkLAKHRKSdTL----------E-vKDVQLhLERnWNI~IPGfssDEIR~~RK~~pTEaHK 493 (537)
-..|-+||.-+-|+.+..+|..+-.-+...| + .+.| -.|+++||+.|-+|+-|| .++|++. .+
T Consensus 95 anTLAKiA~GiaDnll~~aa~a~lke~~PvvlaPAMN~~M~~~~~ni-~~L~~~~g~~~i~~~~~~--~~~~~~~---~~ 168 (196)
T PRK08305 95 GNTMAKLANAITDSPVLMAAKATLRNQRPVVLAISTNDALGLNAKNL-GRLLNTKNIYFVPFGQDD--PVKKPNS---LV 168 (196)
T ss_pred HhHHHHHHccccCcHHHHHHHHHhcCCCCEEEEECCCHHHHhCHHHH-HHHHhcCCEEEEecCCCC--CCCCchh---HH
Confidence 4678888888888888888876522222211 0 1333 345666999999999986 5676654 45
Q ss_pred HHHHHHHHHhhh
Q 009343 494 ERLAAIKKSVMA 505 (537)
Q Consensus 494 QRMALIRKsI~s 505 (537)
-|+.|+-.++..
T Consensus 169 ~~~~~~~~~~~~ 180 (196)
T PRK08305 169 ARMDLLIDTVEE 180 (196)
T ss_pred hhHHhhHHHHHH
Confidence 567777666554
No 351
>PRK12713 flgJ flagellar rod assembly protein/muramidase FlgJ; Provisional
Probab=23.22 E-value=88 Score=33.45 Aligned_cols=39 Identities=18% Similarity=0.142 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 433 EDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 433 DDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
++||+.|...|.++||.-|-.- .+-=-|-+||-.||-.+
T Consensus 182 ~~FI~~i~p~A~~~ak~~Gi~a-sviiAQAaLESGWG~s~ 220 (339)
T PRK12713 182 VDFVSRMSRAANVAAQQSGVPA-RLILGQAALESGWGRRE 220 (339)
T ss_pred HHHHHHHHHHHHHHHHHhCcCH-HHHHHHHHHHccCCccc
Confidence 8999999999999999888774 45556889999998554
No 352
>PF01857 RB_B: Retinoblastoma-associated protein B domain; InterPro: IPR002719 Retinoblastoma-like and retinoblastoma-associated proteins may have a function in cell cycle regulation. They form a complex with adenovirus E1A and SV40 large T antigen, and may bind and modulate the function of certain cellular proteins with which T and E1A compete for pocket binding. The proteins may act as tumor suppressors, and are potent inhibitors of E2F-mediated trans-activation. This domain has the cyclin fold []. The crystal structure of the Rb pocket bound to a nine-residue E7 peptide containing the LxCxE motif, shared by other Rb-binding viral and cellular proteins, shows that the LxCxE peptide binds a highly conserved groove on the B-box portion of the pocket; the A-box portion (see IPR002720 from INTERPRO) appears to be required for the stable folding of the B box. Also highly conserved is the extensive A-B interface, suggesting that it may be an additional protein-binding site. The A and B boxes each contain the cyclin-fold structural motif, with the LxCxE-binding site on the B-box cyclin fold being similar to a Cdk2-binding site of cyclin A and to a TBP-binding site of TFIIB []. The A and B boxes are found at the C-terminal end of the protein; the B-box is on C-terminal side of the A-box.; GO: 0051726 regulation of cell cycle, 0005634 nucleus; PDB: 1GUX_B 3POM_A 1GH6_B 1N4M_A 1O9K_H 4ELL_B 2R7G_C 4ELJ_A.
Probab=23.17 E-value=2e+02 Score=26.76 Aligned_cols=59 Identities=22% Similarity=0.388 Sum_probs=31.5
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHH------------HHHHHHH-HHhhhhcCCCCcchhhHHHHHhhc
Q 009343 404 KRSIQELVNQIDPSERLDPDVEDILVDIAEDFV------------ESITMFG-CSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 404 KrKLqELVrqIDP~e~LD~DVEELLLeIADDFV------------DsVvs~A-CkLAKHRKSdTLEvKDVQLhLERn 467 (537)
-.+|++|+.+++ |+++..+-+..+.|..| |.++-=| --+||.-+ ..+.++||..+.++.
T Consensus 15 ~~Rl~~LC~~L~----l~~~~~~~iwt~fe~~l~~~t~L~~dRHLDQiilCaiY~i~Kv~~-~~~sF~~Ii~~Yr~q 86 (135)
T PF01857_consen 15 AVRLQDLCERLD----LSSDLREKIWTCFEHSLTHHTELMKDRHLDQIILCAIYGICKVSK-EELSFKDIIKAYRKQ 86 (135)
T ss_dssp HHHHHHHHHHHT----TSTTHHHHHHHHHHHHHHHSGGGGTTS-HHHHHHHHHHHHHHHTT--S--HHHHHHHHTTS
T ss_pred HHHHHHHHHHcC----CcHHHHHHHHHHHHHHHHhhHHHHhcchHHHHHHHHHHHHHHhhc-CCCCHHHHHHHHHhc
Confidence 467899999987 55555444444444332 3322211 12334333 668899998887663
No 353
>TIGR02846 spore_sigmaK RNA polymerase sigma-K factor. The sporulation-specific transcription factor sigma-K (also called sigma-27) is expressed in the mother cell compartment of endospore-forming bacteria such as Bacillus subtilis. Like its close homolog sigma-E (sigma-29) (see TIGR02835), also specific to the mother cell compartment, it must be activated by a proteolytic cleavage. Note that in Bacillus subtilis (and apparently also Clostridium tetani), but not in other endospore forming species such as Bacillus anthracis, the sigK gene is generated by a non-germline (mother cell only) chromosomal rearrangement that recombines coding regions for the N-terminal and C-terminal regions of sigma-K.
Probab=23.16 E-value=1.8e+02 Score=27.70 Aligned_cols=60 Identities=8% Similarity=0.106 Sum_probs=39.8
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhH-HHHHhhccC
Q 009343 400 RILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDI-LVHLERNWN 469 (537)
Q Consensus 400 rILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDV-QLhLERnWN 469 (537)
+.+.-....+|+..+-.+ | ++.+-+|.+.|...|...++++++++ -+++|| |-.+-+-|.
T Consensus 28 ~~~~~~~~~~li~~~~~g---d---~~af~~l~~~y~~~v~~~~~~~~~~~----~dAEDlvQevfi~l~~ 88 (227)
T TIGR02846 28 QPLSEEEEKKYLDRLKEG---D---EEARNVLIERNLRLVAHIVKKFSNTG----EDVDDLISIGTIGLIK 88 (227)
T ss_pred CCCCHHHHHHHHHHHHcC---C---HHHHHHHHHHhHHHHHHHHHHhcCCC----CCHHHHHHHHHHHHHH
Confidence 346666777777766321 2 35677788888888888888876543 378898 555566665
No 354
>PHA02102 hypothetical protein
Probab=23.13 E-value=69 Score=27.55 Aligned_cols=35 Identities=17% Similarity=0.200 Sum_probs=27.0
Q ss_pred HHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCC
Q 009343 436 VESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFS 476 (537)
Q Consensus 436 VDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGfs 476 (537)
++.+++.|..|+|.- +||||+ .-|.+||+.|-+++
T Consensus 4 sneLvekA~eLqkLl----~eV~dl--Ase~~yGvein~~n 38 (72)
T PHA02102 4 SNELVEKALELQKLL----KEVKDL--ASEQDYGVEINDDN 38 (72)
T ss_pred hHHHHHHHHHHHHHH----HHHHHH--hhhhccceeeCCCC
Confidence 456777888888865 477875 67899999998874
No 355
>cd07176 terB tellurite resistance protein terB. This family contains uncharacterized bacterial proteins involved in tellurium resistance. The prototype of this CD is the Kp-terB protein from Klebsiella pneumoniae, whose 3D structure was recently determined. The biological function of terB and the mechanism responsible for tellurium resistance are unknown.
Probab=23.09 E-value=1.7e+02 Score=23.97 Aligned_cols=34 Identities=9% Similarity=0.144 Sum_probs=14.2
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHH
Q 009343 403 TKRSIQELVNQIDPSERLDPDVEDILVDIAEDFV 436 (537)
Q Consensus 403 tKrKLqELVrqIDP~e~LD~DVEELLLeIADDFV 436 (537)
+...++.|.+-++....+++...+-|.++.++++
T Consensus 20 ~~~E~~~i~~~l~~~~~l~~~~~~~~~~~~~~~~ 53 (111)
T cd07176 20 DDAELQAIEALLRSLPVLSGFDRERLIALLDKLL 53 (111)
T ss_pred CHHHHHHHHHHHHcCccccCCCHHHHHHHHHHHH
Confidence 3444444444444444444333333333333333
No 356
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=23.05 E-value=1.7e+02 Score=32.36 Aligned_cols=65 Identities=15% Similarity=0.074 Sum_probs=42.4
Q ss_pred cCCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC--CCCcchhhHHHHHh
Q 009343 401 ILTKRSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRK--SDTLEAKDILVHLE 465 (537)
Q Consensus 401 ILtKrKLqELVrqID--P~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRK--SdTLEvKDVQLhLE 465 (537)
-++...|.+.++++- .+..+|+++.++|.+.++--+.++++.-.+++.+-+ ...|+.+||.-.|.
T Consensus 186 ~ls~~el~~~L~~i~~~egi~ie~eAL~~Ia~~s~GslR~al~~Ldkai~~~~~~~~~It~~~V~~llg 254 (507)
T PRK06645 186 RLSFEEIFKLLEYITKQENLKTDIEALRIIAYKSEGSARDAVSILDQAASMSAKSDNIISPQVINQMLG 254 (507)
T ss_pred CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhccCCCCcCHHHHHHHHC
Confidence 356677777777663 356789999999999988766666555444433321 23577777765443
No 357
>PRK13018 cell division protein FtsZ; Provisional
Probab=23.04 E-value=95 Score=33.27 Aligned_cols=74 Identities=12% Similarity=0.109 Sum_probs=53.0
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHH-H--------HHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccC
Q 009343 403 TKRSIQELVNQIDPSERLDPDVE-D--------ILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLP 473 (537)
Q Consensus 403 tKrKLqELVrqIDP~e~LD~DVE-E--------LLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IP 473 (537)
...-|.+|.+.+|--..||.|.. + -..+++|+.|-..+.....+-+..+.-.+++.||.-.|+. -|+.+=
T Consensus 164 A~~gL~~L~e~~D~vividNd~L~~i~~~~~i~~af~~~N~iIa~~I~~It~~i~~~G~iN~Df~dv~~vl~~-~G~a~i 242 (378)
T PRK13018 164 AEEGIERLREAADTVIVIDNNRLLDIVPNLPIADAFSVADEVIAETVKGITETITKPSLINLDFADVKSVMKG-GGVAMM 242 (378)
T ss_pred HHHHHHHHHHhCCEEEEEecHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhhhhcccCCceecCHHHHHHHhcc-CCEEEE
Confidence 34568888888887666666632 1 1345567777777776666777778888999999999975 488877
Q ss_pred CCCc
Q 009343 474 GFSG 477 (537)
Q Consensus 474 Gfss 477 (537)
||+.
T Consensus 243 G~G~ 246 (378)
T PRK13018 243 GVGE 246 (378)
T ss_pred EEEE
Confidence 7764
No 358
>PRK13292 trifunctional NADH dehydrogenase I subunit B/C/D; Provisional
Probab=22.94 E-value=2.7e+02 Score=32.78 Aligned_cols=58 Identities=12% Similarity=0.166 Sum_probs=36.7
Q ss_pred CHHHHHHHHHhhCCC-------------CCCCHHHHHHHHHHHHHHHHHHHHH-------HHHhhhhcCCCCcchhhH
Q 009343 403 TKRSIQELVNQIDPS-------------ERLDPDVEDILVDIAEDFVESITMF-------GCSLAKHRKSDTLEAKDI 460 (537)
Q Consensus 403 tKrKLqELVrqIDP~-------------e~LD~DVEELLLeIADDFVDsVvs~-------ACkLAKHRKSdTLEvKDV 460 (537)
-|.+|.+|+..|.++ .-|+++.++.|+++.+.|-+.+-+. -.-+++-++--+|..+|.
T Consensus 531 ~RE~i~~l~e~ltG~R~~~~~~rpGGV~~Dl~~~~~~~i~~~l~~~~~~l~e~~~l~~~n~i~~~R~~gvGvls~e~A 608 (788)
T PRK13292 531 DREKIFDIVEMITGGRMHPAWFRIGGVAEDLPEGWKEAVEAFLRWFPGRLKEYEDLLTGNPIFKARLKGVGVITRDEA 608 (788)
T ss_pred HHHHHHHHHHHHhccccccCCceeCcccccCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCchHHhhcCCEEecCHHHH
Confidence 578899999888532 2455677777777777655444333 333455566667777764
No 359
>COG1893 ApbA Ketopantoate reductase [Coenzyme metabolism]
Probab=22.82 E-value=1.5e+02 Score=30.45 Aligned_cols=37 Identities=16% Similarity=0.210 Sum_probs=22.7
Q ss_pred CCCCCHHHHHHHHHHHHHH-HHHHHHHHHHhhhhcCCC
Q 009343 417 SERLDPDVEDILVDIAEDF-VESITMFGCSLAKHRKSD 453 (537)
Q Consensus 417 ~e~LD~DVEELLLeIADDF-VDsVvs~ACkLAKHRKSd 453 (537)
+..+|+++.|.++.+.++. =+...++.-.++|+|.-+
T Consensus 230 g~~~~~~~~~~v~~~~~~~~~~~~sSM~qDl~~gr~tE 267 (307)
T COG1893 230 GVELPEEVVERVLAVIRATDAENYSSMLQDLEKGRPTE 267 (307)
T ss_pred cCCCCHHHHHHHHHHHHhcccccCchHHHHHHcCCccc
Confidence 3567777777777777777 355555555555554443
No 360
>PHA03247 large tegument protein UL36; Provisional
Probab=22.77 E-value=1.5e+03 Score=31.38 Aligned_cols=129 Identities=21% Similarity=0.335 Sum_probs=0.0
Q ss_pred ccCCCCCcccccCCCCCCCCCCCCcccC---------CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCC
Q 009343 38 TAPSSQPPQQQQQTPPTPSTPSSTTIPT---------STPTTNTPNPNPSPSPSPAPPSRPTSLTPPP-PRPTSFSRPWQ 107 (537)
Q Consensus 38 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ 107 (537)
.+..++++.+...++.....|.+...+. .....-++++.+.....+++++++...+..+ |++.....+..
T Consensus 2557 p~~~p~~pd~~~PPp~pAp~P~~PA~~~~~~rp~~pP~~~rPr~p~~~~p~p~~papp~P~PP~p~pP~PpPp~~~Ppa~ 2636 (3151)
T PHA03247 2557 PAAPPAAPDRSVPPPRPAPRPSEPAVTSRARRPDAPPQSARPRAPVDDRGDPRGPAPPSPLPPDTHAPDPPPPSPSPAAN 2636 (3151)
T ss_pred CCCCCCCCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_pred CCCCcccccCCCCCCCCCCCCCCCCCCCCCCCCCceeeccCCCCCCCCCCCCCCCCCCCCCCC
Q 009343 108 PPQQHFSHFSSLPSSSSATPSTSASPPIPSPPRGGIAIGVPAPRPTALSPQPSPPFSSSFGQP 170 (537)
Q Consensus 108 ~p~~~~~~~~s~~~~~~~~~~~s~~~~~~~~~rgg~a~g~pa~~~~~~~~~p~~p~~~~~~~~ 170 (537)
.+... -....-+...+.....++....+|..-..|.|+.++..++.....+.....+.+
T Consensus 2637 ~l~~~----~~~a~p~~~~p~~~pa~~~~~~~~r~~p~~~Pa~~s~p~~~p~~~a~~~pV~s~ 2695 (3151)
T PHA03247 2637 EPDPH----PPPTVPPPERPRDDPAPGRVSRPRRARRLGRAAQASSPPQRPRRRAARPTVGSL 2695 (3151)
T ss_pred CCCCC----CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
No 361
>PRK07362 isocitrate dehydrogenase; Validated
Probab=22.77 E-value=89 Score=34.86 Aligned_cols=24 Identities=4% Similarity=-0.201 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhc
Q 009343 427 ILVDIAEDFVESITMFGCSLAKHR 450 (537)
Q Consensus 427 LLLeIADDFVDsVvs~ACkLAKHR 450 (537)
-+.-+...=++.|+.+||.+|+.|
T Consensus 204 ~~k~iTr~g~eRI~r~AFe~A~~r 227 (474)
T PRK07362 204 GIKPVSKTGSQRHIRRAIEHALRL 227 (474)
T ss_pred eeeeccHHHHHHHHHHHHHHHHhc
Confidence 345578888999999999999887
No 362
>PRK00188 trpD anthranilate phosphoribosyltransferase; Provisional
Probab=22.70 E-value=1.6e+02 Score=30.54 Aligned_cols=48 Identities=19% Similarity=0.265 Sum_probs=36.4
Q ss_pred HHHHHHhhCCCCCCCHH-HHHHHHHHHHHHHHHHHHHHHHhhhhcCCCC
Q 009343 407 IQELVNQIDPSERLDPD-VEDILVDIAEDFVESITMFGCSLAKHRKSDT 454 (537)
Q Consensus 407 LqELVrqIDP~e~LD~D-VEELLLeIADDFVDsVvs~ACkLAKHRKSdT 454 (537)
|.++|++|-.+..|+.| +++++..|.|.-++++--.|..+|-+-|.++
T Consensus 3 ~~~~i~~l~~g~~Lt~~Ea~~~~~~il~g~~~~~q~~AfL~alr~kget 51 (339)
T PRK00188 3 MKELLEKLVEGEDLSEEEAEELMDAIMSGEATPAQIAAFLTALRVKGET 51 (339)
T ss_pred HHHHHHHHhCCCCCCHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCCC
Confidence 56777777666777754 8889999998888888888887776656654
No 363
>PF08236 SRI: SRI (Set2 Rpb1 interacting) domain; InterPro: IPR013257 The SRI (Set2 Rpb1 interacting) domain mediates RNA polymerase II interaction and couples histone H3 K36 methylation with transcript elongation []. This domain is conserved from yeast to humans. Members of this family form a compact, closed three-helix bundle, with an up-down-up topology. The first and second helices are antiparallel to each other and are of similar length; the third helix, which is packed across helices alpha1 and alpha2 is slightly shorter, consisting of only 15 amino acids. Most conserved hydrophobic residues are largely buried in the interior of the structure and form an extensive and contiguous hydrophobic core that stabilises the packing of the three-helix bundle. This domain mediates RNA polymerase II interaction and couples histone H3 K36 methylation with transcript elongation []. ; GO: 0018024 histone-lysine N-methyltransferase activity, 0006355 regulation of transcription, DNA-dependent, 0034968 histone lysine methylation, 0005694 chromosome; PDB: 2A7O_A 2C5Z_A.
Probab=22.69 E-value=66 Score=27.58 Aligned_cols=38 Identities=18% Similarity=0.451 Sum_probs=20.4
Q ss_pred CCHHHHHHHHHhh---------------CCCCCCCHHHHHHHHHHHHHHHHHH
Q 009343 402 LTKRSIQELVNQI---------------DPSERLDPDVEDILVDIAEDFVESI 439 (537)
Q Consensus 402 LtKrKLqELVrqI---------------DP~e~LD~DVEELLLeIADDFVDsV 439 (537)
|+++.+..|+++| |+...|+++++.=+-+++++|++.+
T Consensus 28 ~~~ddfK~~ar~lt~~l~~KE~K~~~~~~~~~~l~~~~~~Kik~fvk~Ym~K~ 80 (88)
T PF08236_consen 28 LSKDDFKHLARKLTHKLVEKELKSCRVNDPPLELSDSKRKKIKKFVKDYMDKF 80 (88)
T ss_dssp --HHHHHHHHHHHHHHHHHHHHHHHTT-GGGSS--HHHHHHHHHHHHHHHCCC
T ss_pred CCHHHHHHHHHHHHHHHHHHHHhcCCCCCCccccCHHHHHHHHHHHHHHHHHH
Confidence 5566666555555 3445666666666666666666543
No 364
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=22.64 E-value=2.3e+02 Score=32.82 Aligned_cols=64 Identities=14% Similarity=0.243 Sum_probs=39.4
Q ss_pred CHHHHHHHHHhh---------CCCCCCCHHHHHHHHHHHH---HHHHHHHHHHHHhhhhcCCC--CcchhhHHHHHhh
Q 009343 403 TKRSIQELVNQI---------DPSERLDPDVEDILVDIAE---DFVESITMFGCSLAKHRKSD--TLEAKDILVHLER 466 (537)
Q Consensus 403 tKrKLqELVrqI---------DP~e~LD~DVEELLLeIAD---DFVDsVvs~ACkLAKHRKSd--TLEvKDVQLhLER 466 (537)
+...|.++++++ .....||+|+.+.|.+.++ .-+.++++.+|..+...+.+ .|++.+++-.|.+
T Consensus 169 s~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~lln~Le~a~~~~~~~~~~~i~It~~~~~e~l~~ 246 (725)
T PRK13341 169 SDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLLNALELAVESTPPDEDGLIDITLAIAEESIQQ 246 (725)
T ss_pred CHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccCCCCceeccHHHHHHHHHH
Confidence 455566666554 2346899999999999987 34556777777555432222 3565666555544
No 365
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=22.50 E-value=1.9e+02 Score=31.51 Aligned_cols=67 Identities=7% Similarity=0.022 Sum_probs=42.2
Q ss_pred CCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009343 402 LTKRSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (537)
Q Consensus 402 LtKrKLqELVrqID--P~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWN 469 (537)
++...|.++++++- .+..||+++.++|.+.++-=+..+++.-.+++...+ +.|+.+||.-.|.....
T Consensus 176 l~~~el~~~L~~i~~~egi~i~~eal~~Ia~~s~GdlR~aln~Le~l~~~~~-~~It~e~V~~~l~~~~~ 244 (472)
T PRK14962 176 ISDELIIKRLQEVAEAEGIEIDREALSFIAKRASGGLRDALTMLEQVWKFSE-GKITLETVHEALGLIPI 244 (472)
T ss_pred ccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHHHhcC-CCCCHHHHHHHHcCCCH
Confidence 45666777777663 356899999999999876323334443334333222 24889999877765533
No 366
>cd05030 calgranulins Calgranulins: S-100 domain found in proteins belonging to the Calgranulin subgroup of the S100 family of EF-hand calcium-modulated proteins, including S100A8, S100A9, and S100A12 . Note that the S-100 hierarchy, to which this Calgranulin group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. These proteins are expressed mainly in granulocytes, and are involved in inflammation, allergy, and neuritogenesis, as well as in host-parasite response. Calgranulins are modulated not only by calcium, but also by other metals such as zinc and copper. Structural data suggested that calgranulins may exist in multiple structural forms, homodimers, as well as hetero-oligomers. For example, the S100A8/S100A9 complex called calprotectin plays important roles in the regulation of inflammatory processes, wound repair, and regulating zinc-dependent enzymes as well as microbial growth.
Probab=22.45 E-value=1.3e+02 Score=25.19 Aligned_cols=43 Identities=21% Similarity=0.276 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhc-CCCCcchhhHHHHHhhccCcccC
Q 009343 423 DVEDILVDIAEDFVESITMFGCSLAKHR-KSDTLEAKDILVHLERNWNMTLP 473 (537)
Q Consensus 423 DVEELLLeIADDFVDsVvs~ACkLAKHR-KSdTLEvKDVQLhLERnWNI~IP 473 (537)
++|+.+..|.+.| +++|+.. +...|+..|+.-.|+++++-.+.
T Consensus 2 ~~e~~i~~~~~~f--------~~y~~~~~~~~~Is~~El~~ll~~~~g~~~t 45 (88)
T cd05030 2 ELEKAIETIINVF--------HQYSVRKGHPDTLYKKEFKQLVEKELPNFLK 45 (88)
T ss_pred hHHHHHHHHHHHH--------HHHhccCCCcccCCHHHHHHHHHHHhhHhhc
Confidence 5677777777777 4566554 46789999999999887765543
No 367
>PRK06893 DNA replication initiation factor; Validated
Probab=22.41 E-value=3.6e+02 Score=25.94 Aligned_cols=31 Identities=13% Similarity=0.179 Sum_probs=20.1
Q ss_pred CHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHH
Q 009343 403 TKRSIQELVNQI--DPSERLDPDVEDILVDIAE 433 (537)
Q Consensus 403 tKrKLqELVrqI--DP~e~LD~DVEELLLeIAD 433 (537)
....+.+++++. +.+..|++||.+.|++-.+
T Consensus 162 d~e~~~~iL~~~a~~~~l~l~~~v~~~L~~~~~ 194 (229)
T PRK06893 162 TDEQKIIVLQRNAYQRGIELSDEVANFLLKRLD 194 (229)
T ss_pred CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhcc
Confidence 344444444433 3457899999999987766
No 368
>PF09358 UBA_e1_C: Ubiquitin-activating enzyme e1 C-terminal domain; InterPro: IPR018965 This presumed domain found at the C terminus of Ubiquitin-activating enzyme e1 proteins is functionally uncharacterised. ; PDB: 3CMM_A.
Probab=22.36 E-value=38 Score=30.75 Aligned_cols=50 Identities=16% Similarity=0.214 Sum_probs=36.1
Q ss_pred CcchhhHHHHHhhccCcccCCCCcccccccCCCCCchHHHHHHH-HHHHHhh
Q 009343 454 TLEAKDILVHLERNWNMTLPGFSGDEIKTFRKPLVCDIHKERLA-AIKKSVM 504 (537)
Q Consensus 454 TLEvKDVQLhLERnWNI~IPGfssDEIR~~RK~~pTEaHKQRMA-LIRKsI~ 504 (537)
.+.++|+.-+||++||+.|=..+....-.|... ..+.|++||. -|.+.++
T Consensus 42 ~~Tl~~li~~~~~~~~lev~ml~~g~~~LY~~f-~~~~~~~rl~~~i~elv~ 92 (125)
T PF09358_consen 42 DMTLQELIDYFKEKYGLEVTMLSQGVSLLYSSF-PPPKHKERLKMPISELVE 92 (125)
T ss_dssp --BHHHHHHHHHHTTS-EEEEEEETTEEEEETT--HHHHHHHTTSBHHHHHH
T ss_pred CCCHHHHHHHHHHHhCceEEEEEeCCEEEEecC-ChhhhHHHhCCcHHHHHH
Confidence 367899999999999999877776666677766 7788999987 3444444
No 369
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=22.30 E-value=92 Score=36.62 Aligned_cols=65 Identities=23% Similarity=0.380 Sum_probs=47.6
Q ss_pred HHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhh--HHHHHhhccCcccCCCCccccc
Q 009343 409 ELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKD--ILVHLERNWNMTLPGFSGDEIK 481 (537)
Q Consensus 409 ELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKD--VQLhLERnWNI~IPGfssDEIR 481 (537)
||+++||.-..+.+--+|.|.+|+|.+++.+... |+ +|+-. |++.| +.+.+|+.|+ |.||+..++
T Consensus 678 EFLNRid~II~F~~L~~~~l~~Iv~~~L~~l~~~---L~-~~~i~-l~~s~~a~~~l~~~gyd---~~~GARpL~ 744 (786)
T COG0542 678 EFLNRIDEIIPFNPLSKEVLERIVDLQLNRLAKR---LA-ERGIT-LELSDEAKDFLAEKGYD---PEYGARPLR 744 (786)
T ss_pred HHHhhcccEEeccCCCHHHHHHHHHHHHHHHHHH---HH-hCCce-EEECHHHHHHHHHhccC---CCcCchHHH
Confidence 6777888777777777788999999999988764 44 33433 45544 4788899998 778885443
No 370
>PRK05629 hypothetical protein; Validated
Probab=22.24 E-value=2.6e+02 Score=28.03 Aligned_cols=70 Identities=14% Similarity=0.099 Sum_probs=44.5
Q ss_pred CCHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009343 402 LTKRSIQELVNQI--DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (537)
Q Consensus 402 LtKrKLqELVrqI--DP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (537)
+..+.|.+.|++. .-+.+|++++.++|++....=...+...--+|+-+- ...|+.+||.-.+.++-...|
T Consensus 126 ~~~~~l~~wi~~~~~~~g~~i~~~A~~~L~~~~g~dl~~l~~EleKL~~~~-~~~It~e~V~~~v~~~~~~~i 197 (318)
T PRK05629 126 LKPRERPGWVTQEFKNHGVRPTPDVVHALLEGVGSDLRELASAISQLVEDT-QGNVTVEKVRAYYVGVAEVSG 197 (318)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHCccHHHHHHHHHHHHhcC-CCCcCHHHHHHHhCCCccchH
Confidence 3455555555554 346789999999999877543334444444555443 346999999888777644444
No 371
>cd01679 RNR_I Class I ribonucleotide reductase. Ribonucleotide reductase (RNR) catalyzes the reductive synthesis of deoxyribonucleotides from their corresponding ribonucleotides. It provides the precursors necessary for DNA synthesis. RNRs are separated into three classes based on their metallocofactor usage. Class I RNRs, found in eukaryotes, bacteria, and many viruses, use a diiron-tyrosyl radical. Class II RNRs, found in bacteria, bacteriophage, algae and archaea, use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs, found in anaerobic bacteria, bacteriophages, and archaea, use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. Many organisms have more than one class of RNR present in their genomes. All three RNRs have a ten-stranded alpha-beta barrel domain that is structurally similar to the domain of PFL (pyruvate formate lyase). Class I RNR is oxygen-dependent and can be subdivided into classes Ia (eukaryotes, prokaryotes, viruses and phages) and Ib (
Probab=22.18 E-value=1.2e+02 Score=33.08 Aligned_cols=30 Identities=27% Similarity=0.226 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q 009343 422 PDVEDILVDIAEDFVESITMFGCSLAKHRK 451 (537)
Q Consensus 422 ~DVEELLLeIADDFVDsVvs~ACkLAKHRK 451 (537)
+|..+++-+|++..-...+..+|+|||.||
T Consensus 310 ~ea~~~~~~i~e~i~~~a~~aS~~LA~e~G 339 (460)
T cd01679 310 EEALDLNDRIFETINYYALKASCELAKERG 339 (460)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 667778888888888888999999999977
No 372
>COG2766 PrkA Putative Ser protein kinase [Signal transduction mechanisms]
Probab=22.07 E-value=1e+02 Score=35.46 Aligned_cols=66 Identities=15% Similarity=0.239 Sum_probs=48.2
Q ss_pred CCcCCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcch---hhHHHHHhhc
Q 009343 395 DEFGNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEA---KDILVHLERN 467 (537)
Q Consensus 395 ~e~~nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEv---KDVQLhLERn 467 (537)
++.++++++++.|..++++|..-.-|+.+ -.++|-++|+.++.+.=.||+...++. .-+.-+|||+
T Consensus 524 D~~TGee~~pd~le~~L~~iEe~~Gis~d-------a~kdFR~eiv~~~~~A~a~r~G~~~d~~s~e~LReviekk 592 (649)
T COG2766 524 DPATGEELNPDALEKELRSIEEQAGISND-------APKDFRNEIVNFVLRARARRNGKNPDWTSYEKLREVIEKK 592 (649)
T ss_pred CcccccccCccHHHHHHHHHHHhcCCCcc-------chHHHHHHHHHHHHHHHHHhcCCCCCccccHHHHHHHHHh
Confidence 35788999999999999999887788877 578999999999997444453443333 3334456664
No 373
>PF02854 MIF4G: MIF4G domain; InterPro: IPR003890 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 3", and is found in nuclear cap-binding proteins, eIF4G, and UPF2. The MIF4G domain is a structural motif with an ARM (Armadillo) repeat-type fold, consisting of a 2-layer alpha/alpha right-handed superhelix. Proteins usually contain two or more structurally similar MIF4G domains connected by unstructured linkers. MIF4G domains are found in several proteins involved in RNA metabolism, including eIF4G (eukaryotic initiation factor 4-gamma), eIF-2b (translation initiation factor), UPF2 (regulator of nonsense transcripts 2), and nuclear cap-binding proteins (CBP80, CBC1, NCBP1), although the sequence identity between them may be low []. The nuclear cap-binding complex (CBC) is a heterodimer. Human CBC consists of a large CBP80 subunit and a small CBP20 subunit, the latter being critical for cap binding. CBP80 contains three MIF4G domains connected with long linkers, while CBP20 has an RNP (ribonucleoprotein)-type domain that associates with domains 2 and 3 of CBP80 []. The complex binds to 5'-cap of eukaryotic RNA polymerase II transcripts, such as mRNA and U snRNA. The binding is important for several mRNA nuclear maturation steps and for nonsense-mediated decay. It is also essential for nuclear export of U snRNAs in metazoans []. Eukaryotic translation initiation factor 4 gamma (eIF4G) plays a critical role in protein expression, and is at the centre of a complex regulatory network. Together with the cap-binding protein eIF4E, it recruits the small ribosomal subunit to the 5'-end of mRNA and promotes the assembly of a functional translation initiation complex, which scans along the mRNA to the translation start codon. The activity of eIF4G in translation initiation could be regulated through intra- and inter-protein interactions involving the ARM repeats []. In eIF4G, the MIF4G domain binds eIF4A, eIF3, RNA and DNA. Nonsense-mediated mRNA decay (NMD) in eukaryotes involves UPF1, UPF2 and UPF3 to accelerate the decay rate of two unique classes of transcripts: (1) nonsense mRNAs that arise through errors in gene expression, and (2) naturally occurring transcripts that lack coding errors but have built-in features that target them for accelerated decay (error-free mRNAs). NMD can trigger decay during any round of translation and can target CBC-bound or eIF-4E-bound transcripts []. UPF2 contains MIF4G domains, while UPF3 contains an RNP domain []. ; GO: 0005515 protein binding, 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A 1HU3_A 3RK6_A ....
Probab=22.03 E-value=1.6e+02 Score=26.00 Aligned_cols=46 Identities=11% Similarity=0.217 Sum_probs=27.9
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHhhhhcC
Q 009343 405 RSIQELVNQIDPSERLDPDVEDILVDIAED---FVESITMFGCSLAKHRK 451 (537)
Q Consensus 405 rKLqELVrqIDP~e~LD~DVEELLLeIADD---FVDsVvs~ACkLAKHRK 451 (537)
|++..++.++. ...+|..+++++-..-++ .++.|+..-+.-|...-
T Consensus 2 r~v~~~lnklt-~~n~~~~~~~l~~~~~~~~~~~~~~i~~~i~~~a~~~~ 50 (209)
T PF02854_consen 2 RKVRGILNKLT-PSNFESIIDELIKLNWSDDPETLKEIVKLIFEKAVEEP 50 (209)
T ss_dssp HHHHHHHHHCS-STTHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHSG
T ss_pred chHHHHHHHCC-HHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhhhhcCc
Confidence 57788888886 456666666655544443 55555555555555443
No 374
>cd05134 RasGAP_RASA3 RASA3 (or GAP1_IP4BP) is a member of the GAP1 family and has been shown to specifically bind 1,3,4,5-tetrakisphosphate (IP4). Thus, RASA3 may function as an IP4 receptor. The members of GAP1 family are characterized by a conserved domain structure comprising N-terminal tandem C2 domains, a highly conserved central RasGAP domain, and a C-terminal pleckstrin-homology domain that is associated with a Bruton's tyrosine kinase motif. Purified RASA3 stimulates GAP activity on Ras with about a five-fold lower potency than p120RasGAP, but shows no GAP-stimulating activity at all against Rac or Rab3A.
Probab=22.00 E-value=4.6e+02 Score=27.67 Aligned_cols=20 Identities=25% Similarity=0.272 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 009343 426 DILVDIAEDFVESITMFGCS 445 (537)
Q Consensus 426 ELLLeIADDFVDsVvs~ACk 445 (537)
+.|..++|.+++.|+..+++
T Consensus 131 ~~L~~~~~~i~~~I~~S~~~ 150 (310)
T cd05134 131 ENLRQYVDRIFRVITKSGVS 150 (310)
T ss_pred HHHHHHHHHHHHHHHhchhc
Confidence 57788888888888765544
No 375
>PF10431 ClpB_D2-small: C-terminal, D2-small domain, of ClpB protein ; InterPro: IPR019489 Most Clp ATPases form complexes with peptidase subunits and are involved in protein degradation, though some, such as ClpB, do not associate with peptidases and are involved in protein disaggregation []. This entry represents the C-terminal domain of Clp ATPases, often referred to as the D2-small domain, which forms a mixed alpha-beta structure. Compared with the adjacent AAA D1-small domain (IPR003959 from INTERPRO) it lacks the long coiled-coil insertion, and instead of helix C4 contains a beta-strand (e3) that is part of a three stranded beta-pleated sheet. In Thermophilus the whole protein forms a hexamer with the D1-small and D2-small domains located on the outside of the hexamer, with the long coiled-coil being exposed on the surface. The D2-small domain is essential for oligomerisation, forming a tight interface with the D2-large domain of a neighbouring subunit, thereby providing enough binding energy to stabilise the functional assembly [].; PDB: 3HWS_A 3HTE_F 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 3PXI_A 1R6B_X ....
Probab=21.99 E-value=1.4e+02 Score=24.23 Aligned_cols=27 Identities=19% Similarity=0.308 Sum_probs=14.4
Q ss_pred HHHHHHHhhC---CCCCCCHHHHHHHHHHH
Q 009343 406 SIQELVNQID---PSERLDPDVEDILVDIA 432 (537)
Q Consensus 406 KLqELVrqID---P~e~LD~DVEELLLeIA 432 (537)
.|.+|.+++. -...+|++|.+.|.+.+
T Consensus 13 ~l~~l~~~l~~~~i~l~~~~~~~~~l~~~~ 42 (81)
T PF10431_consen 13 QLKKLNERLKEKGIELEFDDAVVDYLAEKG 42 (81)
T ss_dssp HHHHHHHHHHHTTEEEEE-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHCCCeEEecHHHHHHHHHhC
Confidence 4445544442 23467777777666654
No 376
>PRK12709 flgJ flagellar rod assembly protein/muramidase FlgJ; Provisional
Probab=21.94 E-value=1e+02 Score=32.71 Aligned_cols=41 Identities=15% Similarity=0.110 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccC
Q 009343 432 AEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLP 473 (537)
Q Consensus 432 ADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IP 473 (537)
.++||+.|...|.+++|.-|-.. .+-=-|-+||-.||-.+.
T Consensus 173 ~~~FI~~i~p~A~~~a~~~GI~~-sviiAQAaLESGWG~s~l 213 (320)
T PRK12709 173 ADAFVDKLAAPAQAASAATGIPA-RFIVGQAALESGWGKREI 213 (320)
T ss_pred HHHHHHHHHHHHHHHHHHhCcCH-HHHHHHHHHhccCCcccc
Confidence 58999999999999999777664 344458899999996653
No 377
>PRK06200 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional
Probab=21.93 E-value=38 Score=31.63 Aligned_cols=13 Identities=8% Similarity=0.250 Sum_probs=8.0
Q ss_pred CHHHHHHHHHhhC
Q 009343 403 TKRSIQELVNQID 415 (537)
Q Consensus 403 tKrKLqELVrqID 415 (537)
++.++.+|..+++
T Consensus 39 ~~~~~~~~~~~~~ 51 (263)
T PRK06200 39 SAEKLASLRQRFG 51 (263)
T ss_pred CHHHHHHHHHHhC
Confidence 3566777776653
No 378
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=21.92 E-value=1.7e+02 Score=31.75 Aligned_cols=39 Identities=15% Similarity=0.399 Sum_probs=0.0
Q ss_pred HHHHHHHHhhCCCCCCCHH--------HHHHHH------HHHHHHHHHHHHHH
Q 009343 405 RSIQELVNQIDPSERLDPD--------VEDILV------DIAEDFVESITMFG 443 (537)
Q Consensus 405 rKLqELVrqIDP~e~LD~D--------VEELLL------eIADDFVDsVvs~A 443 (537)
.+|...++.|-....||++ ++++|| +++++||+.|-..+
T Consensus 3 ~~l~~~~~~l~~~~~l~e~~i~~~l~ei~~aLl~adV~~~~~~~~~~~v~~~~ 55 (437)
T PRK00771 3 ESLRDALKKLAGKSRIDEKTVKEVVKDIQRALLQADVNVKLVKELSKSIKERA 55 (437)
T ss_pred hHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH
No 379
>PF10127 Nuc-transf: Predicted nucleotidyltransferase; InterPro: IPR018775 Proteins in this entry are predicted to catalyse the transfer of nucleotide residues from nucleoside diphosphates or triphosphates into dimer or polymer forms.
Probab=21.85 E-value=2.2e+02 Score=27.79 Aligned_cols=8 Identities=25% Similarity=0.700 Sum_probs=3.1
Q ss_pred HHHHHHHH
Q 009343 424 VEDILVDI 431 (537)
Q Consensus 424 VEELLLeI 431 (537)
+++++.++
T Consensus 175 f~~l~~~~ 182 (247)
T PF10127_consen 175 FEELLEEL 182 (247)
T ss_pred HHHHHHhc
Confidence 34443333
No 380
>PF08369 PCP_red: Proto-chlorophyllide reductase 57 kD subunit; InterPro: IPR013580 This domain is found in bacteria and plant chloroplast proteins. It often appears at the C-terminal of nitrogenase component 1 type oxidoreductases (IPR000510 from INTERPRO) and sometimes independently in bacterial proteins such as the proto-chlorophyllide reductase subunit B of the cyanobacterium Synechocystis. This domain is also associated with chlorophyllide reductase subunit Z, converts chlorophylls (Chl) into bacteriochlorophylls (BChl) by reducing ring B of the tetrapyrrole.; GO: 0016491 oxidoreductase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process, 0055114 oxidation-reduction process; PDB: 2KRU_A 2L09_A.
Probab=21.85 E-value=90 Score=24.12 Aligned_cols=40 Identities=20% Similarity=0.116 Sum_probs=26.7
Q ss_pred CHHHHHHHHHHHHHHHHHHHHH-HHHhhhhcCCCCcchhhHH
Q 009343 421 DPDVEDILVDIAEDFVESITMF-GCSLAKHRKSDTLEAKDIL 461 (537)
Q Consensus 421 D~DVEELLLeIADDFVDsVvs~-ACkLAKHRKSdTLEvKDVQ 461 (537)
|+|+++.|-+| =-||..-+.. +-++|+.+|.+.|++.+|.
T Consensus 2 ~~eA~~~L~~i-P~fvR~~~r~~~E~~Ar~~G~~~IT~e~v~ 42 (45)
T PF08369_consen 2 TDEAEARLDRI-PFFVRKKLRDAAEKYARERGYDEITVEVVD 42 (45)
T ss_dssp -HHHHHHHCTS--HHHHHHHHHHHHHHHHHCT-SEE-HHHHH
T ss_pred CHHHHHHHHHC-CHHHHHHHHHHHHHHHHHcCCCeECHHHHH
Confidence 56777777776 5577766554 4579999999999887763
No 381
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=21.84 E-value=1.6e+02 Score=27.38 Aligned_cols=32 Identities=22% Similarity=0.442 Sum_probs=16.1
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHH
Q 009343 403 TKRSIQELVNQIDPSERLDPDVEDILVDIAEDFV 436 (537)
Q Consensus 403 tKrKLqELVrqIDP~e~LD~DVEELLLeIADDFV 436 (537)
+|+-|.+|++-|+.. .+.+|.+-+|+|.+.|-
T Consensus 78 sk~Fl~eL~kl~~~~--~~~~Vk~kil~li~~W~ 109 (144)
T cd03568 78 SRDFTQELKKLINDR--VHPTVKEKLREVVKQWA 109 (144)
T ss_pred hHHHHHHHHHHhccc--CCHHHHHHHHHHHHHHH
Confidence 445555555555443 45555555555554443
No 382
>TIGR01962 NuoD NADH dehydrogenase I, D subunit. This model recognizes specificially the D subunit of NADH dehydrogenase I complex. It excludes the related chain of NAD(P)H-quinone oxidoreductases from chloroplast and Synechocystis, where the quinone may be plastoquinone rather than ubiquinone. This subunit often appears as a C/D fusion.
Probab=21.80 E-value=6.2e+02 Score=27.06 Aligned_cols=57 Identities=16% Similarity=0.183 Sum_probs=34.6
Q ss_pred HHHHHHHHHhhCCC-------------CCCCHHHHHHHHHHHHHHHHHH-------HHHHHHhhhhcCCCCcchhhH
Q 009343 404 KRSIQELVNQIDPS-------------ERLDPDVEDILVDIAEDFVESI-------TMFGCSLAKHRKSDTLEAKDI 460 (537)
Q Consensus 404 KrKLqELVrqIDP~-------------e~LD~DVEELLLeIADDFVDsV-------vs~ACkLAKHRKSdTLEvKDV 460 (537)
|+++.+|+..|.++ ..|+++..+.++++.|.|-+.+ ...-.-+.+-++--+|+.+|+
T Consensus 130 RE~~~~~~e~itG~R~~~~~~~pGGv~~dl~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~R~~gvGvl~~~~A 206 (386)
T TIGR01962 130 REKILDLFEAITGARMHSAYFRIGGVALDLPENWLEEIREFLEQFPKRLRDYETLLNENRIWKQRTQGVGVVSAKDA 206 (386)
T ss_pred HHHHHHHHHHHcCCCcccCceecCccccCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHhCCeeecCHHHH
Confidence 67788888887542 2466666677776666644444 333334455566666766665
No 383
>COG2083 Uncharacterized protein conserved in archaea [Function unknown]
Probab=21.77 E-value=38 Score=32.34 Aligned_cols=63 Identities=17% Similarity=0.158 Sum_probs=44.3
Q ss_pred HHHHHHHHHhhCCCC--------CCCHHHHHHHHHHHHHH------------HHHHHHHHHHhhhhcCCCCcchhhHHHH
Q 009343 404 KRSIQELVNQIDPSE--------RLDPDVEDILVDIAEDF------------VESITMFGCSLAKHRKSDTLEAKDILVH 463 (537)
Q Consensus 404 KrKLqELVrqIDP~e--------~LD~DVEELLLeIADDF------------VDsVvs~ACkLAKHRKSdTLEvKDVQLh 463 (537)
++.|.||+++=+|.. -|+.+--|+|.+|+|+. |+++-. ..++-| ..+|+|=|.-+
T Consensus 26 rktL~ELL~ee~P~V~~rDG~~hyfkr~ELE~La~~ldE~e~~rlrlPivlEi~s~~~---~~i~Ir--gk~evkvI~kv 100 (140)
T COG2083 26 RKTLEELLREERPHVTLRDGTEHYFKRRELEFLAQILDEDEIPRLRLPIVLEISSGER---GAIYIR--GKVEVKVIKKV 100 (140)
T ss_pred hhHHHHHHhccCCeEEccCCceeeeeHHHHHHHHhhcchhhhhhccccEEEEeccCCC---ceEEEe--cchhhhhHHHH
Confidence 678999999987754 46667778899999886 222211 122323 45789999999
Q ss_pred HhhccCcc
Q 009343 464 LERNWNMT 471 (537)
Q Consensus 464 LERnWNI~ 471 (537)
|..+|.|.
T Consensus 101 lG~e~~~~ 108 (140)
T COG2083 101 LGFEEVIF 108 (140)
T ss_pred hcchhhhc
Confidence 99999864
No 384
>COG1060 ThiH Thiamine biosynthesis enzyme ThiH and related uncharacterized enzymes [Coenzyme metabolism / General function prediction only]
Probab=21.75 E-value=3.2e+02 Score=29.29 Aligned_cols=106 Identities=18% Similarity=0.254 Sum_probs=0.0
Q ss_pred CCcCCccCCHHHHHHHHHhh--------------CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhh---hhcCCCCcch
Q 009343 395 DEFGNRILTKRSIQELVNQI--------------DPSERLDPDVEDILVDIAEDFVESITMFGCSLA---KHRKSDTLEA 457 (537)
Q Consensus 395 ~e~~nrILtKrKLqELVrqI--------------DP~e~LD~DVEELLLeIADDFVDsVvs~ACkLA---KHRKSdTLEv 457 (537)
.+.+.-.|+...|.+.|+++ +|...+| =-++++-.|-++|. +|.-.+...+ -|-+...+..
T Consensus 83 ~~~~~y~Ls~eeI~~~~~~~~~~G~~Evli~gG~~p~~~~~-y~~~~~~~ik~~~p-~~~i~a~s~~ei~~~~~~~~~s~ 160 (370)
T COG1060 83 GDPKAYTLSPEEILEEVREAVKRGITEVLIVGGEHPELSLE-YYEELFRTIKEEFP-DLHIHALSAGEILFLAREGGLSY 160 (370)
T ss_pred CCccccccCHHHHHHHHHHHHHcCCeEEEEecCcCCCcchH-HHHHHHHHHHHhCc-chhhcccCHHHhHHHHhccCCCH
Q ss_pred hhHHHHHhhccCcc-cCCCCc----ccccccCCCCCchHHHHHHHHHHHHhh
Q 009343 458 KDILVHLERNWNMT-LPGFSG----DEIKTFRKPLVCDIHKERLAAIKKSVM 504 (537)
Q Consensus 458 KDVQLhLERnWNI~-IPGfss----DEIR~~RK~~pTEaHKQRMALIRKsI~ 504 (537)
+||.-.|+ +-||. +||+++ |++|-... .....-..||..++...+
T Consensus 161 ~E~l~~Lk-~aGldsmpg~~aeil~e~vr~~~~-p~K~~~~~wle~~~~Ah~ 210 (370)
T COG1060 161 EEVLKRLK-EAGLDSMPGGGAEILSEEVRKIHC-PPKKSPEEWLEIHERAHR 210 (370)
T ss_pred HHHHHHHH-HcCCCcCcCcceeechHHHHHhhC-CCCCCHHHHHHHHHHHHH
No 385
>PRK10911 oligopeptidase A; Provisional
Probab=21.61 E-value=1.5e+02 Score=33.73 Aligned_cols=68 Identities=21% Similarity=0.156 Sum_probs=42.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHH---Hhhh-hcCCCCcchhhHHHHHhhccCcccCCCCcccccccC
Q 009343 416 PSERLDPDVEDILVDIAEDFVESITMFGC---SLAK-HRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKTFR 484 (537)
Q Consensus 416 P~e~LD~DVEELLLeIADDFVDsVvs~AC---kLAK-HRKSdTLEvKDVQLhLERnWNI~IPGfssDEIR~~R 484 (537)
.+..-.++|+++|.+|++..+..+-...- +++| .-+.+.|+.=|+.|+.|+.-. .--.+..+++++|-
T Consensus 286 kma~spe~V~~fL~~l~~~~~p~a~~El~~L~~~~k~~~g~~~L~pWD~~yy~~~~~~-~~~~~d~~~l~~YF 357 (680)
T PRK10911 286 KMAENPQQVLDFLTDLAKRARPQGEKELAQLRAFAKAEFGVDELQPWDIAYYSEKQKQ-HLYSISDEQLRPYF 357 (680)
T ss_pred HhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCChhhHHHHhhHHHH-hhcCCCHHHhcccC
Confidence 34566778999999998888776654442 2333 235567888898888887321 12233445666653
No 386
>TIGR00511 ribulose_e2b2 ribose-1,5-bisphosphate isomerase, e2b2 family. The delineation of this family was based originally, in part, on a discussion and neighbor-joining phylogenetic study by Kyrpides and Woese of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. Recently, Sato, et al. assigned the function ribulose-1,5 bisphosphate isomerase.
Probab=21.59 E-value=1.8e+02 Score=29.93 Aligned_cols=40 Identities=5% Similarity=0.163 Sum_probs=24.4
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 009343 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAK 448 (537)
Q Consensus 407 LqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAK 448 (537)
++.+++.|+. .-.+++.+.|++-+++|++.+...--++++
T Consensus 68 i~~~~~~i~~--~~~~~~k~~l~~~~~~~~~e~~~a~~~I~~ 107 (301)
T TIGR00511 68 VRYVLKYMSG--EDVETLRETVIERADAFINQSDKAQERIGE 107 (301)
T ss_pred HHHHHHHhcc--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444554432 112557788999999999886554444443
No 387
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=21.46 E-value=1.5e+02 Score=30.53 Aligned_cols=59 Identities=14% Similarity=0.112 Sum_probs=36.0
Q ss_pred CCHHHHHHHHHhhCC--CCCCCHHHHHHHHHHHHHHH---HHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009343 402 LTKRSIQELVNQIDP--SERLDPDVEDILVDIAEDFV---ESITMFGCSLAKHRKSDTLEAKDILVHL 464 (537)
Q Consensus 402 LtKrKLqELVrqIDP--~e~LD~DVEELLLeIADDFV---DsVvs~ACkLAKHRKSdTLEvKDVQLhL 464 (537)
++...+.+.|+++-. +..+|+++.++|.+.++.=+ .+.++.+|.+ +.+.|+.+||.-.|
T Consensus 178 l~~~el~~~L~~~~~~~g~~i~~~al~~ia~~s~G~~R~al~~l~~~~~~----~~~~It~~~v~~~l 241 (363)
T PRK14961 178 ISEEKIFNFLKYILIKESIDTDEYALKLIAYHAHGSMRDALNLLEHAINL----GKGNINIKNVTDML 241 (363)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh----cCCCCCHHHHHHHH
Confidence 466667766666522 35699999999888876533 3344444433 34557777774433
No 388
>PF02268 TFIIA_gamma_N: Transcription initiation factor IIA, gamma subunit, helical domain; InterPro: IPR015872 Transcription factor IIA (TFIIA) is one of several factors that form part of a transcription pre-initiation complex along with RNA polymerase II, the TATA-box-binding protein (TBP) and TBP-associated factors, on the TATA-box sequence upstream of the initiation start site. After initiation, some components of the pre-initiation complex (including TFIIA) remain attached and re-initiate a subsequent round of transcription. TFIIA binds to TBP to stabilise TBP binding to the TATA element. TFIIA also inhibits the cytokine HMGB1 (high mobility group 1 protein) binding to TBP [], and can dissociate HMGB1 already bound to TBP/TATA-box. Human and Drosophila TFIIA have three subunits: two large subunits, LN/alpha and LC/beta, derived from the same gene, and a small subunit, S/gamma. Yeast TFIIA has two subunits: a large TOA1 subunit that shows sequence similarity to the N-terminal of LN/alpha and the C-terminal of LC/beta, and a small subunit, TOA2 that is highly homologous with S/gamma. The conserved regions of the large and small subunits of TFIIA combine to form two domains: a four-helix bundle (helical domain) composed of two helices from each of the N-terminal regions of TOA1 and TOA2 in yeast; and a beta-barrel (beta-barrel domain) composed of beta-sheets from the C-terminal regions of TOA1 and TOA2 []. This entry represents the alpha-helical domain found at the N-terminal of the gamma subunit of transcription factor TFIIA.; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005672 transcription factor TFIIA complex; PDB: 1NVP_D 1RM1_B 1YTF_D 1NH2_D.
Probab=21.45 E-value=2.6e+02 Score=22.55 Aligned_cols=32 Identities=9% Similarity=0.340 Sum_probs=24.1
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHH
Q 009343 405 RSIQELVNQIDPSERLDPDVEDILVDIAEDFVESIT 440 (537)
Q Consensus 405 rKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVv 440 (537)
+.|+|||.+ ..|+++....+|+-.|.-|++.+
T Consensus 17 dtLDeli~~----~~I~p~La~kVL~~FDksi~~~L 48 (49)
T PF02268_consen 17 DTLDELIQE----GKITPQLAMKVLEQFDKSINEAL 48 (49)
T ss_dssp HHHHHHHHT----TSS-HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHc----CCCCHHHHHHHHHHHHHHHHHHh
Confidence 356677764 79999999999998888777764
No 389
>TIGR00745 apbA_panE 2-dehydropantoate 2-reductase. This model describes enzymes that perform as 2-dehydropantoate 2-reductase, one of four enzymes required for the de novo biosynthesis of pantothenate (vitamin B5) from Asp and 2-oxoisovalerate. Although few members of the seed alignment are characterized experimentally, nearly all from complete genomes are found in a genome-wide (but not local) context of all three other pantothenate-biosynthetic enzymes (TIGR00222, TIGR00018, TIGR00223). The gene encoding this enzyme is designated apbA in Salmonella typhimurium and panE in Escherichia coli; this protein functions as a monomer and functions in the alternative pyrimidine biosynthetic, or APB, pathway, used to synthesize the pyrimidine moiety of thiamine. Note, synthesis of the pyrimidine moiety of thiamine occurs either via the first five steps in de novo purine biosynthesis, which uses the pur gene products, or through the APB pathway. Note that this family includes both NADH and NADPH
Probab=21.38 E-value=1e+02 Score=29.43 Aligned_cols=18 Identities=11% Similarity=0.056 Sum_probs=8.5
Q ss_pred HHHHHHHHHHhhhhcCCC
Q 009343 436 VESITMFGCSLAKHRKSD 453 (537)
Q Consensus 436 VDsVvs~ACkLAKHRKSd 453 (537)
+..++...+.+|+..+.+
T Consensus 206 ~~~~~~E~~~v~~a~G~~ 223 (293)
T TIGR00745 206 LRRLMDEVVRVARAEGVD 223 (293)
T ss_pred HHHHHHHHHHHHHhCCCC
Confidence 334444445555555443
No 390
>PRK10061 DNA damage-inducible protein YebG; Provisional
Probab=21.34 E-value=96 Score=28.15 Aligned_cols=43 Identities=14% Similarity=0.167 Sum_probs=26.0
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 419 RLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 419 ~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
+=+-|+.|=+|||||.|.+=+....+ +-+.=.++++-|+|-+|
T Consensus 22 KKEADAyDKMLD~Ad~L~~~L~~s~~------~ldE~q~E~L~l~LA~n 64 (96)
T PRK10061 22 KKEADAYDKMLDTADLLDTWLTNSPV------QMEDEQREALSLWLAEQ 64 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCC------CCCHHHHHHHHHHHHHH
Confidence 34568889999999998765543322 22222345555555554
No 391
>PRK13655 phosphoenolpyruvate carboxylase; Provisional
Probab=21.31 E-value=1.4e+02 Score=33.54 Aligned_cols=73 Identities=12% Similarity=0.057 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHHHhhhhcCCCCc---chhhHHHHHhhccCcccCCCCccccccc-----------CCCCCchHHHHH
Q 009343 430 DIAEDFVESITMFGCSLAKHRKSDTL---EAKDILVHLERNWNMTLPGFSGDEIKTF-----------RKPLVCDIHKER 495 (537)
Q Consensus 430 eIADDFVDsVvs~ACkLAKHRKSdTL---EvKDVQLhLERnWNI~IPGfssDEIR~~-----------RK~~pTEaHKQR 495 (537)
.|-+||-+..--+....|+..+++.+ -.||| -+++..+|+.+.-...++...+ .+....+++.-+
T Consensus 407 ~l~~dl~~a~~y~n~~~~~~~~~~~~~~~~~~di-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 485 (494)
T PRK13655 407 NLKKDLEFAARFFNPEVAEKLIDEETIAEIKEDI-DEAKEILGLELGPDPEYERLHLLSSLFLLALKEEELQRVKSLILE 485 (494)
T ss_pred hHHHHHHHHHHhcCHHHHHHhccchhHHHHHHHH-HHHHHHhCCCCCCChHHHHHHHHHHhhhhhccccchhhHHHHHHH
Confidence 33355555555455555555533332 24566 5566678888754443332110 123355788999
Q ss_pred HHHHHHHh
Q 009343 496 LAAIKKSV 503 (537)
Q Consensus 496 MALIRKsI 503 (537)
|+.|||.|
T Consensus 486 ~a~~R~fL 493 (494)
T PRK13655 486 MAKIRGFL 493 (494)
T ss_pred HHHHhccc
Confidence 99999865
No 392
>COG1241 MCM2 Predicted ATPase involved in replication control, Cdc46/Mcm family [DNA replication, recombination, and repair]
Probab=21.21 E-value=1.6e+02 Score=34.06 Aligned_cols=48 Identities=27% Similarity=0.275 Sum_probs=39.1
Q ss_pred CCCCHHHHHHHHHHHHHHH-------------------HHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009343 418 ERLDPDVEDILVDIAEDFV-------------------ESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (537)
Q Consensus 418 e~LD~DVEELLLeIADDFV-------------------DsVvs~ACkLAKHRKSdTLEvKDVQLhLE 465 (537)
-.|.+++.|.|.++..+-- +.|+..|-.+||-|=|+.|+.+||..+++
T Consensus 524 P~lt~ea~e~l~~~Yv~~Rk~~~~~~~~~~~piT~RqLEsiiRLaeA~Ak~rLS~~V~~eD~~eAi~ 590 (682)
T COG1241 524 PVLTEEAREELEDYYVEMRKKSALVEEKRTIPITARQLESIIRLAEAHAKMRLSDVVEEEDVDEAIR 590 (682)
T ss_pred cccCHHHHHHHHHHHHHhhhccccccccCcccccHHHHHHHHHHHHHHHhhhccCCCCHHHHHHHHH
Confidence 4788888888877665544 45899999999999999999999976554
No 393
>TIGR00563 rsmB ribosomal RNA small subunit methyltransferase RsmB. The seed alignment is built from bacterial sequences only. Eukaryotic homologs include Nop2, a protein required for processing pre-rRNA, that is likely also a rRNA methyltransferase, although the fine specificity may differ. Cutoff scores are set to avoid treating archaeal and eukaroytic homologs automatically as functionally equivalent, although they may have very similar roles.
Probab=21.20 E-value=2.5e+02 Score=29.59 Aligned_cols=65 Identities=14% Similarity=0.071 Sum_probs=38.8
Q ss_pred CHHHHHHHHHhhCC--CCCCCHHHHHHHHHHHHH-HHHH-----HHHHHHHhhhhcCCCCc--chhhHHHHHhhc
Q 009343 403 TKRSIQELVNQIDP--SERLDPDVEDILVDIAED-FVES-----ITMFGCSLAKHRKSDTL--EAKDILVHLERN 467 (537)
Q Consensus 403 tKrKLqELVrqIDP--~e~LD~DVEELLLeIADD-FVDs-----Vvs~ACkLAKHRKSdTL--EvKDVQLhLERn 467 (537)
.+..|+++|+++-. ...++..+.-+++-.++. |-++ ||+.|+.|||..+.+.. =|--|.-.+.|+
T Consensus 46 ~~~~lD~~i~~~~~~~~~~l~~~~~~L~~~~~e~l~~~~~p~~aainEaVelaK~~~~~~~~~fVNgVLr~i~r~ 120 (426)
T TIGR00563 46 TLSQLDWLIKKLMDRPMKGKPRTVHYLILVGLYQLLYTRIPAHAAVAETVEGAKAIKRKGLKGLVNGVLRRFQRE 120 (426)
T ss_pred hHHHHHHHHHHHhCCCccccCHHHHHHHHHHHHHHhcCCCCCEehHHHHHHHHHhcCCccchhhHHHHHHHHhhc
Confidence 45667777777632 245666555444455565 3335 89999999998765422 144555555553
No 394
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=21.18 E-value=2.3e+02 Score=31.23 Aligned_cols=61 Identities=11% Similarity=0.077 Sum_probs=34.7
Q ss_pred CCHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHH
Q 009343 402 LTKRSIQELVNQI--DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVH 463 (537)
Q Consensus 402 LtKrKLqELVrqI--DP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLh 463 (537)
|+...|.+.|+.| ..+..+|+++.++|.++++.=+.++++.-=+++-+ +...|+.+||.-.
T Consensus 178 l~~~~i~~~l~~il~~egi~~~~~al~~ia~~s~GslR~al~lLdq~ia~-~~~~It~~~V~~~ 240 (509)
T PRK14958 178 LPPLQIAAHCQHLLKEENVEFENAALDLLARAANGSVRDALSLLDQSIAY-GNGKVLIADVKTM 240 (509)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHHHHHHhc-CCCCcCHHHHHHH
Confidence 4556666655555 33567899999998888775444443332222222 3345667666543
No 395
>TIGR03566 FMN_reduc_MsuE FMN reductase, MsuE subfamily. Members of this protein family use NAD(P)H to reduce FMN and regenerate FMNH2. Members include the NADH-dependent enzyme MsuE from Pseudomonas aeruginosa, which serves as a partner to an FMNH2-dependent alkanesulfonate monooxygenase. The NADP-dependent enzyme from E. coli is outside the scope of this model.
Probab=21.15 E-value=1.1e+02 Score=27.91 Aligned_cols=25 Identities=0% Similarity=-0.105 Sum_probs=19.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHH
Q 009343 415 DPSERLDPDVEDILVDIAEDFVESI 439 (537)
Q Consensus 415 DP~e~LD~DVEELLLeIADDFVDsV 439 (537)
|.+...|+++.+.|.+++|+|++-+
T Consensus 147 ~~g~l~d~~~~~~l~~~~~~~~~~~ 171 (174)
T TIGR03566 147 ADYRLASEALRARIALAVDRAAPLL 171 (174)
T ss_pred ccccccCHHHHHHHHHHHHHHHHHh
Confidence 4455678889999999999998765
No 396
>PF01221 Dynein_light: Dynein light chain type 1 ; InterPro: IPR001372 Dynein is a multisubunit microtubule-dependent motor enzyme that acts as the force generating protein of eukaryotic cilia and flagella. The cytoplasmic isoform of dynein acts as a motor for the intracellular retrograde motility of vesicles and organelles along microtubules. Dynein is composed of a number of ATP-binding large subunits (see IPR004273 from INTERPRO), intermediate size subunits and small subunits. Among the small subunits, there is a family of highly conserved proteins which make up this family [, ]. Both type 1 (DLC1) and 2 (DLC2) dynein light chains have a similar two-layer alpha-beta core structure consisting of beta-alpha(2)-beta-X-beta(2) [, ].; GO: 0007017 microtubule-based process, 0005875 microtubule associated complex; PDB: 1F95_A 1F96_A 1F3C_A 3P8M_B 2XQQ_C 1RE6_A 1CMI_A 1PWK_A 1PWJ_A 4DS1_C ....
Probab=21.11 E-value=76 Score=26.69 Aligned_cols=19 Identities=5% Similarity=0.382 Sum_probs=12.8
Q ss_pred CCCHHHHHHHHHHHHHHHH
Q 009343 419 RLDPDVEDILVDIAEDFVE 437 (537)
Q Consensus 419 ~LD~DVEELLLeIADDFVD 437 (537)
-|++|.++.++++|.+-++
T Consensus 12 dM~~~~~~~~~~~~~~a~~ 30 (89)
T PF01221_consen 12 DMPEEMQEEAIELAKEALK 30 (89)
T ss_dssp ES-HHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHH
Confidence 4677777777777776665
No 397
>TIGR02510 NrdE-prime ribonucleoside-diphosphate reductase, alpha chain. This model represents a small clade of ribonucleoside-diphosphate reductase, alpha chains which are sufficiently divergent from the usual Class I RNR alpha chains (NrdE or NrdA, TIGR02506) as to warrant their own model. The genes from Thermus thermophilus, Dichelobacter and Salinibacter are adjacent to the usual RNR beta chain.
Probab=21.11 E-value=1.6e+02 Score=33.19 Aligned_cols=35 Identities=17% Similarity=0.112 Sum_probs=27.5
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCc
Q 009343 421 DPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTL 455 (537)
Q Consensus 421 D~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTL 455 (537)
++|+.++.-+|.+..-+..+..+|+|||.||...|
T Consensus 355 S~ea~~~~~~i~e~i~~~A~~aS~eLA~ErG~~~l 389 (571)
T TIGR02510 355 SGAAFILNAEIFAEIKEAAEEASRELAEEHGEDEL 389 (571)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCcchh
Confidence 34567777777777777778899999999998654
No 398
>cd00336 Ribosomal_L22 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper folding and stabilizing the conformation of 23S rRNA. L22 is the largest protein contributor to the surface of the polypeptide exit channel, the tunnel through which the polypeptide product passes. L22 is also one of six proteins located at the putative translocon binding site on the exterior surface of the ribosome.
Probab=21.05 E-value=1.8e+02 Score=25.08 Aligned_cols=51 Identities=10% Similarity=0.107 Sum_probs=36.3
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHH--HHHHHHHHHHHHHHHHHHHHHhhhhcCCC
Q 009343 402 LTKRSIQELVNQIDPSERLDPDV--EDILVDIAEDFVESITMFGCSLAKHRKSD 453 (537)
Q Consensus 402 LtKrKLqELVrqIDP~e~LD~DV--EELLLeIADDFVDsVvs~ACkLAKHRKSd 453 (537)
++-+|+.++++.|.+. .+|+.. -+++..=+-.+|.+++..|...|++.+.+
T Consensus 10 ~S~kK~~~v~~~Irg~-~v~~A~~~L~~~~kk~a~~i~k~l~sa~~nA~~~~~~ 62 (105)
T cd00336 10 ISPKKARLVARLIRGM-SVDEALAQLEFVPKKAAKIILKLLKSAEANAENNGLD 62 (105)
T ss_pred cCHHHHHHHHHHHcCC-cHHHHHHHHHhCCHHHHHHHHHHHHHHHHhHHHcCCC
Confidence 5678999999999653 343332 23333445688999999999999987765
No 399
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=20.99 E-value=63 Score=37.88 Aligned_cols=44 Identities=7% Similarity=0.132 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009343 422 PDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (537)
Q Consensus 422 ~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWN 469 (537)
+++.+++.++.+++|++++..-|. .+ -+..+++.+.-.|..+|.
T Consensus 634 ~~l~~~i~~~~~~~i~~~i~~~~~-~~---~~~w~~~~L~~~l~~~~~ 677 (796)
T PRK12906 634 KDLKEVLMPMIKRTVDRQVQMYTQ-GD---KKDWDLDALRDFIVSAMP 677 (796)
T ss_pred ccHHHHHHHHHHHHHHHHHHHhcC-CC---hhhccHHHHHHHHHHHcC
Confidence 467888888999999988886431 12 122466777767776663
No 400
>cd00051 EFh EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to the activation or inactivation of target proteins. EF-hands tend to occur in pairs or higher copy numbers.
Probab=20.93 E-value=1.4e+02 Score=20.41 Aligned_cols=11 Identities=9% Similarity=0.356 Sum_probs=6.2
Q ss_pred CCCCcchhhHH
Q 009343 451 KSDTLEAKDIL 461 (537)
Q Consensus 451 KSdTLEvKDVQ 461 (537)
+...|+..+..
T Consensus 49 ~~~~l~~~ef~ 59 (63)
T cd00051 49 GDGKIDFEEFL 59 (63)
T ss_pred CCCeEeHHHHH
Confidence 44556666654
No 401
>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=20.89 E-value=2.3e+02 Score=30.59 Aligned_cols=36 Identities=19% Similarity=0.214 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009343 434 DFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (537)
Q Consensus 434 DFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWN 469 (537)
|.+|.|+..|.--|..-+.+.|+.+||+..|++...
T Consensus 322 dikekvlK~aLh~Ai~ed~e~v~~edie~al~k~r~ 357 (368)
T COG1223 322 DIKEKVLKTALHRAIAEDREKVEREDIEKALKKERK 357 (368)
T ss_pred hHHHHHHHHHHHHHHHhchhhhhHHHHHHHHHhhcc
Confidence 567788888888888889999999999999998544
No 402
>PF11047 SopD: Salmonella outer protein D; InterPro: IPR022747 The proteins in this entry are also known as secreted effector proteins. Effector proteins function to alter host cell physiology and promote bacterial survival in host tissues. They contribute to the formation of Salmonella-induced filaments (Sifs) in infected epithelial cells and to replication in macrophages []. SopD is a type III virulence effector protein whose structure consists of 38% alpha-helix and 26% beta-strand [].; GO: 0009405 pathogenesis, 0033644 host cell membrane
Probab=20.88 E-value=1.6e+02 Score=31.48 Aligned_cols=70 Identities=23% Similarity=0.419 Sum_probs=50.0
Q ss_pred CcCCccCCHHHHHHHHHhhCCC--CCCCHHHHHHHHHHHHHHHHHHH-------HHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 396 EFGNRILTKRSIQELVNQIDPS--ERLDPDVEDILVDIAEDFVESIT-------MFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 396 e~~nrILtKrKLqELVrqIDP~--e~LD~DVEELLLeIADDFVDsVv-------s~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
.-++.||.+-+|++++.--|.- +.+++|-++++++|++-+=..|. .++..|-|.-..+. ++||-.+-|-|
T Consensus 113 ~Ig~~VI~q~~i~diln~sd~~v~~~m~~~E~~lFlkic~~~g~~i~~~pellq~~~~~lr~~v~~~~-~ik~~vy~~mr 191 (319)
T PF11047_consen 113 MIGDTVISQSNIQDILNVSDNCVVKSMSREERELFLKICEYYGSKITWHPELLQNSASTLRKEVNEDD-QIKDAVYKLMR 191 (319)
T ss_pred EECCEEEeeccHHHHHhhhhhhhhhhccHHHHHHHHHHHHHHhhhhccCHHHHHHHHHHHHHHhccch-HHHHHHHHhhC
Confidence 4678899999999999866543 57999999999999987766554 34455555444553 67776544443
No 403
>PLN02162 triacylglycerol lipase
Probab=20.88 E-value=80 Score=35.18 Aligned_cols=61 Identities=15% Similarity=0.261 Sum_probs=40.5
Q ss_pred HHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCC
Q 009343 406 SIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFS 476 (537)
Q Consensus 406 KLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGfs 476 (537)
....++-.+|....||+...-. | ..+.-+++-+||+||-+.+ +.|+-+.++.|+|.+-||=
T Consensus 113 ~~~s~ig~~d~r~~l~~~~~~~--~--~~~~~~l~ima~klayen~------~~i~~~v~~~w~m~~v~~y 173 (475)
T PLN02162 113 TYTSFIGCSDRRIELDEKIDVG--S--IEYKSMLSIMASKISYESK------PFINSVVKNTWKMDLVGNY 173 (475)
T ss_pred cHHhHhhcccccccccccCCcc--c--chhHHHHHHHHHHHhhcCH------HHHHHHHHHhcCccccchh
Confidence 3455666677777666553110 0 1677788999999998643 3456668999998876543
No 404
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=20.88 E-value=1.1e+02 Score=35.51 Aligned_cols=66 Identities=15% Similarity=0.269 Sum_probs=44.3
Q ss_pred HHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhH--HHHHhhccCcccCCCCccccc
Q 009343 408 QELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDI--LVHLERNWNMTLPGFSGDEIK 481 (537)
Q Consensus 408 qELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDV--QLhLERnWNI~IPGfssDEIR 481 (537)
-||+.+||.-..+.+--++.|.+|++.|+..+... | ++++-+ |++.|= .+..++.|+ |.||...++
T Consensus 638 pefl~Rid~ii~f~~L~~~~l~~I~~~~l~~~~~~---l-~~~~i~-l~~~~~~~~~l~~~~~~---~~~GAR~l~ 705 (758)
T PRK11034 638 PEFRNRLDNIIWFDHLSTDVIHQVVDKFIVELQAQ---L-DQKGVS-LEVSQEARDWLAEKGYD---RAMGARPMA 705 (758)
T ss_pred HHHHccCCEEEEcCCCCHHHHHHHHHHHHHHHHHH---H-HHCCCC-ceECHHHHHHHHHhCCC---CCCCCchHH
Confidence 48888888877777777778899999999887653 4 445554 455443 444455554 567776543
No 405
>PF12243 CTK3: CTD kinase subunit gamma CTK3
Probab=20.87 E-value=4.1e+02 Score=25.09 Aligned_cols=57 Identities=16% Similarity=0.155 Sum_probs=40.8
Q ss_pred CCCCHHHHHHHHHHHHH-----------HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCc
Q 009343 418 ERLDPDVEDILVDIAED-----------FVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSG 477 (537)
Q Consensus 418 e~LD~DVEELLLeIADD-----------FVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGfss 477 (537)
..+++|+-+.|+|..|+ |||. +..+|...+ +....-++-|+--|.|--+..+|.-+.
T Consensus 35 ~~~~edL~~cIle~le~~~lN~R~nI~~fID~-l~e~~~~~~--~~~~~Yv~~l~~dL~~Iv~~V~P~~~~ 102 (139)
T PF12243_consen 35 RDMEEDLWSCILEQLEKENLNTRINIFYFIDS-LCESSQKSK--KYNYPYVSMLQRDLPRIVDAVAPPDNS 102 (139)
T ss_pred cccHHHHHHHHHHHHhccchhhHHHHHHHHHH-HHHHHHhcc--cccchhHHHHHHHHHHHHHHhCCCCCc
Confidence 67899999999998886 7777 444555544 445556666777777777778887655
No 406
>KOG0034 consensus Ca2+/calmodulin-dependent protein phosphatase (calcineurin subunit B), EF-Hand superfamily protein [Signal transduction mechanisms]
Probab=20.83 E-value=3.2e+02 Score=26.69 Aligned_cols=62 Identities=11% Similarity=0.164 Sum_probs=39.7
Q ss_pred CcCCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009343 396 EFGNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (537)
Q Consensus 396 e~~nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERn 467 (537)
-++...|+|..|..+|+.+=... .|. ++|.+.+|+ ++-..-|-+-+...|...|-.=++++.
T Consensus 115 ~~~~G~I~reel~~iv~~~~~~~-~~~-~~e~~~~i~--------d~t~~e~D~d~DG~IsfeEf~~~v~~~ 176 (187)
T KOG0034|consen 115 LDGDGFISREELKQILRMMVGEN-DDM-SDEQLEDIV--------DKTFEEADTDGDGKISFEEFCKVVEKQ 176 (187)
T ss_pred CCCCCcCcHHHHHHHHHHHHccC-Ccc-hHHHHHHHH--------HHHHHHhCCCCCCcCcHHHHHHHHHcC
Confidence 34455588888888887763322 222 555555554 466667778888888888876666654
No 407
>PF07156 Prenylcys_lyase: Prenylcysteine lyase; InterPro: IPR010795 This entry represents a conserved region found in a group of prenylcysteine lyases (1.8.3.5 from EC) that are approximately 500 residues long. Prenylcysteine lyase is a FAD-dependent thioether oxidase that degrades a variety of prenylcysteines, producing free cysteine, an isoprenoid aldehyde and hydrogen peroxide as products of the reaction []. It has been noted that this enzyme has considerable homology with ClP55, a 55 kDa protein that is associated with chloride ion pumps [].; GO: 0016670 oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor, 0030328 prenylcysteine catabolic process, 0055114 oxidation-reduction process
Probab=20.65 E-value=1.4e+02 Score=31.68 Aligned_cols=62 Identities=18% Similarity=0.310 Sum_probs=46.9
Q ss_pred CCCCCCHHHHHHHHHHH-HHHHHHHHHHHHHhhhhcCCCCcchhhH-HHHHhhccCc--ccCCCCcc
Q 009343 416 PSERLDPDVEDILVDIA-EDFVESITMFGCSLAKHRKSDTLEAKDI-LVHLERNWNM--TLPGFSGD 478 (537)
Q Consensus 416 P~e~LD~DVEELLLeIA-DDFVDsVvs~ACkLAKHRKSdTLEvKDV-QLhLERnWNI--~IPGfssD 478 (537)
+...++. |+|++..|- |||++-.-...+..-|+.+-+..=++|| +-.+.-|||- .|.+|.+-
T Consensus 45 ~~~~F~s-v~~l~~~lg~~~~~~~t~~t~~e~L~~~gi~~~fi~Elv~a~tRvNYgQ~~~i~a~~G~ 110 (368)
T PF07156_consen 45 PGFPFSS-VEELLSALGGDDFLNLTKVTGEEYLKENGISERFINELVQAATRVNYGQNVNIHAFAGL 110 (368)
T ss_pred CCCCcCC-HHHHHHHhCChHHHHHHHHHHHHHHHHCCCCHHHHHHHHHhheEeecccccchhhhhhh
Confidence 4455555 899999888 8999988888888778878776667777 5557778886 77777753
No 408
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=20.64 E-value=1.8e+02 Score=26.70 Aligned_cols=93 Identities=10% Similarity=0.184 Sum_probs=52.4
Q ss_pred CCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhH-HHHHhhccCcccCCCC
Q 009343 398 GNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDI-LVHLERNWNMTLPGFS 476 (537)
Q Consensus 398 ~nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDV-QLhLERnWNI~IPGfs 476 (537)
.-...+|..+.+|+..+..+ | ++.+-+|.+.+-..|..++.++.+. .-+++|| |=++-+-|. .+..|.
T Consensus 5 ~~~~~~~~~~~~li~~~~~~---d---~~af~~l~~~y~~~l~~~~~~~~~~----~~~AeDlvQev~l~l~~-~~~~~~ 73 (194)
T PRK12531 5 SPHTFGRQEWLECMEKVKSR---D---KQAFALVFSYYAPKLKQFAMKHVGN----EQVAMEMVQETMSTVWQ-KAHLFD 73 (194)
T ss_pred CccccccHhHHHHHHHHHcC---C---HHHHHHHHHHHHHHHHHHHHHHhCC----HHHHHHHHHHHHHHHHH-hHHhcC
Confidence 34456788899999887553 3 3345566666666666666666543 2357887 445555665 223333
Q ss_pred cccccccCCCCCchHHHHHHHHHHHH
Q 009343 477 GDEIKTFRKPLVCDIHKERLAAIKKS 502 (537)
Q Consensus 477 sDEIR~~RK~~pTEaHKQRMALIRKs 502 (537)
.+ ...++-|...-+++.-+..+||.
T Consensus 74 ~~-~~~~~~wL~~iarn~~ld~~Rk~ 98 (194)
T PRK12531 74 GQ-KSALSTWIYTIIRNLCFDLLRKQ 98 (194)
T ss_pred cc-cchHHHHHHHHHHHHHHHHHHHh
Confidence 21 12233344444555555556653
No 409
>PF01152 Bac_globin: Bacterial-like globin; InterPro: IPR001486 Globins are haem-containing proteins involved in binding and/or transporting oxygen. They belong to a very large and well studied family that is widely distributed in many organisms []. Globins have evolved from a common ancestor and can be divided into three groups: single-domain globins, and two types of chimeric globins, flavohaemoglobins and globin-coupled sensors. Bacteria have all three types of globins, while archaea lack flavohaemoglobins, and eukaryotes lack globin-coupled sensors []. Several functionally different haemoglobins can coexist in the same species. The major types of globins include: Haemoglobin (Hb): trimer of two alpha and two beta chains, although embryonic and foetal forms can substitute the alpha or beta chain for ones with higher oxygen affinity, such as gamma, delta, epsilon or zeta chains. Hb transports oxygen from lungs to other tissues in vertebrates []. Hb proteins are also present in unicellular organisms where they act as enzymes or sensors []. Myoglobin (Mb): monomeric protein responsible for oxygen storage in vertebrate muscle []. Neuroglobin: a myoglobin-like haemprotein expressed in vertebrate brain and retina, where it is involved in neuroprotection from damage due to hypoxia or ischemia []. Neuroglobin belongs to a branch of the globin family that diverged early in evolution. Cytoglobin: an oxygen sensor expressed in multiple tissues. Related to neuroglobin []. Erythrocruorin: highly cooperative extracellular respiratory proteins found in annelids and arthropods that are assembled from as many as 180 subunit into hexagonal bilayers []. Leghaemoglobin (legHb or symbiotic Hb): occurs in the root nodules of leguminous plants, where it facilitates the diffusion of oxygen to symbiotic bacteriods in order to promote nitrogen fixation. Non-symbiotic haemoglobin (NsHb): occurs in non-leguminous plants, and can be over-expressed in stressed plants []. Flavohaemoglobins (FHb): chimeric, with an N-terminal globin domain and a C-terminal ferredoxin reductase-like NAD/FAD-binding domain. FHb provides protection against nitric oxide via its C-terminal domain, which transfers electrons to haem in the globin []. Globin-coupled sensors: chimeric, with an N-terminal myoglobin-like domain and a C-terminal domain that resembles the cytoplasmic signalling domain of bacterial chemoreceptors. They bind oxygen, and act to initiate an aerotactic response or regulate gene expression [, ]. Protoglobin: a single domain globin found in archaea that is related to the N-terminal domain of globin-coupled sensors []. Truncated 2/2 globin: lack the first helix, giving them a 2-over-2 instead of the canonical 3-over-3 alpha-helical sandwich fold. Can be divided into three main groups (I, II and II) based on structural features []. This entry represents a group of haemoglobin-like proteins found in eubacteria, cyanobacteria, protozoa, algae and plants, but not in animals or yeast. These proteins have a truncated 2-over-2 rather than the canonical 3-over-3 alpha-helical sandwich fold []. This entry includes: HbN (or GlbN): a truncated haemoglobin-like protein that binds oxygen cooperatively with a very high affinity and a slow dissociation rate, which may exclude it from oxygen transport. It appears to be involved in bacterial nitric oxide detoxification and in nitrosative stress []. Cyanoglobin (or GlbN): a truncated haemoprotein found in cyanobacteria that has high oxygen affinity, and which appears to serve as part of a terminal oxidase, rather than as a respiratory pigment []. HbO (or GlbO): a truncated haemoglobin-like protein with a lower oxygen affinity than HbN. HbO associates with the bacterial cell membrane, where it significantly increases oxygen uptake over membranes lacking this protein. HbO appears to interact with a terminal oxidase, and could participate in an oxygen/electron-transfer process that facilitates oxygen transfer during aerobic metabolism []. Glb3: a nuclear-encoded truncated haemoglobin from plants that appears more closely related to HbO than HbN. Glb3 from Arabidopsis thaliana (Mouse-ear cress) exhibits an unusual concentration-independent binding of oxygen and carbon dioxide []. ; GO: 0019825 oxygen binding, 0015671 oxygen transport; PDB: 2BKM_B 1UVY_A 1DLW_A 2XYK_B 2IG3_A 2GKM_B 1S61_A 1S56_B 1RTE_B 2GLN_A ....
Probab=20.63 E-value=2.3e+02 Score=24.17 Aligned_cols=79 Identities=10% Similarity=0.093 Sum_probs=48.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCc---cc----ccc-cCCCCCchHHHHHH
Q 009343 425 EDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSG---DE----IKT-FRKPLVCDIHKERL 496 (537)
Q Consensus 425 EELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLERnWNI~IPGfss---DE----IR~-~RK~~pTEaHKQRM 496 (537)
++.|..|+|+|.+.|...-. ++..-. ..+...++-++..-|-..+-|=.. .. ++. -++...++.|-.+.
T Consensus 9 ~~~I~~lv~~fY~rv~~d~~-l~~~F~--~~d~~~~~~~~~~fl~~~~GGp~~Y~~~~G~p~m~~~H~~l~it~~~f~~~ 85 (120)
T PF01152_consen 9 EEGIRALVDAFYDRVLADPR-LKPFFE--GIDLEKHKEKQAEFLSQLLGGPPLYTGRDGHPMMREAHAHLGITEEHFDRW 85 (120)
T ss_dssp HHHHHHHHHHHHHHHHT-TT-TGGGGT--TSCHHHHHHHHHHHHHHHTTSSSHHHHHHSSH-HHHHHTTS-BBHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHcCHH-HHhhcC--CCCHHHHHHHHHHHHHHHhCCCCCCcccCCCchHHHHHhCCCCCHHHHHHH
Confidence 57788999999999988877 555433 446666667777767666533221 11 222 22345566666664
Q ss_pred -HHHHHHhhhh
Q 009343 497 -AAIKKSVMAT 506 (537)
Q Consensus 497 -ALIRKsI~s~ 506 (537)
.+++.+++.-
T Consensus 86 ~~~~~~al~~~ 96 (120)
T PF01152_consen 86 LELLKQALDEL 96 (120)
T ss_dssp HHHHHHHHHHT
T ss_pred HHHHHHHHHHh
Confidence 4778877764
No 410
>PF00161 RIP: Ribosome inactivating protein; InterPro: IPR001574 A number of bacterial and plant toxins act by inhibiting protein synthesis in eukaryotic cells. The toxins of the shiga and ricin family inactivate 60S ribosomal subunits by an N-glycosidic cleavage which releases a specific adenine base from the sugar-phosphate backbone of 28S rRNA [, , ]. Members of the family include shiga and shiga-like toxins, and type I (e.g. trichosanthin and luffin) and type II (e.g. ricin, agglutinin and abrin) ribosome inactivating proteins (RIPs). All these toxins are structurally related. RIPs have been of considerable interest because of their potential use, conjugated with monoclonal antibodies, as immunotoxins to treat cancers. Further, trichosanthin has been shown to have potent activity against HIV-1-infected T cells and macrophages []. Elucidation of the structure-function relationships of RIPs has therefore become a major research effort. It is now known that RIPs are structurally related. A conserved glutamic residue has been implicated in the catalytic mechanism []; this lies near a conserved arginine, which also plays a role in catalysis [].; GO: 0030598 rRNA N-glycosylase activity, 0017148 negative regulation of translation; PDB: 3KU0_A 3KTZ_B 4EMF_A 3U6T_A 3QJI_A 3SJ6_A 3U6Z_A 3S9Q_A 4EMR_A 3U8F_A ....
Probab=20.59 E-value=1.7e+02 Score=27.68 Aligned_cols=70 Identities=16% Similarity=0.245 Sum_probs=40.2
Q ss_pred CccCCHHHHHHHHHhhCCCCC--CCHHHHHHHHHHHHHHHHHH----HHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009343 399 NRILTKRSIQELVNQIDPSER--LDPDVEDILVDIAEDFVESI----TMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (537)
Q Consensus 399 nrILtKrKLqELVrqIDP~e~--LD~DVEELLLeIADDFVDsV----vs~ACkLAKHRKSdTLEvKDVQLhLERnWN 469 (537)
+--|+|..|.+.|+.+..... .+.++.+.|+-++--|+|.+ |+.-+.-.-++. +...+.+-...||++|+
T Consensus 122 ~v~lG~~~L~~ai~~L~~~~~~~~~~~~araL~~~i~mvsEAaRF~~I~~~v~~~~~~~-~~~~~~~~~~~l~~nW~ 197 (206)
T PF00161_consen 122 NVPLGRQSLDDAIRTLARYDPNTDEADLARALLVLIQMVSEAARFRYIERRVSNNFDDN-RGFKPDPKMISLENNWG 197 (206)
T ss_dssp GSEBSHHHHHHHHHHHHTTSSTSTHHHHHHHHHHHHHHTHHHHHBHHHHHHHHHTTHCT-SEBESHHHHHHHHHTHH
T ss_pred cceEcHHHHHHHHHHHHhcCCccchHHHHHHHHHHeEeeecccccHHHHHHHHHhhccC-CCcCCCHHHHHHHhhHH
Confidence 346899999999999854332 55556666665554444322 111111111222 33456666788888887
No 411
>PRK14607 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional
Probab=20.53 E-value=1.6e+02 Score=32.38 Aligned_cols=49 Identities=22% Similarity=0.320 Sum_probs=37.1
Q ss_pred HHHHHHhhCCCCCCCHH-HHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCc
Q 009343 407 IQELVNQIDPSERLDPD-VEDILVDIAEDFVESITMFGCSLAKHRKSDTL 455 (537)
Q Consensus 407 LqELVrqIDP~e~LD~D-VEELLLeIADDFVDsVvs~ACkLAKHRKSdTL 455 (537)
+.+++++|..+..|+.| +++++..|.|.-++++--.|..+|-+-|.++.
T Consensus 195 ~~~~i~~l~~g~~Lt~~ea~~~~~~il~g~~~~~q~~AfL~alr~kget~ 244 (534)
T PRK14607 195 IKSYLKKLVEGEDLSFEEAEDVMEDITDGNATDAQIAGFLTALRMKGETA 244 (534)
T ss_pred HHHHHHHhccCCCCCHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCCCH
Confidence 56777777766777755 88889999988888888888777776666643
No 412
>COG3900 Predicted periplasmic protein [Function unknown]
Probab=20.51 E-value=46 Score=34.34 Aligned_cols=65 Identities=17% Similarity=0.322 Sum_probs=45.6
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHHHHHH-HHHHHHHHHHHHHHHHhhhhcCCCCcchhhH-HHHH---hhccCccc
Q 009343 403 TKRSIQELVNQIDPSERLDPDVEDILV-DIAEDFVESITMFGCSLAKHRKSDTLEAKDI-LVHL---ERNWNMTL 472 (537)
Q Consensus 403 tKrKLqELVrqIDP~e~LD~DVEELLL-eIADDFVDsVvs~ACkLAKHRKSdTLEvKDV-QLhL---ERnWNI~I 472 (537)
-+..|++||.+||...-|+--..|+|+ +..|+.|+.|.+ +||-+...|.-.+- +|.| .+.|-|||
T Consensus 123 apgTiD~lvdei~~kyG~~lp~adllsadpyd~L~~gv~s-----s~~vg~~vVgg~ecd~lafr~ddvDfqIWI 192 (262)
T COG3900 123 APGTIDELVDEIDDKYGITLPGADLLSADPYDDLIAGVES-----SKFVGNAVVGGEECDQLAFRKDDVDFQIWI 192 (262)
T ss_pred CCCcHHHHHHHHHhhcCCCccchhhhccChHHHHHhhhhh-----hhhhhhhccCceeehhhhccCCCCceEEEe
Confidence 456799999999998888888888776 778888877754 46666665544443 2333 24577887
No 413
>KOG4316 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.49 E-value=96 Score=30.37 Aligned_cols=54 Identities=20% Similarity=0.316 Sum_probs=35.4
Q ss_pred HHHHHHHHHHhhhhcCCCCcchhhHH-HHHhhccCcccCCCCcccccccCCCCCchHHHHHHH
Q 009343 436 VESITMFGCSLAKHRKSDTLEAKDIL-VHLERNWNMTLPGFSGDEIKTFRKPLVCDIHKERLA 497 (537)
Q Consensus 436 VDsVvs~ACkLAKHRKSdTLEvKDVQ-LhLERnWNI~IPGfssDEIR~~RK~~pTEaHKQRMA 497 (537)
+++++.|+.+..|.| .+|||. ..+.-+|||||=.-.+...+.|+ .+|+.++|+-
T Consensus 67 ~r~~t~Fs~~kGkrk-----tvkaVldRFkRL~~G~WIr~h~Gr~Kkl~k---K~~a~~krl~ 121 (172)
T KOG4316|consen 67 VRSLTYFSARKGKRK-----TVKAVLDRFKRLHCGLWIRAHPGRHKKLYK---KDEAWQKRLL 121 (172)
T ss_pred hhhhhhhhhhhcccc-----cHHHHHHHHHhcccCeeeeecCchhhhhhh---cCHHHHHHHH
Confidence 678888887766543 478874 44555899999544444444444 4677777764
No 414
>PRK15182 Vi polysaccharide biosynthesis protein TviB; Provisional
Probab=20.35 E-value=2.8e+02 Score=29.69 Aligned_cols=72 Identities=18% Similarity=0.208 Sum_probs=43.4
Q ss_pred HHHHHHHHHhhC-CC--CCCCHHHHHHHHHHHHHHHHHHHHHHH---HhhhhcCCCCcchhhHHHHHhhccCcc--cCC-
Q 009343 404 KRSIQELVNQID-PS--ERLDPDVEDILVDIAEDFVESITMFGC---SLAKHRKSDTLEAKDILVHLERNWNMT--LPG- 474 (537)
Q Consensus 404 KrKLqELVrqID-P~--e~LD~DVEELLLeIADDFVDsVvs~AC---kLAKHRKSdTLEvKDVQLhLERnWNI~--IPG- 474 (537)
.+.+.+|.+.|- .+ ...+.+.-|++.-+.+-|+.--+.++. .||+..|-| +.+|.-.....|++. -||
T Consensus 180 ~~~~~~ly~~~~~~~~~~~~~~~~AE~~Kl~~N~~~av~Ia~~NE~a~lae~~GiD---~~~v~~a~~~~~~~~~~~pG~ 256 (425)
T PRK15182 180 AELIDEVYQQIISAGTYKAESIKVAEAAKVIENTQRDLNIALVNELAIIFNRLNID---TEAVLRAAGSKWNFLPFRPGL 256 (425)
T ss_pred HHHHHHHHHHHhhcCcEEecCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcC---HHHHHHHhcCCCCcccCCCCc
Confidence 457888888873 22 234556666666666666665555544 556666655 555544455556644 688
Q ss_pred CCcc
Q 009343 475 FSGD 478 (537)
Q Consensus 475 fssD 478 (537)
||+-
T Consensus 257 vGG~ 260 (425)
T PRK15182 257 VGGH 260 (425)
T ss_pred cccc
Confidence 8873
No 415
>COG5262 HTA1 Histone H2A [Chromatin structure and dynamics]
Probab=20.33 E-value=2.7e+02 Score=26.46 Aligned_cols=71 Identities=11% Similarity=0.173 Sum_probs=58.0
Q ss_pred CcCCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009343 396 EFGNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (537)
Q Consensus 396 e~~nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDVQLhLER 466 (537)
+...-++.=.+++.|+++-.-..+|..++--.|.-+.+-.+..|++.|-..||-.|...|..|.|++.+..
T Consensus 21 a~agl~fpvgrvkr~lk~~~~~~Rig~~A~Vyl~AvleYL~aEilelAgNaA~d~kkkri~PrHlqlAIrn 91 (132)
T COG5262 21 AKAGLIFPVGRVKRLLKKGNYRMRIGAGAPVYLAAVLEYLAAEILELAGNAARDNKKKRIIPRHLQLAIRN 91 (132)
T ss_pred hhcCccccHHHHHHHHHcCccceeecCCcHHHHHHHHHHHHHHHHHHhhhhhhhcCcceechHHHHHHhcC
Confidence 34445667778999999655666888888878888888888999999999999999999999999887653
No 416
>PRK06596 RNA polymerase factor sigma-32; Reviewed
Probab=20.32 E-value=3.7e+02 Score=26.98 Aligned_cols=27 Identities=22% Similarity=0.228 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHhhhhcCCCCcchhhH
Q 009343 434 DFVESITMFGCSLAKHRKSDTLEAKDI 460 (537)
Q Consensus 434 DFVDsVvs~ACkLAKHRKSdTLEvKDV 460 (537)
++|+.-......+|++...+.+++.|+
T Consensus 52 ~Lv~~~~~lV~~ia~~~~~~~~~~eDL 78 (284)
T PRK06596 52 QLVLSHLRFVVHIARGYRGYGLPQADL 78 (284)
T ss_pred HHHHHhHHHHHHHHHHhcCCCCCHHHH
Confidence 344444444455554444556889998
No 417
>cd05027 S-100B S-100B: S-100B domain found in proteins similar to S100B. S100B is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100B group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100B is most abundant in glial cells of the central nervous system, predominately in astrocytes. S100B is involved in signal transduction via the inhibition of protein phoshorylation, regulation of enzyme activity and by affecting the calcium homeostasis. Upon calcium binding the S100B homodimer changes conformation to expose a hydrophobic cleft, which represents the interaction site of S100B with its more than 20 known target proteins. These target proteins include several cellular architecture proteins such as tubulin and GFAP; S100B can inhibit polymerization of these oligomeric molecules. Furthermore, S100B i
Probab=20.32 E-value=3.4e+02 Score=22.99 Aligned_cols=33 Identities=21% Similarity=0.461 Sum_probs=22.0
Q ss_pred cCCc-cCCHHHHHHHHHh-----hCCCCCCC-HHHHHHHHHH
Q 009343 397 FGNR-ILTKRSIQELVNQ-----IDPSERLD-PDVEDILVDI 431 (537)
Q Consensus 397 ~~nr-ILtKrKLqELVrq-----IDP~e~LD-~DVEELLLeI 431 (537)
+++. .|++..|..|++. ++. ..+ ++|+++|.++
T Consensus 21 dgdG~~I~~~eL~~ll~~~~~~~lg~--~~~~~~v~~~i~~~ 60 (88)
T cd05027 21 EGDKHKLKKSELKELINNELSHFLEE--IKEQEVVDKVMETL 60 (88)
T ss_pred CCCcCEECHHHHHHHHHHHhHHHhcC--CCCHHHHHHHHHHh
Confidence 4555 5899999999987 432 344 3477766655
No 418
>PRK06522 2-dehydropantoate 2-reductase; Reviewed
Probab=20.26 E-value=6e+02 Score=24.50 Aligned_cols=62 Identities=10% Similarity=0.174 Sum_probs=37.9
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHH--------------------------HHHHHHHHHHHHHHHhhhhcCCCCcch
Q 009343 404 KRSIQELVNQIDPSERLDPDVEDILVD--------------------------IAEDFVESITMFGCSLAKHRKSDTLEA 457 (537)
Q Consensus 404 KrKLqELVrqIDP~e~LD~DVEELLLe--------------------------IADDFVDsVvs~ACkLAKHRKSdTLEv 457 (537)
.+.|.+|+........+.+|++..+.+ -+.++++.++...+.+|+..|.+ ++.
T Consensus 155 ~~~l~~~l~~~~~~~~~~~di~~~~w~Kl~~N~~~n~l~al~~~~~g~l~~~~~~~~l~~~~~~E~~~v~~a~G~~-~~~ 233 (304)
T PRK06522 155 AEALADLLNAAGLDVEWSPDIRTEIWRKLWVNCVINPLTALLGCTNGELLADPDYRALIRALMEEVAAVAEAEGVH-LSV 233 (304)
T ss_pred HHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHhchhHHHHHhCCChhHHhcCccHHHHHHHHHHHHHHHHHHcCCC-CCh
Confidence 345677777767777788886554331 12356777788888888877765 344
Q ss_pred hhHHHHHhh
Q 009343 458 KDILVHLER 466 (537)
Q Consensus 458 KDVQLhLER 466 (537)
.++.-++++
T Consensus 234 ~~~~~~~~~ 242 (304)
T PRK06522 234 EEVREYVRQ 242 (304)
T ss_pred HHHHHHHHH
Confidence 444333333
No 419
>TIGR02947 SigH_actino RNA polymerase sigma-70 factor, TIGR02947 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and (with the exception of a paralog in Thermobifida fusca YX) one-to-a-genome distribution, to represent a conserved family. This family is restricted to the Actinobacteria and each gene examined is followed by an anti-sigma factor in an apparent operon.
Probab=20.20 E-value=1.6e+02 Score=26.86 Aligned_cols=78 Identities=9% Similarity=0.143 Sum_probs=50.0
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhH-HHHHhhccCcccCCCCcccccccCCCCCchHHHHHH
Q 009343 418 ERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDI-LVHLERNWNMTLPGFSGDEIKTFRKPLVCDIHKERL 496 (537)
Q Consensus 418 e~LD~DVEELLLeIADDFVDsVvs~ACkLAKHRKSdTLEvKDV-QLhLERnWNI~IPGfssDEIR~~RK~~pTEaHKQRM 496 (537)
+.+|.+-++.+-+|.+.+...|..+++++.+++ -+++|| |=++-+-|.- +..|. +...++-|.-.-+++.-+
T Consensus 3 ~~~~~~~~~~f~~l~~~~~~~l~~~~~~~~~~~----~~AEDlvQevfl~~~~~-~~~~~--~~~~~~~wL~~iarN~~~ 75 (193)
T TIGR02947 3 EETKTQRAQRFERDALEYLDQLYGAALRMTRNP----ADAEDLVQEAYAKAFSS-FHQFK--PGTNLKAWLYRILTNTYI 75 (193)
T ss_pred chhhhhhHHHHHHHHHHHHHHHHHHHHHHhCCH----HHHHHHHHHHHHHHHHh-hcccC--CCCcchHHHHHHHHHHHH
Confidence 456777788899999999999999888877543 468886 5566666642 22232 123344455555555555
Q ss_pred HHHHHH
Q 009343 497 AAIKKS 502 (537)
Q Consensus 497 ALIRKs 502 (537)
..+||.
T Consensus 76 d~~Rk~ 81 (193)
T TIGR02947 76 NSYRKA 81 (193)
T ss_pred HHHHHh
Confidence 566654
No 420
>PRK13386 fliH flagellar assembly protein H; Provisional
Probab=20.20 E-value=1.4e+02 Score=29.65 Aligned_cols=22 Identities=18% Similarity=0.395 Sum_probs=11.2
Q ss_pred CCCCHHHHHHHHHHHHHHHHHH
Q 009343 418 ERLDPDVEDILVDIAEDFVESI 439 (537)
Q Consensus 418 e~LD~DVEELLLeIADDFVDsV 439 (537)
..++.++++.|++||-+..+.|
T Consensus 114 ~~~~~~~~~~ll~La~~iA~~v 135 (236)
T PRK13386 114 AEYEQQQRDELLDLVEKVTRQV 135 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555555555555443333
No 421
>KOG1662 consensus Mitochondrial F1F0-ATP synthase, subunit OSCP/ATP5 [Energy production and conversion]
Probab=20.11 E-value=1.6e+02 Score=29.96 Aligned_cols=59 Identities=24% Similarity=0.351 Sum_probs=46.4
Q ss_pred CccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHH-----HHHHHHHHHHHhhhhcCCCCcch
Q 009343 399 NRILTKRSIQELVNQIDPSERLDPDVEDILVDIAED-----FVESITMFGCSLAKHRKSDTLEA 457 (537)
Q Consensus 399 nrILtKrKLqELVrqIDP~e~LD~DVEELLLeIADD-----FVDsVvs~ACkLAKHRKSdTLEv 457 (537)
+..|++.+-...++.|....+|++....+|--|||. |-+-|-.|...+.+|||.-.+||
T Consensus 77 nP~l~~~~k~~~i~di~~~~~~~~~t~NflnlLaeNgRL~~l~~Ivk~F~~lm~ahrGev~~~V 140 (210)
T KOG1662|consen 77 NPTLTREKKKTAIDDIVEKLKLAPLTKNFLNLLAENGRLNNLTEIVKAFETLMNAHRGEVKVEV 140 (210)
T ss_pred CCccchHHHHHHHHHHHHHhcccHhHHHHHHHHHHcCchhhHHHHHHHHHHHHHHhCCceEEEE
Confidence 456777777778888877889999999999999985 44555678999999999764443
No 422
>PRK14136 recX recombination regulator RecX; Provisional
Probab=20.11 E-value=2.2e+02 Score=30.31 Aligned_cols=33 Identities=15% Similarity=0.127 Sum_probs=17.1
Q ss_pred CHHHHH-HHHHhhCCCCCCCHHHHHHHH-HHHHHHHHHHH
Q 009343 403 TKRSIQ-ELVNQIDPSERLDPDVEDILV-DIAEDFVESIT 440 (537)
Q Consensus 403 tKrKLq-ELVrqIDP~e~LD~DVEELLL-eIADDFVDsVv 440 (537)
.+.+|. ||.+ .-|+++++|..| ++.+|+++.+.
T Consensus 227 Gp~rIrqELrQ-----KGId~eLIEqALeeieEDE~E~A~ 261 (309)
T PRK14136 227 GSARIVSELKR-----HAVGDALVESVGAQLRETEFERAQ 261 (309)
T ss_pred hHHHHHHHHHH-----cCCCHHHHHHHHHhccHhHHHHHH
Confidence 556665 4443 467777655544 44344444333
Done!