Query 009666
Match_columns 529
No_of_seqs 127 out of 190
Neff 2.6
Searched_HMMs 46136
Date Thu Mar 28 15:53:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009666.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009666hhsearch_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 2.7E-54 5.9E-59 418.3 13.1 231 268-505 25-258 (258)
2 PF03847 TFIID_20kDa: Transcri 100.0 4E-30 8.8E-35 207.3 7.0 68 403-470 1-68 (68)
3 COG5624 TAF61 Transcription in 100.0 1.1E-29 2.4E-34 259.8 3.2 115 387-502 370-486 (505)
4 cd07981 TAF12 TATA Binding Pro 99.9 2.1E-25 4.5E-30 179.6 9.0 72 401-472 1-72 (72)
5 PLN00035 histone H4; Provision 98.7 4.2E-08 9.2E-13 86.1 9.0 73 402-476 30-102 (103)
6 cd00076 H4 Histone H4, one of 98.7 7.5E-08 1.6E-12 81.7 8.5 74 400-475 12-85 (85)
7 PTZ00015 histone H4; Provision 98.7 1E-07 2.2E-12 83.5 9.0 76 398-475 27-102 (102)
8 COG2036 HHT1 Histones H3 and H 98.5 2E-07 4.2E-12 80.3 6.0 71 396-467 14-84 (91)
9 PF00125 Histone: Core histone 98.3 1.4E-06 3E-11 69.0 5.5 67 400-466 4-74 (75)
10 smart00803 TAF TATA box bindin 98.3 4.5E-06 9.8E-11 67.3 7.8 64 401-465 2-65 (65)
11 cd07979 TAF9 TATA Binding Prot 98.1 8.6E-06 1.9E-10 72.0 8.2 67 405-472 5-71 (117)
12 smart00417 H4 Histone H4. 98.1 9.1E-06 2E-10 67.8 6.6 64 398-462 10-73 (74)
13 PF00808 CBFD_NFYB_HMF: Histon 98.0 1.9E-05 4.1E-10 61.9 7.0 63 402-464 3-65 (65)
14 smart00428 H3 Histone H3. 98.0 1.7E-05 3.8E-10 69.9 7.0 69 396-464 24-98 (105)
15 KOG3467 Histone H4 [Chromatin 98.0 2.5E-05 5.3E-10 68.4 7.5 78 398-477 26-103 (103)
16 PLN00161 histone H3; Provision 97.8 7.5E-05 1.6E-09 68.7 7.3 79 396-475 50-133 (135)
17 PLN00121 histone H3; Provision 97.6 0.00012 2.6E-09 67.3 6.4 69 396-464 57-129 (136)
18 PF02291 TFIID-31kDa: Transcri 97.6 0.00021 4.5E-09 64.9 7.3 67 405-472 16-82 (129)
19 smart00576 BTP Bromodomain tra 97.5 0.00056 1.2E-08 55.9 8.6 69 402-472 7-75 (77)
20 PTZ00018 histone H3; Provision 97.5 0.00019 4.1E-09 66.1 5.9 69 396-464 57-129 (136)
21 PLN00160 histone H3; Provision 97.4 0.00039 8.4E-09 60.9 6.1 68 397-464 17-89 (97)
22 cd08050 TAF6 TATA Binding Prot 97.3 0.0009 1.9E-08 67.9 9.1 74 404-478 2-75 (343)
23 PF02269 TFIID-18kDa: Transcri 97.3 0.00031 6.6E-09 60.0 4.1 61 407-467 7-67 (93)
24 PF15630 CENP-S: Kinetochore c 97.1 0.0014 3.1E-08 54.9 6.0 61 407-467 11-73 (76)
25 smart00427 H2B Histone H2B. 97.0 0.0031 6.7E-08 54.8 7.6 60 407-466 7-66 (89)
26 PF02969 TAF: TATA box binding 96.8 0.0057 1.2E-07 50.3 7.5 65 400-465 2-66 (66)
27 PF07524 Bromo_TP: Bromodomain 96.6 0.015 3.3E-07 47.1 8.6 65 406-472 11-75 (77)
28 PLN00158 histone H2B; Provisio 96.6 0.0086 1.9E-07 54.3 7.6 59 407-465 33-91 (116)
29 PTZ00463 histone H2B; Provisio 96.5 0.01 2.2E-07 53.9 7.5 65 407-475 34-98 (117)
30 KOG0869 CCAAT-binding factor, 96.5 0.0091 2E-07 56.9 7.2 71 396-466 27-98 (168)
31 cd08048 TAF11 TATA Binding Pro 96.3 0.022 4.7E-07 48.6 8.0 64 402-466 17-83 (85)
32 KOG3334 Transcription initiati 96.3 0.017 3.7E-07 54.2 8.0 68 406-474 18-85 (148)
33 cd07978 TAF13 The TATA Binding 96.3 0.025 5.4E-07 48.8 8.2 62 405-467 6-67 (92)
34 cd00074 H2A Histone 2A; H2A is 95.7 0.037 7.9E-07 49.7 7.0 70 398-467 17-86 (115)
35 KOG0871 Class 2 transcription 95.7 0.054 1.2E-06 51.3 8.3 106 394-505 5-133 (156)
36 PF09415 CENP-X: CENP-S associ 95.6 0.015 3.3E-07 48.3 3.9 60 405-464 3-65 (72)
37 KOG2549 Transcription initiati 95.4 0.081 1.8E-06 58.2 9.6 126 396-523 5-135 (576)
38 KOG1744 Histone H2B [Chromatin 95.4 0.051 1.1E-06 50.1 6.8 63 408-474 44-106 (127)
39 KOG3423 Transcription initiati 95.3 0.094 2E-06 50.6 8.5 69 403-472 69-169 (176)
40 PF04719 TAFII28: hTAFII28-lik 94.5 0.15 3.2E-06 44.4 7.1 59 402-460 24-83 (90)
41 KOG0870 DNA polymerase epsilon 93.7 0.29 6.2E-06 47.2 7.8 68 400-467 9-78 (172)
42 PF05236 TAF4: Transcription i 93.2 0.085 1.8E-06 51.7 3.7 59 396-454 38-99 (264)
43 KOG1745 Histones H3 and H4 [Ch 93.2 0.066 1.4E-06 49.9 2.7 69 397-465 59-131 (137)
44 PF03540 TFIID_30kDa: Transcri 93.1 0.42 9E-06 38.2 6.7 48 402-450 3-50 (51)
45 cd08045 TAF4 TATA Binding Prot 93.0 0.26 5.7E-06 47.1 6.5 58 396-453 39-99 (212)
46 PF15511 CENP-T: Centromere ki 93.0 0.18 4E-06 53.0 5.9 60 400-459 350-414 (414)
47 COG5094 TAF9 Transcription ini 92.2 0.45 9.8E-06 44.5 6.7 68 407-475 20-90 (145)
48 COG5150 Class 2 transcription 91.0 1 2.2E-05 42.3 7.6 111 396-506 6-133 (148)
49 COG5248 TAF19 Transcription in 90.0 1.3 2.8E-05 40.8 7.3 59 407-467 15-73 (126)
50 KOG3901 Transcription initiati 89.6 1.7 3.7E-05 39.5 7.6 59 406-467 14-72 (109)
51 PRK00411 cdc6 cell division co 88.2 1.6 3.5E-05 43.5 7.2 66 402-467 207-282 (394)
52 TIGR02902 spore_lonB ATP-depen 87.7 1.5 3.3E-05 47.2 7.2 66 401-466 262-331 (531)
53 smart00350 MCM minichromosome 87.0 2.4 5.2E-05 45.4 8.1 67 399-465 415-502 (509)
54 TIGR03015 pepcterm_ATPase puta 86.9 2.3 5.1E-05 39.8 7.1 67 400-466 190-265 (269)
55 PF00616 RasGAP: GTPase-activa 86.0 4.2 9.1E-05 36.9 8.0 82 423-507 97-196 (197)
56 COG5162 Transcription initiati 85.3 3.9 8.5E-05 40.0 7.8 48 404-451 72-137 (197)
57 COG5095 TAF6 Transcription ini 85.1 3.4 7.4E-05 44.0 7.9 76 400-477 4-80 (450)
58 TIGR02928 orc1/cdc6 family rep 84.3 3.8 8.3E-05 40.3 7.5 66 402-467 199-274 (365)
59 smart00414 H2A Histone 2A. 83.3 3.7 8.1E-05 36.6 6.3 68 399-466 7-74 (106)
60 KOG3219 Transcription initiati 82.0 2.1 4.5E-05 42.2 4.6 67 399-466 110-177 (195)
61 cd05128 RasGAP_GAP1_like The G 81.5 9.8 0.00021 39.2 9.4 80 426-512 132-232 (315)
62 TIGR02639 ClpA ATP-dependent C 80.1 4 8.7E-05 45.5 6.6 78 403-480 346-442 (731)
63 cd05130 RasGAP_Neurofibromin N 80.0 7.6 0.00016 40.3 8.1 83 426-515 135-239 (329)
64 KOG4336 TBP-associated transcr 79.6 5.5 0.00012 41.8 6.9 68 406-475 10-77 (323)
65 COG5208 HAP5 CCAAT-binding fac 79.2 2.9 6.2E-05 42.5 4.6 48 420-467 128-175 (286)
66 KOG2680 DNA helicase TIP49, TB 79.2 5.3 0.00011 42.8 6.7 64 403-466 359-428 (454)
67 COG1224 TIP49 DNA helicase TIP 78.2 3.9 8.4E-05 44.3 5.5 63 403-465 362-430 (450)
68 cd05395 RasGAP_RASA4 Ras GTPas 77.0 13 0.00029 38.8 8.9 80 426-512 148-250 (337)
69 cd05137 RasGAP_CLA2_BUD2 CLA2/ 76.2 15 0.00032 39.2 9.1 80 426-512 199-300 (395)
70 COG4585 Signal transduction hi 74.4 4.7 0.0001 40.2 4.6 70 417-501 269-345 (365)
71 PTZ00171 acyl carrier protein; 74.3 0.81 1.7E-05 42.6 -0.6 43 440-482 90-132 (148)
72 TIGR01241 FtsH_fam ATP-depende 74.2 32 0.00069 36.6 10.9 32 436-467 264-295 (495)
73 cd01137 PsaA Metal binding pro 73.8 7.4 0.00016 38.6 5.8 109 397-512 116-231 (287)
74 cd05391 RasGAP_p120GAP p120GAP 73.5 21 0.00045 37.0 9.1 80 426-512 126-226 (315)
75 PTZ00017 histone H2A; Provisio 72.3 9.2 0.0002 35.9 5.7 69 398-466 24-92 (134)
76 cd05136 RasGAP_DAB2IP The DAB2 72.0 26 0.00056 36.1 9.3 82 424-512 125-225 (309)
77 TIGR00635 ruvB Holliday juncti 71.0 16 0.00034 35.3 7.2 65 402-466 159-228 (305)
78 cd01017 AdcA Metal binding pro 70.7 11 0.00023 37.0 6.0 105 401-512 116-225 (282)
79 cd05132 RasGAP_GAPA GAPA is an 70.5 28 0.00061 35.7 9.2 85 426-513 123-225 (331)
80 KOG1924 RhoA GTPase effector D 70.3 34 0.00074 40.4 10.6 16 401-416 784-799 (1102)
81 PRK13407 bchI magnesium chelat 70.3 13 0.00028 38.5 6.8 73 399-472 232-311 (334)
82 cd05127 RasGAP_IQGAP_related T 70.1 26 0.00057 35.4 8.8 83 427-516 123-229 (325)
83 KOG3489 Mitochondrial import i 69.4 17 0.00036 32.2 6.3 50 403-452 23-82 (86)
84 TIGR03772 anch_rpt_subst ancho 69.2 8.9 0.00019 41.8 5.6 77 400-476 313-396 (479)
85 KOG1748 Acyl carrier protein/N 68.7 4.3 9.4E-05 37.9 2.8 61 422-482 52-115 (131)
86 cd05135 RasGAP_RASAL Ras GTPas 68.2 33 0.00071 35.8 9.2 82 426-510 149-249 (333)
87 PLN03017 trehalose-phosphatase 67.8 8.6 0.00019 40.7 5.0 91 419-522 133-241 (366)
88 CHL00176 ftsH cell division pr 67.2 45 0.00097 37.6 10.6 63 403-467 354-423 (638)
89 CHL00124 acpP acyl carrier pro 66.7 4.2 9.1E-05 32.8 2.0 30 445-474 30-59 (82)
90 KOG1924 RhoA GTPase effector D 66.6 40 0.00086 39.9 10.2 17 398-414 726-742 (1102)
91 TIGR02030 BchI-ChlI magnesium 66.6 16 0.00035 37.8 6.6 70 402-472 238-314 (337)
92 PRK12449 acyl carrier protein; 65.8 1.8 3.9E-05 34.7 -0.2 42 440-481 25-66 (80)
93 TIGR02442 Cob-chelat-sub cobal 65.6 15 0.00032 40.7 6.6 54 412-465 242-302 (633)
94 PRK14086 dnaA chromosomal repl 65.6 10 0.00022 42.7 5.3 30 446-475 545-575 (617)
95 PRK05350 acyl carrier protein; 64.8 4.3 9.3E-05 33.2 1.8 26 449-474 35-60 (82)
96 PTZ00183 centrin; Provisional 64.3 56 0.0012 27.8 8.5 69 395-465 27-117 (158)
97 cd01020 TroA_b Metal binding p 64.2 22 0.00047 34.7 6.7 77 397-473 94-175 (264)
98 PLN00154 histone H2A; Provisio 64.1 19 0.0004 34.0 5.9 68 399-466 36-104 (136)
99 PLN02580 trehalose-phosphatase 63.6 15 0.00033 39.1 5.9 33 490-522 222-259 (384)
100 cd01018 ZntC Metal binding pro 63.1 22 0.00048 34.7 6.5 103 401-512 115-222 (266)
101 KOG1659 Class 2 transcription 62.3 20 0.00043 36.3 6.1 48 420-467 32-79 (224)
102 cd05394 RasGAP_RASA2 RASA2 (or 61.7 38 0.00082 35.5 8.3 81 425-512 130-231 (313)
103 cd05392 RasGAP_Neurofibromin_l 61.3 46 0.001 33.7 8.6 80 426-512 126-223 (323)
104 KOG1658 DNA polymerase epsilon 60.9 6.1 0.00013 38.1 2.3 65 406-471 64-129 (162)
105 PLN00157 histone H2A; Provisio 60.6 17 0.00036 34.1 4.9 68 399-466 24-91 (132)
106 PTZ00361 26 proteosome regulat 59.7 13 0.00029 39.9 4.7 65 403-467 355-424 (438)
107 PF01297 TroA: Periplasmic sol 59.3 14 0.00029 35.4 4.3 107 399-512 93-204 (256)
108 PRK08727 hypothetical protein; 59.1 35 0.00076 32.7 7.0 64 403-467 163-231 (233)
109 TIGR00368 Mg chelatase-related 59.1 18 0.0004 39.4 5.7 48 418-465 444-497 (499)
110 cd01016 TroA Metal binding pro 58.9 24 0.00051 34.8 6.0 75 400-474 103-184 (276)
111 PF00745 GlutR_dimer: Glutamyl 58.6 8.9 0.00019 31.6 2.6 62 404-470 39-100 (101)
112 TIGR02031 BchD-ChlD magnesium 58.5 17 0.00036 40.1 5.4 72 400-472 185-263 (589)
113 cd06845 Bcl-2_like Apoptosis r 58.1 22 0.00048 31.8 5.2 47 404-453 51-107 (144)
114 cd01019 ZnuA Zinc binding prot 57.8 35 0.00076 33.9 7.0 75 401-475 124-203 (286)
115 PRK09545 znuA high-affinity zi 57.6 34 0.00075 34.6 7.0 106 400-512 147-257 (311)
116 cd05022 S-100A13 S-100A13: S-1 57.3 36 0.00078 29.1 6.1 55 397-452 21-86 (89)
117 PRK00149 dnaA chromosomal repl 56.9 22 0.00047 37.3 5.7 30 446-475 378-408 (450)
118 PF07261 DnaB_2: Replication i 56.2 47 0.001 26.0 6.2 48 417-466 10-59 (77)
119 PLN00156 histone H2AX; Provisi 55.7 27 0.00058 33.1 5.5 68 399-466 27-94 (139)
120 smart00323 RasGAP GTPase-activ 54.9 39 0.00085 34.3 6.9 77 426-512 150-249 (344)
121 PRK07639 acyl carrier protein; 54.7 4.4 9.5E-05 34.1 0.2 31 444-474 30-60 (86)
122 PRK06508 acyl carrier protein; 54.4 14 0.00031 32.0 3.2 36 441-476 24-59 (93)
123 PF13335 Mg_chelatase_2: Magne 54.0 34 0.00075 29.5 5.5 47 418-464 41-93 (96)
124 CHL00081 chlI Mg-protoporyphyr 53.9 47 0.001 35.0 7.4 72 400-472 249-327 (350)
125 PRK07360 FO synthase subunit 2 53.7 41 0.00088 34.8 6.9 76 403-478 3-82 (371)
126 TIGR02999 Sig-70_X6 RNA polyme 53.6 56 0.0012 29.1 7.0 88 407-502 4-93 (183)
127 PRK07117 acyl carrier protein; 53.6 3.1 6.7E-05 34.8 -0.9 39 443-482 29-67 (79)
128 PF04867 DUF643: Protein of un 53.5 18 0.00039 33.2 3.8 35 422-456 55-89 (114)
129 COG0593 DnaA ATPase involved i 53.5 19 0.00041 38.8 4.6 73 400-476 299-372 (408)
130 PRK07081 acyl carrier protein; 53.2 5.1 0.00011 33.4 0.3 25 451-475 32-56 (83)
131 TIGR00764 lon_rel lon-related 53.1 50 0.0011 36.8 7.9 59 404-462 311-386 (608)
132 COG4296 Uncharacterized protei 52.4 11 0.00024 36.0 2.4 70 421-515 53-122 (156)
133 PRK09184 acyl carrier protein; 52.1 10 0.00023 32.4 2.1 29 447-475 37-65 (89)
134 PF02358 Trehalose_PPase: Treh 51.6 6.5 0.00014 37.1 0.8 93 418-523 18-121 (235)
135 PF10789 Phage_RpbA: Phage RNA 51.6 6.6 0.00014 35.7 0.8 38 418-455 48-85 (108)
136 PF07516 SecA_SW: SecA Wing an 51.4 44 0.00096 31.8 6.3 48 423-472 55-102 (214)
137 cd01145 TroA_c Periplasmic bin 51.3 18 0.00039 33.9 3.7 76 401-476 111-191 (203)
138 PRK00373 V-type ATP synthase s 51.1 7.3 0.00016 37.3 1.1 73 404-477 31-108 (204)
139 TIGR00362 DnaA chromosomal rep 51.1 23 0.00051 36.3 4.7 94 398-501 284-387 (405)
140 PF08546 ApbA_C: Ketopantoate 50.9 16 0.00034 31.2 3.0 37 430-467 34-70 (125)
141 PRK15380 pathogenicity island 50.5 21 0.00045 37.3 4.2 70 396-466 113-191 (319)
142 PRK04036 DNA polymerase II sma 50.2 34 0.00074 37.1 6.0 55 409-464 3-60 (504)
143 PRK11034 clpA ATP-dependent Cl 50.2 54 0.0012 37.7 7.8 77 403-479 350-445 (758)
144 cd05134 RasGAP_RASA3 RASA3 (or 49.8 84 0.0018 32.8 8.4 78 426-510 131-229 (310)
145 PRK14088 dnaA chromosomal repl 49.1 19 0.0004 38.2 3.8 73 436-508 344-438 (440)
146 PRK13406 bchD magnesium chelat 49.1 69 0.0015 35.9 8.2 70 402-472 179-255 (584)
147 PLN02690 Agmatine deiminase 49.0 13 0.00028 39.4 2.5 69 439-508 174-264 (374)
148 PRK04195 replication factor C 49.0 35 0.00076 36.2 5.8 69 402-472 160-230 (482)
149 PRK00080 ruvB Holliday junctio 49.0 45 0.00097 33.3 6.2 66 401-466 179-249 (328)
150 cd00052 EH Eps15 homology doma 48.8 75 0.0016 23.5 6.0 20 395-414 9-28 (67)
151 PRK05828 acyl carrier protein; 48.4 3.2 7E-05 35.1 -1.6 27 449-475 34-60 (84)
152 PLN02641 anthranilate phosphor 48.4 32 0.00069 36.0 5.2 48 407-455 4-52 (343)
153 PLN02151 trehalose-phosphatase 48.3 41 0.00089 35.6 6.0 21 415-435 115-136 (354)
154 PF07030 DUF1320: Protein of u 48.2 50 0.0011 29.6 5.8 45 402-447 11-55 (130)
155 cd00454 Trunc_globin Truncated 48.0 74 0.0016 26.8 6.5 81 425-508 9-94 (116)
156 PF00493 MCM: MCM2/3/5 family 47.9 11 0.00024 38.2 1.9 64 400-465 240-324 (331)
157 PRK12402 replication factor C 47.6 32 0.0007 33.3 4.8 63 402-466 184-248 (337)
158 cd02191 FtsZ FtsZ is a GTPase 47.0 74 0.0016 32.5 7.5 77 402-479 135-220 (303)
159 cd03565 VHS_Tom1 VHS domain fa 46.1 54 0.0012 30.0 5.8 17 456-472 101-117 (141)
160 PLN00153 histone H2A; Provisio 45.8 44 0.00094 31.4 5.2 68 399-466 22-89 (129)
161 PF06570 DUF1129: Protein of u 45.1 27 0.00057 33.3 3.8 35 404-438 7-41 (206)
162 PRK14087 dnaA chromosomal repl 44.8 38 0.00083 36.2 5.3 28 446-473 377-405 (450)
163 cd05030 calgranulins Calgranul 44.4 53 0.0012 27.3 5.1 45 396-440 21-78 (88)
164 TIGR00517 acyl_carrier acyl ca 44.0 7.1 0.00015 31.1 -0.2 26 450-475 33-58 (77)
165 PRK07668 hypothetical protein; 43.5 25 0.00054 35.8 3.5 34 405-438 8-41 (254)
166 TIGR01765 tspaseT_teng_N trans 43.4 32 0.0007 28.0 3.5 47 419-470 7-53 (73)
167 PRK05087 D-alanine--poly(phosp 43.2 13 0.00028 31.1 1.2 24 451-474 33-56 (78)
168 KOG1657 CCAAT-binding factor, 42.8 47 0.001 33.5 5.3 81 396-479 69-149 (236)
169 PF07855 DUF1649: Protein of u 42.7 27 0.00059 32.8 3.4 27 419-445 47-73 (163)
170 cd00043 CYCLIN Cyclin box fold 42.7 76 0.0017 23.7 5.3 56 405-460 3-68 (88)
171 PF04371 PAD_porph: Porphyromo 42.5 13 0.00029 38.1 1.5 68 439-507 151-240 (329)
172 PF09358 UBA_e1_C: Ubiquitin-a 42.2 20 0.00044 32.4 2.4 52 454-506 42-94 (125)
173 TIGR01688 dltC D-alanine--poly 41.7 13 0.00028 31.3 1.0 22 453-474 32-53 (73)
174 cd03197 GST_C_mPGES2 GST_C fam 41.5 37 0.00081 32.1 4.1 53 407-463 63-115 (149)
175 PHA02839 Il-24-like protein; P 41.5 66 0.0014 31.1 5.7 69 390-462 42-133 (156)
176 cd03569 VHS_Hrs_Vps27p VHS dom 41.2 1E+02 0.0022 28.3 6.8 19 455-473 99-117 (142)
177 PF12767 SAGA-Tad1: Transcript 41.2 72 0.0016 31.4 6.2 50 399-448 200-252 (252)
178 PRK14622 hypothetical protein; 41.1 17 0.00036 32.3 1.7 9 469-477 95-103 (103)
179 PRK08172 putative acyl carrier 40.9 10 0.00022 31.7 0.3 41 442-482 26-66 (82)
180 PRK13430 F0F1 ATP synthase sub 40.5 1.5E+02 0.0032 30.0 8.3 48 420-469 146-195 (271)
181 PF02881 SRP54_N: SRP54-type p 40.4 1.3E+02 0.0028 23.9 6.4 36 400-445 16-57 (75)
182 PRK06030 hypothetical protein; 40.1 23 0.00051 32.4 2.5 87 418-507 19-117 (124)
183 COG1132 MdlB ABC-type multidru 39.9 41 0.00088 35.9 4.6 96 402-515 396-492 (567)
184 TIGR03380 agmatine_aguA agmati 39.8 20 0.00043 37.7 2.3 68 439-507 162-250 (357)
185 PRK06620 hypothetical protein; 39.6 1.2E+02 0.0026 29.1 7.3 46 417-463 164-212 (214)
186 PRK09862 putative ATP-dependen 39.5 85 0.0018 34.7 7.0 48 418-465 437-490 (506)
187 TIGR01560 put_DNA_pack unchara 39.5 57 0.0012 27.4 4.5 35 406-443 4-38 (91)
188 KOG3598 Thyroid hormone recept 39.2 7.8 0.00017 47.8 -0.9 8 191-198 1994-2001(2220)
189 PRK13556 azoreductase; Provisi 38.8 36 0.00078 31.9 3.6 82 429-524 20-123 (208)
190 smart00324 RhoGAP GTPase-activ 38.6 1.6E+02 0.0034 26.4 7.4 34 434-467 112-145 (174)
191 PF01725 Ham1p_like: Ham1 fami 38.5 15 0.00033 34.8 1.1 69 403-475 7-82 (189)
192 PTZ00252 histone H2A; Provisio 38.4 82 0.0018 29.9 5.8 68 399-466 23-92 (134)
193 COG5240 SEC21 Vesicle coat com 38.4 1.4E+02 0.003 34.9 8.4 22 418-439 441-462 (898)
194 PF13565 HTH_32: Homeodomain-l 38.2 37 0.00079 26.7 3.0 35 421-472 32-66 (77)
195 cd08324 CARD_NOD1_CARD4 Caspas 38.2 36 0.00079 30.1 3.2 31 405-437 49-79 (85)
196 PRK15379 pathogenicity island 37.9 34 0.00074 36.0 3.5 70 396-466 113-191 (317)
197 cd02202 FtsZ_type2 FtsZ is a G 37.8 81 0.0018 32.8 6.2 76 404-480 151-238 (349)
198 PRK00982 acpP acyl carrier pro 37.7 30 0.00064 27.5 2.5 30 445-474 28-57 (78)
199 PHA00440 host protein H-NS-int 37.6 75 0.0016 28.8 5.1 44 403-446 25-68 (98)
200 PRK14955 DNA polymerase III su 37.6 78 0.0017 32.9 6.1 63 402-464 186-254 (397)
201 PRK07764 DNA polymerase III su 37.5 37 0.0008 39.4 4.1 66 401-466 178-245 (824)
202 PRK14975 bifunctional 3'-5' ex 37.5 2.4E+02 0.0051 31.1 9.9 64 416-480 176-249 (553)
203 COG0236 AcpP Acyl carrier prot 37.5 11 0.00023 30.7 -0.1 29 450-478 35-63 (80)
204 COG1474 CDC6 Cdc6-related prot 37.3 88 0.0019 32.9 6.4 61 403-463 191-261 (366)
205 PRK13428 F0F1 ATP synthase sub 37.1 1.6E+02 0.0035 31.7 8.5 33 401-433 317-350 (445)
206 KOG2114 Vacuolar assembly/sort 36.9 39 0.00085 39.9 4.1 63 403-472 446-510 (933)
207 PHA02944 hypothetical protein; 36.7 30 0.00066 33.9 2.8 45 402-446 44-89 (180)
208 PRK05574 holA DNA polymerase I 36.7 1.4E+02 0.0029 29.3 7.2 67 402-471 146-217 (340)
209 PF09684 Tail_P2_I: Phage tail 36.6 53 0.0012 29.2 4.1 88 433-524 13-101 (139)
210 TIGR01128 holA DNA polymerase 36.3 1.4E+02 0.0031 28.5 7.2 67 402-471 111-182 (302)
211 COG2256 MGS1 ATPase related to 36.3 1.8E+02 0.0038 32.3 8.6 93 402-498 163-277 (436)
212 KOG1103 Predicted coiled-coil 36.1 99 0.0021 33.9 6.7 70 396-479 6-77 (561)
213 smart00760 Bac_DnaA_C Bacteria 36.0 15 0.00033 28.6 0.6 47 424-473 2-49 (60)
214 cd04519 RasGAP RasGAP: Ras-GTP 35.9 1.4E+02 0.003 28.8 7.1 84 426-512 128-227 (318)
215 PF01432 Peptidase_M3: Peptida 35.9 64 0.0014 33.6 5.2 53 416-468 62-119 (458)
216 COG1202 Superfamily II helicas 35.7 37 0.00081 39.2 3.6 66 406-472 710-784 (830)
217 PF13654 AAA_32: AAA domain; P 35.6 1.1E+02 0.0024 33.8 7.1 66 403-468 425-507 (509)
218 PRK00117 recX recombination re 35.5 51 0.0011 29.7 3.9 31 419-450 39-71 (157)
219 PRK05342 clpX ATP-dependent pr 35.3 80 0.0017 33.7 5.9 70 408-481 297-368 (412)
220 PF11144 DUF2920: Protein of u 35.3 16 0.00034 39.5 0.7 15 513-527 63-77 (403)
221 PF08157 NUC129: NUC129 domain 35.2 79 0.0017 26.8 4.6 46 421-469 8-63 (63)
222 PRK13551 agmatine deiminase; P 35.2 28 0.00061 36.7 2.5 68 439-507 165-253 (362)
223 PRK09281 F0F1 ATP synthase sub 35.0 50 0.0011 36.4 4.4 34 405-438 466-499 (502)
224 PF04983 RNA_pol_Rpb1_3: RNA p 35.0 18 0.00039 32.3 0.9 47 404-460 112-158 (158)
225 TIGR00962 atpA proton transloc 35.0 50 0.0011 36.4 4.5 35 404-438 464-498 (501)
226 KOG1142 Transcription initiati 34.9 2E+02 0.0044 29.9 8.3 18 260-278 53-70 (258)
227 PRK06249 2-dehydropantoate 2-r 34.7 35 0.00076 33.8 3.0 31 435-466 224-254 (313)
228 KOG3821 Heparin sulfate cell s 34.6 47 0.001 37.5 4.1 117 405-529 139-263 (563)
229 PRK13342 recombination factor 34.6 91 0.002 32.5 6.0 65 401-467 150-219 (413)
230 PF00452 Bcl-2: Apoptosis regu 34.4 94 0.002 25.8 5.0 49 405-455 14-72 (101)
231 PRK14700 recombination factor 34.4 1.9E+02 0.0042 30.4 8.2 94 402-498 39-154 (300)
232 cd05023 S-100A11 S-100A11: S-1 34.3 1.2E+02 0.0025 25.8 5.6 45 399-443 25-82 (89)
233 PRK08903 DnaA regulatory inact 34.3 1.7E+02 0.0036 27.3 7.2 62 403-465 158-224 (227)
234 PRK13531 regulatory ATPase Rav 34.2 2.1E+02 0.0047 32.0 9.0 70 399-469 204-286 (498)
235 PRK08150 enoyl-CoA hydratase; 33.9 3.9 8.5E-05 39.7 -3.7 17 484-500 229-245 (255)
236 TIGR03420 DnaA_homol_Hda DnaA 33.8 1.7E+02 0.0036 26.8 7.0 62 403-465 160-226 (226)
237 PRK10076 pyruvate formate lyas 33.7 36 0.00077 33.1 2.8 78 398-477 47-142 (213)
238 cd06457 M3A_MIP Peptidase M3 m 33.7 60 0.0013 34.6 4.6 62 421-483 62-129 (458)
239 PRK12906 secA preprotein trans 33.7 34 0.00074 39.8 3.1 44 422-469 634-677 (796)
240 PRK12710 flgJ flagellar rod as 33.5 49 0.0011 34.5 3.8 42 430-472 128-169 (291)
241 PF13022 HTH_Tnp_1_2: Helix-tu 33.5 68 0.0015 30.7 4.4 95 403-504 33-140 (142)
242 COG5247 BUR6 Class 2 transcrip 33.2 1E+02 0.0022 28.6 5.3 38 428-465 50-87 (113)
243 PRK15280 type III secretion pr 33.1 84 0.0018 31.8 5.2 54 426-479 33-103 (240)
244 PRK15279 type III secretion pr 33.0 85 0.0018 31.8 5.2 54 426-479 33-103 (240)
245 PTZ00465 rhoptry-associated pr 33.0 15 0.00033 41.0 0.2 66 408-473 48-125 (565)
246 TIGR01446 DnaD_dom DnaD and ph 33.0 1.8E+02 0.004 22.9 6.2 46 419-466 12-59 (73)
247 PRK09648 RNA polymerase sigma 32.9 1.3E+02 0.0029 27.1 6.1 52 403-460 7-58 (189)
248 COG3935 DnaD Putative primosom 32.7 1.2E+02 0.0025 31.1 6.2 45 419-465 141-187 (246)
249 TIGR00685 T6PP trehalose-phosp 32.7 11 0.00023 36.1 -0.9 95 418-523 24-126 (244)
250 PRK05883 acyl carrier protein; 32.6 32 0.0007 29.3 2.1 37 445-481 39-75 (91)
251 PTZ00454 26S protease regulato 32.6 63 0.0014 34.2 4.6 65 403-467 317-386 (398)
252 PRK11034 clpA ATP-dependent Cl 32.4 1.6E+02 0.0034 34.1 7.9 66 408-481 638-705 (758)
253 TIGR02881 spore_V_K stage V sp 32.3 1.6E+02 0.0036 28.4 7.0 32 402-433 178-211 (261)
254 COG1466 HolA DNA polymerase II 32.2 1.3E+02 0.0028 30.5 6.6 67 403-469 141-209 (334)
255 PF13551 HTH_29: Winged helix- 32.1 1.4E+02 0.003 24.3 5.6 41 420-472 58-99 (112)
256 PLN03214 probable enoyl-CoA hy 32.0 22 0.00047 35.3 1.1 97 400-502 162-263 (278)
257 PRK14969 DNA polymerase III su 31.6 42 0.00091 36.6 3.2 63 403-466 179-243 (527)
258 PF09943 DUF2175: Uncharacteri 31.6 1E+02 0.0022 28.0 5.0 37 410-446 31-67 (101)
259 PF08429 PLU-1: PLU-1-like pro 31.5 1.5E+02 0.0033 29.6 6.8 72 397-475 78-154 (335)
260 TIGR03582 EF_0829 PRD domain p 31.5 59 0.0013 29.4 3.6 33 490-522 70-102 (107)
261 PRK00149 dnaA chromosomal repl 31.3 1.2E+02 0.0027 31.8 6.4 17 417-433 297-313 (450)
262 CHL00017 ndhH NADH dehydrogena 31.3 1.7E+02 0.0037 31.3 7.5 59 403-461 137-215 (393)
263 PRK14959 DNA polymerase III su 31.2 73 0.0016 36.2 5.0 62 402-464 178-241 (624)
264 PRK09111 DNA polymerase III su 31.1 1E+02 0.0022 34.6 6.0 64 402-466 191-256 (598)
265 PRK06539 ribonucleotide-diphos 31.0 1E+02 0.0023 36.0 6.3 31 422-452 533-563 (822)
266 PF07817 GLE1: GLE1-like prote 31.0 3.1E+02 0.0067 27.3 8.8 92 416-511 70-191 (256)
267 PRK12422 chromosomal replicati 30.9 91 0.002 33.5 5.5 31 446-476 373-404 (445)
268 PRK08444 hypothetical protein; 30.8 73 0.0016 33.3 4.6 109 400-510 78-205 (353)
269 PRK08136 glycosyl transferase 30.8 66 0.0014 33.4 4.3 50 407-456 3-57 (317)
270 TIGR00524 eIF-2B_rel eIF-2B al 30.7 79 0.0017 32.5 4.8 27 422-448 84-110 (303)
271 PRK05803 sporulation sigma fac 30.6 1.8E+02 0.0038 27.8 6.8 68 434-502 53-121 (233)
272 TIGR00362 DnaA chromosomal rep 30.5 1.9E+02 0.0042 29.8 7.6 51 416-467 284-337 (405)
273 PRK08402 replication factor A; 30.5 80 0.0017 33.4 4.9 59 400-461 2-69 (355)
274 PRK00095 mutL DNA mismatch rep 30.3 94 0.002 34.7 5.6 55 423-478 532-597 (617)
275 PRK00979 tetrahydromethanopter 30.3 2.1E+02 0.0046 30.2 7.8 100 395-502 42-172 (308)
276 PF13690 CheX: Chemotaxis phos 30.2 1.2E+02 0.0025 25.4 4.9 58 402-479 19-76 (94)
277 COG0127 Xanthosine triphosphat 30.2 82 0.0018 31.1 4.6 63 403-466 10-77 (194)
278 COG4286 Uncharacterized conser 30.0 36 0.00078 35.8 2.2 40 405-444 143-185 (306)
279 smart00047 LYZ2 Lysozyme subfa 30.0 69 0.0015 29.5 3.8 40 432-472 8-47 (147)
280 PRK10733 hflB ATP-dependent me 29.9 3.7E+02 0.0079 30.3 10.0 65 404-468 324-393 (644)
281 PF10018 Med4: Vitamin-D-recep 29.9 88 0.0019 29.7 4.6 95 404-503 28-142 (188)
282 PHA03181 helicase-primase prim 29.9 82 0.0018 36.8 5.1 40 404-444 607-646 (764)
283 TIGR00382 clpX endopeptidase C 29.7 51 0.0011 35.4 3.4 68 409-480 304-373 (413)
284 PF14842 FliG_N: FliG N-termin 29.7 1.1E+02 0.0025 26.6 4.9 33 402-437 30-62 (108)
285 PF00346 Complex1_49kDa: Respi 29.7 1.8E+02 0.0038 29.7 7.0 57 404-460 15-91 (272)
286 PF04084 ORC2: Origin recognit 29.5 1.8E+02 0.004 30.2 7.2 18 400-417 10-27 (326)
287 PRK12711 flgJ flagellar rod as 29.4 57 0.0012 35.5 3.6 41 432-473 215-255 (392)
288 COG5566 Uncharacterized conser 29.3 1.2E+02 0.0026 29.0 5.3 60 405-469 14-75 (137)
289 PF09123 DUF1931: Domain of un 29.3 37 0.00081 32.2 2.0 55 407-462 1-55 (138)
290 cd05026 S-100Z S-100Z: S-100Z 29.2 1.9E+02 0.0041 24.3 6.0 47 397-443 23-83 (93)
291 PF09860 DUF2087: Uncharacteri 29.0 66 0.0014 27.0 3.2 30 407-436 17-47 (71)
292 PF15601 Imm42: Immunity prote 28.9 47 0.001 31.2 2.6 27 428-454 98-131 (134)
293 PF03885 DUF327: Protein of un 28.8 56 0.0012 30.1 3.1 50 404-453 42-96 (147)
294 PF04129 Vps52: Vps52 / Sac2 f 28.8 39 0.00084 36.7 2.4 98 401-499 65-171 (508)
295 PHA03247 large tegument protei 28.6 1.6E+03 0.035 31.0 15.8 12 442-453 3072-3083(3151)
296 TIGR00496 frr ribosome recycli 28.5 1.1E+02 0.0023 29.5 4.9 25 417-441 136-164 (176)
297 PF02885 Glycos_trans_3N: Glyc 28.3 33 0.00072 27.3 1.3 47 407-453 2-49 (66)
298 TIGR00988 hip integration host 28.3 77 0.0017 26.5 3.6 20 463-482 36-55 (94)
299 PRK14086 dnaA chromosomal repl 28.3 3E+02 0.0066 31.5 9.1 18 416-433 462-479 (617)
300 PRK13765 ATP-dependent proteas 28.1 1.4E+02 0.0031 33.9 6.5 44 418-461 338-394 (637)
301 TIGR02397 dnaX_nterm DNA polym 28.0 1E+02 0.0022 30.3 4.9 64 402-466 176-241 (355)
302 COG1705 FlgJ Muramidase (flage 28.0 67 0.0015 32.1 3.6 40 431-471 42-81 (201)
303 COG1067 LonB Predicted ATP-dep 27.9 1.5E+02 0.0033 33.9 6.8 71 396-466 312-398 (647)
304 KOG1087 Cytosolic sorting prot 27.9 1.6E+02 0.0034 32.7 6.6 67 403-475 36-117 (470)
305 COG4749 Uncharacterized protei 27.7 60 0.0013 32.1 3.2 78 401-480 8-87 (196)
306 PRK00423 tfb transcription ini 27.7 1.2E+02 0.0025 31.0 5.3 11 493-503 294-304 (310)
307 PRK09087 hypothetical protein; 27.6 2.8E+02 0.0061 26.9 7.7 50 416-466 169-221 (226)
308 COG4531 ZnuA ABC-type Zn2+ tra 27.5 1.8E+02 0.004 30.9 6.7 85 419-512 173-263 (318)
309 PRK12903 secA preprotein trans 27.5 63 0.0014 38.4 3.8 45 422-469 616-660 (925)
310 PRK07415 NAD(P)H-quinone oxido 27.5 6E+02 0.013 27.4 10.7 59 403-461 137-216 (394)
311 PRK06256 biotin synthase; Vali 27.5 85 0.0018 31.4 4.3 55 404-458 4-58 (336)
312 PRK14127 cell division protein 27.5 91 0.002 28.3 4.1 17 487-503 85-101 (109)
313 CHL00095 clpC Clp protease ATP 27.4 1.9E+02 0.0042 33.2 7.5 46 403-448 342-402 (821)
314 TIGR01834 PHA_synth_III_E poly 27.4 74 0.0016 33.6 4.0 18 492-509 294-311 (320)
315 PF11247 DUF2675: Protein of u 27.3 1.3E+02 0.0028 27.3 4.9 42 404-445 26-67 (98)
316 PRK13104 secA preprotein trans 27.3 55 0.0012 38.7 3.3 47 423-471 667-713 (896)
317 PRK07362 isocitrate dehydrogen 27.1 67 0.0015 35.7 3.7 24 427-450 204-227 (474)
318 PRK02195 V-type ATP synthase s 27.1 82 0.0018 30.6 4.0 26 453-478 77-102 (201)
319 PF13499 EF-hand_7: EF-hand do 27.0 2E+02 0.0044 21.6 5.4 29 433-461 35-63 (66)
320 PF10163 EnY2: Transcription f 26.9 1E+02 0.0023 26.1 4.1 56 433-503 30-85 (86)
321 TIGR02923 AhaC ATP synthase A1 26.9 1.2E+02 0.0026 30.1 5.1 47 431-481 281-339 (343)
322 KOG3902 Histone acetyltransfer 26.9 4.1E+02 0.0089 28.7 9.1 60 404-465 27-88 (352)
323 cd06571 Bac_DnaA_C C-terminal 26.8 48 0.001 27.8 2.1 47 425-474 2-49 (90)
324 PF05427 FIBP: Acidic fibrobla 26.8 1E+02 0.0022 33.3 4.9 42 415-467 284-325 (361)
325 PF03081 Exo70: Exo70 exocyst 26.7 4.3E+02 0.0092 26.7 9.0 57 409-467 21-82 (371)
326 PRK13343 F0F1 ATP synthase sub 26.6 85 0.0018 34.8 4.4 32 407-438 468-499 (502)
327 TIGR02937 sigma70-ECF RNA poly 26.5 60 0.0013 26.5 2.6 10 495-504 100-109 (158)
328 PF08367 M16C_assoc: Peptidase 26.5 1.6E+02 0.0034 28.7 5.8 65 405-471 174-240 (248)
329 TIGR02903 spore_lon_C ATP-depe 26.4 92 0.002 34.8 4.7 66 402-467 353-430 (615)
330 cd03567 VHS_GGA VHS domain fam 26.3 1.2E+02 0.0025 28.1 4.6 47 425-473 71-119 (139)
331 PRK10569 NAD(P)H-dependent FMN 26.2 59 0.0013 30.8 2.8 26 414-439 147-172 (191)
332 PF07253 Gypsy: Gypsy protein; 26.2 2.2E+02 0.0047 31.8 7.3 50 415-466 146-201 (472)
333 PRK12322 NADH dehydrogenase su 26.2 3.4E+02 0.0074 28.8 8.6 58 403-460 133-210 (366)
334 PRK02079 pyrroloquinoline quin 26.2 1.2E+02 0.0025 26.3 4.3 23 409-435 40-62 (88)
335 PF05746 DALR_1: DALR anticodo 26.1 3.3E+02 0.0072 22.7 7.0 90 406-507 7-105 (119)
336 PRK00440 rfc replication facto 26.0 1.7E+02 0.0036 28.2 5.8 64 402-467 161-226 (319)
337 PF08165 FerA: FerA (NUC095) d 26.0 79 0.0017 26.2 3.1 21 421-441 9-29 (66)
338 PHA02601 int integrase; Provis 25.9 65 0.0014 31.3 3.1 13 426-438 59-71 (333)
339 PRK08215 sporulation sigma fac 25.9 1.7E+02 0.0037 28.3 5.9 59 397-465 14-73 (258)
340 PRK09103 ribonucleotide-diphos 25.9 1.5E+02 0.0032 34.5 6.3 33 421-453 530-562 (758)
341 PF15604 Toxin_43: Putative to 25.5 1.6E+02 0.0034 28.4 5.4 106 400-510 17-141 (152)
342 KOG2018 Predicted dinucleotide 25.5 1.5E+02 0.0032 32.4 5.8 64 418-482 306-371 (430)
343 PRK05870 enoyl-CoA hydratase; 25.4 59 0.0013 31.4 2.7 93 400-498 149-245 (249)
344 PRK06075 NADH dehydrogenase su 25.3 4.6E+02 0.0099 28.0 9.3 57 404-460 134-210 (392)
345 PF03432 Relaxase: Relaxase/Mo 25.2 39 0.00085 31.5 1.4 57 415-475 65-148 (242)
346 PF08202 MIS13: Mis12-Mtw1 pro 25.1 1.7E+02 0.0036 30.0 5.9 81 417-506 95-176 (301)
347 PRK13424 F0F1 ATP synthase sub 25.1 1.4E+02 0.003 30.1 5.3 30 418-447 208-237 (291)
348 PRK13107 preprotein translocas 25.0 70 0.0015 38.0 3.6 49 422-472 670-718 (908)
349 cd03561 VHS VHS domain family; 24.9 1.5E+02 0.0032 26.5 4.9 46 426-475 71-117 (133)
350 cd06250 M14_PaAOTO_like An unc 24.8 1.2E+02 0.0027 31.6 5.0 21 397-417 37-57 (359)
351 PF13963 Transpos_assoc: Trans 24.7 72 0.0016 26.5 2.7 34 432-467 21-63 (77)
352 PF02898 NO_synthase: Nitric o 24.4 1.6E+02 0.0034 32.1 5.7 18 423-440 4-21 (372)
353 PRK12896 methionine aminopepti 24.3 70 0.0015 30.4 2.9 50 454-506 90-139 (255)
354 cd05133 RasGAP_IQGAP1 IQGAP1 i 24.3 4.5E+02 0.0097 28.1 9.0 85 426-512 124-229 (360)
355 PRK13292 trifunctional NADH de 24.3 2.8E+02 0.006 32.7 8.1 58 403-460 531-608 (788)
356 PRK05708 2-dehydropantoate 2-r 24.3 1.3E+02 0.0029 30.0 5.0 6 193-198 10-15 (305)
357 cd08790 DED_DEDD Death Effecto 24.3 1.6E+02 0.0035 26.7 4.9 50 406-467 4-53 (97)
358 COG4229 Predicted enolase-phos 24.3 3.4E+02 0.0073 27.8 7.6 98 403-515 29-128 (229)
359 PRK05720 mtnA methylthioribose 24.2 1.4E+02 0.0031 31.4 5.4 29 421-449 111-139 (344)
360 PRK06347 autolysin; Reviewed 24.2 82 0.0018 35.6 3.8 38 432-470 150-187 (592)
361 PLN02353 probable UDP-glucose 24.1 1.9E+02 0.0042 31.5 6.5 73 404-476 188-267 (473)
362 PF10273 WGG: Pre-rRNA-process 24.1 70 0.0015 27.1 2.6 38 403-440 29-71 (82)
363 CHL00059 atpA ATP synthase CF1 24.1 1.2E+02 0.0026 33.7 5.0 31 408-438 448-478 (485)
364 PRK12921 2-dehydropantoate 2-r 24.0 83 0.0018 30.3 3.4 32 433-465 213-244 (305)
365 smart00544 MA3 Domain in DAP-5 24.0 1E+02 0.0022 25.9 3.5 46 404-450 2-48 (113)
366 PRK12422 chromosomal replicati 23.9 2.7E+02 0.0059 30.0 7.5 17 417-433 288-304 (445)
367 PRK14963 DNA polymerase III su 23.8 1.7E+02 0.0036 32.2 5.9 67 401-469 174-242 (504)
368 PF01385 OrfB_IS605: Probable 23.7 1E+02 0.0022 28.0 3.8 35 426-460 189-223 (227)
369 PF06576 DUF1133: Protein of u 23.7 1.2E+02 0.0025 30.0 4.3 49 401-451 54-117 (176)
370 smart00337 BCL BCL (B-Cell lym 23.7 1.4E+02 0.0031 25.6 4.5 43 406-451 15-67 (100)
371 PRK06245 cofG FO synthase subu 23.5 7.7E+02 0.017 24.9 10.5 22 483-504 143-164 (336)
372 PRK06585 holA DNA polymerase I 23.5 2E+02 0.0044 28.6 6.1 69 402-472 142-215 (343)
373 TIGR02541 flagell_FlgJ flagell 23.5 87 0.0019 32.5 3.6 43 429-472 145-187 (294)
374 PRK14950 DNA polymerase III su 23.4 1.3E+02 0.0029 33.1 5.2 65 402-467 179-245 (585)
375 PHA03373 tegument protein; Pro 23.4 39 0.00084 34.7 1.1 53 449-503 26-78 (247)
376 PRK12712 flgJ flagellar rod as 23.4 91 0.002 33.3 3.8 40 432-472 197-236 (344)
377 COG1331 Highly conserved prote 23.4 93 0.002 35.9 4.1 104 406-514 138-249 (667)
378 PF06122 TraH: Conjugative rel 23.3 1.2E+02 0.0025 31.7 4.5 58 396-453 62-131 (361)
379 PRK05684 flgJ flagellar rod as 23.3 88 0.0019 32.8 3.6 42 430-472 150-191 (312)
380 cd02888 RNR_II_dimer Class II 23.2 3.4E+02 0.0075 29.5 8.1 32 421-452 315-346 (464)
381 KOG2389 Predicted bromodomain 23.2 2.1E+02 0.0046 30.9 6.4 64 402-466 30-93 (353)
382 PRK14964 DNA polymerase III su 23.2 1.6E+02 0.0034 32.6 5.6 62 402-464 175-238 (491)
383 PRK10467 hydrogenase 2 large s 23.1 2.2E+02 0.0047 32.2 6.8 92 418-509 99-208 (567)
384 PF12422 Condensin2nSMC: Conde 22.9 84 0.0018 29.1 3.1 41 402-443 91-131 (152)
385 PRK08699 DNA polymerase III su 22.8 2.8E+02 0.006 28.6 7.0 68 400-467 91-184 (325)
386 PRK03992 proteasome-activating 22.7 2.3E+02 0.005 29.6 6.5 65 403-467 303-372 (389)
387 TIGR02850 spore_sigG RNA polym 22.6 2.2E+02 0.0048 27.6 6.0 59 397-465 11-70 (254)
388 COG2407 FucI L-fucose isomeras 22.6 1.1E+02 0.0024 33.9 4.4 67 407-474 201-276 (470)
389 PHA02102 hypothetical protein 22.6 73 0.0016 27.4 2.4 35 436-476 4-38 (72)
390 PRK08691 DNA polymerase III su 22.4 1.9E+02 0.0041 33.7 6.3 62 402-464 178-241 (709)
391 PRK00170 azoreductase; Reviewe 22.4 1.2E+02 0.0025 27.8 3.8 52 453-511 36-92 (201)
392 PRK12713 flgJ flagellar rod as 22.3 92 0.002 33.2 3.6 39 433-472 182-220 (339)
393 PHA03362 single-stranded bindi 22.3 81 0.0018 38.5 3.5 83 423-510 253-369 (1189)
394 KOG3341 RNA polymerase II tran 22.3 2.7E+02 0.0059 28.8 6.7 61 404-467 63-129 (249)
395 COG0649 NuoD NADH:ubiquinone o 22.2 4.8E+02 0.01 28.8 8.8 69 403-476 141-229 (398)
396 PRK14731 coaE dephospho-CoA ki 22.2 1.7E+02 0.0037 27.6 5.0 107 401-516 71-188 (208)
397 PF04084 ORC2: Origin recognit 22.1 2.2E+02 0.0047 29.7 6.1 55 418-478 10-65 (326)
398 PRK14949 DNA polymerase III su 22.0 92 0.002 37.3 3.8 59 402-462 178-239 (944)
399 COG2766 PrkA Putative Ser prot 22.0 1E+02 0.0023 35.4 4.1 66 395-467 524-592 (649)
400 PF01813 ATP-synt_D: ATP synth 21.9 9.4 0.0002 36.0 -3.3 23 457-479 78-100 (196)
401 PRK08084 DNA replication initi 21.9 3.9E+02 0.0084 25.8 7.4 18 416-433 183-200 (235)
402 PRK12292 hisZ ATP phosphoribos 21.9 1.4E+02 0.0031 31.0 4.8 35 491-525 237-272 (391)
403 COG0803 LraI ABC-type metal io 21.9 4.1E+02 0.0088 26.9 7.9 108 395-512 130-246 (303)
404 PF13581 HATPase_c_2: Histidin 21.8 48 0.001 27.8 1.2 41 407-447 11-51 (125)
405 PRK10187 trehalose-6-phosphate 21.8 1.2E+02 0.0026 29.9 4.1 15 419-433 36-50 (266)
406 PF14630 ORC5_C: Origin recogn 21.7 2.8E+02 0.0061 27.5 6.6 63 403-472 7-69 (271)
407 KOG0960 Mitochondrial processi 21.6 1.4E+02 0.003 33.2 4.7 48 471-519 395-443 (467)
408 PRK06246 fumarate hydratase; P 21.5 1.6E+02 0.0034 30.6 5.0 49 401-449 3-61 (280)
409 KOG0034 Ca2+/calmodulin-depend 21.5 3.1E+02 0.0066 26.7 6.7 61 397-467 116-176 (187)
410 PTZ00436 60S ribosomal protein 21.5 3.6E+02 0.0079 29.1 7.6 91 417-509 21-112 (357)
411 PRK06645 DNA polymerase III su 21.4 2E+02 0.0042 31.9 5.9 66 401-466 186-255 (507)
412 PF02854 MIF4G: MIF4G domain; 21.4 1.7E+02 0.0036 25.8 4.5 46 405-451 2-50 (209)
413 cd04258 AAK_AKiii-LysC-EC AAK_ 21.4 3E+02 0.0065 28.3 6.9 42 470-516 181-226 (292)
414 PF02268 TFIIA_gamma_N: Transc 21.4 2.6E+02 0.0056 22.5 5.1 32 405-440 17-48 (49)
415 PF00331 Glyco_hydro_10: Glyco 21.3 48 0.001 33.7 1.3 21 496-522 219-239 (320)
416 PRK14903 16S rRNA methyltransf 21.3 2.3E+02 0.005 30.2 6.3 64 403-467 52-122 (431)
417 PRK00771 signal recognition pa 21.2 1.8E+02 0.004 31.5 5.6 39 405-443 3-55 (437)
418 PF07464 ApoLp-III: Apolipopho 21.2 1.6E+02 0.0036 28.0 4.7 24 418-441 120-143 (155)
419 PF11047 SopD: Salmonella oute 21.2 1.5E+02 0.0032 31.6 4.8 70 396-466 113-191 (319)
420 CHL00195 ycf46 Ycf46; Provisio 21.2 2.5E+02 0.0055 30.8 6.7 63 403-466 143-207 (489)
421 PRK13341 recombination factor 21.2 2.6E+02 0.0056 32.3 7.0 65 402-466 168-246 (725)
422 PRK13940 glutamyl-tRNA reducta 21.2 2.2E+02 0.0047 30.5 6.1 50 421-472 363-412 (414)
423 PF08369 PCP_red: Proto-chloro 21.1 94 0.002 24.0 2.5 40 421-461 2-42 (45)
424 PRK14961 DNA polymerase III su 21.1 1.6E+02 0.0034 30.3 4.8 59 402-464 178-241 (363)
425 TIGR01917 gly_red_sel_B glycin 20.9 78 0.0017 34.8 2.8 107 395-510 280-424 (431)
426 COG0542 clpA ATP-binding subun 20.9 2.7E+02 0.0058 32.9 7.1 65 409-481 678-744 (786)
427 cd01679 RNR_I Class I ribonucl 20.9 1.3E+02 0.0028 32.6 4.4 30 422-451 310-339 (460)
428 PF10222 DUF2152: Uncharacteri 20.8 83 0.0018 35.8 3.1 22 504-525 358-379 (604)
429 cd07956 Anticodon_Ia_Arg Antic 20.8 4.8E+02 0.01 23.4 7.4 88 403-506 42-141 (156)
430 PRK06893 DNA replication initi 20.8 4E+02 0.0087 25.5 7.3 31 403-433 162-194 (229)
431 TIGR02846 spore_sigmaK RNA pol 20.8 2.3E+02 0.0051 26.9 5.7 92 400-502 28-120 (227)
432 PRK06200 2,3-dihydroxy-2,3-dih 20.7 42 0.00091 31.2 0.7 13 403-415 39-51 (263)
433 KOG2467 Glycine/serine hydroxy 20.7 2.6E+02 0.0057 31.1 6.6 60 425-509 410-469 (477)
434 TIGR03566 FMN_reduc_MsuE FMN r 20.7 1.2E+02 0.0025 27.7 3.5 25 415-439 147-171 (174)
435 PRK06522 2-dehydropantoate 2-r 20.7 5.5E+02 0.012 24.7 8.1 62 404-466 155-242 (304)
436 PF01221 Dynein_light: Dynein 20.6 78 0.0017 26.6 2.2 19 419-437 12-30 (89)
437 TIGR00963 secA preprotein tran 20.6 92 0.002 36.3 3.4 46 423-470 597-642 (745)
438 PF14677 FANCI_S3: FANCI solen 20.6 2.9E+02 0.0062 27.4 6.3 54 404-462 114-170 (219)
439 PRK14962 DNA polymerase III su 20.5 2.3E+02 0.0049 30.9 6.1 67 402-469 176-244 (472)
440 COG1893 ApbA Ketopantoate redu 20.5 1.7E+02 0.0038 29.8 5.0 37 417-453 230-267 (307)
441 PRK12709 flgJ flagellar rod as 20.4 1.2E+02 0.0025 32.1 3.9 41 432-473 173-213 (320)
442 KOG2948 Predicted metal-bindin 20.4 1.7E+02 0.0036 31.3 4.9 69 405-473 148-243 (327)
443 PRK14958 DNA polymerase III su 20.4 2.4E+02 0.0053 30.9 6.4 62 402-464 178-241 (509)
444 PF07697 7TMR-HDED: 7TM-HD ext 20.3 2.5E+02 0.0055 25.8 5.6 54 399-452 21-81 (222)
445 KOG1988 Uncharacterized conser 20.3 65 0.0014 38.3 2.1 74 430-519 254-327 (970)
446 PRK05629 hypothetical protein; 20.3 3.1E+02 0.0066 27.5 6.6 70 402-472 126-197 (318)
447 KOG4217 Nuclear receptors of t 20.2 1.4E+02 0.003 33.9 4.5 78 424-514 369-462 (605)
448 PRK12772 bifunctional flagella 20.2 50 0.0011 37.0 1.3 18 397-414 389-406 (609)
449 PRK13018 cell division protein 20.2 1.4E+02 0.0031 31.9 4.5 74 404-478 165-247 (378)
450 cd05030 calgranulins Calgranul 20.2 1.5E+02 0.0033 24.7 3.8 43 423-473 2-45 (88)
451 KOG2016 NEDD8-activating compl 20.1 1.7E+02 0.0036 33.0 5.1 26 405-430 350-376 (523)
452 KOG1016 Predicted DNA helicase 20.1 61 0.0013 38.8 1.9 40 465-504 328-373 (1387)
453 TIGR02510 NrdE-prime ribonucle 20.0 1.7E+02 0.0037 32.8 5.2 35 421-455 355-389 (571)
454 cd03568 VHS_STAM VHS domain fa 20.0 1.8E+02 0.0039 26.9 4.6 35 401-437 76-110 (144)
No 1
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=100.00 E-value=2.7e-54 Score=418.33 Aligned_cols=231 Identities=35% Similarity=0.477 Sum_probs=182.3
Q ss_pred cccCccccccCCCCCCCCCCCCCCCCCCCCcccccccCCcccCCCCcchhhhhhcccccCCCCCCCCCCccccccccCC-
Q 009666 268 QSFNQPWLSSGSQGKPPLAPPSTYRPQMNTPSMQQRSHIPQQHSPLSTNLQQQHLSSVQPQQSKPSHQLPDHYGQQFSS- 346 (529)
Q Consensus 268 Q~~~Q~WL~~~~q~~ppl~sp~s~r~q~~~~~~QQr~h~~qQ~~~~~t~lqqqqlsq~qqqq~~~~~q~q~h~~QQ~~~- 346 (529)
|..+++||+.+..+.++...+ ++|+|++++.+.+|.++.+|+-+..- .+.+. ....+...+..++|+. ++..
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 455889999999999988886 99999999999999888888754432 11111 1111111122222332 2222
Q ss_pred -CCCCCCCccccccCCCCCCCCCCcccccc-CCCCccccCCCCccCCCCCCCcCCccCCHHHHHHHHHhhCCCCCCCHHH
Q 009666 347 -PRVPQSSPHQQQITRPPGSATQKPSSLAL-VQPNAVQTGNQSKIAGTESDEFGNRILTKRSIQELVNQIDPSERLDPDV 424 (529)
Q Consensus 347 -~~~~q~~~~qqq~~r~~~~~~qk~~sl~~-sqp~~~~~g~~~~~~~~~~~e~~nrILtKrKLqELVrqIDPsesLDpDV 424 (529)
.+.++....+....+++....++...-.. ++......+++.++..+..++++++||.|+||+|||++||++++||+||
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 34445555666666777777776654433 2233333455556777788999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccccccCCCCCchHHHHHHHHHHHHHh
Q 009666 425 EDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKTFRKPLVCDIHKERLAAVSFTLD 504 (529)
Q Consensus 425 EELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEIR~~RK~~ptEaHKQRMALIRKtiK 504 (529)
||+||||||||||+|++|||+||||||+|+||+|||+|||||||||+||||++||++.|||+.++|+||+|||+|||++|
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 99999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred h
Q 009666 505 I 505 (529)
Q Consensus 505 ~ 505 (529)
+
T Consensus 258 k 258 (258)
T KOG1142|consen 258 K 258 (258)
T ss_pred C
Confidence 5
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=4e-30 Score=207.33 Aligned_cols=68 Identities=63% Similarity=1.135 Sum_probs=57.9
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCc
Q 009666 403 TKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNM 470 (529)
Q Consensus 403 tKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI 470 (529)
+|++|++||++|||+++||+||||+|++||||||++|+++||+||||||+++||+|||+|||||+|||
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=1.1e-29 Score=259.79 Aligned_cols=115 Identities=40% Similarity=0.573 Sum_probs=106.2
Q ss_pred CccCCCCCCCcCCccCCHHHHHHHHHhh-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009666 387 SKIAGTESDEFGNRILTKRSIQELVNQI-DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (529)
Q Consensus 387 ~~~~~~~~~e~~nrILtKrKLqELVrqI-DPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLE 465 (529)
.|++-|+. ++..||+.|+||+||++.| |..++||.||||+||++|||||+.|.+|+|+||||||+|+||++||+||||
T Consensus 370 ~k~p~ye~-D~~~Rl~skrkL~el~~~~vd~eekie~eveelll~~ad~fve~vt~FsCrlakhrkSdtlevrD~qlhlE 448 (505)
T COG5624 370 DKGPLYER-DDLWRLDSKRKLEELQHGGVDEEEKIENEVEELLLSRADGFVEPVTEFSCRLAKHRKSDTLEVRDGQLHLE 448 (505)
T ss_pred cCCCchhc-chhhhhhhhhhHHHHHhhccCcceeccchHHHHHHhhhcccccccchheeEeeccCCCCceeeccceeeec
Confidence 34444443 3568999999999999999 999999999999999999999999999999999999999999999999999
Q ss_pred hccCcccCCCCccccc-ccCCCCCchHHHHHHHHHHHH
Q 009666 466 RNWNMTLPGFSGDEIK-TFRKPLVCDIHKERLAAVSFT 502 (529)
Q Consensus 466 RnWNI~IPGFssDEIR-~~RK~~ptEaHKQRMALIRKt 502 (529)
|||||++|||..|+|+ .|||+.++-++.++..+|+-.
T Consensus 449 rnwnIr~pGf~~d~I~~s~rk~~pt~~y~qk~~ai~t~ 486 (505)
T COG5624 449 RNWNIRCPGFVDDIIHMSYRKQKPTVEYCQKKLAIKTE 486 (505)
T ss_pred cccceecCcchHHHHHHHHHhcCCChhHHHHHHhhhhh
Confidence 9999999999999998 999999999999999998743
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=2.1e-25 Score=179.58 Aligned_cols=72 Identities=63% Similarity=1.080 Sum_probs=70.7
Q ss_pred cCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 401 ILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 401 ILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
+++|++|++||++||+++.||+||+++|+++|||||++|+++||+||||||++||+++||+|+|||+|||+|
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 689999999999999999999999999999999999999999999999999999999999999999999985
No 5
>PLN00035 histone H4; Provisional
Probab=98.75 E-value=4.2e-08 Score=86.08 Aligned_cols=73 Identities=23% Similarity=0.332 Sum_probs=68.4
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCC
Q 009666 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFS 476 (529)
Q Consensus 402 LtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFs 476 (529)
|+|-.|..|++.- .-+.|.+|+.|.|.++.++|+++|+..|+.+|+|.+-.||++.||.|.|+|.+. .+.||+
T Consensus 30 ipk~~IrRLARr~-GvkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr~g~-~lyGf~ 102 (103)
T PLN00035 30 ITKPAIRRLARRG-GVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGR-TLYGFG 102 (103)
T ss_pred CCHHHHHHHHHHc-CcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHcCC-cCCCCC
Confidence 8899999999986 478999999999999999999999999999999999999999999999999755 888986
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=98.69 E-value=7.5e-08 Score=81.75 Aligned_cols=74 Identities=24% Similarity=0.384 Sum_probs=69.2
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCC
Q 009666 400 RILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGF 475 (529)
Q Consensus 400 rILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGF 475 (529)
.-|+|..|..|++.- +-..|.+|+.|.|.++.++|+++|+..|+.+|+|.+-.||+..||.+.|+|. |..+-||
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 349999999999985 5789999999999999999999999999999999999999999999999996 8888887
No 7
>PTZ00015 histone H4; Provisional
Probab=98.67 E-value=1e-07 Score=83.52 Aligned_cols=76 Identities=24% Similarity=0.337 Sum_probs=69.0
Q ss_pred CCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCC
Q 009666 398 GNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGF 475 (529)
Q Consensus 398 ~nrILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGF 475 (529)
.-+-|+|..|..|++.- .-..|.+|+.|.|.++.++|+++|+..|+.+|+|.+-.||++.||.|.|+|.+. .+-||
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 33568999999999974 668999999999999999999999999999999999999999999999999755 77776
No 8
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=98.51 E-value=2e-07 Score=80.29 Aligned_cols=71 Identities=24% Similarity=0.386 Sum_probs=66.5
Q ss_pred CcCCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 396 EFGNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 396 e~~nrILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
.+....|++..++.|++++... ++..++.|.|.+.+++|+..|.+.|+.+|+|.|..||+.+||++.|++.
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 4566789999999999999765 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=98.28 E-value=1.4e-06 Score=68.96 Aligned_cols=67 Identities=22% Similarity=0.320 Sum_probs=60.7
Q ss_pred ccCCHHHHHHHHHhhCCC----CCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 400 RILTKRSIQELVNQIDPS----ERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 400 rILtKrKLqELVrqIDPs----esLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
..+.|--+..|+++|..+ ..|+.++.++|..++|+|+.+|++.|+.+|+|.|..||..+||++.+..
T Consensus 4 ~~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~ 74 (75)
T PF00125_consen 4 RLIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRI 74 (75)
T ss_dssp HSSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHH
T ss_pred cccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhc
Confidence 456677788888888665 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=98.25 E-value=4.5e-06 Score=67.32 Aligned_cols=64 Identities=22% Similarity=0.308 Sum_probs=59.7
Q ss_pred cCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009666 401 ILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (529)
Q Consensus 401 ILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLE 465 (529)
+|++..+.+|++.++- ..|.+|+.+.|.+.++.|+..|+..|+++++|=|..||...||.+.|+
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 5789999999999855 489999999999999999999999999999999999999999998875
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=98.15 E-value=8.6e-06 Score=71.99 Aligned_cols=67 Identities=13% Similarity=0.292 Sum_probs=59.3
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 405 RSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 405 rKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
+-+..+++.. +-+.++++|...|+|++..++.+|+..|..+|+|-|.++|++.||+|.++..-+..+
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 457899999999999999999999999999999999999999999999999877443
No 12
>smart00417 H4 Histone H4.
Probab=98.09 E-value=9.1e-06 Score=67.82 Aligned_cols=64 Identities=19% Similarity=0.276 Sum_probs=59.0
Q ss_pred CCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHH
Q 009666 398 GNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILV 462 (529)
Q Consensus 398 ~nrILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQL 462 (529)
..+-|+|..|..|++.- +-..|.+++.|.|.++.++|+++|+..|+.+|+|.|-.||++.||.|
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 66899999999999999999999999999999999999999999975
No 13
>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=98.02 E-value=1.9e-05 Score=61.85 Aligned_cols=63 Identities=14% Similarity=0.274 Sum_probs=55.6
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009666 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL 464 (529)
Q Consensus 402 LtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhL 464 (529)
|.+.++..+++.......+..|+.++|.+.++.||+.++..|...|++.+..||..+||...|
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 678899999999856668999999999999999999999999999999999999999997654
No 14
>smart00428 H3 Histone H3.
Probab=98.00 E-value=1.7e-05 Score=69.88 Aligned_cols=69 Identities=25% Similarity=0.243 Sum_probs=63.0
Q ss_pred CcCCccCCHHHHHHHHHhhC----C--CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009666 396 EFGNRILTKRSIQELVNQID----P--SERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL 464 (529)
Q Consensus 396 e~~nrILtKrKLqELVrqID----P--sesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhL 464 (529)
.+.+-+|.|.-+..||++|. . +..+.+++.++|.+.+|+|+-++.+.+..+|+|.|-.||.+|||+|+.
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 15
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]
Probab=97.98 E-value=2.5e-05 Score=68.35 Aligned_cols=78 Identities=24% Similarity=0.333 Sum_probs=68.5
Q ss_pred CCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCc
Q 009666 398 GNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSG 477 (529)
Q Consensus 398 ~nrILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFss 477 (529)
.-+-|+|-.|..|.+.- .-..+..-..|-.-..+.+|++||+..||-.+.|-|..||...||.+.|+|. ++.+-||+.
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 33457899999999874 4457778888889999999999999999999999999999999999999996 999999974
No 16
>PLN00161 histone H3; Provisional
Probab=97.77 E-value=7.5e-05 Score=68.71 Aligned_cols=79 Identities=20% Similarity=0.111 Sum_probs=68.1
Q ss_pred CcCCccCCHHHHHHHHHhhC-----CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCc
Q 009666 396 EFGNRILTKRSIQELVNQID-----PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNM 470 (529)
Q Consensus 396 e~~nrILtKrKLqELVrqID-----PsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI 470 (529)
.+.+-+|.|--++.||++|- .+..+..++.++|.|.+|+|+-++.+.+-..|.|+|--||..|||+|+. |--+.
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 45677889999999999993 3578999999999999999999999999999999999999999999987 44455
Q ss_pred ccCCC
Q 009666 471 TLPGF 475 (529)
Q Consensus 471 ~IPGF 475 (529)
++.++
T Consensus 129 ~~~~~ 133 (135)
T PLN00161 129 IYGIS 133 (135)
T ss_pred ccccC
Confidence 55433
No 17
>PLN00121 histone H3; Provisional
Probab=97.62 E-value=0.00012 Score=67.30 Aligned_cols=69 Identities=23% Similarity=0.201 Sum_probs=63.8
Q ss_pred CcCCccCCHHHHHHHHHhhC----CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009666 396 EFGNRILTKRSIQELVNQID----PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL 464 (529)
Q Consensus 396 e~~nrILtKrKLqELVrqID----PsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhL 464 (529)
.+.+-+|.|--+..||++|. .+..+..++.++|.+.+|+|+-++.+.+-..|.|.|--||..|||+|+.
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=97.58 E-value=0.00021 Score=64.88 Aligned_cols=67 Identities=16% Similarity=0.325 Sum_probs=52.3
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 405 RSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 405 rKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
+.|..|++.++- ...|+.|...|||+|-.|+.+|+..|-.+|+|.|..+|++.||+|.++-..|..+
T Consensus 16 ~~i~~iL~~~Gv-~~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~r~~~~f 82 (129)
T PF02291_consen 16 RVIHLILKSMGV-TEYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQSRLDHSF 82 (129)
T ss_dssp HHHHHHHHHTT----B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHHT-----
T ss_pred HHHHHHHHHcCC-cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHhhhc
Confidence 457788888844 5689999999999999999999999999999999999999999999997777665
No 19
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=97.54 E-value=0.00056 Score=55.94 Aligned_cols=69 Identities=13% Similarity=0.277 Sum_probs=58.9
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 402 LtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
|-|..+..+++.. +-+.+++++.|.|.||+++|+..+...+-++|+|-|..++.+.||.+.|++ .|+.+
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 3355566666655 448999999999999999999999999999999999999999999999987 47754
No 20
>PTZ00018 histone H3; Provisional
Probab=97.50 E-value=0.00019 Score=66.08 Aligned_cols=69 Identities=23% Similarity=0.201 Sum_probs=63.9
Q ss_pred CcCCccCCHHHHHHHHHhhC----CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009666 396 EFGNRILTKRSIQELVNQID----PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL 464 (529)
Q Consensus 396 e~~nrILtKrKLqELVrqID----PsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhL 464 (529)
.+.+-+|.|--+..||++|. .+..+..++.++|.+.+|+|+-++.+.+-..|.|.|--||..|||+|+.
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 45678899999999999994 4679999999999999999999999999999999999999999999885
No 21
>PLN00160 histone H3; Provisional
Probab=97.38 E-value=0.00039 Score=60.95 Aligned_cols=68 Identities=19% Similarity=0.131 Sum_probs=62.1
Q ss_pred cCCccCCHHHHHHHHHhhCC-----CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009666 397 FGNRILTKRSIQELVNQIDP-----SERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL 464 (529)
Q Consensus 397 ~~nrILtKrKLqELVrqIDP-----sesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhL 464 (529)
+.+-+|.|.-+..||++|.. +..+..++.++|.+.+|+|+-.+.+.+-..|.|.|--||..||++|+.
T Consensus 17 st~lLI~k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~ 89 (97)
T PLN00160 17 STDLLIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLAR 89 (97)
T ss_pred chhhhhccccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHH
Confidence 45678899999999999942 378899999999999999999999999999999999999999999885
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=97.34 E-value=0.0009 Score=67.86 Aligned_cols=74 Identities=22% Similarity=0.275 Sum_probs=62.9
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcc
Q 009666 404 KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGD 478 (529)
Q Consensus 404 KrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssD 478 (529)
++.+.++++.+ +-+.+++|+.+.|.+.+++++..|+..|+++|||-|..+|.+.||.+.|+..=--.+-||.+-
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 446999999999999999999999999999999999999999999999988533446777653
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=97.26 E-value=0.00031 Score=60.02 Aligned_cols=61 Identities=20% Similarity=0.405 Sum_probs=31.3
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 407 LqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
|..|+--.+-...-.+|..++|-+|+-+||-+++..|+++|..||+..|.++|+.|.|.|+
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 5566666666677888999999999999999999999999999999999999999999985
No 24
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=97.06 E-value=0.0014 Score=54.88 Aligned_cols=61 Identities=18% Similarity=0.282 Sum_probs=50.9
Q ss_pred HHHHHHhh--CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 407 IQELVNQI--DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 407 LqELVrqI--DPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
+..++++. +.+..+.+++...|.||+-++++++...--.+|||.|.+||+..||.|...||
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 35668999999999999999999999999999999999999999999999987
No 25
>smart00427 H2B Histone H2B.
Probab=96.99 E-value=0.0031 Score=54.81 Aligned_cols=60 Identities=22% Similarity=0.372 Sum_probs=56.3
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 407 LqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
|...+++|.|+..|...+..+|--+++|+.|.|...|++||+..|..||..+||+...+-
T Consensus 7 i~kvLKqVhpd~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvrl 66 (89)
T smart00427 7 IYKVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVRL 66 (89)
T ss_pred HHHHHHHhCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHHH
Confidence 667899999999999999999999999999999999999999999999999999987654
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=96.83 E-value=0.0057 Score=50.27 Aligned_cols=65 Identities=17% Similarity=0.288 Sum_probs=50.7
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009666 400 RILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (529)
Q Consensus 400 rILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLE 465 (529)
-+++++.+......++= ..|++|+...|.+-++-.|..|+..|.++++|-|..+|...||...|+
T Consensus 2 s~~~~esvk~iAes~Gi-~~l~de~a~~La~dveyrlreiiq~a~kfm~hskR~~Lt~~Di~~ALr 66 (66)
T PF02969_consen 2 SVFSQESVKDIAESLGI-SNLSDEAAKALAEDVEYRLREIIQEALKFMRHSKRTKLTTDDINSALR 66 (66)
T ss_dssp ----HHHHHHHHHHTT----B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHH-
T ss_pred CcCCHHHHHHHHHHcCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHhC
Confidence 36778888888888743 679999999999999999999999999999999999999999998874
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=96.62 E-value=0.015 Score=47.07 Aligned_cols=65 Identities=17% Similarity=0.304 Sum_probs=53.6
Q ss_pred HHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 406 SIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 406 KLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
.+..+++.+ +=+...+.+.|.|.+|+.+||.++...+-++|.|.+.....+.||.+.|+. .|+.+
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 333444432 346889999999999999999999999999999999999999999999976 46643
No 28
>PLN00158 histone H2B; Provisional
Probab=96.58 E-value=0.0086 Score=54.34 Aligned_cols=59 Identities=20% Similarity=0.355 Sum_probs=56.1
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009666 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (529)
Q Consensus 407 LqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLE 465 (529)
|-..+++|.|+..|...+..+|--+.+|+.|.|...|++||+..+..||..+||+-..+
T Consensus 33 I~kVLKQVhPd~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvr 91 (116)
T PLN00158 33 IYKVLKQVHPDTGISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVR 91 (116)
T ss_pred HHHHHHHhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHH
Confidence 78899999999999999999999999999999999999999999999999999987754
No 29
>PTZ00463 histone H2B; Provisional
Probab=96.50 E-value=0.01 Score=53.94 Aligned_cols=65 Identities=25% Similarity=0.410 Sum_probs=59.4
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCC
Q 009666 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGF 475 (529)
Q Consensus 407 LqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGF 475 (529)
|-..|++|.|+..|...+..+|--+.+|..|.|...|++||+..+..||..+||+-..+ +.+||-
T Consensus 34 I~KVLKqVhPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAvr----LlLpGE 98 (117)
T PTZ00463 34 IFKVLKQVHPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAIR----LVLPGE 98 (117)
T ss_pred HHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHHh----hcccHH
Confidence 88999999999999999999999999999999999999999999999999999988754 456654
No 30
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription]
Probab=96.46 E-value=0.0091 Score=56.90 Aligned_cols=71 Identities=13% Similarity=0.298 Sum_probs=64.3
Q ss_pred CcCCccCCHHHHHHHHHhh-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 396 EFGNRILTKRSIQELVNQI-DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 396 e~~nrILtKrKLqELVrqI-DPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
-+..|+|.=.++-++++++ .++.+|.+|+.|.+.|.+.|||.=|+..|...|-.-|.+||...||.+.|..
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 4567889988899999886 6789999999999999999999999999999999999999999999877665
No 31
>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=96.31 E-value=0.022 Score=48.64 Aligned_cols=64 Identities=17% Similarity=0.264 Sum_probs=56.4
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC---CCcchhhHHHHHhh
Q 009666 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKS---DTLEAKDILVHLER 466 (529)
Q Consensus 402 LtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKS---dTLEvKDVQLhLER 466 (529)
|+|.++..|+..+.. .++.++|..+|-.||..||-++|+.|..+.+.++. .-|..+.|.-.+.|
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 89999999999999999999999999999998887 56777776666555
No 32
>KOG3334 consensus Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=96.30 E-value=0.017 Score=54.24 Aligned_cols=68 Identities=15% Similarity=0.289 Sum_probs=60.4
Q ss_pred HHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009666 406 SIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (529)
Q Consensus 406 KLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (529)
.|..+++.+ +-...|+-|.-.|||+|-.++..|+..|--+++|-+..+|++.||.+.++..-|..+-+
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 455677765 55789999999999999999999999999999999999999999999999988887644
No 33
>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=96.27 E-value=0.025 Score=48.80 Aligned_cols=62 Identities=16% Similarity=0.410 Sum_probs=52.0
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 405 RSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 405 rKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
+.|..|+--.+-...-.+|..++|-+|.=+||.+++..|+.+|..|++. +.++|+.|.|.++
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 4577888777666677888889999999999999999999999944444 6999999999764
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=95.69 E-value=0.037 Score=49.73 Aligned_cols=70 Identities=10% Similarity=0.176 Sum_probs=63.8
Q ss_pred CCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 398 GNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 398 ~nrILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
.+-+|.-.++..++++-...++++.++-..|..+.|.++.+|++.|..+|||.|..+|..+||++.+..+
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 4567888999999997556789999999999999999999999999999999999999999999998763
No 35
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=95.68 E-value=0.054 Score=51.35 Aligned_cols=106 Identities=14% Similarity=0.308 Sum_probs=86.0
Q ss_pred CCCcCCccCCHHHHHHHHHhhCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 394 SDEFGNRILTKRSIQELVNQIDP-SERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 394 ~~e~~nrILtKrKLqELVrqIDP-sesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
+.++++--|.|.-+..+|++|=| +..+..|+.|+|.+.+-+||.-|...|-++|-.+...||-.+-|.-.||+.
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 44667777999999999999977 899999999999999999999999999999999999999999999999975
Q ss_pred CCCCcc-------------cc--cc-----cCCCCC--chHHHHHHHHHHHHHhh
Q 009666 473 PGFSGD-------------EI--KT-----FRKPLV--CDIHKERLAAVSFTLDI 505 (529)
Q Consensus 473 PGFssD-------------EI--R~-----~RK~~p--tEaHKQRMALIRKtiK~ 505 (529)
||+.. +. +. +++.-. -|.|++--.|+.|+..+
T Consensus 80 -gF~eYiee~~~vl~~~K~~~~~~~~kssk~e~~Gi~eEEL~~qQqeLf~~ARar 133 (156)
T KOG0871|consen 80 -GFGEYIEEAEEVLENCKEEAKKRRRKSSKFEKSGIPEEELLRQQQELFAKARAR 133 (156)
T ss_pred -chHHHHHHHHHHHHHHHHHHHHhhhhhhhHHhcCCCHHHHHHHHHHHHHHHHHH
Confidence 56521 01 10 111112 25788888999998866
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=95.57 E-value=0.015 Score=48.30 Aligned_cols=60 Identities=17% Similarity=0.216 Sum_probs=47.2
Q ss_pred HHHHHHHHhh--CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCC-cchhhHHHHH
Q 009666 405 RSIQELVNQI--DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDT-LEAKDILVHL 464 (529)
Q Consensus 405 rKLqELVrqI--DPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdT-LEvKDVQLhL 464 (529)
+-|.+|++.- |.+.+|.+|+-+++-++.|-||...+.+|+..|+-.+.+. ||+.|++-++
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 3455555532 6788999999999999999999999999999999999999 9999986543
No 37
>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=95.39 E-value=0.081 Score=58.25 Aligned_cols=126 Identities=17% Similarity=0.172 Sum_probs=89.7
Q ss_pred CcCCccCC-HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009666 396 EFGNRILT-KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (529)
Q Consensus 396 e~~nrILt-KrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (529)
+..+.|+. +..++.+++.| +-+.|++|+..+|.+-.+.-|.+|+..|.+.-+|-|..+|.+.||...|.-.-=-.+-|
T Consensus 5 ~~~~~v~s~~Es~k~vAEsl-Gi~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~~nVep~yg 83 (576)
T KOG2549|consen 5 KESPTVVSPKESVKVVAESL-GITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRSLNVEPLYG 83 (576)
T ss_pred cccccccCcHHHHHHHHHHh-CccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhhcccccccC
Confidence 34556666 77777777776 56789999999999999999999999999999999999999999997776542255789
Q ss_pred CCcccccccCCCCCch--HHH--HHHHHHHHHHhhhhhheeeecceeeEeeee
Q 009666 475 FSGDEIKTFRKPLVCD--IHK--ERLAAVSFTLDIMCLLVIYKDACLSVHFTY 523 (529)
Q Consensus 475 FssDEIR~~RK~~ptE--aHK--QRMALIRKtiK~m~~~~~~~~~~~~~~~~~ 523 (529)
|++-|+-.+++...+. .|- .|=-...| +....|--+-.|.|+..|+-+
T Consensus 84 ~~s~~~i~fr~a~~~~r~ly~~~d~EVD~d~-~i~~plpkvP~d~~i~sHWL~ 135 (576)
T KOG2549|consen 84 FGAQEIIPFRKASGGGRELYYPEDEEVDLDE-IINAPLPKVPLDVSIKSHWLA 135 (576)
T ss_pred cccCceeeccccCCCCceeecCchhhcchhh-hhcCCCCCCCccceeeeeeee
Confidence 9998888888776652 110 01011122 222234445556677777654
No 38
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]
Probab=95.35 E-value=0.051 Score=50.14 Aligned_cols=63 Identities=21% Similarity=0.392 Sum_probs=56.5
Q ss_pred HHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009666 408 QELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (529)
Q Consensus 408 qELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (529)
...+++|+|..-|..+...++--+..||+|+|+..|-+||..+|..||..++|+..++ +-+||
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 44565
No 39
>KOG3423 consensus Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=95.25 E-value=0.094 Score=50.55 Aligned_cols=69 Identities=23% Similarity=0.347 Sum_probs=57.8
Q ss_pred CHHHHHHHHHhhCC------------------CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC------------
Q 009666 403 TKRSIQELVNQIDP------------------SERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKS------------ 452 (529)
Q Consensus 403 tKrKLqELVrqIDP------------------sesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKS------------ 452 (529)
.-.-|.||+.++|- -...|+-|..||.-.|-+||.||+..|.+.||-|..
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 34568899999863 346788899999999999999999999999999984
Q ss_pred --CCcchhhHHHHHhhccCccc
Q 009666 453 --DTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 453 --dTLEvKDVQLhLERnWNI~I 472 (529)
-||.++|+.-+|+. |||.|
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 88886
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=94.53 E-value=0.15 Score=44.36 Aligned_cols=59 Identities=20% Similarity=0.293 Sum_probs=44.1
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCC-CcchhhH
Q 009666 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSD-TLEAKDI 460 (529)
Q Consensus 402 LtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSd-TLEvKDV 460 (529)
|+|..|..|++.+..+..+.+.|.-+|.-||.-||-++|+.|..+.+.++.. .|..+.|
T Consensus 24 ~~k~~ikkli~~~~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~~pl~P~hl 83 (90)
T PF04719_consen 24 FNKAAIKKLINQVLGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGETGPLQPDHL 83 (90)
T ss_dssp --HHHHHHHHHHHHS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--SS--HHHH
T ss_pred CCHHHHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCcHHH
Confidence 7899999999999988999999999999999999999999999999976644 3444443
No 41
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]
Probab=93.65 E-value=0.29 Score=47.24 Aligned_cols=68 Identities=25% Similarity=0.311 Sum_probs=61.7
Q ss_pred ccCCHHHHHHHHHhhCC--CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 400 RILTKRSIQELVNQIDP--SERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 400 rILtKrKLqELVrqIDP--sesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
-.|.+.-|..||+++=+ +..|..|+..+|.+-|--||..++.+|-.+||.-+..||.+.||.-.|+.-
T Consensus 9 l~lP~AiI~rlvke~l~E~~vsisKeA~~Ai~raAtVFv~~Lts~s~e~A~~q~rKt~sadDVl~aL~Ei 78 (172)
T KOG0870|consen 9 LNLPNAIITRLVKEVLPESNVSISKEARLAIARAATVFVIFLTSVSNEIAKDQKRKTISADDVLKALDEI 78 (172)
T ss_pred hhccHHHHHHHHHHhCccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCcccHHHHHHHHHHh
Confidence 45788899999999954 468999999999999999999999999999999999999999998888863
No 42
>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=93.22 E-value=0.085 Score=51.67 Aligned_cols=59 Identities=20% Similarity=0.319 Sum_probs=36.9
Q ss_pred CcCCccCCHHHHHHHHHhhC---CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCC
Q 009666 396 EFGNRILTKRSIQELVNQID---PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDT 454 (529)
Q Consensus 396 e~~nrILtKrKLqELVrqID---PsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdT 454 (529)
+....+|+...|...|++|. ....+|+||.++|..-+++++.+||+.+..+|+||....
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 43
>KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics]
Probab=93.17 E-value=0.066 Score=49.90 Aligned_cols=69 Identities=23% Similarity=0.218 Sum_probs=60.9
Q ss_pred cCCccCCHHHHHHHHHhhC----CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009666 397 FGNRILTKRSIQELVNQID----PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (529)
Q Consensus 397 ~~nrILtKrKLqELVrqID----PsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLE 465 (529)
..+-+|.|--.+.||++|. ++..+-.+++..|.|.+|.|+-...+.+-..|-|-|--||..|||+|+..
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 4555677888899999874 46788899999999999999999999999999999999999999999763
No 44
>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=93.15 E-value=0.42 Score=38.19 Aligned_cols=48 Identities=17% Similarity=0.225 Sum_probs=39.2
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 009666 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHR 450 (529)
Q Consensus 402 LtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHR 450 (529)
|...-++-.+++. +-..-|+-+..|+.-.|.+||.||++.|++.+|.|
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 4444555556654 55678999999999999999999999999999988
No 45
>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=93.01 E-value=0.26 Score=47.06 Aligned_cols=58 Identities=16% Similarity=0.225 Sum_probs=50.6
Q ss_pred CcCCccCCHHHHHHHHHhhCCCC---CCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCC
Q 009666 396 EFGNRILTKRSIQELVNQIDPSE---RLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSD 453 (529)
Q Consensus 396 e~~nrILtKrKLqELVrqIDPse---sLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSd 453 (529)
.....+|++..|...|++|.... .+|+|+.++|...+++|+-+|++.+..+|+||...
T Consensus 39 ~~~~~fl~~~~l~~~~~~i~~~~g~~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR~~~ 99 (212)
T cd08045 39 QKDPSFLNPSPLAKKIRKIAKKHGLKEVDEDVLDLISLALEERLRNLLEKLIEVSEHRVDS 99 (212)
T ss_pred cchhhccCHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 45567999999999999995433 67999999999999999999999999999999554
No 46
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=92.95 E-value=0.18 Score=52.95 Aligned_cols=60 Identities=18% Similarity=0.236 Sum_probs=42.9
Q ss_pred ccCCHHHHHHHHHhh-----CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhh
Q 009666 400 RILTKRSIQELVNQI-----DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKD 459 (529)
Q Consensus 400 rILtKrKLqELVrqI-----DPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKD 459 (529)
--|....++.|+..+ ..+.+|.+|+.++|.+..|.|.+.+++.-+.+|||-|-+|||-.|
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 334444444555444 246899999999999999999999999999999999999999887
No 47
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=92.25 E-value=0.45 Score=44.51 Aligned_cols=68 Identities=19% Similarity=0.248 Sum_probs=55.3
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCC---CcchhhHHHHHhhccCcccCCC
Q 009666 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSD---TLEAKDILVHLERNWNMTLPGF 475 (529)
Q Consensus 407 LqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSd---TLEvKDVQLhLERnWNI~IPGF 475 (529)
|+=+++.+ .-+..++.|.=-||++|-.|-.+|++.|.-+|||-|+. +|.++||.|.|.-.-|..|-+-
T Consensus 20 ihliL~Sl-gi~~ye~~VplQLl~FAhRYTq~vl~Dalvya~htgrg~~a~l~veDvrLA~at~v~~~F~pp 90 (145)
T COG5094 20 IHLILRSL-GIEEYEPKVPLQLLEFAHRYTQDVLEDALVYAKHTGRGHIATLGVEDVRLALATKVGRHFVPP 90 (145)
T ss_pred HHHHHHhc-CchhhCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCcccHHHHHHHHHHHhcCCcCCC
Confidence 44445544 45677888999999999999999999999999998543 6788999999998888776443
No 48
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=90.95 E-value=1 Score=42.34 Aligned_cols=111 Identities=11% Similarity=0.201 Sum_probs=81.7
Q ss_pred CcCCccCCHHHHHHHHHhh-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc-cCcccC
Q 009666 396 EFGNRILTKRSIQELVNQI-DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN-WNMTLP 473 (529)
Q Consensus 396 e~~nrILtKrKLqELVrqI-DPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn-WNI~IP 473 (529)
.+++--|.|..++.+|..| +.+..+..|+.|+|.+-+=+||.-+...|-.+|...+..||-.+-|--.||.. |+-.|+
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 55789999999999999999999999999999999999999999998888752 222222
Q ss_pred CCCc--ccccc-----------cCCCCC--chHHHHHHHHHHHHHhhh
Q 009666 474 GFSG--DEIKT-----------FRKPLV--CDIHKERLAAVSFTLDIM 506 (529)
Q Consensus 474 GFss--DEIR~-----------~RK~~p--tEaHKQRMALIRKtiK~m 506 (529)
-.-- ++.+. +++.-. .|.|+|...|.+.+.-++
T Consensus 86 ~~~e~~~n~k~~qK~ke~k~sKFk~SGls~eELlrQQeeLf~~ar~rf 133 (148)
T COG5150 86 SCMEEHENYKSYQKQKESKISKFKDSGLSMEELLRQQEELFQNARLRF 133 (148)
T ss_pred HHHHHHHHHHHHHhhchhhhhHHHhcCCCHHHHHHHHHHHHHHHHHHh
Confidence 1100 01112 222222 357888888888776655
No 49
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription]
Probab=90.04 E-value=1.3 Score=40.78 Aligned_cols=59 Identities=17% Similarity=0.238 Sum_probs=47.7
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 407 LqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
|..|+=..+-...--.|..+.|-+++-|++.+++..|..+|-.|+. +.++|.+|+|+|.
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 4455554444455667888999999999999999999999997765 5789999999985
No 50
>KOG3901 consensus Transcription initiation factor IID subunit [Transcription]
Probab=89.57 E-value=1.7 Score=39.52 Aligned_cols=59 Identities=15% Similarity=0.338 Sum_probs=45.1
Q ss_pred HHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 406 SIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 406 KLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
.|.-|+=-.+-...-=+|..++|-+|+=|||.++++.|..++ +-+.|.++|+.|.|.|.
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 355555544444445567778999999999999999999988 34557899999999984
No 51
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=88.15 E-value=1.6 Score=43.47 Aligned_cols=66 Identities=15% Similarity=0.211 Sum_probs=51.2
Q ss_pred CCHHHHHHHHHhhC----CCCCCCHHHHHHHHHHHHH------HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 402 LTKRSIQELVNQID----PSERLDPDVEDILVDIAED------FVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 402 LtKrKLqELVrqID----PsesLDpDVEELLLeIADD------FVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
+++..+.++++.-- ....+++++.+++.+++.. ++-+++..|+.+|+.|+.++|+.+||.-.+++.
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 45666666665431 1346899999999998854 345788999999999999999999999888875
No 52
>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=87.73 E-value=1.5 Score=47.23 Aligned_cols=66 Identities=18% Similarity=0.201 Sum_probs=52.0
Q ss_pred cCCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHH--HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 401 ILTKRSIQELVNQID--PSERLDPDVEDILVDIAED--FVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 401 ILtKrKLqELVrqID--PsesLDpDVEELLLeIADD--FVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
-|++..+.++++.+- -+..|++++.++|.+.+.+ .+.+++..||.+|..++.+.|+.+||..+|+.
T Consensus 262 pL~~eei~~Il~~~a~k~~i~is~~al~~I~~y~~n~Rel~nll~~Aa~~A~~~~~~~It~~dI~~vl~~ 331 (531)
T TIGR02902 262 PLLDEEIKEIAKNAAEKIGINLEKHALELIVKYASNGREAVNIVQLAAGIALGEGRKRILAEDIEWVAEN 331 (531)
T ss_pred CCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCcEEcHHHHHHHhCC
Confidence 456677777777763 2357999999988877653 35678899999999999999999999999973
No 53
>smart00350 MCM minichromosome maintenance proteins.
Probab=87.00 E-value=2.4 Score=45.35 Aligned_cols=67 Identities=21% Similarity=0.282 Sum_probs=53.3
Q ss_pred CccCCHHHHHHHHHhhCC--CCCCCHHHHHHHHHHHHHH-------------------HHHHHHHHHHhhhhcCCCCcch
Q 009666 399 NRILTKRSIQELVNQIDP--SERLDPDVEDILVDIAEDF-------------------VESITMFGCSLAKHRKSDTLEA 457 (529)
Q Consensus 399 nrILtKrKLqELVrqIDP--sesLDpDVEELLLeIADDF-------------------VDsVvs~ACrLAKHRKSdTLEv 457 (529)
..+++...|.+.+..+-. .-.|+++++++|.++..+. ++.++..|..+||.|.++.|+.
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 2358999999999887663 2788999999999999999999
Q ss_pred hhHHHHHh
Q 009666 458 KDILVHLE 465 (529)
Q Consensus 458 KDVQLhLE 465 (529)
+||+..++
T Consensus 495 ~Dv~~ai~ 502 (509)
T smart00350 495 ADVEEAIR 502 (509)
T ss_pred HHHHHHHH
Confidence 99987765
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=86.92 E-value=2.3 Score=39.76 Aligned_cols=67 Identities=6% Similarity=0.048 Sum_probs=54.2
Q ss_pred ccCCHHHHHHHHHhh------CCCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 400 RILTKRSIQELVNQI------DPSERLDPDVEDILVDIAED---FVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 400 rILtKrKLqELVrqI------DPsesLDpDVEELLLeIADD---FVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
.-|+...+.+++... +....+++++.+.|.++++- +|+.++..+...|.-++.+.|+..||...+..
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
>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=85.96 E-value=4.2 Score=36.86 Aligned_cols=82 Identities=15% Similarity=0.181 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC------------------cccCCCCcccccccC
Q 009666 423 DVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN------------------MTLPGFSGDEIKTFR 484 (529)
Q Consensus 423 DVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWN------------------I~IPGFssDEIR~~R 484 (529)
+-.+.|.+++++|++.|+.....+-..-+- -.+.+...+++.|. .-.|.+-+-|.-...
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 455788999999999998866444331110 02222222333321 011222222222223
Q ss_pred CCCCchHHHHHHHHHHHHHhhhh
Q 009666 485 KPLVCDIHKERLAAVSFTLDIMC 507 (529)
Q Consensus 485 K~~ptEaHKQRMALIRKtiK~m~ 507 (529)
....++.++..+.+|.|.|..++
T Consensus 174 ~~~~~~~~~r~L~~isKvlq~la 196 (197)
T PF00616_consen 174 DKPPSPNARRNLTLISKVLQSLA 196 (197)
T ss_dssp SS---HHHHHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHh
Confidence 44568999999999999999876
No 56
>COG5162 Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=85.31 E-value=3.9 Score=39.99 Aligned_cols=48 Identities=23% Similarity=0.423 Sum_probs=39.9
Q ss_pred HHHHHHHHHhhCCC------------------CCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q 009666 404 KRSIQELVNQIDPS------------------ERLDPDVEDILVDIAEDFVESITMFGCSLAKHRK 451 (529)
Q Consensus 404 KrKLqELVrqIDPs------------------esLDpDVEELLLeIADDFVDsVvs~ACrLAKHRK 451 (529)
-+.|.||+..+|-. .+.|.-|..||.-+|-+||.||...|.++-|-|.
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 35688999999842 3567788899999999999999999988887776
No 57
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=85.12 E-value=3.4 Score=44.04 Aligned_cols=76 Identities=18% Similarity=0.264 Sum_probs=63.3
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCc-ccCCCCc
Q 009666 400 RILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNM-TLPGFSG 477 (529)
Q Consensus 400 rILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI-~IPGFss 477 (529)
.+.+|..|.+....+ +-+.||||+-.+|..=.+--|..||..|.+.-.|-|.++|.+.||-..|.- .|. .+-||..
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 466788888888765 567899999999888888899999999999999999999999999988865 453 3556654
No 58
>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=84.30 E-value=3.8 Score=40.30 Aligned_cols=66 Identities=9% Similarity=0.127 Sum_probs=51.5
Q ss_pred CCHHHHHHHHHhhC----CCCCCCHHHHHHHHHHHH------HHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 402 LTKRSIQELVNQID----PSERLDPDVEDILVDIAE------DFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 402 LtKrKLqELVrqID----PsesLDpDVEELLLeIAD------DFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
+++..|.++++..- ....+|+|+.+++.++++ ..+.+++..|+.+|..++.+.|+.+||.-.++..
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 46777777776542 234699999999988885 3566788899999999999999999998877765
No 59
>smart00414 H2A Histone 2A.
Probab=83.30 E-value=3.7 Score=36.60 Aligned_cols=68 Identities=10% Similarity=0.176 Sum_probs=60.5
Q ss_pred CccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 399 NRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 399 nrILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
+-++.=.+++.++++-.-..+++..+--.|..+-|-++.+|++.|...||.-|...|..+||++.+..
T Consensus 7 gL~fPVgRi~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~n 74 (106)
T smart00414 7 GLQFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRN 74 (106)
T ss_pred CccCchHHHHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhccC
Confidence 34567788999999876678999999999999999999999999999999999999999999988765
No 60
>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=81.98 E-value=2.1 Score=42.20 Aligned_cols=67 Identities=19% Similarity=0.259 Sum_probs=55.1
Q ss_pred CccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC-CCcchhhHHHHHhh
Q 009666 399 NRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKS-DTLEAKDILVHLER 466 (529)
Q Consensus 399 nrILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKS-dTLEvKDVQLhLER 466 (529)
...|.|..|..|+.+|-... |++.|.=++..||.-||-+||+.|..+...++. .-|-.+.|.-.+.|
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 45679999999999998777 999999999999999999999999998877664 35666666544444
No 61
>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=81.46 E-value=9.8 Score=39.20 Aligned_cols=80 Identities=16% Similarity=0.096 Sum_probs=48.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc---------------------CCCCcccccccC
Q 009666 426 DILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL---------------------PGFSGDEIKTFR 484 (529)
Q Consensus 426 ELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I---------------------PGFssDEIR~~R 484 (529)
+.|.+++++|++.|++...++-. +++.|--+|.+.-.-.+ |.+-+-+.-...
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 23333222222211122 222232222233
Q ss_pred CCCCchHHHHHHHHHHHHHhhhhhheee
Q 009666 485 KPLVCDIHKERLAAVSFTLDIMCLLVIY 512 (529)
Q Consensus 485 K~~ptEaHKQRMALIRKtiK~m~~~~~~ 512 (529)
...++...+.-+.+|-|.|..++-++.+
T Consensus 205 ~~~p~~~~rR~L~lIaKvLQnlaN~~~f 232 (315)
T cd05128 205 PHHADARTSRTLLLLSKAVQTLGNLGSS 232 (315)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHhCcCcc
Confidence 4556777888999999999999998654
No 62
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=80.09 E-value=4 Score=45.52 Aligned_cols=78 Identities=9% Similarity=0.155 Sum_probs=57.9
Q ss_pred CHHHHHHHHHhhC------CCCCCCHHHHHHHHHHHHHHHH---------HHHHHHHHhhhhcC----CCCcchhhHHHH
Q 009666 403 TKRSIQELVNQID------PSERLDPDVEDILVDIAEDFVE---------SITMFGCSLAKHRK----SDTLEAKDILVH 463 (529)
Q Consensus 403 tKrKLqELVrqID------PsesLDpDVEELLLeIADDFVD---------sVvs~ACrLAKHRK----SdTLEvKDVQLh 463 (529)
+...+.++++.+- -+..+++|+.+.+.++++.||. ++++.||..++-+. ...|+..||.-+
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 46788887766543 346899999999
Q ss_pred HhhccCcccCCCCcccc
Q 009666 464 LERNWNMTLPGFSGDEI 480 (529)
Q Consensus 464 LERnWNI~IPGFssDEI 480 (529)
+++.-||.+..+..||+
T Consensus 426 i~~~tgiP~~~~~~~~~ 442 (731)
T TIGR02639 426 VAKMAHIPVKTVSVDDR 442 (731)
T ss_pred HHHHhCCChhhhhhHHH
Confidence 99977888777766654
No 63
>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=80.00 E-value=7.6 Score=40.26 Aligned_cols=83 Identities=13% Similarity=0.125 Sum_probs=51.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCC---------------------CCcccccccC
Q 009666 426 DILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPG---------------------FSGDEIKTFR 484 (529)
Q Consensus 426 ELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPG---------------------FssDEIR~~R 484 (529)
+.|.+++|+|++.|++...++-. ++|.|--+|.+.-.-++|+ +-+-+.-...
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 56889999999999997755443 3344433333222222333 2222222223
Q ss_pred CCCCchHHHHHHHHHHHHHhhhhhheee-ecc
Q 009666 485 KPLVCDIHKERLAAVSFTLDIMCLLVIY-KDA 515 (529)
Q Consensus 485 K~~ptEaHKQRMALIRKtiK~m~~~~~~-~~~ 515 (529)
...++..-+.-+.+|-|.|.+++-.+.| |+.
T Consensus 208 ~~~p~~~~rR~L~lIAKvLQnlAN~~~F~KE~ 239 (329)
T cd05130 208 DKKPPPRIERGLKLMSKILQSIANHVLFTKEE 239 (329)
T ss_pred CCCCCHHHHhHHHHHHHHHHHHhccCccCCcH
Confidence 3445677777899999999999988877 443
No 64
>KOG4336 consensus TBP-associated transcription factor Prodos [Transcription]
Probab=79.62 E-value=5.5 Score=41.85 Aligned_cols=68 Identities=10% Similarity=0.180 Sum_probs=54.4
Q ss_pred HHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCC
Q 009666 406 SIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGF 475 (529)
Q Consensus 406 KLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGF 475 (529)
.+..|+.+. +-+.+++.++|-|++|.+.+|+.+...+--+|.|-|.......||.|.|-+ +||.|+-+
T Consensus 10 VV~~Ll~~~-gfd~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li~-mnI~v~sL 77 (323)
T KOG4336|consen 10 VVSNLLKTK-GFDSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLIE-MNIKVSSL 77 (323)
T ss_pred HHHHHHHHh-CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHH-hCCChhhh
Confidence 445566654 334689999999999999999999988888888878888899999999866 68877544
No 65
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=79.23 E-value=2.9 Score=42.49 Aligned_cols=48 Identities=25% Similarity=0.391 Sum_probs=42.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 420 LDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 420 LDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
|..||--++..+.+.||+.++.+|.-.||..|..||...||.-.+++.
T Consensus 128 isaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kS 175 (286)
T COG5208 128 ISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKS 175 (286)
T ss_pred eecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHH
Confidence 455555788899999999999999999999999999999998888764
No 66
>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=79.15 E-value=5.3 Score=42.80 Aligned_cols=64 Identities=20% Similarity=0.331 Sum_probs=51.7
Q ss_pred CHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHH----HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 403 TKRSIQELVNQI--DPSERLDPDVEDILVDIAED----FVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 403 tKrKLqELVrqI--DPsesLDpDVEELLLeIADD----FVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
+++.+.++++-= .....|++|+.|+|..|..+ |.-.+++.|...|..||..++++.||+.+++-
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 566666666522 34568999999999999876 77889999999999999999999999765543
No 67
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=78.19 E-value=3.9 Score=44.30 Aligned_cols=63 Identities=24% Similarity=0.363 Sum_probs=50.5
Q ss_pred CHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHH----HHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009666 403 TKRSIQELVNQI--DPSERLDPDVEDILVDIAED----FVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (529)
Q Consensus 403 tKrKLqELVrqI--DPsesLDpDVEELLLeIADD----FVDsVvs~ACrLAKHRKSdTLEvKDVQLhLE 465 (529)
+++.|+++++-= ..+..||+|+-|.|.+|-.+ |.-+.++-|..+||.||+.+|+++||..+.|
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 6777888888899999999999999976554
No 68
>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=76.97 E-value=13 Score=38.80 Aligned_cols=80 Identities=8% Similarity=0.055 Sum_probs=49.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCC-----------------------CCcccccc
Q 009666 426 DILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPG-----------------------FSGDEIKT 482 (529)
Q Consensus 426 ELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPG-----------------------FssDEIR~ 482 (529)
+.|.++++.|++.|++.+.++-. .+|.|--+|.+...-.+|+ .-+-+.-.
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 56889999999999986644432 2333322222222222222 22222222
Q ss_pred cCCCCCchHHHHHHHHHHHHHhhhhhheee
Q 009666 483 FRKPLVCDIHKERLAAVSFTLDIMCLLVIY 512 (529)
Q Consensus 483 ~RK~~ptEaHKQRMALIRKtiK~m~~~~~~ 512 (529)
.....++...+.=+.||-|.|.+++-++.+
T Consensus 221 L~~~~p~~~~rR~LtLIAKvLQnLAN~~~f 250 (337)
T cd05395 221 LREKHADARTSRTLLLLAKAVQTVGNMDTL 250 (337)
T ss_pred ccCCCCCHHHHhHHHHHHHHHHHHhCcCcc
Confidence 345566777888899999999999998765
No 69
>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=76.17 E-value=15 Score=39.16 Aligned_cols=80 Identities=13% Similarity=0.151 Sum_probs=51.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCC----------------------CCccccccc
Q 009666 426 DILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPG----------------------FSGDEIKTF 483 (529)
Q Consensus 426 ELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPG----------------------FssDEIR~~ 483 (529)
+.|.+++++|++.|++..+++-. ++|.|--+|.+.-...+|+ .-+-+.-..
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 3444433333332223332 222222222
Q ss_pred CCCCCchHHHHHHHHHHHHHhhhhhheee
Q 009666 484 RKPLVCDIHKERLAAVSFTLDIMCLLVIY 512 (529)
Q Consensus 484 RK~~ptEaHKQRMALIRKtiK~m~~~~~~ 512 (529)
.+..+++.-+.=+.+|-|.|..++-++.+
T Consensus 272 ~~~~p~~~~rRtLtLIAKvLQnLAN~~~f 300 (395)
T cd05137 272 LRDHPQPRAQRTLTLIAKVLQNLANLTNF 300 (395)
T ss_pred CcCCCCHHHHHHHHHHHHHHHHHhccCCC
Confidence 34456666777799999999999998766
No 70
>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=74.37 E-value=4.7 Score=40.22 Aligned_cols=70 Identities=26% Similarity=0.359 Sum_probs=48.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC---ccc----CCCCcccccccCCCCCc
Q 009666 417 SERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN---MTL----PGFSGDEIKTFRKPLVC 489 (529)
Q Consensus 417 sesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWN---I~I----PGFssDEIR~~RK~~pt 489 (529)
..+|++++|+.|..|+-|.|.||+ ||=+.+++++ .|+.+.| +.| .||..|+.. +...=
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 357899999999999999999985 7777776543 3444444 233 566555433 44555
Q ss_pred hHHHHHHHHHHH
Q 009666 490 DIHKERLAAVSF 501 (529)
Q Consensus 490 EaHKQRMALIRK 501 (529)
..-|+|..+|.=
T Consensus 334 ~~mreRv~~lgG 345 (365)
T COG4585 334 LGMRERVEALGG 345 (365)
T ss_pred hhHHHHHHHcCC
Confidence 678888887653
No 71
>PTZ00171 acyl carrier protein; Provisional
Probab=74.32 E-value=0.81 Score=42.59 Aligned_cols=43 Identities=26% Similarity=0.530 Sum_probs=32.2
Q ss_pred HHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccccc
Q 009666 440 TMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKT 482 (529)
Q Consensus 440 vs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEIR~ 482 (529)
+...+.+..-.+-|.|+.-|+.+.||++||+.||----+++++
T Consensus 90 I~~ds~~~~dLg~DSLd~veLv~~LEdeFgI~Ipded~~~i~T 132 (148)
T PTZ00171 90 ITPESNFVKDLGADSLDVVELLIAIEQEFNLTIPDHDAEKIKT 132 (148)
T ss_pred CCCCcchhhhcCCCHHHHHHHHHHHHHHHCCccCHHHHHHCCC
Confidence 3445566667799999999999999999999998533333333
No 72
>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=74.15 E-value=32 Score=36.60 Aligned_cols=32 Identities=16% Similarity=0.222 Sum_probs=26.4
Q ss_pred HHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 436 VESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 436 VDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
|++++..|+.+|-.++...|+.+|+.-.|++.
T Consensus 264 l~~l~~eA~~~a~~~~~~~i~~~~l~~a~~~~ 295 (495)
T TIGR01241 264 LANLLNEAALLAARKNKTEITMNDIEEAIDRV 295 (495)
T ss_pred HHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence 67777778777777777889999999999985
No 73
>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=73.78 E-value=7.4 Score=38.59 Aligned_cols=109 Identities=8% Similarity=0.077 Sum_probs=68.1
Q ss_pred cCCccCCHHHHHHHHHhhCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHH----Hhhh--hcCCCCcchhhHHHHHhhccC
Q 009666 397 FGNRILTKRSIQELVNQIDP-SERLDPDVEDILVDIAEDFVESITMFGC----SLAK--HRKSDTLEAKDILVHLERNWN 469 (529)
Q Consensus 397 ~~nrILtKrKLqELVrqIDP-sesLDpDVEELLLeIADDFVDsVvs~AC----rLAK--HRKSdTLEvKDVQLhLERnWN 469 (529)
+----|.-.....+++.|.. -.++|++-++...+=++.|++.+-...- +|+. .++...|..-|.--||.|.||
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 33345677777888887743 3477888788888888888777654444 3442 244557788898889999999
Q ss_pred cccCCCCcccccccCCCCCchHHHHHHHHHHHHHhhhhhheee
Q 009666 470 MTLPGFSGDEIKTFRKPLVCDIHKERLAAVSFTLDIMCLLVIY 512 (529)
Q Consensus 470 I~IPGFssDEIR~~RK~~ptEaHKQRMALIRKtiK~m~~~~~~ 512 (529)
+.+-|.... .. ..|.--++|+.|.+.||+--.-+|+
T Consensus 196 l~~~~~~~~--~~-----~~eps~~~l~~l~~~ik~~~v~~if 231 (287)
T cd01137 196 LKEAYLWPI--NT-----EEEGTPKQVATLIEQVKKEKVPAVF 231 (287)
T ss_pred CeEeecccC--CC-----CCCCCHHHHHHHHHHHHHhCCCEEE
Confidence 997654221 11 1111245566666666655444443
No 74
>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=73.47 E-value=21 Score=36.96 Aligned_cols=80 Identities=18% Similarity=0.173 Sum_probs=50.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCC---------------------CcccccccC
Q 009666 426 DILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGF---------------------SGDEIKTFR 484 (529)
Q Consensus 426 ELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGF---------------------ssDEIR~~R 484 (529)
+.|+.++++|++.|+...+++-. ++|.|--+|.+.-.-.+|+. -+-+.-...
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 44544444433333333332 222222223
Q ss_pred CCCCchHHHHHHHHHHHHHhhhhhheee
Q 009666 485 KPLVCDIHKERLAAVSFTLDIMCLLVIY 512 (529)
Q Consensus 485 K~~ptEaHKQRMALIRKtiK~m~~~~~~ 512 (529)
...++..-+.=+.+|-|.|.+++-.+.+
T Consensus 199 ~~~p~~~~rR~L~lIaKvLQnLAN~~~f 226 (315)
T cd05391 199 SDAPSPVACRTLMMVAKSVQNLANLVEF 226 (315)
T ss_pred cCCCCHHHHHHHHHHHHHHHHHhCcCcC
Confidence 4445666677899999999999988765
No 75
>PTZ00017 histone H2A; Provisional
Probab=72.34 E-value=9.2 Score=35.85 Aligned_cols=69 Identities=10% Similarity=0.165 Sum_probs=61.7
Q ss_pred CCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 398 GNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 398 ~nrILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
.+-.+.=.+++.|+++-.-..+|...+--.|.-+.|-++.+|++.|...|+.-+...|..++|++.+..
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 355677889999999876778999999999999999999999999999999999999999999998864
No 76
>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=71.95 E-value=26 Score=36.12 Aligned_cols=82 Identities=9% Similarity=0.081 Sum_probs=50.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcc-------------------cCCCCcccccccC
Q 009666 424 VEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMT-------------------LPGFSGDEIKTFR 484 (529)
Q Consensus 424 VEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~-------------------IPGFssDEIR~~R 484 (529)
..+.|.+++|.|++.|++..+++-. ++|.|--+|...+.-+ -|.+-+-+.-...
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 2333322222211100 1333333222223
Q ss_pred CCCCchHHHHHHHHHHHHHhhhhhheee
Q 009666 485 KPLVCDIHKERLAAVSFTLDIMCLLVIY 512 (529)
Q Consensus 485 K~~ptEaHKQRMALIRKtiK~m~~~~~~ 512 (529)
...+++.-+.-+.+|-|.|..++-.+.|
T Consensus 198 ~~~p~~~~rR~LtlIAKvLQnlAN~~~f 225 (309)
T cd05136 198 QEYPSPRTARTLTLIAKVIQNLANFTKF 225 (309)
T ss_pred CCCCChHHhhhHHHHHHHHHHHHCCCCC
Confidence 3445667777799999999999998776
No 77
>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=71.04 E-value=16 Score=35.34 Aligned_cols=65 Identities=14% Similarity=0.154 Sum_probs=50.1
Q ss_pred CCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 402 LTKRSIQELVNQID--PSERLDPDVEDILVDIAED---FVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 402 LtKrKLqELVrqID--PsesLDpDVEELLLeIADD---FVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
++...+.++++++- -...+|+|+.+.|.+.++. ++..++..++.+|..++...++.++|.-.|+.
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 3567999999888887653 56778888888888777788888898888876
No 78
>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=70.71 E-value=11 Score=37.04 Aligned_cols=105 Identities=16% Similarity=0.191 Sum_probs=62.8
Q ss_pred cCCHHHHHHHHHhhC-CCCCCCHHHHHHHHHHHHHHHHHHHHHH----HHhhhhcCCCCcchhhHHHHHhhccCcccCCC
Q 009666 401 ILTKRSIQELVNQID-PSERLDPDVEDILVDIAEDFVESITMFG----CSLAKHRKSDTLEAKDILVHLERNWNMTLPGF 475 (529)
Q Consensus 401 ILtKrKLqELVrqID-PsesLDpDVEELLLeIADDFVDsVvs~A----CrLAKHRKSdTLEvKDVQLhLERnWNI~IPGF 475 (529)
-|+-.....+++.|. .-.++|++-.+...+=++.|+..+-..- .++++.++...|..-|.--||.+.||+.+-|.
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 2345677777777777777766654333 33454556667888999999999999997553
Q ss_pred CcccccccCCCCCchHHHHHHHHHHHHHhhhhhheee
Q 009666 476 SGDEIKTFRKPLVCDIHKERLAAVSFTLDIMCLLVIY 512 (529)
Q Consensus 476 ssDEIR~~RK~~ptEaHKQRMALIRKtiK~m~~~~~~ 512 (529)
-. +..-. .++ -++|+.|.+.||+--.-+|+
T Consensus 196 ~~--~~~~~--eps---~~~l~~l~~~ik~~~v~~if 225 (282)
T cd01017 196 VG--VSPEV--EPS---PKQLAELVEFVKKSDVKYIF 225 (282)
T ss_pred cc--CCCCC--CCC---HHHHHHHHHHHHHcCCCEEE
Confidence 21 11101 112 33555666666655444443
No 79
>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=70.55 E-value=28 Score=35.71 Aligned_cols=85 Identities=18% Similarity=0.205 Sum_probs=48.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHh-------hhh------cCCCCcchhh----H-HHHHhhccCcccCCCCcccccccCCCC
Q 009666 426 DILVDIAEDFVESITMFGCSL-------AKH------RKSDTLEAKD----I-LVHLERNWNMTLPGFSGDEIKTFRKPL 487 (529)
Q Consensus 426 ELLLeIADDFVDsVvs~ACrL-------AKH------RKSdTLEvKD----V-QLhLERnWNI~IPGFssDEIR~~RK~~ 487 (529)
+.|.++++.|++.|+....++ ||+ ++-...+-.+ | .|.+.|-.+ |.+-+-|.-.+....
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 222 1111101001 1 233444333 222222222222334
Q ss_pred CchHHHHHHHHHHHHHhhhhhheeee
Q 009666 488 VCDIHKERLAAVSFTLDIMCLLVIYK 513 (529)
Q Consensus 488 ptEaHKQRMALIRKtiK~m~~~~~~~ 513 (529)
+++..+.-|.+|.|.|..++..+.|.
T Consensus 200 ~~~~~rrnL~lIaKvLQ~lan~~~f~ 225 (331)
T cd05132 200 PSDTARKNLTLIAKMLQNLANKPSFG 225 (331)
T ss_pred CCHHHHHHHHHHHHHHHHHhCCCCCC
Confidence 67778888999999999999887765
No 80
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=70.30 E-value=34 Score=40.41 Aligned_cols=16 Identities=50% Similarity=0.656 Sum_probs=7.9
Q ss_pred cCCHHHHHHHHHhhCC
Q 009666 401 ILTKRSIQELVNQIDP 416 (529)
Q Consensus 401 ILtKrKLqELVrqIDP 416 (529)
||=|-...|.|+.|.|
T Consensus 784 ilFKl~fse~vnniKP 799 (1102)
T KOG1924|consen 784 ILFKLTFSEQVNNIKP 799 (1102)
T ss_pred HHHHhhHHHHHhhcCh
Confidence 3344455555555544
No 81
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=70.30 E-value=13 Score=38.53 Aligned_cols=73 Identities=8% Similarity=0.041 Sum_probs=58.5
Q ss_pred CccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHH-H------HHHHHHHhhhhcCCCCcchhhHHHHHhhccCcc
Q 009666 399 NRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVE-S------ITMFGCSLAKHRKSDTLEAKDILVHLERNWNMT 471 (529)
Q Consensus 399 nrILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVD-s------Vvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~ 471 (529)
+.++.+.+|.++-+.+ +...+++++.+.+.+|+..+=. . ++..|..+|-.+|.+.|+.+||+-...--+..+
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 009666 472 L 472 (529)
Q Consensus 472 I 472 (529)
+
T Consensus 311 ~ 311 (334)
T PRK13407 311 L 311 (334)
T ss_pred c
Confidence 3
No 82
>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=70.09 E-value=26 Score=35.43 Aligned_cols=83 Identities=12% Similarity=0.092 Sum_probs=48.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc----------------------CCCCcccccccC
Q 009666 427 ILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL----------------------PGFSGDEIKTFR 484 (529)
Q Consensus 427 LLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I----------------------PGFssDEIR~~R 484 (529)
.|.+++++|++.|+....++-. ++|-|--+|.+...-.+ |.+-+-|.=...
T Consensus 123 ~L~~~~~~fl~~I~~s~~~~P~-------~lR~i~~~l~~~~~~kfp~~~~~~~~~~vg~flflRfi~PAIvsP~~~gl~ 195 (325)
T cd05127 123 SLRELTEQFLDAIISSLDKIPY-------GIRYICKQIYEALQRKFPEATEDEILKVIGNFLYYRFINPAIVSPENFGIV 195 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHCCH-------HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHhCCchhcCCc
Confidence 5889999999998877654332 12222111111111112 222222222223
Q ss_pred CCCCchHHHHHHHHHHHHHhhhhhheee--ecce
Q 009666 485 KPLVCDIHKERLAAVSFTLDIMCLLVIY--KDAC 516 (529)
Q Consensus 485 K~~ptEaHKQRMALIRKtiK~m~~~~~~--~~~~ 516 (529)
...+++..+.-+.+|-|.|..++..+.| |+.+
T Consensus 196 ~~~~~~~~rrnL~~iaKvLq~lan~~~f~~ke~~ 229 (325)
T cd05127 196 DGSPTPDQRRNLGEVAKVLQQAASNKPFGGENGY 229 (325)
T ss_pred CCCCCHHHHhhHHHHHHHHHHHHCCCCCCCCChh
Confidence 3344788899999999999999998887 5544
No 83
>KOG3489 consensus Mitochondrial import inner membrane translocase, subunit TIM8 [Intracellular trafficking, secretion, and vesicular transport]
Probab=69.42 E-value=17 Score=32.20 Aligned_cols=50 Identities=26% Similarity=0.411 Sum_probs=43.3
Q ss_pred CHHHHHHHHHhh----------CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC
Q 009666 403 TKRSIQELVNQI----------DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKS 452 (529)
Q Consensus 403 tKrKLqELVrqI----------DPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKS 452 (529)
.|.++++.|.++ +++.+||...|.-|...+|.|||.-..-.-+||+-++.
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 57899999999999999999999988877788876654
No 84
>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=69.25 E-value=8.9 Score=41.78 Aligned_cols=77 Identities=14% Similarity=0.259 Sum_probs=58.1
Q ss_pred ccCCHHHHHHHHHhh-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHH----Hhhh--hcCCCCcchhhHHHHHhhccCccc
Q 009666 400 RILTKRSIQELVNQI-DPSERLDPDVEDILVDIAEDFVESITMFGC----SLAK--HRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 400 rILtKrKLqELVrqI-DPsesLDpDVEELLLeIADDFVDsVvs~AC----rLAK--HRKSdTLEvKDVQLhLERnWNI~I 472 (529)
--|+-+....+++.| +.-.++|++-++...+=++.|++.+-...- ++|+ .++...|...|.--||+|.||+.+
T Consensus 313 vWlDP~na~~~a~~Ia~~LselDP~na~~Y~~Na~ay~~eL~~Ld~~~~~~la~ip~k~r~vvt~H~af~YLa~~YGL~~ 392 (479)
T TIGR03772 313 LWHNVKNAIAYVEVIRDKLIEVDPRGAQAYRSNASAYIHRLERLDTYVRRTIATIPPSRRHLITTHDAYSYLGQAYGLNI 392 (479)
T ss_pred cCcCHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccCCEEEEECCcHHHHHHHCCCeE
Confidence 356778888888887 445678888888888888888877765544 4443 244567888999999999999998
Q ss_pred CCCC
Q 009666 473 PGFS 476 (529)
Q Consensus 473 PGFs 476 (529)
-||.
T Consensus 393 ~~~~ 396 (479)
T TIGR03772 393 AGFV 396 (479)
T ss_pred Eeee
Confidence 8764
No 85
>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=68.73 E-value=4.3 Score=37.92 Aligned_cols=61 Identities=26% Similarity=0.421 Sum_probs=47.4
Q ss_pred HHHHHHHHHHHHHHH---HHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccccc
Q 009666 422 PDVEDILVDIAEDFV---ESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKT 482 (529)
Q Consensus 422 pDVEELLLeIADDFV---DsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEIR~ 482 (529)
++++|-++++...|- .+.+.-+..+.|--|.|.||--.|.+.||.+||+.||---+|+|++
T Consensus 52 ~~v~~RVl~VVk~~dki~~~k~~~~s~f~~DLGlDSLD~VEiVMAlEEEFgiEIpd~dAdki~t 115 (131)
T KOG1748|consen 52 KEVVDRVLDVVKKFDKIDPSKLTTDSDFFKDLGLDSLDTVEIVMALEEEFGIEIPDEDADKIKT 115 (131)
T ss_pred HHHHHHHHHHHHHhhcCCccccchhhHHHHhcCCcccccchhhhhhHHHhCCccCcchhhhhCC
Confidence 346666666655553 3456666677778899999999999999999999999888888776
No 86
>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=68.17 E-value=33 Score=35.84 Aligned_cols=82 Identities=11% Similarity=0.081 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhh-------hcCCC------CcchhhH------HHHHhhccCcccCCCCcccccccCCC
Q 009666 426 DILVDIAEDFVESITMFGCSLAK-------HRKSD------TLEAKDI------LVHLERNWNMTLPGFSGDEIKTFRKP 486 (529)
Q Consensus 426 ELLLeIADDFVDsVvs~ACrLAK-------HRKSd------TLEvKDV------QLhLERnWNI~IPGFssDEIR~~RK~ 486 (529)
+.|.+++++|+|.|++...++-. +=+.. .-+-+|+ -|.+-|-++ |..-+-+.-.....
T Consensus 149 ~~L~~~~~~~~~~I~~S~~~~P~~lR~i~~~l~~~v~~kFp~~~~~~~~~~~Vg~fiFLRFi~---PAIvsP~~f~l~~~ 225 (333)
T cd05135 149 EMLQGYLSSITDAIVGSVSQCPPVMRLTFKQLHKRVEERFPEAENQDVKYLAISGFLFLRFFA---PAILTPKLFQLREQ 225 (333)
T ss_pred HHHHHHHHHHHHHHHhhHHhCCHHHHHHHHHHHHHHHHHCCCCccchhhHHHHHHHHHHHHhc---cccCCccccCccCC
Confidence 56788899999998876544332 11000 0001122 122222222 33333332223344
Q ss_pred CCchHHHHHHHHHHHHHhhhhhhe
Q 009666 487 LVCDIHKERLAAVSFTLDIMCLLV 510 (529)
Q Consensus 487 ~ptEaHKQRMALIRKtiK~m~~~~ 510 (529)
.++..-+.=+.+|-|.|.+++-+.
T Consensus 226 ~~~~~~rR~L~lIAKvLQnlAN~~ 249 (333)
T cd05135 226 HADPRTSRTLLLLAKAVQSIGNLG 249 (333)
T ss_pred CCCHHHHHHHHHHHHHHHHHHccC
Confidence 566667778999999999999853
No 87
>PLN03017 trehalose-phosphatase
Probab=67.77 E-value=8.6 Score=40.73 Aligned_cols=91 Identities=19% Similarity=0.128 Sum_probs=48.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCccccccc----C---------C
Q 009666 419 RLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKTF----R---------K 485 (529)
Q Consensus 419 sLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEIR~~----R---------K 485 (529)
.++++..++|.+|++.|. +-++-=|.-+. ++.+ +. ..++.+=|..+-||+.. . .
T Consensus 133 ~i~~~~~~aL~~La~~~~-------vaIvSGR~~~~--l~~~-~~---l~~l~l~g~hGa~i~~p~~~~~~~~~~~~~~~ 199 (366)
T PLN03017 133 FMSSKMRRTVKKLAKCFP-------TAIVTGRCIDK--VYNF-VK---LAELYYAGSHGMDIKGPAKGFSRHKRVKQSLL 199 (366)
T ss_pred cCCHHHHHHHHHHhcCCc-------EEEEeCCCHHH--HHHh-hc---ccCceEEEcCCcEEecCCCcceeccccccccc
Confidence 688999999999986542 22222222221 2221 11 12344444444443321 0 0
Q ss_pred CCCchHHHHHHHHHHHHHhhhh-----hheeeecceeeEeee
Q 009666 486 PLVCDIHKERLAAVSFTLDIMC-----LLVIYKDACLSVHFT 522 (529)
Q Consensus 486 ~~ptEaHKQRMALIRKtiK~m~-----~~~~~~~~~~~~~~~ 522 (529)
..+..+++..+..|.+.+++++ ..|=.|..|++|||-
T Consensus 200 ~~~~~~~~~~i~~v~~~L~~~~~~~pGa~VE~K~~~vavHyR 241 (366)
T PLN03017 200 YQPANDYLPMIDEVYRQLLEKTKSTPGAKVENHKFCASVHFR 241 (366)
T ss_pred cccchhhHHHHHHHHHHHHHHHhcCCCCEEEecCcEEEEEcC
Confidence 1233346666666666666554 457789999999984
No 88
>CHL00176 ftsH cell division protein; Validated
Probab=67.16 E-value=45 Score=37.60 Aligned_cols=63 Identities=22% Similarity=0.284 Sum_probs=43.7
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHH-------HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 403 TKRSIQELVNQIDPSERLDPDVEDILVDIAED-------FVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 403 tKrKLqELVrqIDPsesLDpDVEELLLeIADD-------FVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
+.+...++++..-.+..+++++ .|..||+. -|.++++.|+.+|..|+...|+.+||...++|.
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 477899999999888888899999999999985
No 89
>CHL00124 acpP acyl carrier protein; Validated
Probab=66.70 E-value=4.2 Score=32.79 Aligned_cols=30 Identities=13% Similarity=0.557 Sum_probs=24.9
Q ss_pred HhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009666 445 SLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (529)
Q Consensus 445 rLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (529)
.+..--+-+.|++-++...||+.||+.|+-
T Consensus 30 ~l~~dlg~DSl~~~eli~~le~~f~i~i~~ 59 (82)
T CHL00124 30 NFTRDLGADSLDVVELVMAIEEKFDIEIPD 59 (82)
T ss_pred chhhhcCCcHHHHHHHHHHHHHHHCCccCH
Confidence 444445788899999999999999999874
No 90
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=66.59 E-value=40 Score=39.91 Aligned_cols=17 Identities=24% Similarity=0.563 Sum_probs=8.3
Q ss_pred CCccCCHHHHHHHHHhh
Q 009666 398 GNRILTKRSIQELVNQI 414 (529)
Q Consensus 398 ~nrILtKrKLqELVrqI 414 (529)
++.||+-.-|+.|++.+
T Consensus 726 ne~vLse~~iqnLik~l 742 (1102)
T KOG1924|consen 726 NEDVLSESMIQNLIKHL 742 (1102)
T ss_pred cHHHHHHHHHHHHHHhC
Confidence 34445555555555444
No 91
>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=66.56 E-value=16 Score=37.81 Aligned_cols=70 Identities=14% Similarity=0.074 Sum_probs=53.8
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH-------HHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVES-------ITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 402 LtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDs-------Vvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
+.+++|...-+. -+...+++++.+.+.+|+..+=.+ .+..|-.+|..++.+.|+.+||+...+--+..++
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 6677888999999999999999866665555443
No 92
>PRK12449 acyl carrier protein; Provisional
Probab=65.76 E-value=1.8 Score=34.73 Aligned_cols=42 Identities=12% Similarity=0.307 Sum_probs=31.2
Q ss_pred HHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCccccc
Q 009666 440 TMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIK 481 (529)
Q Consensus 440 vs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEIR 481 (529)
+.....+-..-+-|.|+.-++-..||..||+.||-.--.+++
T Consensus 25 i~~~~~l~~dlg~DSl~~~~li~~lE~~f~i~i~~~~~~~~~ 66 (80)
T PRK12449 25 ITEQTHLKDDLAVDSIELVEFIINVEDEFHIAIPDEDVEDMV 66 (80)
T ss_pred cCCCCcHHHHcCCcHHHHHHHHHHHHHHhCCCCCHHHHHhCC
Confidence 444455556668889999999999999999998765433333
No 93
>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=65.63 E-value=15 Score=40.68 Aligned_cols=54 Identities=17% Similarity=0.210 Sum_probs=44.2
Q ss_pred HhhCCCCCCCHHHHHHHHHHHHHHH-------HHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009666 412 NQIDPSERLDPDVEDILVDIAEDFV-------ESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (529)
Q Consensus 412 rqIDPsesLDpDVEELLLeIADDFV-------DsVvs~ACrLAKHRKSdTLEvKDVQLhLE 465 (529)
+++-+...|++++.++|.+++.++- ..++..|..+|..++.+.|+.+||+..++
T Consensus 242 r~~~~~V~is~~~~~~l~~~~~~~~i~s~Ra~i~~~r~Ara~AaL~gr~~V~~~Dv~~A~~ 302 (633)
T TIGR02442 242 RSLLPSVRISDSLIRFISELCIEFGVDGHRADIVMARAARALAALDGRRRVTAEDVREAAE 302 (633)
T ss_pred HHhCCCCCCCHHHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHHHcCCCcCCHHHHHHHHH
Confidence 4455778999999999999999873 34667777899999999999999965444
No 94
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=65.60 E-value=10 Score=42.72 Aligned_cols=30 Identities=23% Similarity=0.338 Sum_probs=21.2
Q ss_pred hhhhcCCCCcchhhHHHHHhhc-cCcccCCC
Q 009666 446 LAKHRKSDTLEAKDILVHLERN-WNMTLPGF 475 (529)
Q Consensus 446 LAKHRKSdTLEvKDVQLhLERn-WNI~IPGF 475 (529)
+.|.|+.+.+.+|.|-+||-|+ .++.++-.
T Consensus 545 ~s~~R~~~i~~aRqiAMYL~r~lt~~Sl~~I 575 (617)
T PRK14086 545 CGTSRSRVLVTARQIAMYLCRELTDLSLPKI 575 (617)
T ss_pred hCCCCCcccchHHHHHHHHHHHHcCCCHHHH
Confidence 3456777888899998888887 34555443
No 95
>PRK05350 acyl carrier protein; Provisional
Probab=64.81 E-value=4.3 Score=33.19 Aligned_cols=26 Identities=23% Similarity=0.377 Sum_probs=22.9
Q ss_pred hcCCCCcchhhHHHHHhhccCcccCC
Q 009666 449 HRKSDTLEAKDILVHLERNWNMTLPG 474 (529)
Q Consensus 449 HRKSdTLEvKDVQLhLERnWNI~IPG 474 (529)
--+-|.|++-++.+.||+.||+.|+.
T Consensus 35 dlg~DSld~veli~~lE~~fgI~i~~ 60 (82)
T PRK05350 35 DLDLDSIDAVDLVVHLQKLTGKKIKP 60 (82)
T ss_pred hcCCCHHHHHHHHHHHHHHHCCccCH
Confidence 34888899999999999999999874
No 96
>PTZ00183 centrin; Provisional
Probab=64.29 E-value=56 Score=27.84 Aligned_cols=69 Identities=10% Similarity=0.185 Sum_probs=37.5
Q ss_pred CCcCCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHH----------HHHHHHH------------HHHHHHhhhhcCC
Q 009666 395 DEFGNRILTKRSIQELVNQIDPSERLDPDVEDILVDIA----------EDFVESI------------TMFGCSLAKHRKS 452 (529)
Q Consensus 395 ~e~~nrILtKrKLqELVrqIDPsesLDpDVEELLLeIA----------DDFVDsV------------vs~ACrLAKHRKS 452 (529)
+.+++..|++..|..+++.++ ..++.+..+.|.... ++|+..+ +..++++.-..+.
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 445666788888888888773 234444333333333 2455432 3344444444555
Q ss_pred CCcchhhHHHHHh
Q 009666 453 DTLEAKDILVHLE 465 (529)
Q Consensus 453 dTLEvKDVQLhLE 465 (529)
..|+..|+.-.|+
T Consensus 105 G~i~~~e~~~~l~ 117 (158)
T PTZ00183 105 GKISLKNLKRVAK 117 (158)
T ss_pred CcCcHHHHHHHHH
Confidence 5566666655554
No 97
>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=64.17 E-value=22 Score=34.71 Aligned_cols=77 Identities=17% Similarity=0.214 Sum_probs=51.3
Q ss_pred cCCccCCHHHHHHHHHhh-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHh----hhhcCCCCcchhhHHHHHhhccCcc
Q 009666 397 FGNRILTKRSIQELVNQI-DPSERLDPDVEDILVDIAEDFVESITMFGCSL----AKHRKSDTLEAKDILVHLERNWNMT 471 (529)
Q Consensus 397 ~~nrILtKrKLqELVrqI-DPsesLDpDVEELLLeIADDFVDsVvs~ACrL----AKHRKSdTLEvKDVQLhLERnWNI~ 471 (529)
+----|+......+++.| |.-.++|++-++...+=+++|++.+-...-++ ++.++...|..-|.--||++.||+.
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 4444456777889999999999998
Q ss_pred cC
Q 009666 472 LP 473 (529)
Q Consensus 472 IP 473 (529)
+-
T Consensus 174 ~~ 175 (264)
T cd01020 174 ER 175 (264)
T ss_pred cc
Confidence 64
No 98
>PLN00154 histone H2A; Provisional
Probab=64.13 E-value=19 Score=34.05 Aligned_cols=68 Identities=10% Similarity=0.110 Sum_probs=59.4
Q ss_pred CccCCHHHHHHHHHhhC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 399 NRILTKRSIQELVNQID-PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 399 nrILtKrKLqELVrqID-PsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
+-.+.=.+++.++++-. -.++|+..+--.|..+.|-+.-+|++.|...|+.-|...|..++|++.+..
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 44566778999999865 457999999999999999999999999999999999999999999988754
No 99
>PLN02580 trehalose-phosphatase
Probab=63.58 E-value=15 Score=39.07 Aligned_cols=33 Identities=21% Similarity=0.163 Sum_probs=23.1
Q ss_pred hHHHHHHHHHHHHHhhhh-----hheeeecceeeEeee
Q 009666 490 DIHKERLAAVSFTLDIMC-----LLVIYKDACLSVHFT 522 (529)
Q Consensus 490 EaHKQRMALIRKtiK~m~-----~~~~~~~~~~~~~~~ 522 (529)
.+++..+..|.+.+.+.+ .+|-.|..|++|||-
T Consensus 222 ~~~~~~i~~v~~~l~e~~~~~pGs~VE~K~~svavHYR 259 (384)
T PLN02580 222 SEFLPMIDEVFRSLVESTKDIKGAKVENHKFCVSVHYR 259 (384)
T ss_pred hhhhhhHHHHHHHHHHHhccCCCCEEEecCcEEEEEeC
Confidence 445555555666666554 677789999999985
No 100
>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=63.12 E-value=22 Score=34.66 Aligned_cols=103 Identities=10% Similarity=0.120 Sum_probs=63.8
Q ss_pred cCCHHHHHHHHHhhC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHh----hhhcCCCCcchhhHHHHHhhccCcccCCC
Q 009666 401 ILTKRSIQELVNQID-PSERLDPDVEDILVDIAEDFVESITMFGCSL----AKHRKSDTLEAKDILVHLERNWNMTLPGF 475 (529)
Q Consensus 401 ILtKrKLqELVrqID-PsesLDpDVEELLLeIADDFVDsVvs~ACrL----AKHRKSdTLEvKDVQLhLERnWNI~IPGF 475 (529)
-|+-.....+++.|. .-.++|++-++...+=+++|++.+-...-.+ ++.++...+..-|.--||.|.||+.+-|+
T Consensus 115 Wldp~~~~~~a~~I~~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~H~af~Y~~~~ygl~~~~~ 194 (266)
T cd01018 115 WLSPANAKIMAENIYEALAELDPQNATYYQANLDALLAELDALDSEIRTILSKLKQRAFMVYHPAWGYFARDYGLTQIPI 194 (266)
T ss_pred CcCHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCeEEEECchhHHHHHHcCCEEEec
Confidence 467777777777773 3356777777777777777777655443333 33344456778899999999999997665
Q ss_pred CcccccccCCCCCchHHHHHHHHHHHHHhhhhhheee
Q 009666 476 SGDEIKTFRKPLVCDIHKERLAAVSFTLDIMCLLVIY 512 (529)
Q Consensus 476 ssDEIR~~RK~~ptEaHKQRMALIRKtiK~m~~~~~~ 512 (529)
...+ .+.--++++.|.+.||+--.-+|+
T Consensus 195 ~~~~---------~eps~~~l~~l~~~ik~~~v~~if 222 (266)
T cd01018 195 EEEG---------KEPSPADLKRLIDLAKEKGVRVVF 222 (266)
T ss_pred CCCC---------CCCCHHHHHHHHHHHHHcCCCEEE
Confidence 2111 122234555666666655443433
No 101
>KOG1659 consensus Class 2 transcription repressor NC2, alpha subunit (DRAP1) [Transcription]
Probab=62.27 E-value=20 Score=36.31 Aligned_cols=48 Identities=19% Similarity=0.255 Sum_probs=37.8
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 420 LDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 420 LDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
|--.|=-++-.-.+=|++++|..+|+.++.|++++|...-++-+++..
T Consensus 32 vaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~ 79 (224)
T KOG1659|consen 32 VAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESD 79 (224)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhcc
Confidence 333444556677788999999999999999999999988776666543
No 102
>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=61.71 E-value=38 Score=35.48 Aligned_cols=81 Identities=14% Similarity=-0.000 Sum_probs=50.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCC---------------------Cccccccc
Q 009666 425 EDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGF---------------------SGDEIKTF 483 (529)
Q Consensus 425 EELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGF---------------------ssDEIR~~ 483 (529)
.+.|..++++|++.|++.++.+-. ++++|--+|.+.-.-++|+. -+-+.-..
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 45665444443333333332 12222222
Q ss_pred CCCCCchHHHHHHHHHHHHHhhhhhheee
Q 009666 484 RKPLVCDIHKERLAAVSFTLDIMCLLVIY 512 (529)
Q Consensus 484 RK~~ptEaHKQRMALIRKtiK~m~~~~~~ 512 (529)
....+++.=+.=+-||-|.|.+++-++.+
T Consensus 203 ~~~~p~~~~~RtLtLIaKvLQnLAN~~~~ 231 (313)
T cd05394 203 RPHHPDAQTSRTLTLISKTIQTLGSWGSL 231 (313)
T ss_pred cCCCCChhhhHHHHHHHHHHHHHhCcccc
Confidence 33445555566788999999999988663
No 103
>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=61.29 E-value=46 Score=33.67 Aligned_cols=80 Identities=15% Similarity=0.225 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH----hhccC--------------cccCCCCcccccccCCCC
Q 009666 426 DILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL----ERNWN--------------MTLPGFSGDEIKTFRKPL 487 (529)
Q Consensus 426 ELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhL----ERnWN--------------I~IPGFssDEIR~~RK~~ 487 (529)
+.|.+++++|++.|++...++-. ++|.|--+| ++.|. +-.|.+.+-|.-......
T Consensus 126 ~~L~~~~~~~l~~I~~s~~~~P~-------~lr~i~~~l~~~v~~kfp~~~~~~Vg~fiFLRfi~PAIvsP~~~~l~~~~ 198 (323)
T cd05392 126 DLLEKYCQKFIDAIISSLDRFPP-------ELREICHHIYEVVSEKFPDSALSAVGSFIFLRFFCPAIVSPESEGIVDTK 198 (323)
T ss_pred HHHHHHHHHHHHHHHHhHHhCCH-------HHHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHhhhhhCCchhcCCCCCC
Confidence 56889999999999886644432 222222222 22221 011333333322233334
Q ss_pred CchHHHHHHHHHHHHHhhhhhheee
Q 009666 488 VCDIHKERLAAVSFTLDIMCLLVIY 512 (529)
Q Consensus 488 ptEaHKQRMALIRKtiK~m~~~~~~ 512 (529)
+++.-+.-+.+|-|.|..++..+.+
T Consensus 199 ~~~~~rr~L~~iaKvLQ~lan~~~f 223 (323)
T cd05392 199 PSPKARRSLILLAKVLQNIANGVLF 223 (323)
T ss_pred CChhhchhHHHHHHHHHHHhCcCcC
Confidence 4677788899999999999988776
No 104
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=60.88 E-value=6.1 Score=38.14 Aligned_cols=65 Identities=22% Similarity=0.357 Sum_probs=52.2
Q ss_pred HHHHHHHhhCCCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcc
Q 009666 406 SIQELVNQIDPSER-LDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMT 471 (529)
Q Consensus 406 KLqELVrqIDPses-LDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~ 471 (529)
+++++|+ +|++.. +.+|+.-++..-||.||..+-..+-..|-.|+..++..+|+.-.+|..|-..
T Consensus 64 rik~vvk-l~pdl~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~kt~qr~d~D~ai~~~de~~ 129 (162)
T KOG1658|consen 64 RIKQVVK-LDPDLTLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKRKTEQRRDYDTAIEAVDEFA 129 (162)
T ss_pred HHHhhcc-CCcchhhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHhhhhhhhcccccccchHHHH
Confidence 3444444 355554 4556778889999999999999999999999999999999988888887654
No 105
>PLN00157 histone H2A; Provisional
Probab=60.62 E-value=17 Score=34.14 Aligned_cols=68 Identities=10% Similarity=0.136 Sum_probs=59.7
Q ss_pred CccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 399 NRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 399 nrILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
+-++.=-+|+.++++-.-..+|...+--.|..+-|-++.+|++.|...|+.-|...|..++|++.+..
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 44566778999999876678999999999999999999999999999999999999999999988754
No 106
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=59.72 E-value=13 Score=39.88 Aligned_cols=65 Identities=12% Similarity=0.155 Sum_probs=43.8
Q ss_pred CHHHHHHHHHhhCCCCCCCHHH-HHHHHHHHHHH----HHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 403 TKRSIQELVNQIDPSERLDPDV-EDILVDIAEDF----VESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 403 tKrKLqELVrqIDPsesLDpDV-EELLLeIADDF----VDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
+.....++++..-....++++| .+.|+...+.| |..|+..|+.+|-.++...|..+|+.-.+++.
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 3455555555443344454443 23344343333 67899999999999999999999999999985
No 107
>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=59.25 E-value=14 Score=35.36 Aligned_cols=107 Identities=17% Similarity=0.226 Sum_probs=67.2
Q ss_pred CccCCHHHHHHHHHhhCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHH----HhhhhcCCCCcchhhHHHHHhhccCcccC
Q 009666 399 NRILTKRSIQELVNQIDP-SERLDPDVEDILVDIAEDFVESITMFGC----SLAKHRKSDTLEAKDILVHLERNWNMTLP 473 (529)
Q Consensus 399 nrILtKrKLqELVrqIDP-sesLDpDVEELLLeIADDFVDsVvs~AC----rLAKHRKSdTLEvKDVQLhLERnWNI~IP 473 (529)
---|+-..+..+++.|.. -..+|++-++...+=++.|++.+-...- .+++.++...|..-|.--||.+.||+.+-
T Consensus 93 H~Wldp~~~~~~~~~Ia~~L~~~~P~~~~~y~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~h~~~~Y~~~~~gl~~~ 172 (256)
T PF01297_consen 93 HVWLDPENAKKMAEAIADALSELDPANKDYYEKNAEKYLKELDELDAEIKEKLAKLPGRPVVVYHDAFQYFAKRYGLKVI 172 (256)
T ss_dssp TGGGSHHHHHHHHHHHHHHHHHHTGGGHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSGGEEEEEESTTHHHHHHTT-EEE
T ss_pred chHHHHHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCeEEEEChHHHHHHHhcCCcee
Confidence 345567777777777732 3457778777777777777776655444 45556656678899999999999999976
Q ss_pred CCCcccccccCCCCCchHHHHHHHHHHHHHhhhhhheee
Q 009666 474 GFSGDEIKTFRKPLVCDIHKERLAAVSFTLDIMCLLVIY 512 (529)
Q Consensus 474 GFssDEIR~~RK~~ptEaHKQRMALIRKtiK~m~~~~~~ 512 (529)
|+- ++.. ..+---++|+.|.+.||+--.-+|+
T Consensus 173 ~~~--~~~~-----~~~ps~~~l~~l~~~ik~~~v~~i~ 204 (256)
T PF01297_consen 173 GVI--EISP-----GEEPSPKDLAELIKLIKENKVKCIF 204 (256)
T ss_dssp EEE--SSSS-----SSSS-HHHHHHHHHHHHHTT-SEEE
T ss_pred eee--cccc-----ccCCCHHHHHHHHHHhhhcCCcEEE
Confidence 654 1121 2223345566666777665554444
No 108
>PRK08727 hypothetical protein; Validated
Probab=59.13 E-value=35 Score=32.73 Aligned_cols=64 Identities=13% Similarity=-0.012 Sum_probs=42.3
Q ss_pred CHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHH-H--HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 403 TKRSIQELVNQI--DPSERLDPDVEDILVDIAE-D--FVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 403 tKrKLqELVrqI--DPsesLDpDVEELLLeIAD-D--FVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
....+.++++++ +.+..||+||.+.|++.++ | .+.++++..-..|+..+. .|++..|+-+|+++
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 58899998888775
No 109
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=59.10 E-value=18 Score=39.36 Aligned_cols=48 Identities=10% Similarity=0.137 Sum_probs=43.5
Q ss_pred CCCCHHHHHHHHHHHHHH------HHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009666 418 ERLDPDVEDILVDIAEDF------VESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (529)
Q Consensus 418 esLDpDVEELLLeIADDF------VDsVvs~ACrLAKHRKSdTLEvKDVQLhLE 465 (529)
..||++++++|.+.++.| .+.|+.-|-.+|..++++.|+.+||.-.|.
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 789999999999999999999999976653
No 110
>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=58.91 E-value=24 Score=34.85 Aligned_cols=75 Identities=15% Similarity=0.222 Sum_probs=47.3
Q ss_pred ccCCHHHHHHHHHhhC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHH----Hhhh--hcCCCCcchhhHHHHHhhccCccc
Q 009666 400 RILTKRSIQELVNQID-PSERLDPDVEDILVDIAEDFVESITMFGC----SLAK--HRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 400 rILtKrKLqELVrqID-PsesLDpDVEELLLeIADDFVDsVvs~AC----rLAK--HRKSdTLEvKDVQLhLERnWNI~I 472 (529)
--|+-.....+++.|. .-.++|++-.+...+=++.|++.+-..-- ++++ .++..-+..-|.--||.|.||+.+
T Consensus 103 ~Wldp~~~~~~a~~I~~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~l~~~~~~~~~~~t~H~af~Y~~~~ygl~~ 182 (276)
T cd01016 103 IWFDVKLWKYAVKAVAEVLSEKLPEHKDEFQANSEAYVEELDSLDAYAKKKIAEIPEQQRVLVTAHDAFGYFGRAYGFEV 182 (276)
T ss_pred cccCHHHHHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCchhcCeEEEecCcHHHHHHHcCCeE
Confidence 3456666666666662 33456666667777777777766554444 3333 233445556788899999999986
Q ss_pred CC
Q 009666 473 PG 474 (529)
Q Consensus 473 PG 474 (529)
-|
T Consensus 183 ~~ 184 (276)
T cd01016 183 KG 184 (276)
T ss_pred ec
Confidence 44
No 111
>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=58.58 E-value=8.9 Score=31.60 Aligned_cols=62 Identities=15% Similarity=0.332 Sum_probs=33.3
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCc
Q 009666 404 KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNM 470 (529)
Q Consensus 404 KrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI 470 (529)
+..|..++++++ ++++.+++|-.+++.+++.+++.-....|....+. +..|+.-.|++-|++
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 444555555533 88888888888999999999988888888754443 335555566666554
No 112
>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=58.47 E-value=17 Score=40.15 Aligned_cols=72 Identities=13% Similarity=0.023 Sum_probs=53.5
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHH-------HHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 400 RILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVE-------SITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 400 rILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVD-------sVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
.++.+++|.+. +++-+...|++++.+.|++++-++=- .++..|..+|..++.+.|+.+||+..++=-+.-++
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 44557789999999999999866522 24567778899999999999999888776665443
No 113
>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=58.08 E-value=22 Score=31.76 Aligned_cols=47 Identities=17% Similarity=0.363 Sum_probs=34.2
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH----------HHHHHHHhhhhcCCC
Q 009666 404 KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVES----------ITMFGCSLAKHRKSD 453 (529)
Q Consensus 404 KrKLqELVrqIDPsesLDpDVEELLLeIADDFVDs----------Vvs~ACrLAKHRKSd 453 (529)
++.+.+++++++ .-++.+.+.+.++|++..++ ++.|++.||+|-...
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 33667889999999998887 567899999876544
No 114
>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=57.80 E-value=35 Score=33.85 Aligned_cols=75 Identities=16% Similarity=0.271 Sum_probs=56.4
Q ss_pred cCCHHHHHHHHHhhCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHhhh----hcCCCCcchhhHHHHHhhccCcccCCC
Q 009666 401 ILTKRSIQELVNQIDPS-ERLDPDVEDILVDIAEDFVESITMFGCSLAK----HRKSDTLEAKDILVHLERNWNMTLPGF 475 (529)
Q Consensus 401 ILtKrKLqELVrqIDPs-esLDpDVEELLLeIADDFVDsVvs~ACrLAK----HRKSdTLEvKDVQLhLERnWNI~IPGF 475 (529)
-|+-+....+++.|... ..+|++-++...+=+++|++.+-..--++.+ .++...|..-|.--||.+.||+.+-++
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 37888888888888443 5789999999988889998887655444333 334446777888899999999987654
No 115
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=57.60 E-value=34 Score=34.59 Aligned_cols=106 Identities=14% Similarity=0.108 Sum_probs=67.7
Q ss_pred ccCCHHHHHHHHHhhC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHh----hhhcCCCCcchhhHHHHHhhccCcccCC
Q 009666 400 RILTKRSIQELVNQID-PSERLDPDVEDILVDIAEDFVESITMFGCSL----AKHRKSDTLEAKDILVHLERNWNMTLPG 474 (529)
Q Consensus 400 rILtKrKLqELVrqID-PsesLDpDVEELLLeIADDFVDsVvs~ACrL----AKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (529)
--|.-.....+++.|. .-.++|++-++...+=+++|+..+-..--++ +..++...|..-|.--||.|.||+.+-|
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 3457888888888888888888775444333 3344555778889989999999999754
Q ss_pred CCcccccccCCCCCchHHHHHHHHHHHHHhhhhhheee
Q 009666 475 FSGDEIKTFRKPLVCDIHKERLAAVSFTLDIMCLLVIY 512 (529)
Q Consensus 475 FssDEIR~~RK~~ptEaHKQRMALIRKtiK~m~~~~~~ 512 (529)
... +.. ...++ -++|+.|.+.||+--.-+|+
T Consensus 227 ~~~--~~~--~~eps---~~~l~~l~~~ik~~~v~~If 257 (311)
T PRK09545 227 HFT--VNP--EIQPG---AQRLHEIRTQLVEQKATCVF 257 (311)
T ss_pred eec--cCC--CCCCC---HHHHHHHHHHHHHcCCCEEE
Confidence 321 111 11222 34555566666654444443
No 116
>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=57.27 E-value=36 Score=29.08 Aligned_cols=55 Identities=24% Similarity=0.316 Sum_probs=38.9
Q ss_pred cCCccCCHHHHHHHHHh-hCCCCCCC-HHHHHHHHHH---------HHHHHHHHHHHHHHhhhhcCC
Q 009666 397 FGNRILTKRSIQELVNQ-IDPSERLD-PDVEDILVDI---------AEDFVESITMFGCSLAKHRKS 452 (529)
Q Consensus 397 ~~nrILtKrKLqELVrq-IDPsesLD-pDVEELLLeI---------ADDFVDsVvs~ACrLAKHRKS 452 (529)
+++..|++..|..|+++ +..... + ++|+++|.++ -+||+.-|..-++...+.|..
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 66778999999999998 743322 3 6788887655 357888877777666665543
No 117
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=56.91 E-value=22 Score=37.26 Aligned_cols=30 Identities=20% Similarity=0.431 Sum_probs=22.9
Q ss_pred hhhhcCCCCcchhhHHHHHhhcc-CcccCCC
Q 009666 446 LAKHRKSDTLEAKDILVHLERNW-NMTLPGF 475 (529)
Q Consensus 446 LAKHRKSdTLEvKDVQLhLERnW-NI~IPGF 475 (529)
+.|-|+.+.+.+|.|..||-|++ |+.++..
T Consensus 378 ~~~~R~~~~~~aR~iamyl~~~~~~~s~~~I 408 (450)
T PRK00149 378 KSKSRTRNIARPRQIAMYLAKELTDLSLPEI 408 (450)
T ss_pred hCCCCCcccChHHHHHHHHHHHhcCCCHHHH
Confidence 55678888889999999998885 5666543
No 118
>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=56.22 E-value=47 Score=26.04 Aligned_cols=48 Identities=13% Similarity=0.062 Sum_probs=35.1
Q ss_pred CCCCCHHHHHHHHHHHH--HHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 417 SERLDPDVEDILVDIAE--DFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 417 sesLDpDVEELLLeIAD--DFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
+..+.+-..+.|.++.| +|=.+|+..||+.|.-++... ++-|.-+|++
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 45677888888889999 999999999999999554443 6667666655
No 119
>PLN00156 histone H2AX; Provisional
Probab=55.74 E-value=27 Score=33.10 Aligned_cols=68 Identities=12% Similarity=0.167 Sum_probs=59.3
Q ss_pred CccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 399 NRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 399 nrILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
+-.+.=-+++.++++-.-..+|...+--.|..+.|-.+.+|++.|...|+..|...|..++|++.+..
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 34566678999999876678999998899999999999999999999999999999999999988754
No 120
>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=54.95 E-value=39 Score=34.33 Aligned_cols=77 Identities=14% Similarity=0.163 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHH-----------------------HHHhhccCcccCCCCcccccc
Q 009666 426 DILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDIL-----------------------VHLERNWNMTLPGFSGDEIKT 482 (529)
Q Consensus 426 ELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQ-----------------------LhLERnWNI~IPGFssDEIR~ 482 (529)
+.|.+++++|++.|++....+-. ++|.|- |.+-|-+ .|.+-+-+.-.
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 122222 2222322 23333333222
Q ss_pred cCCCCCchHHHHHHHHHHHHHhhhhhheee
Q 009666 483 FRKPLVCDIHKERLAAVSFTLDIMCLLVIY 512 (529)
Q Consensus 483 ~RK~~ptEaHKQRMALIRKtiK~m~~~~~~ 512 (529)
.....+++.-+.-+.+|-|.|..++..+.+
T Consensus 220 l~~~~~~~~~rr~L~liaKvLQ~lan~~~f 249 (344)
T smart00323 220 LVDEHPDPTTRRTLTLIAKVLQNLANLSEF 249 (344)
T ss_pred CCCCCCChhhhhhHHHHHHHHHHHhCCCCC
Confidence 233356777788899999999999987765
No 121
>PRK07639 acyl carrier protein; Provisional
Probab=54.70 E-value=4.4 Score=34.12 Aligned_cols=31 Identities=16% Similarity=0.270 Sum_probs=25.4
Q ss_pred HHhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009666 444 CSLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (529)
Q Consensus 444 CrLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (529)
..|-..-+-+.|++-++.++||.+||+.||-
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 122
>PRK06508 acyl carrier protein; Provisional
Probab=54.41 E-value=14 Score=32.00 Aligned_cols=36 Identities=17% Similarity=0.230 Sum_probs=28.0
Q ss_pred HHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCC
Q 009666 441 MFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFS 476 (529)
Q Consensus 441 s~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFs 476 (529)
+.-..+-+--+-|.|++-|+.+.||++||++||.--
T Consensus 24 t~ds~~~edL~~DSLd~veli~~lE~eFgI~i~~ee 59 (93)
T PRK06508 24 TPESHTIDDLGIDSLDFLDIVFAIDKAFGIKLPLEQ 59 (93)
T ss_pred CCCCcchhccCCCHHHHHHHHHHHHHHHCCccCHHH
Confidence 333445556688899999999999999999987643
No 123
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=54.00 E-value=34 Score=29.50 Aligned_cols=47 Identities=19% Similarity=0.247 Sum_probs=42.3
Q ss_pred CCCCHHHHHHHHHHHHHH------HHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009666 418 ERLDPDVEDILVDIAEDF------VESITMFGCSLAKHRKSDTLEAKDILVHL 464 (529)
Q Consensus 418 esLDpDVEELLLeIADDF------VDsVvs~ACrLAKHRKSdTLEvKDVQLhL 464 (529)
..||++++++|.++++.| ++.|+.-|-.+|-.-+++.|+..||.-.|
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 67889999999999999999999997655
No 124
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=53.87 E-value=47 Score=34.96 Aligned_cols=72 Identities=17% Similarity=0.157 Sum_probs=58.7
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHH-------HHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 400 RILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVE-------SITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 400 rILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVD-------sVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
..+.+.+|.++-+.+ +...+++++.+.+.+|+..+=. -.+..|-.+|-.++.+.|+..||+...+--+.-++
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 35677778899999999999999988877777665
No 125
>PRK07360 FO synthase subunit 2; Reviewed
Probab=53.70 E-value=41 Score=34.84 Aligned_cols=76 Identities=16% Similarity=0.146 Sum_probs=51.7
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHHHHHHHHHH-HHHHHHHHHHHHhhhhcCCCCcchh-h--HHHHHhhccCcccCCCCcc
Q 009666 403 TKRSIQELVNQIDPSERLDPDVEDILVDIAE-DFVESITMFGCSLAKHRKSDTLEAK-D--ILVHLERNWNMTLPGFSGD 478 (529)
Q Consensus 403 tKrKLqELVrqIDPsesLDpDVEELLLeIAD-DFVDsVvs~ACrLAKHRKSdTLEvK-D--VQLhLERnWNI~IPGFssD 478 (529)
+.+.+.++++++-.++.|+.+=...|++..| +.++.+...|-++-++...+.|++- . |.+.-..++|+.+=+|..+
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 4566888999998888888875555666654 7888899999888888777766641 2 2333444556666566543
No 126
>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=53.60 E-value=56 Score=29.06 Aligned_cols=88 Identities=9% Similarity=0.083 Sum_probs=52.1
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCC-cchhhH-HHHHhhccCcccCCCCcccccccC
Q 009666 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDT-LEAKDI-LVHLERNWNMTLPGFSGDEIKTFR 484 (529)
Q Consensus 407 LqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdT-LEvKDV-QLhLERnWNI~IPGFssDEIR~~R 484 (529)
+.+|+..+..+ | ++.+-+|.+.|...|..++.++.+.+..+. .+++|| +=++-|-|.-.++.|..+ ..++
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 456777788888888888888877665332 268997 567777786445555332 2334
Q ss_pred CCCCchHHHHHHHHHHHH
Q 009666 485 KPLVCDIHKERLAAVSFT 502 (529)
Q Consensus 485 K~~ptEaHKQRMALIRKt 502 (529)
.|.-+-+++.=+..+||.
T Consensus 76 ~wl~~i~~n~~~d~~R~~ 93 (183)
T TIGR02999 76 AAAAKAMRRILVDHARRR 93 (183)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 444444444444444443
No 127
>PRK07117 acyl carrier protein; Validated
Probab=53.59 E-value=3.1 Score=34.80 Aligned_cols=39 Identities=13% Similarity=0.176 Sum_probs=30.2
Q ss_pred HHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccccc
Q 009666 443 GCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKT 482 (529)
Q Consensus 443 ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEIR~ 482 (529)
...| +.-|.+.|++-||...||..||+.||---.+++++
T Consensus 29 ~~~l-~DLg~DSlD~veiv~~led~f~i~I~~~~~~~i~T 67 (79)
T PRK07117 29 EDSL-VDLGANSMDRAEIVIMTLESLSLKIPLVEFAGAKN 67 (79)
T ss_pred CCCh-hhcCCChHHHHHHHHHHHHHHCCccCHHHHHhcCC
Confidence 3344 34699999999999999999999998655555554
No 128
>PF04867 DUF643: Protein of unknown function (DUF643); InterPro: IPR006951 These are proteins of unknown function found in Borrelia burgdorferi (Lyme disease spirochete)
Probab=53.50 E-value=18 Score=33.19 Aligned_cols=35 Identities=14% Similarity=0.283 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcc
Q 009666 422 PDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLE 456 (529)
Q Consensus 422 pDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLE 456 (529)
+|++.-+++.|.+||++|+..---+-||+++..++
T Consensus 55 ~eiind~l~p~k~fIkdvLKdk~li~kykn~kn~k 89 (114)
T PF04867_consen 55 NEIINDILDPAKKFIKDVLKDKYLIKKYKNSKNMK 89 (114)
T ss_pred HHHHHHHhhHHHHHHHHHHhhhHHHHHHhccccce
Confidence 45666678899999999999999999999886443
No 129
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=53.50 E-value=19 Score=38.80 Aligned_cols=73 Identities=23% Similarity=0.361 Sum_probs=44.5
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhcc-CcccCCCC
Q 009666 400 RILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNW-NMTLPGFS 476 (529)
Q Consensus 400 rILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnW-NI~IPGFs 476 (529)
+.|++.-+.++++.+...... -.+|+++..+|+.|=-.+ .--+.|.|+.+.+..|+|..||-|++ ++.+|-.|
T Consensus 299 ~~iTi~~v~e~L~~~~~~~~~-itie~I~~~Va~~y~v~~---~dl~s~~R~~~i~~~RqiamyL~r~lt~~Slp~IG 372 (408)
T COG0593 299 RAITIDLVKEILKDLLRAGEK-ITIEDIQKIVAEYYNVKV---SDLLSKSRTRNIVRPRQIAMYLARELTNLSLPEIG 372 (408)
T ss_pred ccCcHHHHHHHHHHhhccccc-CCHHHHHHHHHHHhCCCH---HHhhccccccccchHHHHHHHHHHHHccCcHHHHH
Confidence 356666666666666443333 555566666666552222 22357788888888888888887764 46666544
No 130
>PRK07081 acyl carrier protein; Provisional
Probab=53.20 E-value=5.1 Score=33.41 Aligned_cols=25 Identities=12% Similarity=0.399 Sum_probs=22.0
Q ss_pred CCCCcchhhHHHHHhhccCcccCCC
Q 009666 451 KSDTLEAKDILVHLERNWNMTLPGF 475 (529)
Q Consensus 451 KSdTLEvKDVQLhLERnWNI~IPGF 475 (529)
|-+.|++-++.++||+.||+.||--
T Consensus 32 GlDSl~~v~li~~lE~~f~I~i~~~ 56 (83)
T PRK07081 32 GLSSLATVQLMLAIEDAFDIEIPDE 56 (83)
T ss_pred CCCHHHHHHHHHHHHHHhCCcCCHH
Confidence 6788999999999999999998643
No 131
>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=53.09 E-value=50 Score=36.84 Aligned_cols=59 Identities=17% Similarity=0.184 Sum_probs=42.9
Q ss_pred HHHHHHHHHhh---C-CCCCCCHHHHHHHHHHHH-------------HHHHHHHHHHHHhhhhcCCCCcchhhHHH
Q 009666 404 KRSIQELVNQI---D-PSERLDPDVEDILVDIAE-------------DFVESITMFGCSLAKHRKSDTLEAKDILV 462 (529)
Q Consensus 404 KrKLqELVrqI---D-PsesLDpDVEELLLeIAD-------------DFVDsVvs~ACrLAKHRKSdTLEvKDVQL 462 (529)
++++.+++.+. + ....||+++.+.|++.+- .-+.+|+..|..+|+.++++.|+.+||.-
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 44555555543 2 234788987777765433 56788999999999999999999999975
No 132
>COG4296 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=52.36 E-value=11 Score=36.02 Aligned_cols=70 Identities=21% Similarity=0.251 Sum_probs=39.7
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccccccCCCCCchHHHHHHHHHH
Q 009666 421 DPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKTFRKPLVCDIHKERLAAVS 500 (529)
Q Consensus 421 DpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEIR~~RK~~ptEaHKQRMALIR 500 (529)
|++-.|-||..||+|+++.+..+-..++.--.+- |.|+.+ -|+ --| ....+.|..|+||+|-
T Consensus 53 D~~~~~s~l~~a~~f~rnql~~~k~~~~yaV~kl-------L~lknE--~Wl---eED-----e~~iTpE~fk~Rm~Le- 114 (156)
T COG4296 53 DGAGQDSLLVYADAFLRNQLRRDKPGLRYAVAKL-------LTLKNE--DWL---EED-----EQPITPESFKERMALE- 114 (156)
T ss_pred CCcchhhHHHHHHHHHHHHHHhcchHHHHHHHHH-------Hhcchh--hhh---hcc-----CCccCHHHHHHHhhhh-
Confidence 4557788999999999987765432222111111 222211 111 122 3456789999999873
Q ss_pred HHHhhhhhheeeecc
Q 009666 501 FTLDIMCLLVIYKDA 515 (529)
Q Consensus 501 KtiK~m~~~~~~~~~ 515 (529)
-+++|-|.
T Consensus 115 -------~v~~~pdG 122 (156)
T COG4296 115 -------NVMLYPDG 122 (156)
T ss_pred -------ceEeccCC
Confidence 35556554
No 133
>PRK09184 acyl carrier protein; Provisional
Probab=52.13 E-value=10 Score=32.41 Aligned_cols=29 Identities=10% Similarity=0.233 Sum_probs=24.8
Q ss_pred hhhcCCCCcchhhHHHHHhhccCcccCCC
Q 009666 447 AKHRKSDTLEAKDILVHLERNWNMTLPGF 475 (529)
Q Consensus 447 AKHRKSdTLEvKDVQLhLERnWNI~IPGF 475 (529)
...-|-+.|++-+|...||++||+.|+.-
T Consensus 37 ~~dLglDSld~velv~~lE~~fgi~i~~~ 65 (89)
T PRK09184 37 GEGLGLDSIDILEIALVISKRYGFQLRSD 65 (89)
T ss_pred cccCCCcHHHHHHHHHHHHHHHCCcCCCc
Confidence 34467889999999999999999999854
No 134
>PF02358 Trehalose_PPase: Trehalose-phosphatase; InterPro: IPR003337 Trehalose-phosphatases 3.1.3.12 from EC catalyse the de-phosphorylation of trehalose-6-phosphate to trehalose and orthophosphate. Trehalose is a common disaccharide of bacteria, fungi and invertebrates that appears to play a major role in desiccation tolerance. A pathway for trehalose biosynthesis may also exist in plants []. The trehalose-phosphatase signature is found in the C terminus of trehalose-6-phosphate synthase 2.4.1.15 from EC adjacent to the trehalose-6-phosphate synthase domain (see IPR001830 from INTERPRO). It would appear that the two equivalent genes in the Escherichia coli otsBA operon: otsA, the trehalose-6-phosphate synthase and otsB, trehalose-phosphatase (this family) have undergone gene fusion in most eukaryotes [].; GO: 0003824 catalytic activity, 0005992 trehalose biosynthetic process; PDB: 1U02_A.
Probab=51.62 E-value=6.5 Score=37.11 Aligned_cols=93 Identities=17% Similarity=0.204 Sum_probs=47.5
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHH--HHhhccCcccCCCCcccccccCC--CC--CchH
Q 009666 418 ERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILV--HLERNWNMTLPGFSGDEIKTFRK--PL--VCDI 491 (529)
Q Consensus 418 esLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQL--hLERnWNI~IPGFssDEIR~~RK--~~--ptEa 491 (529)
..+.+++.++|-+||++.-+.|.- |.-+++.. .+..-.|+.+=|--+-|++.-.+ +. ..+.
T Consensus 18 ~~~~~~~~~~L~~La~~~~~~v~I-------------vSGR~~~~~~~~~~~~~i~l~gehG~e~~~~~~~~~~~~~~~~ 84 (235)
T PF02358_consen 18 AVPPPELRELLRALAADPNNTVAI-------------VSGRSLDDLERFGGIPNIGLAGEHGAEIRRPGGSEWTNLPADE 84 (235)
T ss_dssp ----HHHHHHHHHHHHHSE--EEE-------------E-SS-HHHHHHH-S-SS-EEEEGGGTEEEETTE-EEE-TTGGG
T ss_pred cCCCHHHHHHHHHHhccCCCEEEE-------------EEeCCHHHhHHhcCCCCceEEEEeeEEeccCcccccccccccc
Confidence 467778888888887765433321 22223322 22222345555555556654333 21 2345
Q ss_pred HHHHHHHHHHHHhhhhh-----heeeecceeeEeeee
Q 009666 492 HKERLAAVSFTLDIMCL-----LVIYKDACLSVHFTY 523 (529)
Q Consensus 492 HKQRMALIRKtiK~m~~-----~~~~~~~~~~~~~~~ 523 (529)
....+..|++.++..+. .|-.|+.|+.+||-.
T Consensus 85 ~~~~~~~~~~~l~~~~~~~pG~~iE~K~~sv~~Hyr~ 121 (235)
T PF02358_consen 85 DLEWKDEVREILEYFAERTPGSFIEDKEFSVAFHYRN 121 (235)
T ss_dssp GHHHHHHHHHHHTTHHHHSTT-EEEEETTEEEEE-TT
T ss_pred chHHHHHHHHHHHHHHhhccCcEEEECCeEEEEEecC
Confidence 55556667777766654 378899999999854
No 135
>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=51.59 E-value=6.6 Score=35.74 Aligned_cols=38 Identities=18% Similarity=0.346 Sum_probs=32.4
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCc
Q 009666 418 ERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTL 455 (529)
Q Consensus 418 esLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTL 455 (529)
..||++|.|+-.+|..+|-++.+....++-+-+|++.|
T Consensus 48 ~~iD~~V~~~wi~Lm~~~r~~sl~~Gak~V~~~g~~rl 85 (108)
T PF10789_consen 48 KEIDEDVSDKWIELMRKHREDSLAAGAKFVRVNGKERL 85 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHccCceeccCCceec
Confidence 36899999999999999999999988888777776654
No 136
>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=51.43 E-value=44 Score=31.78 Aligned_cols=48 Identities=19% Similarity=0.378 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 423 DVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 423 DVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
++++.+.++++++|++++..-|.--.+. +..+++++.-.|.+.|++.+
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 3666777777777777776665433222 45678889889999998754
No 137
>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=51.29 E-value=18 Score=33.95 Aligned_cols=76 Identities=9% Similarity=0.063 Sum_probs=53.5
Q ss_pred cCCHHHHHHHHHhhC-CCCCCCHHHHHHHHHHHHHHHHHHHHHH----HHhhhhcCCCCcchhhHHHHHhhccCcccCCC
Q 009666 401 ILTKRSIQELVNQID-PSERLDPDVEDILVDIAEDFVESITMFG----CSLAKHRKSDTLEAKDILVHLERNWNMTLPGF 475 (529)
Q Consensus 401 ILtKrKLqELVrqID-PsesLDpDVEELLLeIADDFVDsVvs~A----CrLAKHRKSdTLEvKDVQLhLERnWNI~IPGF 475 (529)
-|.-.....+++.|. .-.++|++-++...+=+++|++.+-..- .++++..+...|..-|.--||.|.||+.+=|+
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 3457788878888888888887765443 33444444445666899999999999997554
Q ss_pred C
Q 009666 476 S 476 (529)
Q Consensus 476 s 476 (529)
.
T Consensus 191 ~ 191 (203)
T cd01145 191 L 191 (203)
T ss_pred e
Confidence 3
No 138
>PRK00373 V-type ATP synthase subunit D; Reviewed
Probab=51.13 E-value=7.3 Score=37.28 Aligned_cols=73 Identities=21% Similarity=0.277 Sum_probs=38.4
Q ss_pred HHHHHHHHHhh----CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH-hhhhcCCCCcchhhHHHHHhhccCcccCCCCc
Q 009666 404 KRSIQELVNQI----DPSERLDPDVEDILVDIAEDFVESITMFGCS-LAKHRKSDTLEAKDILVHLERNWNMTLPGFSG 477 (529)
Q Consensus 404 KrKLqELVrqI----DPsesLDpDVEELLLeIADDFVDsVvs~ACr-LAKHRKSdTLEvKDVQLhLERnWNI~IPGFss 477 (529)
|+|.+.|+.++ +.-..+.+++++.+.+..+.|..-...++-. +.....+ .....+|....+.-+|..||-|..
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 1223344444444444444444333333221 1111112 345677778888899999999977
No 139
>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=51.10 E-value=23 Score=36.29 Aligned_cols=94 Identities=11% Similarity=0.156 Sum_probs=55.0
Q ss_pred CCccCCHHHHHHHHHhhCCCCC-CCHHHHHHHHH--------HHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhcc
Q 009666 398 GNRILTKRSIQELVNQIDPSER-LDPDVEDILVD--------IAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNW 468 (529)
Q Consensus 398 ~nrILtKrKLqELVrqIDPses-LDpDVEELLLe--------IADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnW 468 (529)
.+-.|+.+.|.-|++.++.+.. |..-+.. |.. |..+|+++++...+.. +...|++++|.-.+.+.|
T Consensus 284 ~~~~l~~e~l~~ia~~~~~~~r~l~~~l~~-l~~~a~~~~~~it~~~~~~~L~~~~~~----~~~~it~~~I~~~Va~~~ 358 (405)
T TIGR00362 284 EGLELPDEVLEFIAKNIRSNVRELEGALNR-LLAYASLTGKPITLELAKEALKDLLRA----KKKEITIENIQEVVAKYY 358 (405)
T ss_pred cCCCCCHHHHHHHHHhcCCCHHHHHHHHHH-HHHHHHHhCCCCCHHHHHHHHHHhccc----cCCCCCHHHHHHHHHHHc
Confidence 3456788888888888876653 3322222 222 2235777777665432 334589999999999999
Q ss_pred CcccCCCCcccccccCC-CCCchHHHHHHHHHHH
Q 009666 469 NMTLPGFSGDEIKTFRK-PLVCDIHKERLAAVSF 501 (529)
Q Consensus 469 NI~IPGFssDEIR~~RK-~~ptEaHKQRMALIRK 501 (529)
|+.+ +||+.-+| .....+-.-=|-|.|+
T Consensus 359 ~v~~-----~~l~~~~r~~~~~~~R~~amyl~~~ 387 (405)
T TIGR00362 359 NIKV-----SDLKSKKRTRNIVRPRQIAMYLAKE 387 (405)
T ss_pred CCCH-----HHHhCCCCCcccchHHHHHHHHHHH
Confidence 8774 45544332 2333333333444443
No 140
>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=50.90 E-value=16 Score=31.17 Aligned_cols=37 Identities=16% Similarity=0.181 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 430 DIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 430 eIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
.-+.+++..++...+.+|+-.|.. |+.+++.-++++.
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 345556666666666677766655 6655555555443
No 141
>PRK15380 pathogenicity island 1 protein SopD2; Provisional
Probab=50.49 E-value=21 Score=37.30 Aligned_cols=70 Identities=23% Similarity=0.386 Sum_probs=53.1
Q ss_pred CcCCccCCHHHHHHHHHhhCC--CCCCCHHHHHHHHHHHHHHHHHHH-------HHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 396 EFGNRILTKRSIQELVNQIDP--SERLDPDVEDILVDIAEDFVESIT-------MFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 396 e~~nrILtKrKLqELVrqIDP--sesLDpDVEELLLeIADDFVDsVv-------s~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
+-++.||.|.+|+++++--|. -+.|+.|-+|++++|++.+=+.|. .+|..|-|.-..+. ++||..+-|-|
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 568899999999999985543 358999999999999998765544 45666666666664 78887665544
No 142
>PRK04036 DNA polymerase II small subunit; Validated
Probab=50.23 E-value=34 Score=37.13 Aligned_cols=55 Identities=20% Similarity=0.297 Sum_probs=36.0
Q ss_pred HHHHhh-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCC--CcchhhHHHHH
Q 009666 409 ELVNQI-DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSD--TLEAKDILVHL 464 (529)
Q Consensus 409 ELVrqI-DPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSd--TLEvKDVQLhL 464 (529)
++|+++ +.+..++++|.++|.+.-++.+++++++.+.... .+.. .|+.+||.-.|
T Consensus 3 ~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 60 (504)
T PRK04036 3 EIVRKFLERGYLLSPEAYELLKELDEDDLSELIEKIKEGKP-DKADVIVIDSEDLEEFL 60 (504)
T ss_pred HHHHHHHHcCCCcCHHHHHHHHhccccCHHHHHHHHHhcCC-ccccEEEechHHhHHHh
Confidence 344443 4678999999999998766666666666554433 2222 67778887666
No 143
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=50.19 E-value=54 Score=37.73 Aligned_cols=77 Identities=13% Similarity=0.194 Sum_probs=55.2
Q ss_pred CHHHHHHHHHhh------CCCCCCCHHHHHHHHHHHHHHHH---------HHHHHHHHhhhh----cCCCCcchhhHHHH
Q 009666 403 TKRSIQELVNQI------DPSERLDPDVEDILVDIAEDFVE---------SITMFGCSLAKH----RKSDTLEAKDILVH 463 (529)
Q Consensus 403 tKrKLqELVrqI------DPsesLDpDVEELLLeIADDFVD---------sVvs~ACrLAKH----RKSdTLEvKDVQLh 463 (529)
+.....++++.+ ..+..+++++.+..+++++.||. ++++.||..++. ++..+|+..||.-+
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 445555555544 34678999999999999999876 478888864432 33456899999999
Q ss_pred HhhccCcccCCCCccc
Q 009666 464 LERNWNMTLPGFSGDE 479 (529)
Q Consensus 464 LERnWNI~IPGFssDE 479 (529)
+++.-||.+--+..+|
T Consensus 430 ~~~~tgip~~~~~~~~ 445 (758)
T PRK11034 430 VARIARIPEKSVSQSD 445 (758)
T ss_pred HHHHhCCChhhhhhhH
Confidence 9998888765555544
No 144
>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=49.76 E-value=84 Score=32.82 Aligned_cols=78 Identities=15% Similarity=0.168 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHH----HHHhhccC----c---cc----------CCCCcccccccC
Q 009666 426 DILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDIL----VHLERNWN----M---TL----------PGFSGDEIKTFR 484 (529)
Q Consensus 426 ELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQ----LhLERnWN----I---~I----------PGFssDEIR~~R 484 (529)
+.|..++|.+++.|+..++++-. ++++|- -.+++.|+ . -| |..-+-+.-...
T Consensus 131 ~~L~~~~~~i~~~I~~S~~~~P~-------~l~~i~~~lr~~v~~rf~~~~~~~~~aVggFiFLRF~cPAIlsP~~f~L~ 203 (310)
T cd05134 131 ENLRQYVDRIFRVITKSGVSCPT-------VMCDIFFSLRESAAKRFQVDPDVRYTAVSSFIFLRFFAPAILSPNLFQLT 203 (310)
T ss_pred HHHHHHHHHHHHHHHhchhcCcH-------HHHHHHHHHHHHHHHHcCCChhHHHHHHHHHHHHHHhccccCCchhcccc
Confidence 57788888888888765544221 233322 22222231 0 01 333333332333
Q ss_pred CCCCchHHHHHHHHHHHHHhhhhhhe
Q 009666 485 KPLVCDIHKERLAAVSFTLDIMCLLV 510 (529)
Q Consensus 485 K~~ptEaHKQRMALIRKtiK~m~~~~ 510 (529)
...++..=+.-+-||-|.|.+++-++
T Consensus 204 ~~~p~~~~~RtLtLIaKvLQnLAN~~ 229 (310)
T cd05134 204 PHHPDPQTSRTLTLISKTIQTLGSLS 229 (310)
T ss_pred cCCCChhhhHHHHHHHHHHHHHhccc
Confidence 44555666678999999999999765
No 145
>PRK14088 dnaA chromosomal replication initiation protein; Provisional
Probab=49.13 E-value=19 Score=38.22 Aligned_cols=73 Identities=14% Similarity=0.179 Sum_probs=42.5
Q ss_pred HHHHHHHHHHh---------hhhcCCCCcchhhHHHHHhhcc-CcccCCCCcc---c-------ccccCCC--CCchHHH
Q 009666 436 VESITMFGCSL---------AKHRKSDTLEAKDILVHLERNW-NMTLPGFSGD---E-------IKTFRKP--LVCDIHK 493 (529)
Q Consensus 436 VDsVvs~ACrL---------AKHRKSdTLEvKDVQLhLERnW-NI~IPGFssD---E-------IR~~RK~--~ptEaHK 493 (529)
+|+|+...|+. .|-|+.+.+.+|.|..||-|++ |+.++-.|.. + ++...+. ..+..-+
T Consensus 344 ~~~I~~~V~~~~~i~~~~l~s~~R~~~i~~aR~iamyl~r~~~~~s~~~Ig~~fgr~hstV~~a~~~i~~~~~~~d~~~~ 423 (440)
T PRK14088 344 IDELIEIVAKVTGVSREEILSNSRNVKALLARRIGMYVAKNYLGSSLRTIAEKFNRSHPVVVDSVKKVKDSLLKGNKQLK 423 (440)
T ss_pred HHHHHHHHHHHcCCcHHHHhCCCCCccccHHHHHHHHHHHHHhCCCHHHHHHHhCCCHHHHHHHHHHHHHHHHhcCHHHH
Confidence 45555555554 3458888889999999988875 5665433321 1 1112221 2233455
Q ss_pred HHHHHHHHHHhhhhh
Q 009666 494 ERLAAVSFTLDIMCL 508 (529)
Q Consensus 494 QRMALIRKtiK~m~~ 508 (529)
..+..|++-|+.++|
T Consensus 424 ~~~~~l~~~l~~~~~ 438 (440)
T PRK14088 424 SLIDEVIGEISRRAL 438 (440)
T ss_pred HHHHHHHHHHHHhhh
Confidence 666667777766665
No 146
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=49.11 E-value=69 Score=35.85 Aligned_cols=70 Identities=11% Similarity=0.051 Sum_probs=54.8
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHH-------HHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFV-------ESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 402 LtKrKLqELVrqIDPsesLDpDVEELLLeIADDFV-------DsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
.++.+|.+.-+.+ ++..|++++.+.+.+++++|- ..++..|..+|-.++.+.|+.+||+..++--+.-++
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 457888889999999999999999887776665443
No 147
>PLN02690 Agmatine deiminase
Probab=49.00 E-value=13 Score=39.39 Aligned_cols=69 Identities=23% Similarity=0.252 Sum_probs=50.3
Q ss_pred HHHHHHHhhhhcCCCCcchhhHHHHHhhccC----cccC-CCCccc-----ccccCC------------CCCchHHHHHH
Q 009666 439 ITMFGCSLAKHRKSDTLEAKDILVHLERNWN----MTLP-GFSGDE-----IKTFRK------------PLVCDIHKERL 496 (529)
Q Consensus 439 Vvs~ACrLAKHRKSdTLEvKDVQLhLERnWN----I~IP-GFssDE-----IR~~RK------------~~ptEaHKQRM 496 (529)
+++..|.|-.+|+-+ +.-.+|.-.|++.+| |||| |+..|+ |..+-| ..+.+.|.+|+
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 778899999999988 789999999999998 5688 455543 222222 12345678888
Q ss_pred HHHHHHHhhhhh
Q 009666 497 AAVSFTLDIMCL 508 (529)
Q Consensus 497 ALIRKtiK~m~~ 508 (529)
....+.|++++.
T Consensus 253 ~~~~~~L~~~~d 264 (374)
T PLN02690 253 VEALSILSNTTD 264 (374)
T ss_pred HHHHHHHHhhhh
Confidence 888888877643
No 148
>PRK04195 replication factor C large subunit; Provisional
Probab=48.99 E-value=35 Score=36.24 Aligned_cols=69 Identities=16% Similarity=0.121 Sum_probs=50.0
Q ss_pred CCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 402 LTKRSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 402 LtKrKLqELVrqID--PsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
++.+.|.+.|++|- .+..+|+++.+.|.+.+.-=+..+++....+|. +...|+..||...+.|.|...|
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 4456788888777767766554
No 149
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=48.96 E-value=45 Score=33.30 Aligned_cols=66 Identities=8% Similarity=0.050 Sum_probs=48.3
Q ss_pred cCCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 401 ILTKRSIQELVNQID--PSERLDPDVEDILVDIAED---FVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 401 ILtKrKLqELVrqID--PsesLDpDVEELLLeIADD---FVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
.++...+.++++++- -+..+|+|+.+.|.+.++- ++..++...+..|.-++...++..+|.-.|+.
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 36677777777776666677899999888865
No 150
>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=48.79 E-value=75 Score=23.48 Aligned_cols=20 Identities=10% Similarity=0.293 Sum_probs=14.3
Q ss_pred CCcCCccCCHHHHHHHHHhh
Q 009666 395 DEFGNRILTKRSIQELVNQI 414 (529)
Q Consensus 395 ~e~~nrILtKrKLqELVrqI 414 (529)
+.+++..|++..|.++++.+
T Consensus 9 D~~~~G~i~~~el~~~l~~~ 28 (67)
T cd00052 9 DPDGDGLISGDEARPFLGKS 28 (67)
T ss_pred CCCCCCcCcHHHHHHHHHHc
Confidence 44566677888888887765
No 151
>PRK05828 acyl carrier protein; Validated
Probab=48.41 E-value=3.2 Score=35.14 Aligned_cols=27 Identities=30% Similarity=0.442 Sum_probs=23.7
Q ss_pred hcCCCCcchhhHHHHHhhccCcccCCC
Q 009666 449 HRKSDTLEAKDILVHLERNWNMTLPGF 475 (529)
Q Consensus 449 HRKSdTLEvKDVQLhLERnWNI~IPGF 475 (529)
.-|-|.|++-++...||++|||.||.-
T Consensus 34 dLg~DSLd~velv~~lE~~f~I~i~~e 60 (84)
T PRK05828 34 ELKIDSLDMFSIIVSLESEFNIEFSDE 60 (84)
T ss_pred hcCCCHHHHHHHHHHHHHHHCCCcCHH
Confidence 358899999999999999999998753
No 152
>PLN02641 anthranilate phosphoribosyltransferase
Probab=48.35 E-value=32 Score=35.97 Aligned_cols=48 Identities=15% Similarity=0.241 Sum_probs=37.0
Q ss_pred HHHHHHhhCCCCCCCHH-HHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCc
Q 009666 407 IQELVNQIDPSERLDPD-VEDILVDIAEDFVESITMFGCSLAKHRKSDTL 455 (529)
Q Consensus 407 LqELVrqIDPsesLDpD-VEELLLeIADDFVDsVvs~ACrLAKHRKSdTL 455 (529)
+.+++++|..+..|+.| +++++-.|.|+ ++++--.|..+|-+-|.++.
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 88888899988 88887777777776666653
No 153
>PLN02151 trehalose-phosphatase
Probab=48.26 E-value=41 Score=35.64 Aligned_cols=21 Identities=19% Similarity=0.434 Sum_probs=16.2
Q ss_pred CCCC-CCCHHHHHHHHHHHHHH
Q 009666 415 DPSE-RLDPDVEDILVDIAEDF 435 (529)
Q Consensus 415 DPse-sLDpDVEELLLeIADDF 435 (529)
||.. .++++..++|.+|+.+|
T Consensus 115 ~P~~A~~~~~~~~aL~~La~~~ 136 (354)
T PLN02151 115 DPDRAFMSKKMRNTVRKLAKCF 136 (354)
T ss_pred CcccccCCHHHHHHHHHHhcCC
Confidence 3444 78999999999999764
No 154
>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=48.16 E-value=50 Score=29.59 Aligned_cols=45 Identities=16% Similarity=0.237 Sum_probs=31.9
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 009666 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLA 447 (529)
Q Consensus 402 LtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLA 447 (529)
++...|.+|... +....+|+++.+.-++-|+++||..+..--.|.
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 344445555332 256889999999999999999999886554443
No 155
>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=48.04 E-value=74 Score=26.78 Aligned_cols=81 Identities=12% Similarity=0.080 Sum_probs=48.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCC---ccccc-ccCCCCCchHHH-HHHHHH
Q 009666 425 EDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFS---GDEIK-TFRKPLVCDIHK-ERLAAV 499 (529)
Q Consensus 425 EELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFs---sDEIR-~~RK~~ptEaHK-QRMALI 499 (529)
++.|..|+|+|.+.|... ..++..-.. ++..++...|.+-|-..+-|-. +.+.+ .-+.-..+++|- .-+..+
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 3467777777777766664432 22222 112234455554 446678
Q ss_pred HHHHhhhhh
Q 009666 500 SFTLDIMCL 508 (529)
Q Consensus 500 RKtiK~m~~ 508 (529)
+++++++..
T Consensus 86 ~~al~~~~~ 94 (116)
T cd00454 86 RDALDELGV 94 (116)
T ss_pred HHHHHHhCC
Confidence 888887643
No 156
>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=47.86 E-value=11 Score=38.25 Aligned_cols=64 Identities=16% Similarity=0.285 Sum_probs=45.4
Q ss_pred ccCCHHH---HHHHHH-hhCCCCCCCHHHHHHHHHHHHH-----------------HHHHHHHHHHHhhhhcCCCCcchh
Q 009666 400 RILTKRS---IQELVN-QIDPSERLDPDVEDILVDIAED-----------------FVESITMFGCSLAKHRKSDTLEAK 458 (529)
Q Consensus 400 rILtKrK---LqELVr-qIDPsesLDpDVEELLLeIADD-----------------FVDsVvs~ACrLAKHRKSdTLEvK 458 (529)
..++... .-.++| .+.| .|++|++++|.++--+ .+|+++..|...||.|-+++|+.+
T Consensus 240 ~~~~~~~lr~yI~yar~~~~P--~ls~ea~~~I~~~Yv~lR~~~~~~~~~~~iT~R~LeSLIRLseA~AKl~lr~~V~~~ 317 (331)
T PF00493_consen 240 KPISEDLLRKYIAYARQNIHP--VLSEEAKELIINYYVELRKESKSNNKSIPITIRQLESLIRLSEAHAKLRLRDEVTEE 317 (331)
T ss_dssp -TT-HCCCHHHHHHHHHHC----EE-HHCHHHHHHHHCCCCHCHHCHSS-B-SSCCCCCHHHHHHHHHHHCTTSSECSHH
T ss_pred CccCHHHHHHHHHHHHhhccc--ccCHHHHHHHHHHHHHhcccccccccccccchhhHHHHHHHHHHHHHHhccCceeHH
Confidence 3455443 445556 5655 7999999999765321 458899999999999999999999
Q ss_pred hHHHHHh
Q 009666 459 DILVHLE 465 (529)
Q Consensus 459 DVQLhLE 465 (529)
||...++
T Consensus 318 Dv~~Ai~ 324 (331)
T PF00493_consen 318 DVEEAIR 324 (331)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 9987765
No 157
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=47.60 E-value=32 Score=33.31 Aligned_cols=63 Identities=11% Similarity=0.075 Sum_probs=43.4
Q ss_pred CCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 402 LTKRSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 402 LtKrKLqELVrqID--PsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
+++..+.++++++- .+..+++++.+.|.+.+..=+..++...-++|. +.+.|+.+||..++.+
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 2347899999887765
No 158
>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=46.96 E-value=74 Score=32.46 Aligned_cols=77 Identities=10% Similarity=0.098 Sum_probs=53.3
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHH---------HHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 402 LTKRSIQELVNQIDPSERLDPDVEDI---------LVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 402 LtKrKLqELVrqIDPsesLDpDVEEL---------LLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
....-|.+|.+.+|.-..||.|.--- -.+.+|+.|-..+..-..+-++.+.-.+|++||.-.|+. =|+.+
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 57888
Q ss_pred CCCCccc
Q 009666 473 PGFSGDE 479 (529)
Q Consensus 473 PGFssDE 479 (529)
=||+..+
T Consensus 214 ig~g~~~ 220 (303)
T cd02191 214 VGYGSED 220 (303)
T ss_pred EEEEEec
Confidence 7887543
No 159
>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=46.14 E-value=54 Score=30.04 Aligned_cols=17 Identities=12% Similarity=0.360 Sum_probs=8.4
Q ss_pred chhhHHHHHhhccCccc
Q 009666 456 EAKDILVHLERNWNMTL 472 (529)
Q Consensus 456 EvKDVQLhLERnWNI~I 472 (529)
+||+-.+.|=++|...|
T Consensus 101 ~Vk~kil~li~~W~~~f 117 (141)
T cd03565 101 IVQEKVLALIQAWADAF 117 (141)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 44444455555555444
No 160
>PLN00153 histone H2A; Provisional
Probab=45.84 E-value=44 Score=31.35 Aligned_cols=68 Identities=12% Similarity=0.180 Sum_probs=58.8
Q ss_pred CccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 399 NRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 399 nrILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
+-.+.=-+++.++++-.-.+.|...+--.|..+-|-++.+|++.|...|+..|...|..+.|++.+..
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 44556678999998766677888888889999999999999999999999999999999999988754
No 161
>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=45.14 E-value=27 Score=33.30 Aligned_cols=35 Identities=20% Similarity=0.368 Sum_probs=27.7
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH
Q 009666 404 KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVES 438 (529)
Q Consensus 404 KrKLqELVrqIDPsesLDpDVEELLLeIADDFVDs 438 (529)
++=+.+|.++++....=|+|+||+|.||.|+-||.
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 33466888888776677888999999999988774
No 162
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=44.81 E-value=38 Score=36.16 Aligned_cols=28 Identities=25% Similarity=0.255 Sum_probs=21.3
Q ss_pred hhhhcCCCCcchhhHHHHHhhccC-cccC
Q 009666 446 LAKHRKSDTLEAKDILVHLERNWN-MTLP 473 (529)
Q Consensus 446 LAKHRKSdTLEvKDVQLhLERnWN-I~IP 473 (529)
+-|-|+.+.+.+|.|.+||-|++- +.++
T Consensus 377 ~s~~R~~~i~~~RqiamyL~r~~t~~sl~ 405 (450)
T PRK14087 377 DGKARSKSIVTARHIAMYLTKEILNHTLA 405 (450)
T ss_pred hCCCCCccccHHHHHHHHHHHHHcCCCHH
Confidence 567788888899999999888743 5544
No 163
>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=44.40 E-value=53 Score=27.32 Aligned_cols=45 Identities=22% Similarity=0.366 Sum_probs=27.4
Q ss_pred CcCCccCCHHHHHHHHHhhCCC----CCCCHHHHHHHHHH---------HHHHHHHHH
Q 009666 396 EFGNRILTKRSIQELVNQIDPS----ERLDPDVEDILVDI---------AEDFVESIT 440 (529)
Q Consensus 396 e~~nrILtKrKLqELVrqIDPs----esLDpDVEELLLeI---------ADDFVDsVv 440 (529)
++.+..|++..|..|+...-+. ...+++++++|.++ -+||+.-+.
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 12246677766654 256775444
No 164
>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=43.99 E-value=7.1 Score=31.13 Aligned_cols=26 Identities=19% Similarity=0.532 Sum_probs=22.4
Q ss_pred cCCCCcchhhHHHHHhhccCcccCCC
Q 009666 450 RKSDTLEAKDILVHLERNWNMTLPGF 475 (529)
Q Consensus 450 RKSdTLEvKDVQLhLERnWNI~IPGF 475 (529)
-+-|.|++-++...||+.||+.||.-
T Consensus 33 lglDSl~~veli~~lE~~f~i~i~~~ 58 (77)
T TIGR00517 33 LGADSLDTVELVMALEEEFDIEIPDE 58 (77)
T ss_pred cCCcHHHHHHHHHHHHHHHCCCCCHH
Confidence 46788899999999999999998654
No 165
>PRK07668 hypothetical protein; Validated
Probab=43.51 E-value=25 Score=35.77 Aligned_cols=34 Identities=15% Similarity=0.208 Sum_probs=26.8
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH
Q 009666 405 RSIQELVNQIDPSERLDPDVEDILVDIAEDFVES 438 (529)
Q Consensus 405 rKLqELVrqIDPsesLDpDVEELLLeIADDFVDs 438 (529)
+=+.+|.+.+.....=|+|+||+|.|+.|+|+|.
T Consensus 8 efl~~L~~yL~~~glseeeieeiL~Ei~~hLlEg 41 (254)
T PRK07668 8 KFLDDTRVYLIAKGIKEEDIESFLEDAELHLIEG 41 (254)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH
Confidence 3356888888555556889999999999999884
No 166
>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=43.36 E-value=32 Score=27.97 Aligned_cols=47 Identities=13% Similarity=0.295 Sum_probs=28.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCc
Q 009666 419 RLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNM 470 (529)
Q Consensus 419 sLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI 470 (529)
.+++|..++|+++++.|-+ ||..|-.|.-+.-..+|++..|.+.+..
T Consensus 7 ~~~~e~~~~L~~tm~~f~~-----A~n~~~~~~~e~~~~~~~k~~L~~l~y~ 53 (73)
T TIGR01765 7 NFEDKEKEYLLDLIRAFSS-----AVNFVIKRLLEGKSHSELKKELQRLYYL 53 (73)
T ss_pred ecChhhHHHHHHHHHHHHH-----HHHHHHHHHHCCCChhHHHHHHHHHHhh
Confidence 4566778999999999864 4444433322223456666666665443
No 167
>PRK05087 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated
Probab=43.17 E-value=13 Score=31.14 Aligned_cols=24 Identities=25% Similarity=0.538 Sum_probs=20.5
Q ss_pred CCCCcchhhHHHHHhhccCcccCC
Q 009666 451 KSDTLEAKDILVHLERNWNMTLPG 474 (529)
Q Consensus 451 KSdTLEvKDVQLhLERnWNI~IPG 474 (529)
.-+.+++-++.+.||+.||+.||.
T Consensus 33 ~lDSl~~veli~~lE~~fgi~i~~ 56 (78)
T PRK05087 33 ILDSMGTVELLVELENRFDIEVPV 56 (78)
T ss_pred CcchHHHHHHHHHHHHHhCCccCh
Confidence 357788899999999999999864
No 168
>KOG1657 consensus CCAAT-binding factor, subunit C (HAP5) [Transcription]
Probab=42.81 E-value=47 Score=33.49 Aligned_cols=81 Identities=19% Similarity=0.300 Sum_probs=60.7
Q ss_pred CcCCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCC
Q 009666 396 EFGNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGF 475 (529)
Q Consensus 396 e~~nrILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGF 475 (529)
+..+..|...+|..++|.=+-.-.|..|+-=++...++-||..+..++-..+..-+..+|.-+||.=++.+.-... |
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 3445555655555555432222367777778888999999999999999999999999999999999999876555 5
Q ss_pred Cccc
Q 009666 476 SGDE 479 (529)
Q Consensus 476 ssDE 479 (529)
..|.
T Consensus 146 L~Di 149 (236)
T KOG1657|consen 146 LRDI 149 (236)
T ss_pred eecc
Confidence 5554
No 169
>PF07855 DUF1649: Protein of unknown function (DUF1649); InterPro: IPR012445 This family represents Autophagy-related protein 101.
Probab=42.75 E-value=27 Score=32.76 Aligned_cols=27 Identities=15% Similarity=0.378 Sum_probs=23.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 009666 419 RLDPDVEDILVDIAEDFVESITMFGCS 445 (529)
Q Consensus 419 sLDpDVEELLLeIADDFVDsVvs~ACr 445 (529)
.=|+|++.++-+=++.|++.+-...+.
T Consensus 47 ~~~~el~~~Id~ki~~f~~~l~~~~~~ 73 (163)
T PF07855_consen 47 CNDPELESLIDEKINQFIRQLEKHPSK 73 (163)
T ss_pred cCcHHHHHHHHHHHHHHHHHHHhCcCc
Confidence 567899999999999999999877765
No 170
>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=42.71 E-value=76 Score=23.69 Aligned_cols=56 Identities=14% Similarity=0.199 Sum_probs=35.5
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHH----------HHHHHHhhhhcCCCCcchhhH
Q 009666 405 RSIQELVNQIDPSERLDPDVEDILVDIAEDFVESI----------TMFGCSLAKHRKSDTLEAKDI 460 (529)
Q Consensus 405 rKLqELVrqIDPsesLDpDVEELLLeIADDFVDsV----------vs~ACrLAKHRKSdTLEvKDV 460 (529)
..+.+++.++-....+++++..+=..++|.|+... .-.+.-+|.+-....+..+|+
T Consensus 3 ~~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~ia~a~l~lA~k~~~~~~~~~~~ 68 (88)
T cd00043 3 PTPLDFLRRVAKALGLSPETLTLAVNLLDRFLLDYSVLGRSPSLVAAAALYLAAKVEEIPPWLKDL 68 (88)
T ss_pred chHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHcCCCCCHHHH
Confidence 34455566665567899999999999999998742 223333444333335556666
No 171
>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=42.48 E-value=13 Score=38.09 Aligned_cols=68 Identities=29% Similarity=0.372 Sum_probs=46.3
Q ss_pred HHHHHHHhhhhcCCCCcchhhHHHHHhhccCc----ccC-CCCccc-----ccccCC------------CCCchHHHHHH
Q 009666 439 ITMFGCSLAKHRKSDTLEAKDILVHLERNWNM----TLP-GFSGDE-----IKTFRK------------PLVCDIHKERL 496 (529)
Q Consensus 439 Vvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI----~IP-GFssDE-----IR~~RK------------~~ptEaHKQRM 496 (529)
+++..|.|..+|+.. +.-.+|.-.|+|.+|+ ||| |+-.++ |..+-| ....+.+.+|+
T Consensus 151 i~Te~~ll~~nRNp~-~s~~eie~~L~~~lG~~kviwL~~g~~~~d~t~GHiD~~arFv~~~~vl~~~~~d~~d~~~~~~ 229 (329)
T PF04371_consen 151 ITTESCLLNPNRNPG-LSKAEIEAELKRYLGVEKVIWLPHGLLGDDDTDGHIDGIARFVDPGTVLVSRCDDPSDPNYERL 229 (329)
T ss_dssp EEEHHHHTSTTTSTT-S-HHHHHHHHHHHHT-SEEEEESS-STTTTTTSS-GGGTEEEEETTEEEEEE-S-TTSTTHHHH
T ss_pred EEEeeeEecCccCcc-CCHHHHHHHHHHHhCCCEEEEecCCcCCCCCcCCccceeEEecCCCEEEEEecCCCCCcCHHHH
Confidence 457899999999888 6888999999999995 588 643332 111111 12344578999
Q ss_pred HHHHHHHhhhh
Q 009666 497 AAVSFTLDIMC 507 (529)
Q Consensus 497 ALIRKtiK~m~ 507 (529)
..+++.|++++
T Consensus 230 ~~~~~~L~~~~ 240 (329)
T PF04371_consen 230 EENLEILSAAT 240 (329)
T ss_dssp HHHHHHHHT-B
T ss_pred HHHHHHHHhhh
Confidence 99999999987
No 172
>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=42.23 E-value=20 Score=32.35 Aligned_cols=52 Identities=13% Similarity=0.193 Sum_probs=38.2
Q ss_pred CcchhhHHHHHhhccCcccCCCCcccccccCCCCCchHHHHHHHH-HHHHHhhh
Q 009666 454 TLEAKDILVHLERNWNMTLPGFSGDEIKTFRKPLVCDIHKERLAA-VSFTLDIM 506 (529)
Q Consensus 454 TLEvKDVQLhLERnWNI~IPGFssDEIR~~RK~~ptEaHKQRMAL-IRKtiK~m 506 (529)
.+.++|+.-+||++||+.|=..+....-.|... ..+.|++||.. |.+.++..
T Consensus 42 ~~Tl~~li~~~~~~~~lev~ml~~g~~~LY~~f-~~~~~~~rl~~~i~elv~~v 94 (125)
T PF09358_consen 42 DMTLQELIDYFKEKYGLEVTMLSQGVSLLYSSF-PPPKHKERLKMPISELVEEV 94 (125)
T ss_dssp --BHHHHHHHHHHTTS-EEEEEEETTEEEEETT--HHHHHHHTTSBHHHHHHHH
T ss_pred CCCHHHHHHHHHHHhCceEEEEEeCCEEEEecC-ChhhhHHHhCCcHHHHHHHh
Confidence 367899999999999999987777777777777 77889999875 55555543
No 173
>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=41.67 E-value=13 Score=31.35 Aligned_cols=22 Identities=14% Similarity=0.530 Sum_probs=17.7
Q ss_pred CCcchhhHHHHHhhccCcccCC
Q 009666 453 DTLEAKDILVHLERNWNMTLPG 474 (529)
Q Consensus 453 dTLEvKDVQLhLERnWNI~IPG 474 (529)
+.+.+-++.+.||.+||+.||-
T Consensus 32 DS~~~v~Li~~lE~ef~I~i~~ 53 (73)
T TIGR01688 32 DSFGTVQLLLEIQNQFDIDVPI 53 (73)
T ss_pred hHHHHHHHHHHHHHHhCCccCH
Confidence 3456678889999999999874
No 174
>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=41.54 E-value=37 Score=32.07 Aligned_cols=53 Identities=15% Similarity=0.191 Sum_probs=37.3
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHH
Q 009666 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVH 463 (529)
Q Consensus 407 LqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLh 463 (529)
|--+-+.+-....|++|+.+.|.+-+|+|++.+... -+--+.+.+++=||-++
T Consensus 63 M~~isk~lkk~~~i~~D~r~~L~~a~~~w~~~~~~~----~~FlaGd~ptIADisvy 115 (149)
T cd03197 63 MYLISKYLKKPRLLQDDVREWLYDALNTWVAALGKD----RQFHGGSKPNLADLAVY 115 (149)
T ss_pred HHHHHHHhccccCCCchHHHHHHHHHHHHHHHhcCC----CCccCCCCCCHHHHHHH
Confidence 334444555556789999999999999999875442 12334577999999654
No 175
>PHA02839 Il-24-like protein; Provisional
Probab=41.51 E-value=66 Score=31.14 Aligned_cols=69 Identities=20% Similarity=0.292 Sum_probs=49.8
Q ss_pred CCCCCCCcCCccCCHHHHHHHHHhhCC-----------------------CCCCCHHHHHHHHHHHHHHHHHHHHHHHHh
Q 009666 390 AGTESDEFGNRILTKRSIQELVNQIDP-----------------------SERLDPDVEDILVDIAEDFVESITMFGCSL 446 (529)
Q Consensus 390 ~~~~~~e~~nrILtKrKLqELVrqIDP-----------------------sesLDpDVEELLLeIADDFVDsVvs~ACrL 446 (529)
.-++++.-+-++|+|+.|+ .|.+ +..+|..+..-+.-||+.|+--+-.---+-
T Consensus 42 VQAkD~~~~VRILr~evLq----nIq~aE~CCflr~LLrFYLDrVFKnYqs~~~~~~ilRsiSSLANSFL~I~K~lq~~~ 117 (156)
T PHA02839 42 VQADDVDHNLRILTPALLN----NITVSETCFFIYDMFELYLNDVFVKYTNTALKLNILKSLSSVANNFLAIFNKVKKRR 117 (156)
T ss_pred hcccCcccceEEcCHHHHh----cCCccceeHHHHHHHHHHHHHHHHhccCCccchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456677888999985544 3422 335678899999999999987666555566
Q ss_pred hhhcCCCCcchhhHHH
Q 009666 447 AKHRKSDTLEAKDILV 462 (529)
Q Consensus 447 AKHRKSdTLEvKDVQL 462 (529)
.|..+.+.||+|.+.+
T Consensus 118 ~~~~~~~~~~~~~~~~ 133 (156)
T PHA02839 118 VKKNNVNVLEIKKLLL 133 (156)
T ss_pred hhccCcceeeehhhhe
Confidence 6777778888888754
No 176
>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=41.22 E-value=1e+02 Score=28.30 Aligned_cols=19 Identities=16% Similarity=0.497 Sum_probs=10.5
Q ss_pred cchhhHHHHHhhccCcccC
Q 009666 455 LEAKDILVHLERNWNMTLP 473 (529)
Q Consensus 455 LEvKDVQLhLERnWNI~IP 473 (529)
.+||+-.+.|=.+|...+.
T Consensus 99 ~~Vk~kil~li~~W~~~f~ 117 (142)
T cd03569 99 EEVRQKILELIQAWALAFR 117 (142)
T ss_pred HHHHHHHHHHHHHHHHHhC
Confidence 3455555555566665543
No 177
>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=41.18 E-value=72 Score=31.39 Aligned_cols=50 Identities=14% Similarity=0.170 Sum_probs=36.6
Q ss_pred CccCCHHHHHHHHHhhC---CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 009666 399 NRILTKRSIQELVNQID---PSERLDPDVEDILVDIAEDFVESITMFGCSLAK 448 (529)
Q Consensus 399 nrILtKrKLqELVrqID---PsesLDpDVEELLLeIADDFVDsVvs~ACrLAK 448 (529)
..+-.-..|.+-+..|. +-+.+++|+-++|.--.|.|+.+|++..+.++|
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 33444444444443332 235899999999999999999999999998875
No 178
>PRK14622 hypothetical protein; Provisional
Probab=41.10 E-value=17 Score=32.28 Aligned_cols=9 Identities=33% Similarity=1.062 Sum_probs=7.0
Q ss_pred CcccCCCCc
Q 009666 469 NMTLPGFSG 477 (529)
Q Consensus 469 NI~IPGFss 477 (529)
+|.||||++
T Consensus 95 g~~lPG~~~ 103 (103)
T PRK14622 95 GIKIPGIAG 103 (103)
T ss_pred CCCCCCCCC
Confidence 677999864
No 179
>PRK08172 putative acyl carrier protein IacP; Validated
Probab=40.91 E-value=10 Score=31.73 Aligned_cols=41 Identities=17% Similarity=0.218 Sum_probs=30.8
Q ss_pred HHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccccc
Q 009666 442 FGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKT 482 (529)
Q Consensus 442 ~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEIR~ 482 (529)
....|..--+-+.|++-|+.+.||.+||+.|+.---.++++
T Consensus 26 ~d~~l~~dL~~DSld~v~lv~~lEe~F~I~i~~~d~~~i~T 66 (82)
T PRK08172 26 GQTHLVEDLYADSLDLIDIVFGLSEEFDISCNENDLPDMTT 66 (82)
T ss_pred CCcchhhhcCCCHHHHHHHHHHHHHHHCCCcCHHHHHHCCC
Confidence 34455555678899999999999999999987654444554
No 180
>PRK13430 F0F1 ATP synthase subunit delta; Provisional
Probab=40.48 E-value=1.5e+02 Score=29.96 Aligned_cols=48 Identities=6% Similarity=0.036 Sum_probs=21.3
Q ss_pred CCHHHH-HHHHHHHHH-HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009666 420 LDPDVE-DILVDIAED-FVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (529)
Q Consensus 420 LDpDVE-ELLLeIADD-FVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWN 469 (529)
++.+.. ++|.++.++ |-+.+.+|.+.|+.++... .+.+|..++++.|+
T Consensus 146 i~~e~K~~ll~~l~~~~~~~~~~nfl~~lv~~~R~~--~l~~i~~~f~~l~~ 195 (271)
T PRK13430 146 APAEAKRELLARLLYGKVTPVTERLAEQAVGRPRGR--SIEEGLDELSNLAA 195 (271)
T ss_pred CCHHHHHHHHHHHHhccCCHHHHHHHHHHHhCCChh--hHHHHHHHHHHHHH
Confidence 444433 344444433 2333445555555554443 24455444444443
No 181
>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=40.42 E-value=1.3e+02 Score=23.88 Aligned_cols=36 Identities=28% Similarity=0.505 Sum_probs=22.6
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHHHHHHHH------HHHHHHHHHHHHHHHH
Q 009666 400 RILTKRSIQELVNQIDPSERLDPDVEDILV------DIAEDFVESITMFGCS 445 (529)
Q Consensus 400 rILtKrKLqELVrqIDPsesLDpDVEELLL------eIADDFVDsVvs~ACr 445 (529)
.+++++.|.+++.+ +|++|+ ++|++||++|-...+.
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 44567777777764 466665 5677777777664443
No 182
>PRK06030 hypothetical protein; Provisional
Probab=40.07 E-value=23 Score=32.44 Aligned_cols=87 Identities=14% Similarity=0.069 Sum_probs=51.5
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC-CCCcchhhHHHHHhhccC-cccCC----CCcc------cccccCC
Q 009666 418 ERLDPDVEDILVDIAEDFVESITMFGCSLAKHRK-SDTLEAKDILVHLERNWN-MTLPG----FSGD------EIKTFRK 485 (529)
Q Consensus 418 esLDpDVEELLLeIADDFVDsVvs~ACrLAKHRK-SdTLEvKDVQLhLERnWN-I~IPG----FssD------EIR~~RK 485 (529)
+.+-..+++++..+|+.|= |. .+--+.|-|+ .+.+.++.|-+||-|++- +.++- ||.| .++..++
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 3443356777777777772 22 2333566776 788899999999988764 44432 2222 1222233
Q ss_pred CCCchHHHHHHHHHHHHHhhhh
Q 009666 486 PLVCDIHKERLAAVSFTLDIMC 507 (529)
Q Consensus 486 ~~ptEaHKQRMALIRKtiK~m~ 507 (529)
...+++-+.++..|++.|+.+.
T Consensus 96 ~~~d~~lk~~v~~L~~~l~~~~ 117 (124)
T PRK06030 96 LRDDAAFDARVSVLERIVNSAF 117 (124)
T ss_pred HhhCHHHHHHHHHHHHHHHHHH
Confidence 3345566777777777766553
No 183
>COG1132 MdlB ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]
Probab=39.94 E-value=41 Score=35.93 Aligned_cols=96 Identities=14% Similarity=0.145 Sum_probs=58.6
Q ss_pred CCHHHHHHHHHhhC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccc
Q 009666 402 LTKRSIQELVNQID-PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEI 480 (529)
Q Consensus 402 LtKrKLqELVrqID-PsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEI 480 (529)
++.+.|++.+.=|. ...-+++.+.|-|.--.+|.-|+-+..||++| .+.|.-..|.+-||-.|-
T Consensus 396 i~~~~lr~~I~~V~Qd~~LF~~TI~~NI~~g~~~at~eei~~a~k~a--------~~~d~I~~lp~g~dt~vg------- 460 (567)
T COG1132 396 ISLDSLRKRIGIVSQDPLLFSGTIRENIALGRPDATDEEIEEALKLA--------NAHEFIANLPDGYDTIVG------- 460 (567)
T ss_pred cCHHHHHHhccEEcccceeecccHHHHHhcCCCCCCHHHHHHHHHHh--------ChHHHHHhCcccccceec-------
Confidence 34444444444332 23457777777776554556667777888887 355655555444444431
Q ss_pred cccCCCCCchHHHHHHHHHHHHHhhhhhheeeecc
Q 009666 481 KTFRKPLVCDIHKERLAAVSFTLDIMCLLVIYKDA 515 (529)
Q Consensus 481 R~~RK~~ptEaHKQRMALIRKtiK~m~~~~~~~~~ 515 (529)
.+-..-+..-|||+++.|.-+|+.- ++|..+|
T Consensus 461 --e~G~~LSgGQrQrlaiARall~~~~-ILILDEa 492 (567)
T COG1132 461 --ERGVNLSGGQRQRLAIARALLRNPP-ILILDEA 492 (567)
T ss_pred --CCCccCCHHHHHHHHHHHHHhcCCC-EEEEecc
Confidence 1334456788999999999999984 4444444
No 184
>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=39.84 E-value=20 Score=37.73 Aligned_cols=68 Identities=22% Similarity=0.200 Sum_probs=49.9
Q ss_pred HHHHHHHhhhhcCCCCcchhhHHHHHhhccC----cccC-CCCcccc----cccCC------------CCCchHHHHHHH
Q 009666 439 ITMFGCSLAKHRKSDTLEAKDILVHLERNWN----MTLP-GFSGDEI----KTFRK------------PLVCDIHKERLA 497 (529)
Q Consensus 439 Vvs~ACrLAKHRKSdTLEvKDVQLhLERnWN----I~IP-GFssDEI----R~~RK------------~~ptEaHKQRMA 497 (529)
+++..|.|-.+|+-+ +.-.+|.-.|++.+| |||| |+..|+. ..+-| ....+.|.+++.
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 678899999999987 788999999999998 5677 5665542 11111 123456778888
Q ss_pred HHHHHHhhhh
Q 009666 498 AVSFTLDIMC 507 (529)
Q Consensus 498 LIRKtiK~m~ 507 (529)
.+++.|++++
T Consensus 241 ~~~~~L~~~~ 250 (357)
T TIGR03380 241 EAYDVLSNTT 250 (357)
T ss_pred HHHHHHHhhh
Confidence 8888888874
No 185
>PRK06620 hypothetical protein; Validated
Probab=39.57 E-value=1.2e+02 Score=29.13 Aligned_cols=46 Identities=13% Similarity=-0.047 Sum_probs=24.7
Q ss_pred CCCCCHHHHHHHHHHHH---HHHHHHHHHHHHhhhhcCCCCcchhhHHHH
Q 009666 417 SERLDPDVEDILVDIAE---DFVESITMFGCSLAKHRKSDTLEAKDILVH 463 (529)
Q Consensus 417 sesLDpDVEELLLeIAD---DFVDsVvs~ACrLAKHRKSdTLEvKDVQLh 463 (529)
+..|++||.+.|++-++ ..++++++.....|+.++. .|++..|+-+
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 45788888888887655 2334444443333444442 3555555433
No 186
>PRK09862 putative ATP-dependent protease; Provisional
Probab=39.54 E-value=85 Score=34.69 Aligned_cols=48 Identities=10% Similarity=0.152 Sum_probs=42.0
Q ss_pred CCCCHHHHHHHHHHHHHH------HHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009666 418 ERLDPDVEDILVDIAEDF------VESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (529)
Q Consensus 418 esLDpDVEELLLeIADDF------VDsVvs~ACrLAKHRKSdTLEvKDVQLhLE 465 (529)
..+++++.++|.+.+++| .+.++.-|-.+|..++++.|+..||...|+
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 468888999888888777 677888899999999999999999988876
No 187
>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=39.49 E-value=57 Score=27.40 Aligned_cols=35 Identities=20% Similarity=0.461 Sum_probs=26.8
Q ss_pred HHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 009666 406 SIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFG 443 (529)
Q Consensus 406 KLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~A 443 (529)
.++.-+ +||..+ |++.++.+++-|.++|.+.+...
T Consensus 4 ~vK~~L-rId~d~--dD~li~~~i~aA~~~i~~~ig~~ 38 (91)
T TIGR01560 4 EVKLSL-RIDHDD--DDELIKLMIAAAQDYIQSAIGTG 38 (91)
T ss_pred HHHhHh-cCCCCc--cHHHHHHHHHHHHHHHHHHhCCC
Confidence 455555 578775 89999999999999998876543
No 188
>KOG3598 consensus Thyroid hormone receptor-associated protein complex, subunit TRAP230 [Transcription]
Probab=39.19 E-value=7.8 Score=47.82 Aligned_cols=8 Identities=50% Similarity=0.580 Sum_probs=6.5
Q ss_pred cccccccc
Q 009666 191 QGMGVMGS 198 (529)
Q Consensus 191 Q~mG~mGs 198 (529)
|.||+-|+
T Consensus 1994 qa~g~~~~ 2001 (2220)
T KOG3598|consen 1994 QAMGNTSS 2001 (2220)
T ss_pred hccCCCCC
Confidence 78888777
No 189
>PRK13556 azoreductase; Provisional
Probab=38.78 E-value=36 Score=31.95 Aligned_cols=82 Identities=20% Similarity=0.086 Sum_probs=48.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccccccCC----CCCchH---HHHHHHHHHH
Q 009666 429 VDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKTFRK----PLVCDI---HKERLAAVSF 501 (529)
Q Consensus 429 LeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEIR~~RK----~~ptEa---HKQRMALIRK 501 (529)
..|++.|++.+.. +|. ..+|++.|+ |++.||.++.|++....+ ...+++ ....+..+.+
T Consensus 20 ~~l~~~~~~~~~~------~~~-~~~V~~~DL-------~~~~~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (208)
T PRK13556 20 VKLYEAFLASYKE------AHP-NDTVVELDL-------YKEELPYVGVDMINGTFKAGKGFELTEEEAKAVAVADKYLN 85 (208)
T ss_pred HHHHHHHHHHHHH------hCC-CCeEEEEeC-------CCCCCCCCCHHHHHhhccccccccCCHHHHHHHHHHHHHHH
Confidence 4566777775442 233 346788887 788889888876643211 222343 3345556666
Q ss_pred HHhhhhhheee---------------ecceeeEeeeee
Q 009666 502 TLDIMCLLVIY---------------KDACLSVHFTYH 524 (529)
Q Consensus 502 tiK~m~~~~~~---------------~~~~~~~~~~~~ 524 (529)
.|+++=.+||. -|-++...+||.
T Consensus 86 ~l~~AD~iVi~~P~yn~~~Pa~LK~~iD~v~~~g~tf~ 123 (208)
T PRK13556 86 QFLEADKVVFAFPLWNFTIPAVLHTYIDYLNRAGKTFK 123 (208)
T ss_pred HHHHCCEEEEeccccccCCcHHHHHHHHHHhcCCceee
Confidence 67777666652 356666666664
No 190
>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=38.62 E-value=1.6e+02 Score=26.37 Aligned_cols=34 Identities=9% Similarity=0.203 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 434 DFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 434 DFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
+++.-++.+-.++++|...+..+++.+..++-.+
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 5566677788888888888888888887766554
No 191
>PF01725 Ham1p_like: Ham1 family; InterPro: IPR002637 This family contains the Saccharomyces cerevisiae (Baker's yeast) HAM1 protein P47119 from SWISSPROT and other hypothetical archaeal, bacterial and Caenorhabditis elegans proteins. S. cerevisiae HAM1 protects against the mutagenic effects of the base analog 6-N-hydroxylaminopurine (HAP) which can be a natural product of monooxygenase activity on adenine. HAM1 protein protects the cell from HAP, either on the level of deoxynucleoside triphosphate or the DNA level by a yet unidentified set of reactions [].; GO: 0016787 hydrolase activity; PDB: 3TQU_A 1VP2_B 3S86_D 1B78_A 2MJP_B 2Q16_A 2PYU_A 1K7K_A 2ZTI_A 2DVP_A ....
Probab=38.53 E-value=15 Score=34.80 Aligned_cols=69 Identities=19% Similarity=0.241 Sum_probs=44.0
Q ss_pred CHHHHHHHHHhhCCCC-------CCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCC
Q 009666 403 TKRSIQELVNQIDPSE-------RLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGF 475 (529)
Q Consensus 403 tKrKLqELVrqIDPse-------sLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGF 475 (529)
++.|+.|+-.-+++.. .+.....| +-|..++|.+++...|-.+++.-+.-+| +.|-=|+++---| +||.
T Consensus 7 N~~K~~E~~~~l~~~~i~v~~~~~~~~~~~~-~~E~~~t~~enA~~KA~~~~~~~~~pvi-~dDSGL~v~aL~g--~PG~ 82 (189)
T PF01725_consen 7 NKGKIREIQELLKPLGIEVISLIDLPEPDPE-PEETGETFEENALIKAKAAAQQLGKPVI-ADDSGLEVDALNG--FPGV 82 (189)
T ss_dssp -HHHHHHHHHHCTTTTEEEEECEEECEE-------BSSSHHHHHHHHHHHHHHHHSSSEE-EEEEEEEEGGGTT--TBGG
T ss_pred CHHHHHHHHHHHhhcCCcEEeHHHcCccCcC-CCcCCCCHHHHHHHHHHHHHHHhCCCEE-EeCcEEeHhhhCC--CcCC
Confidence 5788888887776542 22222122 2455899999999999999999877754 8887666665333 4554
No 192
>PTZ00252 histone H2A; Provisional
Probab=38.44 E-value=82 Score=29.85 Aligned_cols=68 Identities=10% Similarity=0.183 Sum_probs=56.8
Q ss_pred CccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhc--CCCCcchhhHHHHHhh
Q 009666 399 NRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHR--KSDTLEAKDILVHLER 466 (529)
Q Consensus 399 nrILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHR--KSdTLEvKDVQLhLER 466 (529)
+-.+.=-+++.++++-.-.+.|...+--.|..+-|-.+.+|++.|...|+.+ |...|..++|++.+..
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 4456677899999987767899998888999999999999999999999763 5567889999988754
No 193
>COG5240 SEC21 Vesicle coat complex COPI, gamma subunit [Intracellular trafficking and secretion]
Probab=38.43 E-value=1.4e+02 Score=34.93 Aligned_cols=22 Identities=23% Similarity=0.428 Sum_probs=18.0
Q ss_pred CCCCHHHHHHHHHHHHHHHHHH
Q 009666 418 ERLDPDVEDILVDIAEDFVESI 439 (529)
Q Consensus 418 esLDpDVEELLLeIADDFVDsV 439 (529)
.+.|+|..|..|+.-=+||||+
T Consensus 441 ~~~~p~skEraLe~LC~fIEDc 462 (898)
T COG5240 441 MENDPDSKERALEVLCTFIEDC 462 (898)
T ss_pred HhhCchHHHHHHHHHHHHHhhc
Confidence 4678888888888888999983
No 194
>PF13565 HTH_32: Homeodomain-like domain
Probab=38.22 E-value=37 Score=26.66 Aligned_cols=35 Identities=17% Similarity=0.461 Sum_probs=27.3
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 421 DPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 421 DpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
|+++++.|++++++.- ....+.|.-+|+++||+.+
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 5788999999999999875
No 195
>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=38.17 E-value=36 Score=30.08 Aligned_cols=31 Identities=26% Similarity=0.440 Sum_probs=22.3
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHH
Q 009666 405 RSIQELVNQIDPSERLDPDVEDILVDIAEDFVE 437 (529)
Q Consensus 405 rKLqELVrqIDPsesLDpDVEELLLeIADDFVD 437 (529)
|+|-+||+ .+++.--+--.++|.+++|+|||
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 196
>PRK15379 pathogenicity island 1 effector protein SopD; Provisional
Probab=37.93 E-value=34 Score=35.97 Aligned_cols=70 Identities=17% Similarity=0.311 Sum_probs=53.3
Q ss_pred CcCCccCCHHHHHHHHHhhCC--CCCCCHHHHHHHHHHHHHHHHHHH-------HHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 396 EFGNRILTKRSIQELVNQIDP--SERLDPDVEDILVDIAEDFVESIT-------MFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 396 e~~nrILtKrKLqELVrqIDP--sesLDpDVEELLLeIADDFVDsVv-------s~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
+-++.||.+.+|+++++--|. -+.|+.|-+|++++|++.+=+.|. .+|..|-|.-..+. ++||-.+-|-|
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 568899999999999985443 358999999999999998766554 46667777666664 78887655544
No 197
>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=37.82 E-value=81 Score=32.82 Aligned_cols=76 Identities=14% Similarity=0.172 Sum_probs=47.2
Q ss_pred HHHHHHHHHhhCCCCCCCHHHH-HH------HHHHHHHHHHHHHHHHHHhh-----hhcCCCCcchhhHHHHHhhccCcc
Q 009666 404 KRSIQELVNQIDPSERLDPDVE-DI------LVDIAEDFVESITMFGCSLA-----KHRKSDTLEAKDILVHLERNWNMT 471 (529)
Q Consensus 404 KrKLqELVrqIDPsesLDpDVE-EL------LLeIADDFVDsVvs~ACrLA-----KHRKSdTLEvKDVQLhLERnWNI~ 471 (529)
..-|.+|.+..|.-..||.|.- +. -.+.+|+-|-..+..-...- +..+.-.+|+.||.-.|+. +|+.
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 4568888888887777776642 11 12333333333332222222 2355667999999999965 6999
Q ss_pred cCCCCcccc
Q 009666 472 LPGFSGDEI 480 (529)
Q Consensus 472 IPGFssDEI 480 (529)
+-||+..+.
T Consensus 230 ~iG~g~~~~ 238 (349)
T cd02202 230 TIGYAREDL 238 (349)
T ss_pred EEEEEEEcc
Confidence 999987654
No 198
>PRK00982 acpP acyl carrier protein; Provisional
Probab=37.70 E-value=30 Score=27.50 Aligned_cols=30 Identities=20% Similarity=0.542 Sum_probs=23.9
Q ss_pred HhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009666 445 SLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (529)
Q Consensus 445 rLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (529)
.+-.--|-|.|.+-+|...||+.||+.|+-
T Consensus 28 ~l~~dlglDSl~~~~li~~le~~f~i~i~~ 57 (78)
T PRK00982 28 SFVDDLGADSLDTVELVMALEEEFGIEIPD 57 (78)
T ss_pred chHhhcCCCHHHHHHHHHHHHHHHCCCcCH
Confidence 343335788889999999999999999864
No 199
>PHA00440 host protein H-NS-interacting protein
Probab=37.59 E-value=75 Score=28.84 Aligned_cols=44 Identities=20% Similarity=0.318 Sum_probs=36.4
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHh
Q 009666 403 TKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSL 446 (529)
Q Consensus 403 tKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrL 446 (529)
=++.|.+|.+.++.++.+|+--.++|.+-.-+=.|-++.|+.+-
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 200
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=37.58 E-value=78 Score=32.94 Aligned_cols=63 Identities=14% Similarity=0.113 Sum_probs=39.9
Q ss_pred CCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHhhh-hcCCCCcchhhHHHHH
Q 009666 402 LTKRSIQELVNQID--PSERLDPDVEDILVDIAED---FVESITMFGCSLAK-HRKSDTLEAKDILVHL 464 (529)
Q Consensus 402 LtKrKLqELVrqID--PsesLDpDVEELLLeIADD---FVDsVvs~ACrLAK-HRKSdTLEvKDVQLhL 464 (529)
++...|.+.++++- .+..||+++.++|.++++. .+.+.++..+.++. +-...+|+.+||.-.+
T Consensus 186 l~~~ei~~~l~~~~~~~g~~i~~~al~~l~~~s~g~lr~a~~~L~kl~~~~~~~~~~~~It~~~v~~~v 254 (397)
T PRK14955 186 IPLEEIQQQLQGICEAEGISVDADALQLIGRKAQGSMRDAQSILDQVIAFSVESEGEGSIRYDKVAELL 254 (397)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccccCCCCccCHHHHHHHH
Confidence 34555555555442 3457999999999999987 44455556666664 2233467777886554
No 201
>PRK07764 DNA polymerase III subunits gamma and tau; Validated
Probab=37.55 E-value=37 Score=39.43 Aligned_cols=66 Identities=9% Similarity=0.099 Sum_probs=41.9
Q ss_pred cCCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 401 ILTKRSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 401 ILtKrKLqELVrqID--PsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
.|+.+.|.++|++|- .+..+|+++.++|+++++.=+.++++..=+|+..-+.+.|+.+||.-.|..
T Consensus 178 ~l~~~~l~~~L~~il~~EGv~id~eal~lLa~~sgGdlR~Al~eLEKLia~~~~~~IT~e~V~allg~ 245 (824)
T PRK07764 178 LVPPEVMRGYLERICAQEGVPVEPGVLPLVIRAGGGSVRDSLSVLDQLLAGAGPEGVTYERAVALLGV 245 (824)
T ss_pred CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCCCCCHHHHHHHhcC
Confidence 356777887777763 345679999999888877644444444434443333455777777655443
No 202
>PRK14975 bifunctional 3'-5' exonuclease/DNA polymerase; Provisional
Probab=37.48 E-value=2.4e+02 Score=31.10 Aligned_cols=64 Identities=16% Similarity=0.114 Sum_probs=44.2
Q ss_pred CCCCCCHHHHHHHHHHHH----------HHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccc
Q 009666 416 PSERLDPDVEDILVDIAE----------DFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEI 480 (529)
Q Consensus 416 PsesLDpDVEELLLeIAD----------DFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEI 480 (529)
.+..+|.++-+.++.-.+ +-++.+......++.....+.-..++|.-.|++ .|+.++....+.+
T Consensus 176 ~Gi~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~g~~~~n~~S~~ql~~~L~~-~g~~~~~t~~~~L 249 (553)
T PRK14975 176 AGLPWDTDVHEALLAELLGPRPAAGGRPARLAELAAEIREALGRPRLNPDSPQQVLRALRR-AGIELPSTRKWEL 249 (553)
T ss_pred hCeEeCHHHHHHHHHHHhcccccccchHHHHHHHHHHHHHHhCCCCCCCCCHHHHHHHHHH-CCCCCCCCcHHHh
Confidence 467888887666665555 667777777777776654555568899888854 7887766654444
No 203
>COG0236 AcpP Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=37.48 E-value=11 Score=30.75 Aligned_cols=29 Identities=17% Similarity=0.382 Sum_probs=24.3
Q ss_pred cCCCCcchhhHHHHHhhccCcccCCCCcc
Q 009666 450 RKSDTLEAKDILVHLERNWNMTLPGFSGD 478 (529)
Q Consensus 450 RKSdTLEvKDVQLhLERnWNI~IPGFssD 478 (529)
-+.|.|++-++-+.||+.||+.||.--.+
T Consensus 35 lg~DSld~veLi~~lE~~f~i~i~~e~~~ 63 (80)
T COG0236 35 LGLDSLDLVELVMALEEEFGIEIPDEELE 63 (80)
T ss_pred cCccHHHHHHHHHHHHHHHCCcCCHHHHH
Confidence 47788999999999999999999865443
No 204
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=37.29 E-value=88 Score=32.88 Aligned_cols=61 Identities=11% Similarity=0.135 Sum_probs=48.3
Q ss_pred CHHHHHHHHHhh----CCCCCCCHHHHHHHHHHHHHHH------HHHHHHHHHhhhhcCCCCcchhhHHHH
Q 009666 403 TKRSIQELVNQI----DPSERLDPDVEDILVDIAEDFV------ESITMFGCSLAKHRKSDTLEAKDILVH 463 (529)
Q Consensus 403 tKrKLqELVrqI----DPsesLDpDVEELLLeIADDFV------DsVvs~ACrLAKHRKSdTLEvKDVQLh 463 (529)
+...|.+.|++= -....+|++|.++...++...- -+++..|+.+|..++++++...||...
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 455566555432 2346899999999998887644 689999999999999999999999777
No 205
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=37.15 E-value=1.6e+02 Score=31.74 Aligned_cols=33 Identities=12% Similarity=0.191 Sum_probs=15.2
Q ss_pred cCCHHHHHHHHHhhCCCC-CCCHHHHHHHHHHHH
Q 009666 401 ILTKRSIQELVNQIDPSE-RLDPDVEDILVDIAE 433 (529)
Q Consensus 401 ILtKrKLqELVrqIDPse-sLDpDVEELLLeIAD 433 (529)
.+++.+-.+|+.+|-.+. .+++.+..+|..++|
T Consensus 317 ~i~~~~K~~ll~~l~~~~~~~~~~~~nfl~~lv~ 350 (445)
T PRK13428 317 TVPADGRVALLRKVLGGASTVNPVTVALLSQTVE 350 (445)
T ss_pred CCCHHHHHHHHHHHHhccccCCHHHHHHHHHHHH
Confidence 344444445555443222 455555555544444
No 206
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=36.94 E-value=39 Score=39.94 Aligned_cols=63 Identities=22% Similarity=0.180 Sum_probs=45.7
Q ss_pred CHHHHHHHHHhhCCCCCC-CH-HHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 403 TKRSIQELVNQIDPSERL-DP-DVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 403 tKrKLqELVrqIDPsesL-Dp-DVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
...||.++|+..|.++.+ |- .+.++|.+- +..+.|..|||.++.. ..+-||.++.+.||..-|
T Consensus 446 d~~kL~efI~~~~~g~~~fd~e~al~Ilr~s------nyl~~a~~LA~k~~~h-e~vl~ille~~~ny~eAl 510 (933)
T KOG2114|consen 446 DVEKLTEFISKCDKGEWFFDVETALEILRKS------NYLDEAELLATKFKKH-EWVLDILLEDLHNYEEAL 510 (933)
T ss_pred chHHHHHHHhcCCCcceeeeHHHHHHHHHHh------ChHHHHHHHHHHhccC-HHHHHHHHHHhcCHHHHH
Confidence 578899999988865544 32 244444432 5667888999988884 579999999999887554
No 207
>PHA02944 hypothetical protein; Provisional
Probab=36.68 E-value=30 Score=33.93 Aligned_cols=45 Identities=16% Similarity=0.241 Sum_probs=35.1
Q ss_pred CCHHHHHHHHHhh-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHh
Q 009666 402 LTKRSIQELVNQI-DPSERLDPDVEDILVDIAEDFVESITMFGCSL 446 (529)
Q Consensus 402 LtKrKLqELVrqI-DPsesLDpDVEELLLeIADDFVDsVvs~ACrL 446 (529)
=.++++.+||++| -..+.|-.||+..+.|..-+.|..+++....-
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 46778899999999988888888877765443
No 208
>PRK05574 holA DNA polymerase III subunit delta; Reviewed
Probab=36.68 E-value=1.4e+02 Score=29.30 Aligned_cols=67 Identities=9% Similarity=0.073 Sum_probs=44.2
Q ss_pred CCHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcc
Q 009666 402 LTKRSIQELVNQI--DPSERLDPDVEDILVDIAED---FVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMT 471 (529)
Q Consensus 402 LtKrKLqELVrqI--DPsesLDpDVEELLLeIADD---FVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~ 471 (529)
++++.+.++|+++ +-+..|++++.+.|++.... ++.+-++.-|.++.. ..|+..||.-.+-..-...
T Consensus 146 ~~~~~~~~~i~~~~~~~g~~i~~~a~~~L~~~~~~d~~~l~~El~KL~l~~~~---~~It~~~I~~~i~~~~~~~ 217 (340)
T PRK05574 146 PKEAELPQWIQQRLKQQGLQIDAAALQLLAERVEGNLLALAQELEKLALLYPD---GKITLEDVEEAVPDSARFD 217 (340)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCchHHHHHHHHHHHHhhcCC---CCCCHHHHHHHHhhhhcCC
Confidence 5677777777665 35668999999999998864 344444555545433 2289999976665544333
No 209
>PF09684 Tail_P2_I: Phage tail protein (Tail_P2_I); InterPro: IPR006521 These sequences represent a family of phage tail proteins from phage P2 protein and related temperates phage of Gram-negative bacteria.
Probab=36.56 E-value=53 Score=29.21 Aligned_cols=88 Identities=16% Similarity=0.106 Sum_probs=50.0
Q ss_pred HHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCc-ccCCCCcccccccCCCCCchHHHHHHHHHHHHHhhhhhhee
Q 009666 433 EDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNM-TLPGFSGDEIKTFRKPLVCDIHKERLAAVSFTLDIMCLLVI 511 (529)
Q Consensus 433 DDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI-~IPGFssDEIR~~RK~~ptEaHKQRMALIRKtiK~m~~~~~ 511 (529)
|++...+......+.....-+++ -.++.=+|-..|++ .+.+.-.+| ..|+.........|..-=+..|+++...+-
T Consensus 13 ~~~~~~~~~~~~~i~~~~~~~~~-~~~~L~~LA~~~~v~~~~~~~~~~--~kR~li~~a~~~~r~kGT~~al~~~l~~lg 89 (139)
T PF09684_consen 13 AALLARLQEDIDSIRTLWDPDTC-PEALLPWLAWELGVDEWDPAWPEE--QKRRLIKNAIEWHRYKGTPAALRRALEWLG 89 (139)
T ss_pred HHHHhHHHhhhHHHHHhcCcccC-CHHHHHHHHHHhCcCccCCCCCHH--HHHHHHHHHHHHHHHcCCHHHHHHHHHHcC
Confidence 35555566666666666667765 44677888888888 322222222 124444444445555444455555555443
Q ss_pred eecceeeEeeeee
Q 009666 512 YKDACLSVHFTYH 524 (529)
Q Consensus 512 ~~~~~~~~~~~~~ 524 (529)
| ++++.-+|.|+
T Consensus 90 ~-~~~i~E~~~~~ 101 (139)
T PF09684_consen 90 Y-EAEIIEWFEYD 101 (139)
T ss_pred C-CeeeeeccccC
Confidence 4 88877777765
No 210
>TIGR01128 holA DNA polymerase III, delta subunit. subunit around DNA forming a DNA sliding clamp.
Probab=36.31 E-value=1.4e+02 Score=28.51 Aligned_cols=67 Identities=12% Similarity=0.167 Sum_probs=45.0
Q ss_pred CCHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcc
Q 009666 402 LTKRSIQELVNQI--DPSERLDPDVEDILVDIAED---FVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMT 471 (529)
Q Consensus 402 LtKrKLqELVrqI--DPsesLDpDVEELLLeIADD---FVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~ 471 (529)
++.+.+.++|+++ .-+..||+++.+.|++.++. .+.+-++.-|.+++.+ .|+.+||.-.+...-...
T Consensus 111 ~~~~~~~~~i~~~~~~~g~~i~~~a~~~l~~~~~~d~~~l~~el~KL~~~~~~~---~It~e~I~~~~~~~~~~~ 182 (302)
T TIGR01128 111 PKEQELPRWIQARLKKLGLRIDPDAVQLLAELVEGNLLAIAQELEKLALYAPDG---KITLEDVEEAVSDSARFN 182 (302)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhCcHHHHHHHHHHHHHhhCCCC---CCCHHHHHHHHhhhhcCC
Confidence 5677777777765 34668999999999988864 3344455555555433 589999977665544443
No 211
>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]
Probab=36.29 E-value=1.8e+02 Score=32.28 Aligned_cols=93 Identities=19% Similarity=0.162 Sum_probs=59.5
Q ss_pred CCHHHHHHHHHh--hCCC-------CCCCHHHHHHHHHHHHHHH---HHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009666 402 LTKRSIQELVNQ--IDPS-------ERLDPDVEDILVDIAEDFV---ESITMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (529)
Q Consensus 402 LtKrKLqELVrq--IDPs-------esLDpDVEELLLeIADDFV---DsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWN 469 (529)
|+...|..+|++ .|.. ..||+++.++|++++|-=+ =+.++.+..++|..+ .+.+.+++-+|.|...
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 367777777777 3332 3477999999999977433 356778888888666 5557888777777544
Q ss_pred cccCCCCcc--------cccccCCCCCchH--HHHHHHH
Q 009666 470 MTLPGFSGD--------EIKTFRKPLVCDI--HKERLAA 498 (529)
Q Consensus 470 I~IPGFssD--------EIR~~RK~~ptEa--HKQRMAL 498 (529)
.. -..+| -+|++|-..++.+ +.-||-.
T Consensus 241 ~~--Dk~gD~hYdliSA~hKSvRGSD~dAALyylARmi~ 277 (436)
T COG2256 241 RF--DKDGDAHYDLISALHKSVRGSDPDAALYYLARMIE 277 (436)
T ss_pred cc--CCCcchHHHHHHHHHHhhccCCcCHHHHHHHHHHh
Confidence 21 11122 2466666666653 5666643
No 212
>KOG1103 consensus Predicted coiled-coil protein [Function unknown]
Probab=36.15 E-value=99 Score=33.95 Aligned_cols=70 Identities=27% Similarity=0.333 Sum_probs=49.5
Q ss_pred CcCCccCCHHHHHHHHHhhCCCCCCCHHHHHHHH--HHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccC
Q 009666 396 EFGNRILTKRSIQELVNQIDPSERLDPDVEDILV--DIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLP 473 (529)
Q Consensus 396 e~~nrILtKrKLqELVrqIDPsesLDpDVEELLL--eIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IP 473 (529)
|.+-.-|+|..|..|+.-+.+...--+||+|.|. +--|-||+ ||+- .+.+.|-...|.|.|.|.
T Consensus 6 eqgvnd~Sk~ELl~LfS~lEGEleARd~VIdaLKraqhkd~fiE---------~kYG---K~NinDP~~ALqRDf~~l-- 71 (561)
T KOG1103|consen 6 EQGVNDFSKDELLKLFSFLEGELEARDDVIDALKRAQHKDLFIE---------AKYG---KLNINDPFAALQRDFAIL-- 71 (561)
T ss_pred hccccccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHH---------Hhhc---ccccCChHHHHHHHHHHH--
Confidence 3445558899999999988888888889999887 34455665 2332 366788888999977654
Q ss_pred CCCccc
Q 009666 474 GFSGDE 479 (529)
Q Consensus 474 GFssDE 479 (529)
|--.||
T Consensus 72 ~Ek~D~ 77 (561)
T KOG1103|consen 72 GEKIDE 77 (561)
T ss_pred hccccc
Confidence 444444
No 213
>smart00760 Bac_DnaA_C Bacterial dnaA protein helix-turn-helix domain. Could be involved in DNA-binding.
Probab=36.01 E-value=15 Score=28.61 Aligned_cols=47 Identities=30% Similarity=0.466 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc-cCcccC
Q 009666 424 VEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN-WNMTLP 473 (529)
Q Consensus 424 VEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn-WNI~IP 473 (529)
+++++-.+|+.| +|-. .--+.+-|+.+..++|.|..+|-++ +|+.+.
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 567777778887 3322 2246777888889999999999887 666654
No 214
>cd04519 RasGAP RasGAP: Ras-GTPase Activating Domain. RasGAP functions as an enhancer of the hydrolysis of GTP that is bound to Ras-GTPases. Proteins having a RasGAP domain include p120GAP, IQGAP, Rab5-activating protein 6, and Neurofibromin. Although the Rho (Ras homolog) GTPases are most closely related to members of the Ras family, RhoGAP and RasGAP show no sequence homology at their amino acid level. RasGTPases function as molecular switches in a myriad of signaling pathways. When bound to GTP they are in the on state and when bound to GDP they are in the off state. The RasGap domain speeds up the hydrolysis of GTP in Ras-like proteins acting as a negative regulator.
Probab=35.91 E-value=1.4e+02 Score=28.76 Aligned_cols=84 Identities=13% Similarity=0.092 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhh---------------hcCCCCcchhhH-HHHHhhccCcccCCCCcccccccCCCCCc
Q 009666 426 DILVDIAEDFVESITMFGCSLAK---------------HRKSDTLEAKDI-LVHLERNWNMTLPGFSGDEIKTFRKPLVC 489 (529)
Q Consensus 426 ELLLeIADDFVDsVvs~ACrLAK---------------HRKSdTLEvKDV-QLhLERnWNI~IPGFssDEIR~~RK~~pt 489 (529)
+.|.+++++|++.|+.....+-. +...+.....=| -|.+.|-.+ |.+.+-+.-......++
T Consensus 128 ~~l~~~~~~~~~~i~~s~~~~P~~lr~i~~~i~~~~~~~f~~~~~~~~~v~~f~flRfi~---Pai~sP~~~~~~~~~~~ 204 (318)
T cd04519 128 ENLRELLEKFLDAIISSLDSLPPGLRYICKQLYESVAEKFPEEDEALSAVGGFLFLRFIC---PAIVSPELFGIIDDKPS 204 (318)
T ss_pred HHHHHHHHHHHHHHHHhHHhCCHHHHHHHHHHHHHHHHHCCCccchHHHHHHHHHHHHhh---hHhcCHHhcCCcCCCCC
Confidence 56889999999998865433322 111110000001 233334332 33333322222222337
Q ss_pred hHHHHHHHHHHHHHhhhhhheee
Q 009666 490 DIHKERLAAVSFTLDIMCLLVIY 512 (529)
Q Consensus 490 EaHKQRMALIRKtiK~m~~~~~~ 512 (529)
+..+..+.+|.|.|..++..+-+
T Consensus 205 ~~~~r~L~~iakvlq~lan~~~~ 227 (318)
T cd04519 205 PKARRNLTLIAKVLQNLANGKLF 227 (318)
T ss_pred HhhhhHHHHHHHHHHHHhCCCcc
Confidence 88889999999999999988766
No 215
>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=35.88 E-value=64 Score=33.62 Aligned_cols=53 Identities=15% Similarity=0.083 Sum_probs=41.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhh----hcCCC-CcchhhHHHHHhhcc
Q 009666 416 PSERLDPDVEDILVDIAEDFVESITMFGCSLAK----HRKSD-TLEAKDILVHLERNW 468 (529)
Q Consensus 416 PsesLDpDVEELLLeIADDFVDsVvs~ACrLAK----HRKSd-TLEvKDVQLhLERnW 468 (529)
.....+++|.++|.+++++....+....-.++| ..|.+ +|+.=|+.|+.++.-
T Consensus 62 ~m~~~~~~v~~fL~~~~~~~~p~~~~~~~~l~~~~~~~~g~~~~l~~wD~~y~~~~~~ 119 (458)
T PF01432_consen 62 KMAKNPENVLDFLDELVKKLKPLLERELELLKKLKKKRLGLEKKLRPWDVAYYMEQYR 119 (458)
T ss_dssp STTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSSBBGGGHHHHHHHHH
T ss_pred hhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccccccchhHHHhhHHH
Confidence 356778899999999999888877777777777 77777 899999987766644
No 216
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=35.74 E-value=37 Score=39.20 Aligned_cols=66 Identities=21% Similarity=0.333 Sum_probs=46.8
Q ss_pred HHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhh---------hhcCCCCcchhhHHHHHhhccCccc
Q 009666 406 SIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLA---------KHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 406 KLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLA---------KHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
.+.+++.+.|.-..||+...|.|+.|+-||..--+...|..| +.|-+- .+.--|--+|+..|+|..
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 445566666666789999999999999999764333334433 334333 366678899999999875
No 217
>PF13654 AAA_32: AAA domain; PDB: 3K1J_B.
Probab=35.58 E-value=1.1e+02 Score=33.76 Aligned_cols=66 Identities=12% Similarity=0.183 Sum_probs=45.6
Q ss_pred CHHHHHHHHHhhC------CCCCCCHHHHHHHHHHHH-----------HHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009666 403 TKRSIQELVNQID------PSERLDPDVEDILVDIAE-----------DFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (529)
Q Consensus 403 tKrKLqELVrqID------PsesLDpDVEELLLeIAD-----------DFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLE 465 (529)
+...+..+++-|. .-..||.++...|++.+- ..|.+++..|.-+|+..+.+.|+..||+-.|+
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 4555555444442 234788888888877664 47889999999999999999999999999998
Q ss_pred hcc
Q 009666 466 RNW 468 (529)
Q Consensus 466 RnW 468 (529)
..+
T Consensus 505 ~r~ 507 (509)
T PF13654_consen 505 ERR 507 (509)
T ss_dssp H--
T ss_pred ccc
Confidence 754
No 218
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=35.48 E-value=51 Score=29.67 Aligned_cols=31 Identities=19% Similarity=0.417 Sum_probs=18.9
Q ss_pred CCCHH-HHHHHHHHH-HHHHHHHHHHHHHhhhhc
Q 009666 419 RLDPD-VEDILVDIA-EDFVESITMFGCSLAKHR 450 (529)
Q Consensus 419 sLDpD-VEELLLeIA-DDFVDsVvs~ACrLAKHR 450 (529)
-++++ ++++|-+|. .+||||. .+|..+++.+
T Consensus 39 g~~~~~i~~vl~~l~~~~~ldD~-~~a~~~~~~~ 71 (157)
T PRK00117 39 GFSEEVIEAVLDRLKEEGLLDDE-RFAESFVRSR 71 (157)
T ss_pred CCCHHHHHHHHHHHHHcCCCCHH-HHHHHHHHHH
Confidence 44555 444444443 4678777 7887777766
No 219
>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional
Probab=35.32 E-value=80 Score=33.74 Aligned_cols=70 Identities=14% Similarity=0.116 Sum_probs=52.1
Q ss_pred HHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhh-H-HHHHhhccCcccCCCCccccc
Q 009666 408 QELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKD-I-LVHLERNWNMTLPGFSGDEIK 481 (529)
Q Consensus 408 qELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKD-V-QLhLERnWNI~IPGFssDEIR 481 (529)
=||+.+||.-..|++--+|.|.+|+++-.+.++..-.++.+.++.+ |++.| + .+..++-|+. ++|.-.++
T Consensus 297 PEflgRld~iv~f~~L~~~~L~~Il~~~~~~l~~q~~~~l~~~~i~-L~~t~~al~~Ia~~~~~~---~~GAR~Lr 368 (412)
T PRK05342 297 PEFIGRLPVVATLEELDEEALVRILTEPKNALVKQYQKLFEMDGVE-LEFTDEALEAIAKKAIER---KTGARGLR 368 (412)
T ss_pred HHHhCCCCeeeecCCCCHHHHHHHHHHHHHHHHHHHHHHHHhCCcE-EEECHHHHHHHHHhCCCC---CCCCchHH
Confidence 4777888888888888889999999999999999888888888877 45544 3 3455555664 46665443
No 220
>PF11144 DUF2920: Protein of unknown function (DUF2920); InterPro: IPR022605 This bacterial family of proteins has no known function.
Probab=35.26 E-value=16 Score=39.53 Aligned_cols=15 Identities=27% Similarity=0.527 Sum_probs=10.8
Q ss_pred ecceeeEeeeeeccC
Q 009666 513 KDACLSVHFTYHCAG 527 (529)
Q Consensus 513 ~~~~~~~~~~~~~~~ 527 (529)
|--+..||.-|||-|
T Consensus 63 ~fnvv~I~V~YHCf~ 77 (403)
T PF11144_consen 63 KFNVVVISVNYHCFC 77 (403)
T ss_pred hCCEEEEEeeeehee
Confidence 344566788999976
No 221
>PF08157 NUC129: NUC129 domain; InterPro: IPR012579 This C-terminal domain is found in a novel family of hypothetical nucleolar proteins [].; GO: 0005634 nucleus
Probab=35.17 E-value=79 Score=26.79 Aligned_cols=46 Identities=24% Similarity=0.333 Sum_probs=32.4
Q ss_pred CHHHHHHHHHHHHHHHHHH----------HHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009666 421 DPDVEDILVDIAEDFVESI----------TMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (529)
Q Consensus 421 DpDVEELLLeIADDFVDsV----------vs~ACrLAKHRKSdTLEvKDVQLhLERnWN 469 (529)
|.++.+...+.|+|||.+. ++.-..|+..|...+ ---|+| +++.|+
T Consensus 8 d~~l~~~~QqaAk~Fi~~~LYGpgsnRTT~N~flSL~NKr~~vK--kAAvQF-v~k~Wg 63 (63)
T PF08157_consen 8 DQSLRDSQQQAAKDFIQSRLYGPGSNRTTVNEFLSLANKRLPVK--KAAVQF-VNKSWG 63 (63)
T ss_pred cchhhhHHHHHHHHHHHHhccCCCCCcccHHHHhhhhhcccccH--HHHHHH-HhhccC
Confidence 6788999999999999874 456667777666542 334444 566675
No 222
>PRK13551 agmatine deiminase; Provisional
Probab=35.16 E-value=28 Score=36.67 Aligned_cols=68 Identities=24% Similarity=0.215 Sum_probs=49.8
Q ss_pred HHHHHHHhhhhcCCCCcchhhHHHHHhhccC----cccC-CCCcccc----cccC------------CCCCchHHHHHHH
Q 009666 439 ITMFGCSLAKHRKSDTLEAKDILVHLERNWN----MTLP-GFSGDEI----KTFR------------KPLVCDIHKERLA 497 (529)
Q Consensus 439 Vvs~ACrLAKHRKSdTLEvKDVQLhLERnWN----I~IP-GFssDEI----R~~R------------K~~ptEaHKQRMA 497 (529)
+++..|.|-.+|+-+ +.-.+|.-.|++.+| |||| |+..|+. ..+- .....+.|.+++.
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 577889999999887 789999999999998 5677 5665542 1111 1223456778999
Q ss_pred HHHHHHhhhh
Q 009666 498 AVSFTLDIMC 507 (529)
Q Consensus 498 LIRKtiK~m~ 507 (529)
.+.+.|++++
T Consensus 244 ~~~~~L~~~~ 253 (362)
T PRK13551 244 AALEVLENTT 253 (362)
T ss_pred HHHHHHHhhh
Confidence 9988888874
No 223
>PRK09281 F0F1 ATP synthase subunit alpha; Validated
Probab=35.05 E-value=50 Score=36.42 Aligned_cols=34 Identities=21% Similarity=0.398 Sum_probs=24.9
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH
Q 009666 405 RSIQELVNQIDPSERLDPDVEDILVDIAEDFVES 438 (529)
Q Consensus 405 rKLqELVrqIDPsesLDpDVEELLLeIADDFVDs 438 (529)
.+..++++.|+.+..||+++++.|.++..+|++.
T Consensus 466 ~~~~~~~~~I~~~~~l~~~~~~~L~~~i~~~~~~ 499 (502)
T PRK09281 466 SNHADLLEEIRETKDLSDEIEAKLKAAIEEFKKT 499 (502)
T ss_pred HhhHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 4455666777777778888888888888888764
No 224
>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=35.01 E-value=18 Score=32.33 Aligned_cols=47 Identities=19% Similarity=0.342 Sum_probs=33.9
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhH
Q 009666 404 KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDI 460 (529)
Q Consensus 404 KrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDV 460 (529)
|+.+.+|+..| .++.=.+.|-+|+|++-..+++.|.++|.. |-++||
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 225
>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=35.01 E-value=50 Score=36.37 Aligned_cols=35 Identities=17% Similarity=0.451 Sum_probs=27.2
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH
Q 009666 404 KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVES 438 (529)
Q Consensus 404 KrKLqELVrqIDPsesLDpDVEELLLeIADDFVDs 438 (529)
+.+..++++.|+.+..||+++++.|.++..+|++.
T Consensus 464 ~~~~~~~~~~i~~~~~l~~~~~~~L~~~i~~~~~~ 498 (501)
T TIGR00962 464 DANHPDILEEINTKKKLTEELEDKLKEALKNFKKT 498 (501)
T ss_pred HHhhHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHh
Confidence 34455777788788888888888888888888764
No 226
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=34.93 E-value=2e+02 Score=29.90 Aligned_cols=18 Identities=44% Similarity=0.783 Sum_probs=13.3
Q ss_pred CCCCcccccccCccccccC
Q 009666 260 SPNTSQSVQSFNQPWLSSG 278 (529)
Q Consensus 260 ~p~sSq~~Q~~~Q~WL~~~ 278 (529)
.++.+.+ ...|++|.+.+
T Consensus 53 ~~~~~~~-~~~~qq~~s~~ 70 (258)
T KOG1142|consen 53 SPTCSIR-ENPNQQWISTG 70 (258)
T ss_pred CCccccc-CCCCccccccc
Confidence 4456667 77899999884
No 227
>PRK06249 2-dehydropantoate 2-reductase; Provisional
Probab=34.70 E-value=35 Score=33.84 Aligned_cols=31 Identities=10% Similarity=-0.139 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 435 FVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 435 FVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
.+..++...+.+|+-.+-+ ++..++...++.
T Consensus 224 l~~~~~~E~~~va~a~Gi~-~~~~~~~~~~~~ 254 (313)
T PRK06249 224 LIRALMAEVIQGAAACGHT-LPEGYADHMLAV 254 (313)
T ss_pred HHHHHHHHHHHHHHhcCCC-CChhHHHHHHHH
Confidence 3344444555566655544 444444444433
No 228
>KOG3821 consensus Heparin sulfate cell surface proteoglycan [Signal transduction mechanisms]
Probab=34.61 E-value=47 Score=37.52 Aligned_cols=117 Identities=15% Similarity=0.168 Sum_probs=64.6
Q ss_pred HHHHHHHHhhCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC-cccCCCCcccccc
Q 009666 405 RSIQELVNQIDPS-ERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN-MTLPGFSGDEIKT 482 (529)
Q Consensus 405 rKLqELVrqIDPs-esLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWN-I~IPGFssDEIR~ 482 (529)
.-++||..+|.-- ..-+..+||+|- ||-++....+..++- .-.--..|....|++.+. |..-|.....|+.
T Consensus 139 ~~~~dlFtel~~y~~~~~~nlee~l~----eff~~Lf~~~f~~l~---~~~~~~~Dy~eCl~~~~~~l~pFGdiPq~l~~ 211 (563)
T KOG3821|consen 139 ELFNDLFTELKLYYVGSNVNLEETLN----EFFARLFEVMFSQLN---PQYDFTLDYLECLSKARRELKPFGDIPQKLML 211 (563)
T ss_pred HHHHHHHHHHHHHhccccCCHHHHHH----HHHHHHHHHHHHHhc---CCcCCcHHHHHHHHHHHHhcCCcccchHHHHH
Confidence 4455666666321 223344555544 444556666666665 222335677888888776 4544544444433
Q ss_pred c--CCCCCchHHHHHHHHHHHHHhhhhhheeeecce----eeEeeeeeccCCC
Q 009666 483 F--RKPLVCDIHKERLAAVSFTLDIMCLLVIYKDAC----LSVHFTYHCAGLH 529 (529)
Q Consensus 483 ~--RK~~ptEaHKQRMALIRKtiK~m~~~~~~~~~~----~~~~~~~~~~~~~ 529 (529)
. |-........+=|.+-+..|.+...+ -+++.| +..|+--||-|||
T Consensus 212 Q~trsl~~ar~Flq~L~~g~eVv~~~~~v-~~s~~C~raLlkM~yCp~CqGl~ 263 (563)
T KOG3821|consen 212 QVTRSLVAARTFLQGLEVGIEVVSEVDKV-PFSEECSRALLKMIYCPHCQGLP 263 (563)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHhhcC-CCChHHHHHHHHHhcchhccCCC
Confidence 2 22334455666666666666554433 356666 4567777888875
No 229
>PRK13342 recombination factor protein RarA; Reviewed
Probab=34.59 E-value=91 Score=32.48 Aligned_cols=65 Identities=17% Similarity=0.171 Sum_probs=41.9
Q ss_pred cCCHHHHHHHHHhh----CCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 401 ILTKRSIQELVNQI----DPSE-RLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 401 ILtKrKLqELVrqI----DPse-sLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
-|++..+.++++++ +.+. .+++++.+.|+++++.-+..+++..-.++.. .+.|+.+||.-.+++.
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 34567777777765 2233 7999999999998865444433333333222 4568999998888764
No 230
>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=34.40 E-value=94 Score=25.84 Aligned_cols=49 Identities=18% Similarity=0.294 Sum_probs=35.5
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH----------HHHHHHHhhhhcCCCCc
Q 009666 405 RSIQELVNQIDPSERLDPDVEDILVDIAEDFVES----------ITMFGCSLAKHRKSDTL 455 (529)
Q Consensus 405 rKLqELVrqIDPsesLDpDVEELLLeIADDFVDs----------Vvs~ACrLAKHRKSdTL 455 (529)
+.+.+++++++- .-++++.+.+.+++++..++ ++.|++.||++-..+..
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 347777887753 12233888888888888877 78899999998776654
No 231
>PRK14700 recombination factor protein RarA; Provisional
Probab=34.38 E-value=1.9e+02 Score=30.40 Aligned_cols=94 Identities=10% Similarity=0.011 Sum_probs=56.5
Q ss_pred CCHHHHHHHHHhhCC--------CCCCCHHHHHHHHHHHHH---HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc-cC
Q 009666 402 LTKRSIQELVNQIDP--------SERLDPDVEDILVDIAED---FVESITMFGCSLAKHRKSDTLEAKDILVHLERN-WN 469 (529)
Q Consensus 402 LtKrKLqELVrqIDP--------sesLDpDVEELLLeIADD---FVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn-WN 469 (529)
|++..|.++|++.=. ...||+|+.+.|.+++|- +.=++++.+|.++...+...|+.++|+-.+.+. ..
T Consensus 39 L~~~di~~il~ral~~~~~~~~~~~~i~~~al~~ia~~a~GDaR~aLN~LE~a~~~~~~~~~~~it~~~~~~~~~~~~~~ 118 (300)
T PRK14700 39 LSLVATQKLIEKALSQDEVLAKHKFKIDDGLYNAMHNYNEGDCRKILNLLERMFLISTRGDEIYLNKELFDQAVGETSRD 118 (300)
T ss_pred CCHHHHHHHHHHHHHhhhccCCcCCCcCHHHHHHHHHhcCCHHHHHHHHHHHHHhhccccCCCccCHHHHHHHHhHHHhc
Confidence 366667766665521 257999999999999873 333566777764432222248888887777654 11
Q ss_pred cccCCCCcc--------cccccCCCCCchH--HHHHHHH
Q 009666 470 MTLPGFSGD--------EIKTFRKPLVCDI--HKERLAA 498 (529)
Q Consensus 470 I~IPGFssD--------EIR~~RK~~ptEa--HKQRMAL 498 (529)
+. ..+| -+|+.|-..+..+ +.-||-.
T Consensus 119 yD---k~gd~HYd~iSAf~KSiRGSDpDAAlYyLArml~ 154 (300)
T PRK14700 119 FH---REGKEFYEQLSAFHKSVRGTDPDAAIFWLSVMLD 154 (300)
T ss_pred cc---CCcchhHHHHHHHHHHhhcCCccHHHHHHHHHHH
Confidence 11 1222 3566666666653 6666643
No 232
>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=34.32 E-value=1.2e+02 Score=25.76 Aligned_cols=45 Identities=13% Similarity=0.223 Sum_probs=30.6
Q ss_pred CccCCHHHHHHHHHhhCC---CCCCC-HHHHHHHHHH---------HHHHHHHHHHHH
Q 009666 399 NRILTKRSIQELVNQIDP---SERLD-PDVEDILVDI---------AEDFVESITMFG 443 (529)
Q Consensus 399 nrILtKrKLqELVrqIDP---sesLD-pDVEELLLeI---------ADDFVDsVvs~A 443 (529)
+..|+|..|..|++.--+ ...++ .+++++|.++ -+|||.-|..-|
T Consensus 25 ~~~Ls~~Elk~ll~~e~~~~~~~~~~~~~~~~ll~~~D~d~DG~I~f~EF~~l~~~l~ 82 (89)
T cd05023 25 SYQLSKTEFLSFMNTELASFTKNQKDPGVLDRMMKKLDLNSDGQLDFQEFLNLIGGLA 82 (89)
T ss_pred cCeECHHHHHHHHHHhhhHhhcCCCCHHHHHHHHHHcCCCCCCcCcHHHHHHHHHHHH
Confidence 458999999999998644 23455 5677777765 457776555443
No 233
>PRK08903 DnaA regulatory inactivator Hda; Validated
Probab=34.26 E-value=1.7e+02 Score=27.33 Aligned_cols=62 Identities=10% Similarity=0.005 Sum_probs=39.1
Q ss_pred CHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHH---HHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009666 403 TKRSIQELVNQI--DPSERLDPDVEDILVDIAE---DFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (529)
Q Consensus 403 tKrKLqELVrqI--DPsesLDpDVEELLLeIAD---DFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLE 465 (529)
+.+.+.++++++ +-+..|++++.++|++-.+ ..+.+|++.--..|+..| ..|++..|+-+|+
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 444455566655 3357899999999887655 233445555445666666 4577887776665
No 234
>PRK13531 regulatory ATPase RavA; Provisional
Probab=34.19 E-value=2.1e+02 Score=31.96 Aligned_cols=70 Identities=13% Similarity=0.200 Sum_probs=53.7
Q ss_pred CccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHH-------------HHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009666 399 NRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDF-------------VESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (529)
Q Consensus 399 nrILtKrKLqELVrqIDPsesLDpDVEELLLeIADDF-------------VDsVvs~ACrLAKHRKSdTLEvKDVQLhLE 465 (529)
..+|+...|.+|-+.|+ ...++++|.|.+.+|++.- .-.++..+-..|-..|.+.|...||++...
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 46799999999988884 5799999999999998631 123455566677788999999999995444
Q ss_pred hccC
Q 009666 466 RNWN 469 (529)
Q Consensus 466 RnWN 469 (529)
--|+
T Consensus 283 vL~H 286 (498)
T PRK13531 283 CLWH 286 (498)
T ss_pred Hhcc
Confidence 4555
No 235
>PRK08150 enoyl-CoA hydratase; Provisional
Probab=33.95 E-value=3.9 Score=39.68 Aligned_cols=17 Identities=29% Similarity=0.139 Sum_probs=10.3
Q ss_pred CCCCCchHHHHHHHHHH
Q 009666 484 RKPLVCDIHKERLAAVS 500 (529)
Q Consensus 484 RK~~ptEaHKQRMALIR 500 (529)
.+...+++++++|+...
T Consensus 229 ~~~~~s~d~~eg~~af~ 245 (255)
T PRK08150 229 AVAQSAPEAKERLRAFL 245 (255)
T ss_pred HHHhcCHHHHHHHHHHh
Confidence 44455677777776543
No 236
>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=33.83 E-value=1.7e+02 Score=26.85 Aligned_cols=62 Identities=10% Similarity=-0.017 Sum_probs=34.7
Q ss_pred CHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHH---HHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009666 403 TKRSIQELVNQID--PSERLDPDVEDILVDIAE---DFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (529)
Q Consensus 403 tKrKLqELVrqID--PsesLDpDVEELLLeIAD---DFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLE 465 (529)
++..+.++++.+- ....+++++.++|.+... ..+.+|++.+-.+|..++. +|+++.|+-+||
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 4455555555542 245788888888876443 1233444444433433443 578888766654
No 237
>PRK10076 pyruvate formate lyase II activase; Provisional
Probab=33.74 E-value=36 Score=33.08 Aligned_cols=78 Identities=9% Similarity=0.226 Sum_probs=44.5
Q ss_pred CCccCCHHHHHHHHHhh---------CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCC----CcchhhHHHHH
Q 009666 398 GNRILTKRSIQELVNQI---------DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSD----TLEAKDILVHL 464 (529)
Q Consensus 398 ~nrILtKrKLqELVrqI---------DPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSd----TLEvKDVQLhL 464 (529)
++-++-..-+.+|++.+ |-+.-++.++.+-|++++|.|.-|+-.+. -.+||+-. ..-++.+.+..
T Consensus 47 GEPllq~~fl~~l~~~~k~~gi~~~leTnG~~~~~~~~~l~~~~D~~l~DiK~~d--~~~~~~~tG~~~~~il~nl~~l~ 124 (213)
T PRK10076 47 GEVLMQAEFATRFLQRLRLWGVSCAIETAGDAPASKLLPLAKLCDEVLFDLKIMD--ATQARDVVKMNLPRVLENLRLLV 124 (213)
T ss_pred chHHcCHHHHHHHHHHHHHcCCCEEEECCCCCCHHHHHHHHHhcCEEEEeeccCC--HHHHHHHHCCCHHHHHHHHHHHH
Confidence 33455566566776665 33556788888888888888876665432 24444221 12234455555
Q ss_pred hhccCcc-----cCCCCc
Q 009666 465 ERNWNMT-----LPGFSG 477 (529)
Q Consensus 465 ERnWNI~-----IPGFss 477 (529)
+....++ ||||..
T Consensus 125 ~~g~~v~iR~~vIPg~nd 142 (213)
T PRK10076 125 SEGVNVIPRLPLIPGFTL 142 (213)
T ss_pred hCCCcEEEEEEEECCCCC
Confidence 5544444 577643
No 238
>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=33.74 E-value=60 Score=34.60 Aligned_cols=62 Identities=10% Similarity=0.083 Sum_probs=37.8
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC------CCCcchhhHHHHHhhccCcccCCCCccccccc
Q 009666 421 DPDVEDILVDIAEDFVESITMFGCSLAKHRK------SDTLEAKDILVHLERNWNMTLPGFSGDEIKTF 483 (529)
Q Consensus 421 DpDVEELLLeIADDFVDsVvs~ACrLAKHRK------SdTLEvKDVQLhLERnWNI~IPGFssDEIR~~ 483 (529)
.++|+++|.+|++.-..-+-...-.|++..+ .+.|+.=|+-|+.|+.-...+ .+..++++.|
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 4668888888877766555554444444333 336888899888887533332 3444555554
No 239
>PRK12906 secA preprotein translocase subunit SecA; Reviewed
Probab=33.73 E-value=34 Score=39.84 Aligned_cols=44 Identities=7% Similarity=0.132 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009666 422 PDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (529)
Q Consensus 422 pDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWN 469 (529)
+++.+++.++.+++|++++..-|. .+ -+..+++.+.-.|..+|.
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 467888889999999998886331 12 123567777777776664
No 240
>PRK12710 flgJ flagellar rod assembly protein/muramidase FlgJ; Provisional
Probab=33.54 E-value=49 Score=34.50 Aligned_cols=42 Identities=21% Similarity=0.231 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 430 DIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 430 eIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
+..++||+.|...|.++||.-|-.. .|.=-|-+||-.||-.+
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 6679999999999999999888775 45556889999999664
No 241
>PF13022 HTH_Tnp_1_2: Helix-turn-helix of insertion element transposase; PDB: 2AO9_I.
Probab=33.49 E-value=68 Score=30.66 Aligned_cols=95 Identities=19% Similarity=0.231 Sum_probs=42.6
Q ss_pred CHHHHHHHHHhhCCCC------CC-CHHHHHHHHHHHHHHHHHHHHHH--HHhhhhcCCCCcchhhHHHHHhhccCcccC
Q 009666 403 TKRSIQELVNQIDPSE------RL-DPDVEDILVDIAEDFVESITMFG--CSLAKHRKSDTLEAKDILVHLERNWNMTLP 473 (529)
Q Consensus 403 tKrKLqELVrqIDPse------sL-DpDVEELLLeIADDFVDsVvs~A--CrLAKHRKSdTLEvKDVQLhLERnWNI~IP 473 (529)
.|+.+.++.++|+-+. +- +.+-.+.+-++||+|+++-.... ..+=+-++.+. .+|-|.|+|+|.
T Consensus 33 ~r~T~~eiAee~Gis~~tLYrWr~~~~~Fiey~n~la~~~~~~~~~eVy~~L~~~i~~~~~-svKaieLflk~~------ 105 (142)
T PF13022_consen 33 ERRTQAEIAEEVGISRSTLYRWRQQNKAFIEYKNELADRFLSSHREEVYTQLMKKIRGGQP-SVKAIELFLKRH------ 105 (142)
T ss_dssp --S-HHHHHHHHTS-HHHHHHHHHH-HHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHSSS---HHHHHHHHHHT------
T ss_pred ccchHHHHHHHhCCCHHHHHHHHhcCHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhCCCc-cHHHHHHHHHHc------
Confidence 4667788888876543 11 33577888888888887765554 33334446663 799999999995
Q ss_pred CCCcc--cccccC--CCCCchHHHHHHHHHHHHHh
Q 009666 474 GFSGD--EIKTFR--KPLVCDIHKERLAAVSFTLD 504 (529)
Q Consensus 474 GFssD--EIR~~R--K~~ptEaHKQRMALIRKtiK 504 (529)
|.-.| +|.... +...+++=..++..|.|.|+
T Consensus 106 GLLtDrq~V~~~~~~~~~sne~i~~eie~l~~~~~ 140 (142)
T PF13022_consen 106 GLLTDRQEVEDTVEDGERSNEDIEKEIEELDKLLD 140 (142)
T ss_dssp T--EEEEEEEEE-----------------------
T ss_pred CcccceeeeeeecccCccchHHHHHHHHHHHHHhc
Confidence 44444 222211 11233455555555555443
No 242
>COG5247 BUR6 Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
Probab=33.22 E-value=1e+02 Score=28.57 Aligned_cols=38 Identities=16% Similarity=0.144 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009666 428 LVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (529)
Q Consensus 428 LLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLE 465 (529)
.-.-.+=|+..|+..+|+.|+...+..+.++-|+-..+
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 44555679999999999999999999887765554443
No 243
>PRK15280 type III secretion protein SopE2; Provisional
Probab=33.06 E-value=84 Score=31.85 Aligned_cols=54 Identities=15% Similarity=0.309 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCC----------------CcchhhH-HHHHhhccCcccCCCCccc
Q 009666 426 DILVDIAEDFVESITMFGCSLAKHRKSD----------------TLEAKDI-LVHLERNWNMTLPGFSGDE 479 (529)
Q Consensus 426 ELLLeIADDFVDsVvs~ACrLAKHRKSd----------------TLEvKDV-QLhLERnWNI~IPGFssDE 479 (529)
.-++.+-+.||+--...+.+.--||+.| .|.-||| .|.|.|.-.+.|-|.++.|
T Consensus 33 ksi~av~n~fi~l~~~lS~RF~~hk~td~paThfhRG~AsegRavLt~k~VK~fmlq~L~sldi~g~askD 103 (240)
T PRK15280 33 KSITAVRNSFISLSTSLSDRFSLHQQTDIPTTHFHRGNASEGRAVLTSKTVKDFMLQKLNSLDIKGNASKD 103 (240)
T ss_pred HHHHHHHHhHHHhhHHHHHHHHhccCCCCCceeeecCCcccccccCChHhHHHHHHHHhhhhcccCccccC
Confidence 4466777888887777777776666544 6788888 4677777668888887765
No 244
>PRK15279 type III secretion protein SopE; Provisional
Probab=33.01 E-value=85 Score=31.81 Aligned_cols=54 Identities=13% Similarity=0.287 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCC----------------CcchhhH-HHHHhhccCcccCCCCccc
Q 009666 426 DILVDIAEDFVESITMFGCSLAKHRKSD----------------TLEAKDI-LVHLERNWNMTLPGFSGDE 479 (529)
Q Consensus 426 ELLLeIADDFVDsVvs~ACrLAKHRKSd----------------TLEvKDV-QLhLERnWNI~IPGFssDE 479 (529)
.-++.+-+.||+--..++.+.--||+.| .|.-||| .|.|.|.-.+.|=|.++.|
T Consensus 33 ksi~av~n~fi~l~~~lS~RF~~h~~td~~~ThfhRG~AsegRavLt~k~VK~fmlq~L~sldirg~askD 103 (240)
T PRK15279 33 KSILAVKNHFIELRSKLSERFISHKNTESSATHFHRGSASEGRAVLTNKVVKDFMLQTLNDIDIRGSASKD 103 (240)
T ss_pred HHHHHHHHhHHHhhHHHHHHHHhccCCCCCCceeecCccccccccCChHHHHHHHHHHhhhhcccCccccC
Confidence 4566777888888888888877776654 5778888 4666776667777776654
No 245
>PTZ00465 rhoptry-associated protein 1 (RAP-1); Provisional
Probab=33.00 E-value=15 Score=40.99 Aligned_cols=66 Identities=14% Similarity=0.248 Sum_probs=48.1
Q ss_pred HHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH-----------hhhhcCCCCcchhhHHHHHhhccC-cccC
Q 009666 408 QELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCS-----------LAKHRKSDTLEAKDILVHLERNWN-MTLP 473 (529)
Q Consensus 408 qELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACr-----------LAKHRKSdTLEvKDVQLhLERnWN-I~IP 473 (529)
++++..++-...|.+|..+.|...-|+|+|+||..+-. +++=...+.|.+.-|.+-+++.|- +.+|
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 35555556668899999999999999999999987543 344456677777777777776654 5555
No 246
>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=32.98 E-value=1.8e+02 Score=22.94 Aligned_cols=46 Identities=17% Similarity=0.018 Sum_probs=32.9
Q ss_pred CCCHHHHHHHHHHHHHHH--HHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 419 RLDPDVEDILVDIAEDFV--ESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 419 sLDpDVEELLLeIADDFV--DsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
.+.+--.+.|.++.|+|- .+|+..||+.|..++. ..++=|.-+|++
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 577777888888999965 6999999999986533 344555444443
No 247
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=32.92 E-value=1.3e+02 Score=27.11 Aligned_cols=52 Identities=17% Similarity=0.181 Sum_probs=27.1
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhH
Q 009666 403 TKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDI 460 (529)
Q Consensus 403 tKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDV 460 (529)
+-..+.+|+..+..+ | ++.+-+|.+.|-..|..++.++.+.+..+..+++||
T Consensus 7 ~~~~~~~l~~~~~~g---d---~~a~~~l~~~~~~~l~~~~~~~~~~~~~~~~~aeDl 58 (189)
T PRK09648 7 TGEELDALVAEAVAG---D---RRALREVLEIIRPLVVRYCRARLGGVERPGLSADDV 58 (189)
T ss_pred CchHHHHHHHHHHcC---C---HHHHHHHHHHHHHHHHHHHHHHhcccccCCCCHHHH
Confidence 344566666665433 2 344555555555555556655555443334456665
No 248
>COG3935 DnaD Putative primosome component and related proteins [DNA replication, recombination, and repair]
Probab=32.74 E-value=1.2e+02 Score=31.14 Aligned_cols=45 Identities=16% Similarity=-0.054 Sum_probs=35.4
Q ss_pred CCCHHHHHHHHHHHHHHH--HHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009666 419 RLDPDVEDILVDIAEDFV--ESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (529)
Q Consensus 419 sLDpDVEELLLeIADDFV--DsVvs~ACrLAKHRKSdTLEvKDVQLhLE 465 (529)
-|.+==+|.|....|||= .+||..||+.|..++.. ..+=|.-+|.
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 567766778888999999 99999999999988876 4555555553
No 249
>TIGR00685 T6PP trehalose-phosphatase. At least 18 distinct sequences from Arabidopsis have been identified, roughly half of these are of the fungal type, with a fused synthase and half are like the bacterial members having only the phosphatase domain. It has been suggested that trehalose is being used in Arabidopsis as a regulatory molecule in development and possibly other processes.
Probab=32.68 E-value=11 Score=36.06 Aligned_cols=95 Identities=15% Similarity=0.093 Sum_probs=45.7
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccccccCC---CCCc----h
Q 009666 418 ERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKTFRK---PLVC----D 490 (529)
Q Consensus 418 esLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEIR~~RK---~~pt----E 490 (529)
..+++++.++|.+|+++.-.-|+--+.+ .++|+.+.+. --|+.+=|.-+-|++...+ +... .
T Consensus 24 ~~~~~~~~~~L~~L~~~~~~~v~ivSGR----------~~~~~~~~~~-~~~~~l~g~hG~~~~~~g~~~~~~~~~~~~~ 92 (244)
T TIGR00685 24 AVVSDRLLTILQKLAARPHNAIWIISGR----------KFLEKWLGVK-LPGLGLAGEHGCEMKDNGSCQDWVNLTEKIP 92 (244)
T ss_pred cCCCHHHHHHHHHHHhCCCCeEEEEECC----------ChhhccccCC-CCceeEEeecCEEEecCCCcceeeechhhhh
Confidence 4688999999999988644332111111 1223222110 1123333333333331111 1111 1
Q ss_pred HHHHHHHHHHHHHhh-hhhheeeecceeeEeeee
Q 009666 491 IHKERLAAVSFTLDI-MCLLVIYKDACLSVHFTY 523 (529)
Q Consensus 491 aHKQRMALIRKtiK~-m~~~~~~~~~~~~~~~~~ 523 (529)
.+++....|++.+.+ -...+-.|..|+++||-.
T Consensus 93 ~~~~~~~~l~~~~~~~pG~~iE~K~~s~~~hyr~ 126 (244)
T TIGR00685 93 SWKVRANELREEITTRPGVFIERKGVALAWHYRQ 126 (244)
T ss_pred hHHHHHHHHHHHHhcCCCcEEEecceEEEEEecc
Confidence 344444444444444 355667799999999853
No 250
>PRK05883 acyl carrier protein; Validated
Probab=32.61 E-value=32 Score=29.33 Aligned_cols=37 Identities=14% Similarity=0.032 Sum_probs=26.0
Q ss_pred HhhhhcCCCCcchhhHHHHHhhccCcccCCCCccccc
Q 009666 445 SLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIK 481 (529)
Q Consensus 445 rLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEIR 481 (529)
.|..--+-|.|+.-++.+.||+.||+.|+.--..+++
T Consensus 39 ~l~~dlg~DSL~~v~lv~~lE~~fgI~i~~ee~~~~~ 75 (91)
T PRK05883 39 RLVDDVGLDSVAFAVGMVAIEERLGVALSEEDLLSCD 75 (91)
T ss_pred chhhccCCChHHHHHHHHHHHHHHCCCcCHHHHHhCC
Confidence 4444457778888888899999999998644333333
No 251
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=32.60 E-value=63 Score=34.21 Aligned_cols=65 Identities=15% Similarity=0.173 Sum_probs=42.0
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHH-HHHHHHHHHH----HHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 403 TKRSIQELVNQIDPSERLDPDVE-DILVDIAEDF----VESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 403 tKrKLqELVrqIDPsesLDpDVE-ELLLeIADDF----VDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
++..-.++++.+.....+++|+. +.|.+..+.| |..|+..|+..|-.++...|+.+|+.-.+++.
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 44444455555544445554432 2233333333 67888888888888888899999999998885
No 252
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=32.42 E-value=1.6e+02 Score=34.14 Aligned_cols=66 Identities=15% Similarity=0.269 Sum_probs=44.2
Q ss_pred HHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhH--HHHHhhccCcccCCCCccccc
Q 009666 408 QELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDI--LVHLERNWNMTLPGFSGDEIK 481 (529)
Q Consensus 408 qELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDV--QLhLERnWNI~IPGFssDEIR 481 (529)
-||+.+||.-..+.+--++.|.+|++.|++.+... | ++++.+ |++.|= .+..++.|+ |.||.-.++
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 48888888777777777777899999999887653 4 445554 455443 444555554 567775544
No 253
>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=32.35 E-value=1.6e+02 Score=28.43 Aligned_cols=32 Identities=13% Similarity=0.104 Sum_probs=21.5
Q ss_pred CCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHH
Q 009666 402 LTKRSIQELVNQID--PSERLDPDVEDILVDIAE 433 (529)
Q Consensus 402 LtKrKLqELVrqID--PsesLDpDVEELLLeIAD 433 (529)
++...+.++++.+- -...+++++.+.|.+.++
T Consensus 178 ~~~~el~~Il~~~~~~~~~~l~~~a~~~l~~~~~ 211 (261)
T TIGR02881 178 YTVEELMEIAERMVKEREYKLTEEAKWKLREHLY 211 (261)
T ss_pred CCHHHHHHHHHHHHHHcCCccCHHHHHHHHHHHH
Confidence 35666777766663 245688888888877654
No 254
>COG1466 HolA DNA polymerase III, delta subunit [DNA replication, recombination, and repair]
Probab=32.20 E-value=1.3e+02 Score=30.53 Aligned_cols=67 Identities=9% Similarity=0.083 Sum_probs=46.2
Q ss_pred CHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009666 403 TKRSIQELVNQI--DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (529)
Q Consensus 403 tKrKLqELVrqI--DPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWN 469 (529)
..++|.++|++. .-+.+||+|+.++|++..+.=+..+...--+|+-..+...|+..||+-.+.+.-.
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 3467999999999998887544444444445555555558999999888877533
No 255
>PF13551 HTH_29: Winged helix-turn helix
Probab=32.13 E-value=1.4e+02 Score=24.34 Aligned_cols=41 Identities=10% Similarity=0.261 Sum_probs=24.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH-hhccCccc
Q 009666 420 LDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL-ERNWNMTL 472 (529)
Q Consensus 420 LDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhL-ERnWNI~I 472 (529)
||++.++.|++++++. ... +...+..+.|..+| |+.|++.+
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 7777777666665532 221 22345667776665 77777664
No 256
>PLN03214 probable enoyl-CoA hydratase/isomerase; Provisional
Probab=31.96 E-value=22 Score=35.28 Aligned_cols=97 Identities=14% Similarity=0.131 Sum_probs=44.9
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHH-HHHH-H-HHH--HHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009666 400 RILTKRSIQELVNQIDPSERLDPD-VEDI-L-VDI--AEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (529)
Q Consensus 400 rILtKrKLqELVrqIDPsesLDpD-VEEL-L-LeI--ADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (529)
+++++.+-.+|+-.- ..|+.+ ++++ | -++ .|++.+.+..++.+|++. ..+-++-++..|.+.|+..+..
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 233322 2111 1 111 134444444444444431 2234445555555555544433
Q ss_pred CCcccccccCCCCCchHHHHHHHHHHHH
Q 009666 475 FSGDEIKTFRKPLVCDIHKERLAAVSFT 502 (529)
Q Consensus 475 FssDEIR~~RK~~ptEaHKQRMALIRKt 502 (529)
....|.+...+...++++++.+...-.-
T Consensus 236 ~~~~e~~~~~~~~~s~d~~egi~aflek 263 (278)
T PLN03214 236 YYEEEAKGGWKMLSEPSIIKALGGVMER 263 (278)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 3333444444455667777777664333
No 257
>PRK14969 DNA polymerase III subunits gamma and tau; Provisional
Probab=31.56 E-value=42 Score=36.64 Aligned_cols=63 Identities=11% Similarity=0.040 Sum_probs=40.2
Q ss_pred CHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 403 TKRSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 403 tKrKLqELVrqID--PsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
++..|.+.+++|- .+..+|+++.++|.++++.=+.++++..-++..+ +...|+.+||.-.+..
T Consensus 179 ~~~~i~~~L~~il~~egi~~~~~al~~la~~s~Gslr~al~lldqai~~-~~~~I~~~~v~~~~~~ 243 (527)
T PRK14969 179 PPPLIVSHLQHILEQENIPFDATALQLLARAAAGSMRDALSLLDQAIAY-GGGTVNESEVRAMLGA 243 (527)
T ss_pred CHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cCCCcCHHHHHHHHCC
Confidence 4555665555542 2457899999999999886455554444343333 4567888888766553
No 258
>PF09943 DUF2175: Uncharacterized protein conserved in archaea (DUF2175); InterPro: IPR018686 This family of various hypothetical archaeal proteins has no known function.
Probab=31.56 E-value=1e+02 Score=28.01 Aligned_cols=37 Identities=11% Similarity=0.021 Sum_probs=19.9
Q ss_pred HHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHh
Q 009666 410 LVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSL 446 (529)
Q Consensus 410 LVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrL 446 (529)
|.+++-+....|.....+.|+..||++.+.+-.+=+|
T Consensus 31 ~~~~~~~k~~~~~~~~~~aL~~l~~~l~~~iV~~kel 67 (101)
T PF09943_consen 31 FREKASKKLYGDVPEDLAALLSLEDYLHEGIVYKKEL 67 (101)
T ss_pred HHHHHhhhcccChhhHHHHHHHHHHHHHHHHHHHHHh
Confidence 4444445555555555556666666665555444333
No 259
>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=31.53 E-value=1.5e+02 Score=29.64 Aligned_cols=72 Identities=15% Similarity=0.248 Sum_probs=40.4
Q ss_pred cCCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHH---HHHHHHHHHHHHHHhhhhcCCCCcchhhHH--HHHhhccCcc
Q 009666 397 FGNRILTKRSIQELVNQIDPSERLDPDVEDILVDI---AEDFVESITMFGCSLAKHRKSDTLEAKDIL--VHLERNWNMT 471 (529)
Q Consensus 397 ~~nrILtKrKLqELVrqIDPsesLDpDVEELLLeI---ADDFVDsVvs~ACrLAKHRKSdTLEvKDVQ--LhLERnWNI~ 471 (529)
.....++=..|..||++++.-...-++ .+.|.++ +++|.+.+-..- .+ .+..++.+++ +..-..+|+.
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-IDQLKELLEEVEEFQSRAQEAL---SD---PESPSLEELEELLEEGESFGVD 150 (335)
T ss_pred cccccCCHHHHHHHHHHHhcCCeeCch-HHHHHHHHHHHHHHHHHHHHHH---hc---cccCCHHHHHHHHHhcccCcee
Confidence 345567888899999999765544466 3344444 445554443322 22 1222334443 5555666777
Q ss_pred cCCC
Q 009666 472 LPGF 475 (529)
Q Consensus 472 IPGF 475 (529)
||.+
T Consensus 151 lpel 154 (335)
T PF08429_consen 151 LPEL 154 (335)
T ss_pred ChhH
Confidence 7665
No 260
>TIGR03582 EF_0829 PRD domain protein EF_0829/AHA_3910. Members of this family of relatively uncommon proteins are found in both Gram-positive (e.g. Enterococcus faecalis) and Gram-negative (e.g. Aeromonas hydrophila) bacteria, as part of a cluster of conserved proteins. This protein contains a PRD domain (see pfam00874). The function is unknown.
Probab=31.49 E-value=59 Score=29.45 Aligned_cols=33 Identities=27% Similarity=0.279 Sum_probs=23.6
Q ss_pred hHHHHHHHHHHHHHhhhhhheeeecceeeEeee
Q 009666 490 DIHKERLAAVSFTLDIMCLLVIYKDACLSVHFT 522 (529)
Q Consensus 490 EaHKQRMALIRKtiK~m~~~~~~~~~~~~~~~~ 522 (529)
|..++-|++-++-++.+..|-...-..|||||-
T Consensus 70 EIs~~sl~la~~v~~~f~~L~~~E~~llsvhfe 102 (107)
T TIGR03582 70 EISKESIKLAEEVVAALGNLAEDEAYLLSVHFE 102 (107)
T ss_pred HHHHHHHHHHHHHHHHhcCCChhhHHHHHHhhh
Confidence 344466777777778777666666677999994
No 261
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=31.29 E-value=1.2e+02 Score=31.83 Aligned_cols=17 Identities=12% Similarity=0.134 Sum_probs=13.1
Q ss_pred CCCCCHHHHHHHHHHHH
Q 009666 417 SERLDPDVEDILVDIAE 433 (529)
Q Consensus 417 sesLDpDVEELLLeIAD 433 (529)
+..|++||.|.|.+-++
T Consensus 297 ~~~l~~e~l~~ia~~~~ 313 (450)
T PRK00149 297 GIDLPDEVLEFIAKNIT 313 (450)
T ss_pred CCCCCHHHHHHHHcCcC
Confidence 56799999888876544
No 262
>CHL00017 ndhH NADH dehydrogenase subunit 7
Probab=31.28 E-value=1.7e+02 Score=31.31 Aligned_cols=59 Identities=12% Similarity=0.136 Sum_probs=35.9
Q ss_pred CHHHHHHHHHhhCCC-------------CCCCHHHHHHHHHHHHHHHHHHHH-------HHHHhhhhcCCCCcchhhHH
Q 009666 403 TKRSIQELVNQIDPS-------------ERLDPDVEDILVDIAEDFVESITM-------FGCSLAKHRKSDTLEAKDIL 461 (529)
Q Consensus 403 tKrKLqELVrqIDPs-------------esLDpDVEELLLeIADDFVDsVvs-------~ACrLAKHRKSdTLEvKDVQ 461 (529)
-|.++.+|+.+|.++ .-|+++.++.++++.|+|-+++.+ .-.-+++-++--+|+.+|..
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 33335566666677777663
No 263
>PRK14959 DNA polymerase III subunits gamma and tau; Provisional
Probab=31.23 E-value=73 Score=36.24 Aligned_cols=62 Identities=11% Similarity=0.079 Sum_probs=41.8
Q ss_pred CCHHHHHHHHHhhCC--CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009666 402 LTKRSIQELVNQIDP--SERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL 464 (529)
Q Consensus 402 LtKrKLqELVrqIDP--sesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhL 464 (529)
|+...|.+.|++|-. +..+|+++.++|.++++-=+.++++..-+++. .+.+.|+.+||.-.+
T Consensus 178 Ls~~eL~~~L~~il~~egi~id~eal~lIA~~s~GdlR~Al~lLeqll~-~g~~~It~d~V~~~l 241 (624)
T PRK14959 178 LSEAGLEAHLTKVLGREGVDYDPAAVRLIARRAAGSVRDSMSLLGQVLA-LGESRLTIDGARGVL 241 (624)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH-hcCCCcCHHHHHHHh
Confidence 456666666666533 44699999999999988656666665555553 355578888875544
No 264
>PRK09111 DNA polymerase III subunits gamma and tau; Validated
Probab=31.07 E-value=1e+02 Score=34.65 Aligned_cols=64 Identities=11% Similarity=0.097 Sum_probs=45.0
Q ss_pred CCHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 402 LTKRSIQELVNQI--DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 402 LtKrKLqELVrqI--DPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
+....|.+.|++| ..+..+|+++.++|+++++--+.+++...=+++.+ +...|+.+||.-.+..
T Consensus 191 l~~~el~~~L~~i~~kegi~i~~eAl~lIa~~a~Gdlr~al~~Ldkli~~-g~g~It~e~V~~llg~ 256 (598)
T PRK09111 191 IEADVLAAHLSRIAAKEGVEVEDEALALIARAAEGSVRDGLSLLDQAIAH-GAGEVTAEAVRDMLGL 256 (598)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHhh-cCCCcCHHHHHHHhCC
Confidence 4566777777776 34568999999999999887666666555444444 3456899999876643
No 265
>PRK06539 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=31.02 E-value=1e+02 Score=35.99 Aligned_cols=31 Identities=19% Similarity=0.180 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC
Q 009666 422 PDVEDILVDIAEDFVESITMFGCSLAKHRKS 452 (529)
Q Consensus 422 pDVEELLLeIADDFVDsVvs~ACrLAKHRKS 452 (529)
+|+.++.-+|++..-...+..+|+|||.||.
T Consensus 533 ~eA~~l~~~i~e~i~~~A~~aS~eLAkE~G~ 563 (822)
T PRK06539 533 EEAYDLIDRIMEHISYAAIDESADLAAERGA 563 (822)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 4567777777777778899999999999994
No 266
>PF07817 GLE1: GLE1-like protein; InterPro: IPR012476 The members of this family are sequences that are similar to the human protein GLE1 (O75458 from SWISSPROT). This protein is localised at the nuclear pore complexes and functions in poly(A)+ RNA export to the cytoplasm []. ; GO: 0016973 poly(A)+ mRNA export from nucleus, 0005643 nuclear pore; PDB: 3PEV_B 3RRN_B 3PEU_B 3RRM_B.
Probab=30.98 E-value=3.1e+02 Score=27.31 Aligned_cols=92 Identities=18% Similarity=0.181 Sum_probs=48.3
Q ss_pred CCCCCCHHHHHHHH-HHHHHHHHHHHHH--------------HHHhhhhcCCCCcchhhHHH-HHhhccCcccC---CCC
Q 009666 416 PSERLDPDVEDILV-DIAEDFVESITMF--------------GCSLAKHRKSDTLEAKDILV-HLERNWNMTLP---GFS 476 (529)
Q Consensus 416 PsesLDpDVEELLL-eIADDFVDsVvs~--------------ACrLAKHRKSdTLEvKDVQL-hLERnWNI~IP---GFs 476 (529)
.....++.+...++ -||+.||+.+-+. ++.|.. ..-|+.||.+ +|-+.--+-|| |+.
T Consensus 70 ~~~~~~~~~~~~~l~~lAk~iv~Q~e~ev~~~~~~A~PlA~v~~~l~~----~~p~~~dillA~l~k~Cp~~vP~~~~~~ 145 (256)
T PF07817_consen 70 QSKNDHPLAYKYLLNFLAKKIVSQAETEVSANPESAFPLARVAVQLWS----QHPEFGDILLARLHKKCPYLVPKYPGFT 145 (256)
T ss_dssp TTTT-SHHHHHHHHHHHHHHHHHHHHHHHHH-GGGHHHHHHHHHHHHH----HSTCHHHHHHHHHHHH-GGGG----T--
T ss_pred hhccCCchHHHHHHHHHHHHHHHHHHHHhccCCchhhhHHHHHHHHHH----cCCcHHHHHHHHHHHcCceeEeecCccc
Confidence 34455667766555 6788888877652 122222 1247788843 34444445554 665
Q ss_pred ccc----c---cccCC----CCCchHHHHHHHHHHHHHhhhhhhee
Q 009666 477 GDE----I---KTFRK----PLVCDIHKERLAAVSFTLDIMCLLVI 511 (529)
Q Consensus 477 sDE----I---R~~RK----~~ptEaHKQRMALIRKtiK~m~~~~~ 511 (529)
.++ . -.||+ +-..+.|.+||.-|-+.-.+|+..-.
T Consensus 146 ~~~~~e~~~k~lGyk~~~~~~E~~~~y~~Rm~Gi~~lyaAi~~~~~ 191 (256)
T PF07817_consen 146 CDQSTEEYRKRLGYKRDDGGWESEDQYLKRMTGIIRLYAAIIQTPP 191 (256)
T ss_dssp ---SSHHHHHHTT--B-TTSB--HHHHHHHHHHHHHHHHHHHHS--
T ss_pred CCCCHHHHHHHcCCccCCCCccchHHHHHHHHHHHHHHHHHHhccC
Confidence 442 1 11333 45678999999999988888876543
No 267
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=30.94 E-value=91 Score=33.48 Aligned_cols=31 Identities=10% Similarity=0.217 Sum_probs=23.4
Q ss_pred hhhhcCCCCcchhhHHHHHhhcc-CcccCCCC
Q 009666 446 LAKHRKSDTLEAKDILVHLERNW-NMTLPGFS 476 (529)
Q Consensus 446 LAKHRKSdTLEvKDVQLhLERnW-NI~IPGFs 476 (529)
+-|.|+.+.+.+|.|.+||-|++ |+.+|-.|
T Consensus 373 ~s~~R~~~i~~~Rqiamyl~r~~t~~s~~~IG 404 (445)
T PRK12422 373 LGRSQSREYVLPRQVAMYLCRQKLSLSYVKIG 404 (445)
T ss_pred hcCCCCcccccHHHHHHHHHHHhcCCCHHHHH
Confidence 56779999999999999998874 35555443
No 268
>PRK08444 hypothetical protein; Provisional
Probab=30.75 E-value=73 Score=33.28 Aligned_cols=109 Identities=14% Similarity=0.127 Sum_probs=64.1
Q ss_pred ccCCHHHHHHHHHhhCC----------CCCCC---HHHHHHHHHHHHHHH--HHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009666 400 RILTKRSIQELVNQIDP----------SERLD---PDVEDILVDIAEDFV--ESITMFGCSLAKHRKSDTLEAKDILVHL 464 (529)
Q Consensus 400 rILtKrKLqELVrqIDP----------sesLD---pDVEELLLeIADDFV--DsVvs~ACrLAKHRKSdTLEvKDVQLhL 464 (529)
-.|+...|.+.+++... +..-+ +.++|++..|-++|- .--.-.+..+....++.-+..+|+.-.|
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 46899999888887621 11111 225566666665552 1111223333344445556788887777
Q ss_pred hhccCc-ccCCCCcccc---cccCCCCCchHHHHHHHHHHHHHhhhhhhe
Q 009666 465 ERNWNM-TLPGFSGDEI---KTFRKPLVCDIHKERLAAVSFTLDIMCLLV 510 (529)
Q Consensus 465 ERnWNI-~IPGFssDEI---R~~RK~~ptEaHKQRMALIRKtiK~m~~~~ 510 (529)
+.. |+ ++||-+ .|| +-+++-+++....+|...|.|..+++.+-+
T Consensus 158 keA-Gl~~~~g~~-aEi~~~~vr~~I~p~k~~~~~~~~i~~~a~~~Gi~~ 205 (353)
T PRK08444 158 LEY-GVDSMPGGG-AEIFDEEVRKKICKGKVSSERWLEIHKYWHKKGKMS 205 (353)
T ss_pred HHh-CcccCCCCC-chhcCHHHHhhhCCCCCCHHHHHHHHHHHHHcCCCc
Confidence 664 54 688844 333 223566777888888888888777776644
No 269
>PRK08136 glycosyl transferase family protein; Provisional
Probab=30.75 E-value=66 Score=33.39 Aligned_cols=50 Identities=14% Similarity=0.219 Sum_probs=36.1
Q ss_pred HHHHHHhhCCC----CCCCHH-HHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcc
Q 009666 407 IQELVNQIDPS----ERLDPD-VEDILVDIAEDFVESITMFGCSLAKHRKSDTLE 456 (529)
Q Consensus 407 LqELVrqIDPs----esLDpD-VEELLLeIADDFVDsVvs~ACrLAKHRKSdTLE 456 (529)
+.++|++|.-+ ..|+.| +++++..|.|.-++++--.|..+|-+-|.+|.|
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 888888888888888888888887776777644
No 270
>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=30.69 E-value=79 Score=32.48 Aligned_cols=27 Identities=11% Similarity=0.138 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 009666 422 PDVEDILVDIAEDFVESITMFGCSLAK 448 (529)
Q Consensus 422 pDVEELLLeIADDFVDsVvs~ACrLAK 448 (529)
+++.+.|++-+|+|+++.+...-++|+
T Consensus 84 ~~~k~~l~~~~~~~~~e~~~~~~~Ia~ 110 (303)
T TIGR00524 84 EEAKESLLREAIEIIEEDLETNRKIGE 110 (303)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567889999999999977764433433
No 271
>PRK05803 sporulation sigma factor SigK; Reviewed
Probab=30.59 E-value=1.8e+02 Score=27.76 Aligned_cols=68 Identities=10% Similarity=0.032 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHhhhhcCCCCcchhhH-HHHHhhccCcccCCCCcccccccCCCCCchHHHHHHHHHHHH
Q 009666 434 DFVESITMFGCSLAKHRKSDTLEAKDI-LVHLERNWNMTLPGFSGDEIKTFRKPLVCDIHKERLAAVSFT 502 (529)
Q Consensus 434 DFVDsVvs~ACrLAKHRKSdTLEvKDV-QLhLERnWNI~IPGFssDEIR~~RK~~ptEaHKQRMALIRKt 502 (529)
++++.-....+.+|..+-.+.-+++|| |=.+-+-|+. +..|..+....++-|.-.-.++.-+..+||.
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 344444444445555544455578898 3344455552 2344433222344444444555555555554
No 272
>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=30.54 E-value=1.9e+02 Score=29.77 Aligned_cols=51 Identities=10% Similarity=-0.055 Sum_probs=37.9
Q ss_pred CCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 416 PSERLDPDVEDILVDIAED---FVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 416 PsesLDpDVEELLLeIADD---FVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
.+..|++||.+.|.+-.+. -++.++..-|..|+..+.. |++..++-+|+..
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 4678999998888876552 3556777888888776644 7888888888764
No 273
>PRK08402 replication factor A; Reviewed
Probab=30.53 E-value=80 Score=33.44 Aligned_cols=59 Identities=19% Similarity=0.237 Sum_probs=41.1
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHH-HHHHHHHHHHHHHHHHHHHHHHhhhhcCCC--------CcchhhHH
Q 009666 400 RILTKRSIQELVNQIDPSERLDPD-VEDILVDIAEDFVESITMFGCSLAKHRKSD--------TLEAKDIL 461 (529)
Q Consensus 400 rILtKrKLqELVrqIDPsesLDpD-VEELLLeIADDFVDsVvs~ACrLAKHRKSd--------TLEvKDVQ 461 (529)
.+|+|..|.|++.+. ..+|.+ +++.|-++.++|=-+.-+++..+|+.-|.+ .+.++||.
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 35577764
No 274
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=30.34 E-value=94 Score=34.66 Aligned_cols=55 Identities=16% Similarity=0.305 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHHHH-----------HHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcc
Q 009666 423 DVEDILVDIAEDFVE-----------SITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGD 478 (529)
Q Consensus 423 DVEELLLeIADDFVD-----------sVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssD 478 (529)
+.+++|.+|.|+..+ -+...||+.|...|. .|+.+.+.--|++-..+..|-....
T Consensus 532 ~~~~~l~ell~~l~~~~~~~~~~~~~~las~ACr~AIk~g~-~Ls~~E~~~Ll~~L~~~~~P~~CPH 597 (617)
T PRK00095 532 ELEELIRDLLDELAEEGDSDTLKERELLATMACHGAIRAGR-RLTLEEMNALLRQLEATENPGTCPH 597 (617)
T ss_pred CHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhccC-CCCHHHHHHHHHHHHhcccccCCCC
Confidence 356666666655443 478999999987665 5888888888888777888766543
No 275
>PRK00979 tetrahydromethanopterin S-methyltransferase subunit H; Provisional
Probab=30.33 E-value=2.1e+02 Score=30.18 Aligned_cols=100 Identities=10% Similarity=0.020 Sum_probs=65.8
Q ss_pred CCcCCccCCHHHHHHHHHhhCCC---------CCCCHHHHHHHHHHHHHHHH-------------HHHHHHHHhhhhcC-
Q 009666 395 DEFGNRILTKRSIQELVNQIDPS---------ERLDPDVEDILVDIAEDFVE-------------SITMFGCSLAKHRK- 451 (529)
Q Consensus 395 ~e~~nrILtKrKLqELVrqIDPs---------esLDpDVEELLLeIADDFVD-------------sVvs~ACrLAKHRK- 451 (529)
+++...++.|.+=.+|+++.... ..+=-|-+|+|.++.|.+.+ +|++.|+++++.-+
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 11223334455566655544 68899999998633
Q ss_pred -------CCCcchhhHHHHHhhccCcc-cCCCCcccccccCCCCCchHHHHHHHHHHHH
Q 009666 452 -------SDTLEAKDILVHLERNWNMT-LPGFSGDEIKTFRKPLVCDIHKERLAAVSFT 502 (529)
Q Consensus 452 -------SdTLEvKDVQLhLERnWNI~-IPGFssDEIR~~RK~~ptEaHKQRMALIRKt 502 (529)
|=++|.+|-.|-|-|+|++. +=++.-|+ . .+ .=..||++++|.
T Consensus 122 ~gR~IiNSIn~e~~~eel~llk~yg~aavIvLa~d~-~-----~p--t~e~Rl~i~~~~ 172 (308)
T PRK00979 122 ADRAIYNSINPSIEEEEIEALKESDIKAAIVLAFDP-M-----DP--SVEGRLKMLEEG 172 (308)
T ss_pred CCceEEEeccCCCCHHHHHHHHHhCCceEEEEEcCC-C-----CC--CHHHHHHHHHhc
Confidence 55677777778899999955 44454444 1 12 335678888873
No 276
>PF13690 CheX: Chemotaxis phosphatase CheX; PDB: 3HM4_B 3H4Y_A 3H2D_A 3IIC_B.
Probab=30.23 E-value=1.2e+02 Score=25.36 Aligned_cols=58 Identities=9% Similarity=0.192 Sum_probs=32.0
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCccc
Q 009666 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDE 479 (529)
Q Consensus 402 LtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDE 479 (529)
+.|+-..+|++.+ . +. ++|.+|.+.|.+-||.|-|+-.+. ++. +..+++.+|-+-.++
T Consensus 19 ~~~~~a~~la~~m-g-~~-~~~~~e~~~da~~El~NiI~G~~~--~~l---------------~~~~~ls~P~v~~g~ 76 (94)
T PF13690_consen 19 FDEELAKKLASAM-G-EE-EEEDDEMVQDALGELANIIAGNAK--SEL---------------GEPIDLSPPSVIEGK 76 (94)
T ss_dssp E-HHHHHHHHHHH-S-SS--SSHHHHHHHHHHHHHHHHHHHHH--HHH---------------T--EEE---EEEEEE
T ss_pred ECHHHHHHHHHHh-C-CC-CcchhHHHHHHHHHHHHHHHHHHH--HHc---------------CCceeecCCEEEcCC
Confidence 3688888999988 3 22 444667777777777666665554 111 446677777665543
No 277
>COG0127 Xanthosine triphosphate pyrophosphatase [Nucleotide transport and metabolism]
Probab=30.16 E-value=82 Score=31.09 Aligned_cols=63 Identities=19% Similarity=0.187 Sum_probs=42.9
Q ss_pred CHHHHHHHHHhhCCC----CCCCHHHHH-HHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 403 TKRSIQELVNQIDPS----ERLDPDVED-ILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 403 tKrKLqELVrqIDPs----esLDpDVEE-LLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
++.||.||-.-+++. +.+++.-++ -+-|+.+.|+++++..+...||+-+.-+| +.|==|+++-
T Consensus 10 N~~K~~E~~~il~~~~~ei~~~~~~~~~~e~eEtg~tf~enA~~Ka~~~a~~~g~pvi-aDDSGL~v~a 77 (194)
T COG0127 10 NKGKLRELKSILAPGGIEIESLKELGVEIEVEETGLTFEENALLKARAAAKATGLPVI-ADDSGLCVDA 77 (194)
T ss_pred ChHHHHHHHHHhcccCceEEEccccCCCCCccchhhHHHHHHHHHHHHHHhhcCCcEE-EecCceEEec
Confidence 577777776666541 123333333 56788999999999999999999555544 7777444443
No 278
>COG4286 Uncharacterized conserved protein related to MYG1 family [Function unknown]
Probab=29.99 E-value=36 Score=35.82 Aligned_cols=40 Identities=23% Similarity=0.328 Sum_probs=28.7
Q ss_pred HHHHHHHHhhCCC---CCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 009666 405 RSIQELVNQIDPS---ERLDPDVEDILVDIAEDFVESITMFGC 444 (529)
Q Consensus 405 rKLqELVrqIDPs---esLDpDVEELLLeIADDFVDsVvs~AC 444 (529)
+.|-+||+-..+. +.-|++--..-|.+|+||++++....|
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 3488888877553 344555555567899999999988877
No 279
>smart00047 LYZ2 Lysozyme subfamily 2. Eubacterial enzymes distantly related to eukaryotic lysozymes.
Probab=29.95 E-value=69 Score=29.53 Aligned_cols=40 Identities=15% Similarity=0.062 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 432 AEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 432 ADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
.++||+.|+..|.++++.-+--. .+-=-|.+||-.||-..
T Consensus 8 ~~~fi~~~~~~A~~~~~~~gi~~-Sv~iAQAiLESgwG~S~ 47 (147)
T smart00047 8 TLEFVGKIFNEAQKAYQINGVYP-SILIAQAALESGWGTSK 47 (147)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCH-HHHHHHHHHHcCCCCCC
Confidence 46899999999999998776542 33335899999999763
No 280
>PRK10733 hflB ATP-dependent metalloprotease; Reviewed
Probab=29.94 E-value=3.7e+02 Score=30.31 Aligned_cols=65 Identities=9% Similarity=0.097 Sum_probs=41.5
Q ss_pred HHHHHHHHHhhCCCCCCCHHHH-HHHHHHHHH----HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhcc
Q 009666 404 KRSIQELVNQIDPSERLDPDVE-DILVDIAED----FVESITMFGCSLAKHRKSDTLEAKDILVHLERNW 468 (529)
Q Consensus 404 KrKLqELVrqIDPsesLDpDVE-ELLLeIADD----FVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnW 468 (529)
.....++++..-....+++++. +.|.+..+- =|.+++..|..+|..++.+.|+..|+.-.++|-|
T Consensus 324 ~~~R~~Il~~~~~~~~l~~~~d~~~la~~t~G~sgadl~~l~~eAa~~a~r~~~~~i~~~d~~~a~~~v~ 393 (644)
T PRK10733 324 VRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGNKRVVSMVEFEKAKDKIM 393 (644)
T ss_pred HHHHHHHHHHHhhcCCCCCcCCHHHHHhhCCCCCHHHHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHh
Confidence 3344445554433444444432 223333222 4778899999999999999999999988888764
No 281
>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=29.88 E-value=88 Score=29.70 Aligned_cols=95 Identities=20% Similarity=0.213 Sum_probs=52.8
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhh-------hhcCCCCcchhhHHHHHhhccCcccC---
Q 009666 404 KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLA-------KHRKSDTLEAKDILVHLERNWNMTLP--- 473 (529)
Q Consensus 404 KrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLA-------KHRKSdTLEvKDVQLhLERnWNI~IP--- 473 (529)
-.+|..|-++| ..+|..+.++|..|.+ +.+.+..+|..+ +......|+++||.=|-.|-=....+
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 6788888898888876 556666666333 33344567888885443332111111
Q ss_pred ---------CCCc-ccccccCCCCCchHHHHHHHHHHHHH
Q 009666 474 ---------GFSG-DEIKTFRKPLVCDIHKERLAAVSFTL 503 (529)
Q Consensus 474 ---------GFss-DEIR~~RK~~ptEaHKQRMALIRKti 503 (529)
+|.. +-...+..+-|+|+...|-.|-.-.+
T Consensus 103 ~~~~~~~P~~~~~~~~~~~~~~PwP~Ed~mR~G~L~~~~~ 142 (188)
T PF10018_consen 103 FPSGSIAPNNWQPGPPSGDFFRPWPQEDQMRRGMLAQLQL 142 (188)
T ss_pred CCCCCcCCcccccccccccccCCCCCHHHHHHhHHHhhhh
Confidence 1110 11222455668887776665544443
No 282
>PHA03181 helicase-primase primase subunit; Provisional
Probab=29.86 E-value=82 Score=36.85 Aligned_cols=40 Identities=13% Similarity=0.238 Sum_probs=32.8
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 009666 404 KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGC 444 (529)
Q Consensus 404 KrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~AC 444 (529)
|+.|.+|+++|-.....++++|+ +++.+.|++|.++..|.
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 66777888888888776
No 283
>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=29.71 E-value=51 Score=35.39 Aligned_cols=68 Identities=12% Similarity=0.136 Sum_probs=48.9
Q ss_pred HHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhh--HHHHHhhccCcccCCCCcccc
Q 009666 409 ELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKD--ILVHLERNWNMTLPGFSGDEI 480 (529)
Q Consensus 409 ELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKD--VQLhLERnWNI~IPGFssDEI 480 (529)
||+.+||--..|++--+|.|.+|+++..+.++..-.++-+.++.+ |++.| +.+..++-|+ +.+|+-.+
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 677778877788888888899999999999888888777777766 55555 3444555565 44665443
No 284
>PF14842 FliG_N: FliG N-terminal domain; PDB: 3HJL_A 3AJC_A 3USY_B.
Probab=29.69 E-value=1.1e+02 Score=26.59 Aligned_cols=33 Identities=15% Similarity=0.411 Sum_probs=16.5
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHH
Q 009666 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVE 437 (529)
Q Consensus 402 LtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVD 437 (529)
|+.+.++.|.++|..-..+|.+.. .++.+||.+
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 466777778887766666666643 334455555
No 285
>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=29.69 E-value=1.8e+02 Score=29.68 Aligned_cols=57 Identities=16% Similarity=0.263 Sum_probs=35.9
Q ss_pred HHHHHHHHHhhCC-------------CCCCCHHHHHHHHHHHHHHHHHHHHHHHH-------hhhhcCCCCcchhhH
Q 009666 404 KRSIQELVNQIDP-------------SERLDPDVEDILVDIAEDFVESITMFGCS-------LAKHRKSDTLEAKDI 460 (529)
Q Consensus 404 KrKLqELVrqIDP-------------sesLDpDVEELLLeIADDFVDsVvs~ACr-------LAKHRKSdTLEvKDV 460 (529)
|.+|.+|+.+|.+ ..-|+++..+.|+++.|+|-+.+-+.--. +++.++--+|+.+|.
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 286
>PF04084 ORC2: Origin recognition complex subunit 2 ; InterPro: IPR007220 The Origin Recognition Complex (ORC) is a six-subunit ATP-dependent DNA-binding complex encoded in yeast by ORC1-6 []. ORC is a central component for eukaryotic DNA replication, and binds chromatin at replication origins throughout the cell cycle []. ORC directs DNA replication throughout the genome and is required for its initiation [, , ]. ORC bound at replication origins serves as the foundation for assembly of the pre-replicative complex (pre-RC), which includes Cdc6, Tah11 (aka Cdt1), and the Mcm2-7 complex [, , ]. Pre-RC assembly during G1 is required for replication licensing of chromosomes prior to DNA synthesis during S phase [, , ]. Cell cycle-regulated phosphorylation of Orc2, Orc6, Cdc6, and MCM by the cyclin-dependent protein kinase Cdc28 regulates initiation of DNA replication, including blocking reinitiation in G2/M phase [, , , ]. In yeast, ORC also plays a role in the establishment of silencing at the mating-type loci Hidden MAT Left (HML) and Hidden MAT Right (HMR) [, , ]. ORC participates in the assembly of transcriptionally silent chromatin at HML and HMR by recruiting the Sir1 silencing protein to the HML and HMR silencers [, , ]. Both Orc1 and Orc5 bind ATP, though only Orc1 has ATPase activity []. The binding of ATP by Orc1 is required for ORC binding to DNA and is essential for cell viability []. The ATPase activity of Orc1 is involved in formation of the pre-RC [, , ]. ATP binding by Orc5 is crucial for the stability of ORC as a whole. Only the Orc1-5 subunits are required for origin binding; Orc6 is essential for maintenance of pre-RCs once formed []. Interactions within ORC suggest that Orc2-3-6 may form a core complex []. ORC homologues have been found in various eukaryotes, including fission yeast, insects, amphibians, and humans []. This entry represents subunit 2, which binds the origin of replication. It plays a role in chromosome replication and mating type transcriptional silencing.; GO: 0006260 DNA replication, 0000808 origin recognition complex, 0005634 nucleus
Probab=29.53 E-value=1.8e+02 Score=30.21 Aligned_cols=18 Identities=11% Similarity=0.285 Sum_probs=14.4
Q ss_pred ccCCHHHHHHHHHhhCCC
Q 009666 400 RILTKRSIQELVNQIDPS 417 (529)
Q Consensus 400 rILtKrKLqELVrqIDPs 417 (529)
..|+++.+.++++++...
T Consensus 10 ~~l~~~e~~~~l~~~~~~ 27 (326)
T PF04084_consen 10 PLLDHEEYFSLLQELSDD 27 (326)
T ss_pred ccCCHHHHHHHHHHhchh
Confidence 578899999999988443
No 287
>PRK12711 flgJ flagellar rod assembly protein/muramidase FlgJ; Reviewed
Probab=29.45 E-value=57 Score=35.45 Aligned_cols=41 Identities=24% Similarity=0.209 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccC
Q 009666 432 AEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLP 473 (529)
Q Consensus 432 ADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IP 473 (529)
-++||+.|...|.+++|..+-.. ++-=-|-+||-.||-..-
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 333369999999996653
No 288
>COG5566 Uncharacterized conserved protein [Function unknown]
Probab=29.34 E-value=1.2e+02 Score=28.98 Aligned_cols=60 Identities=17% Similarity=0.194 Sum_probs=42.8
Q ss_pred HHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009666 405 RSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (529)
Q Consensus 405 rKLqELVrqID--PsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWN 469 (529)
.++..|+..+| |+..+...+.++|.+++|.|.-.+.+...+-++ .. .++-|.+.|-++||
T Consensus 14 ~~~~aLfd~lD~ip~d~l~klwps~Lsev~eV~~ael~~a~ie~~g----k~-~alk~v~~l~~y~G 75 (137)
T COG5566 14 SKDSALFDFLDLIPGDNLRKLWPSLLSEVHEVFLAELEDAGIEDNG----KP-LALKLVFKLMEYGG 75 (137)
T ss_pred hhhhhhhhhhccCCchhHHHhhHHHHHHHHHHHHHHHHHHhhhhcc----Cc-hHHHHHHHHHHHcC
Confidence 34556666555 667777888899999999888777776666555 22 35667788888888
No 289
>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=29.32 E-value=37 Score=32.18 Aligned_cols=55 Identities=16% Similarity=0.245 Sum_probs=38.7
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHH
Q 009666 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILV 462 (529)
Q Consensus 407 LqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQL 462 (529)
|+.|.|.. .+.-+|++=.+-+.+++++=+.|++..|-+-||..+.++|+..|+=+
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 44567777777788999999999999999999999999999888744
No 290
>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=29.24 E-value=1.9e+02 Score=24.32 Aligned_cols=47 Identities=26% Similarity=0.359 Sum_probs=29.2
Q ss_pred cCCc-cCCHHHHHHHHHhhCC----CCCCCHHHHHHHHHH---------HHHHHHHHHHHH
Q 009666 397 FGNR-ILTKRSIQELVNQIDP----SERLDPDVEDILVDI---------AEDFVESITMFG 443 (529)
Q Consensus 397 ~~nr-ILtKrKLqELVrqIDP----sesLDpDVEELLLeI---------ADDFVDsVvs~A 443 (529)
+++. -|++..|.++++..-+ ...-+.+|+++|.++ -+||+.-+...+
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 112445677777777 356666554443
No 291
>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=28.97 E-value=66 Score=26.96 Aligned_cols=30 Identities=20% Similarity=0.532 Sum_probs=24.5
Q ss_pred HHHHHHhhCCCCCCCH-HHHHHHHHHHHHHH
Q 009666 407 IQELVNQIDPSERLDP-DVEDILVDIAEDFV 436 (529)
Q Consensus 407 LqELVrqIDPsesLDp-DVEELLLeIADDFV 436 (529)
|..|+..++++..+++ ||-++|..+.|||+
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 5677788888888776 59999999988886
No 292
>PF15601 Imm42: Immunity protein 42
Probab=28.87 E-value=47 Score=31.16 Aligned_cols=27 Identities=15% Similarity=0.218 Sum_probs=21.7
Q ss_pred HHHHHHHH-------HHHHHHHHHHhhhhcCCCC
Q 009666 428 LVDIAEDF-------VESITMFGCSLAKHRKSDT 454 (529)
Q Consensus 428 LLeIADDF-------VDsVvs~ACrLAKHRKSdT 454 (529)
+..|+|=| +-+++..||..|+..+.+.
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 5678999999998887764
No 293
>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=28.83 E-value=56 Score=30.09 Aligned_cols=50 Identities=20% Similarity=0.345 Sum_probs=24.0
Q ss_pred HHHHHHHHHhhCCC-----CCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCC
Q 009666 404 KRSIQELVNQIDPS-----ERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSD 453 (529)
Q Consensus 404 KrKLqELVrqIDPs-----esLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSd 453 (529)
...|++|+.+||.. ...+-+-...-.++.-+|++.|+..+.++-+.++-+
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 35666666666431 122222223334666677777777666666655553
No 294
>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=28.82 E-value=39 Score=36.68 Aligned_cols=98 Identities=17% Similarity=0.235 Sum_probs=60.3
Q ss_pred cCCHHHHHHHHHhhCCCCCCCHHHHHHHH--HHHHHHHHHHHHHHHHhhhhc----CCCCcchhhHHHHHhhccCcc---
Q 009666 401 ILTKRSIQELVNQIDPSERLDPDVEDILV--DIAEDFVESITMFGCSLAKHR----KSDTLEAKDILVHLERNWNMT--- 471 (529)
Q Consensus 401 ILtKrKLqELVrqIDPsesLDpDVEELLL--eIADDFVDsVvs~ACrLAKHR----KSdTLEvKDVQLhLERnWNI~--- 471 (529)
+=+|+++.+.+..+=....|.+++.+.+. ++-|+||.++++.-.++.... ..+.--++||.-.||+--..-
T Consensus 65 L~Nrk~~~~~L~~~i~~i~ipP~lI~~I~~~~v~e~~~~~~~~~~~k~~~~~~~~~~~~~~a~~d~~~~Le~L~~ka~~r 144 (508)
T PF04129_consen 65 LKNRKAVEEKLSPFIDDIVIPPDLIRSICEGPVNEQYIEELLELLKKKIFFSKDQSFKDSKAIKDVKPELEKLKNKAVER 144 (508)
T ss_pred HHhHHHHHHHHHHHHHHHcCCHHHHHhHhcCCCCHHHHHHHHHHHHHHHHHHhhcccccccchHHHHHHHHHHHHHHHHH
Confidence 33566666666665455678888777777 466778888777666554432 233445888888888654422
Q ss_pred cCCCCcccccccCCCCCchHHHHHHHHH
Q 009666 472 LPGFSGDEIKTFRKPLVCDIHKERLAAV 499 (529)
Q Consensus 472 IPGFssDEIR~~RK~~ptEaHKQRMALI 499 (529)
|--|-.+.|+..|++..+---.|. .|+
T Consensus 145 ir~fl~~kI~~lr~~~tn~q~iQ~-~LL 171 (508)
T PF04129_consen 145 IRDFLLKKIKSLRKPKTNSQIIQQ-VLL 171 (508)
T ss_pred HHHHHHHHHHHHcCCCCchHHHHH-HHH
Confidence 334555567777887765444444 443
No 295
>PHA03247 large tegument protein UL36; Provisional
Probab=28.61 E-value=1.6e+03 Score=30.98 Aligned_cols=12 Identities=25% Similarity=0.050 Sum_probs=6.4
Q ss_pred HHHHhhhhcCCC
Q 009666 442 FGCSLAKHRKSD 453 (529)
Q Consensus 442 ~ACrLAKHRKSd 453 (529)
-.|..++||..-
T Consensus 3072 p~~~~~~~~~~~ 3083 (3151)
T PHA03247 3072 PATPEAGARESP 3083 (3151)
T ss_pred CCCccccccCCc
Confidence 445555655543
No 296
>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=28.51 E-value=1.1e+02 Score=29.45 Aligned_cols=25 Identities=8% Similarity=0.470 Sum_probs=16.5
Q ss_pred CCCCCHH----HHHHHHHHHHHHHHHHHH
Q 009666 417 SERLDPD----VEDILVDIAEDFVESITM 441 (529)
Q Consensus 417 sesLDpD----VEELLLeIADDFVDsVvs 441 (529)
...|++| +|+-|-+|+|+||..|=.
T Consensus 136 ~~~iseD~~k~~~~~iQkltd~~i~~id~ 164 (176)
T TIGR00496 136 DKEISEDEERRLQEEIQKLTDEYIKKIDE 164 (176)
T ss_pred cCCCChhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445544 567777888888877654
No 297
>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=28.30 E-value=33 Score=27.30 Aligned_cols=47 Identities=17% Similarity=0.270 Sum_probs=30.6
Q ss_pred HHHHHHhhCCCCCCCHH-HHHHHHHHHHHHHHHHHHHHHHhhhhcCCC
Q 009666 407 IQELVNQIDPSERLDPD-VEDILVDIAEDFVESITMFGCSLAKHRKSD 453 (529)
Q Consensus 407 LqELVrqIDPsesLDpD-VEELLLeIADDFVDsVvs~ACrLAKHRKSd 453 (529)
|.++++++-.+..|+.| +++++-.|.|+=++++--.|...|-+-|..
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 888888888888888888887777664444
No 298
>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=28.29 E-value=77 Score=26.47 Aligned_cols=20 Identities=15% Similarity=0.270 Sum_probs=14.2
Q ss_pred HHhhccCcccCCCCcccccc
Q 009666 463 HLERNWNMTLPGFSGDEIKT 482 (529)
Q Consensus 463 hLERnWNI~IPGFssDEIR~ 482 (529)
+|.+.+.+.|+|||.=+++.
T Consensus 36 ~L~~g~~V~l~gfG~F~~~~ 55 (94)
T TIGR00988 36 ALAQGDRIEIRGFGSFSLHY 55 (94)
T ss_pred HHHcCCeEEEcCcEEEEEEE
Confidence 45667788899998765543
No 299
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=28.28 E-value=3e+02 Score=31.54 Aligned_cols=18 Identities=11% Similarity=0.193 Sum_probs=13.4
Q ss_pred CCCCCCHHHHHHHHHHHH
Q 009666 416 PSERLDPDVEDILVDIAE 433 (529)
Q Consensus 416 PsesLDpDVEELLLeIAD 433 (529)
-+..|++||.++|++=.+
T Consensus 462 r~l~l~~eVi~yLa~r~~ 479 (617)
T PRK14086 462 EQLNAPPEVLEFIASRIS 479 (617)
T ss_pred cCCCCCHHHHHHHHHhcc
Confidence 457888999998876544
No 300
>PRK13765 ATP-dependent protease Lon; Provisional
Probab=28.11 E-value=1.4e+02 Score=33.92 Aligned_cols=44 Identities=14% Similarity=0.239 Sum_probs=32.9
Q ss_pred CCCCHHHHHHHHHHHH-------------HHHHHHHHHHHHhhhhcCCCCcchhhHH
Q 009666 418 ERLDPDVEDILVDIAE-------------DFVESITMFGCSLAKHRKSDTLEAKDIL 461 (529)
Q Consensus 418 esLDpDVEELLLeIAD-------------DFVDsVvs~ACrLAKHRKSdTLEvKDVQ 461 (529)
..||+++.+.|++.+- .-|.+++..|..+|+.++.+.++.+||.
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 4788887777776443 2455688889999999998888877765
No 301
>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=28.00 E-value=1e+02 Score=30.28 Aligned_cols=64 Identities=11% Similarity=0.133 Sum_probs=37.4
Q ss_pred CCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 402 LTKRSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 402 LtKrKLqELVrqID--PsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
++...|.+.++++- .+..+|+++.++|++.++.-+..+....=+++.+-+ ..|+.+||+-.+..
T Consensus 176 ~~~~~l~~~l~~~~~~~g~~i~~~a~~~l~~~~~g~~~~a~~~lekl~~~~~-~~it~~~v~~~~~~ 241 (355)
T TIGR02397 176 IPLEDIVERLKKILDKEGIKIEDEALELIARAADGSLRDALSLLDQLISFGN-GNITYEDVNELLGL 241 (355)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCChHHHHHHHHHHHhhcC-CCCCHHHHHHHhCC
Confidence 35566666666542 345789999998888876544444333323333222 34788888665543
No 302
>COG1705 FlgJ Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=27.98 E-value=67 Score=32.09 Aligned_cols=40 Identities=18% Similarity=0.203 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcc
Q 009666 431 IAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMT 471 (529)
Q Consensus 431 IADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~ 471 (529)
-.+.||+.+...|-.+++..+-.. .+.=.|-+||-+||-+
T Consensus 42 ~~~~Fi~~i~~~A~~~~~~~gi~~-Si~iAQAiLESgwGks 81 (201)
T COG1705 42 SQQAFIDKIAPAAQPLAQEYGILP-SITIAQAILESGWGKS 81 (201)
T ss_pred hHHHHHHHHHHHHHHHHHHhCCCH-HHHHHHHHHHcCCcch
Confidence 556799999999999999988775 5566689999999976
No 303
>COG1067 LonB Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]
Probab=27.93 E-value=1.5e+02 Score=33.92 Aligned_cols=71 Identities=15% Similarity=0.119 Sum_probs=52.6
Q ss_pred CcCCccCCHHHHHHHHHhhC---CCCCCCHHHHHHHHHHHHHH-------------HHHHHHHHHHhhhhcCCCCcchhh
Q 009666 396 EFGNRILTKRSIQELVNQID---PSERLDPDVEDILVDIAEDF-------------VESITMFGCSLAKHRKSDTLEAKD 459 (529)
Q Consensus 396 e~~nrILtKrKLqELVrqID---PsesLDpDVEELLLeIADDF-------------VDsVvs~ACrLAKHRKSdTLEvKD 459 (529)
...+.....+-++-++++|. ..-.||.++.+.|...|... +-+++..|+-+|+-.+.+-|+.+|
T Consensus 312 m~~~~~nr~k~~~~~~q~v~~d~~ip~~~~~Av~~li~~a~R~Ag~~~~Ltl~~rdl~~lv~~A~~ia~~~~~~~I~ae~ 391 (647)
T COG1067 312 MPITDANRSKLVQFYVQELARDGNIPHLDKDAVEELIREAARRAGDQNKLTLRLRDLGNLVREAGDIAVSEGRKLITAED 391 (647)
T ss_pred CCCChHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhccccceeccCHHHHHHHHHHhhHHHhcCCcccCcHHH
Confidence 33444445555666677773 34578988877777777654 456888999999999999999999
Q ss_pred HHHHHhh
Q 009666 460 ILVHLER 466 (529)
Q Consensus 460 VQLhLER 466 (529)
|.-.|++
T Consensus 392 Ve~a~~~ 398 (647)
T COG1067 392 VEEALQK 398 (647)
T ss_pred HHHHHHh
Confidence 9888877
No 304
>KOG1087 consensus Cytosolic sorting protein GGA2/TOM1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.87 E-value=1.6e+02 Score=32.71 Aligned_cols=67 Identities=13% Similarity=0.267 Sum_probs=44.2
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHH------HHH---------HHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 403 TKRSIQELVNQIDPSERLDPDVE------DIL---------VDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 403 tKrKLqELVrqIDPsesLDpDVE------ELL---------LeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
.|..+..|.|+|..+.. .++. |++ ++||+ ++|++..+++.|....+ ++||+-.|+|=+.
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---KEFLNEMVKRPKNKPRD-LKVREKILELIDT 109 (470)
T ss_pred cHHHHHHHHHHhccCCc--HHHHHHHHHHHHHHHhhhHHHHHHHHH---HHHHHHHHhccccCCcc-hhHHHHHHHHHHH
Confidence 56778888888864433 2211 111 13333 24455588899988644 6899999999999
Q ss_pred cCcccCCC
Q 009666 468 WNMTLPGF 475 (529)
Q Consensus 468 WNI~IPGF 475 (529)
|+..|+|-
T Consensus 110 W~~af~~~ 117 (470)
T KOG1087|consen 110 WQQAFCGP 117 (470)
T ss_pred HHHHccCC
Confidence 99999883
No 305
>COG4749 Uncharacterized protein conserved in archaea [Function unknown]
Probab=27.70 E-value=60 Score=32.15 Aligned_cols=78 Identities=15% Similarity=0.339 Sum_probs=52.0
Q ss_pred cCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc--CCCCcc
Q 009666 401 ILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL--PGFSGD 478 (529)
Q Consensus 401 ILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I--PGFssD 478 (529)
+-+.++...-|.+|-. ..||++-||... +.+..+|+|+-.+.++-+.-++..|.-.|..-.||+-.++.+ +.|+.+
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 3455666677777644 377777666554 666777778777777666656666666666677887777765 677776
Q ss_pred cc
Q 009666 479 EI 480 (529)
Q Consensus 479 EI 480 (529)
++
T Consensus 86 dk 87 (196)
T COG4749 86 DK 87 (196)
T ss_pred HH
Confidence 53
No 306
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=27.69 E-value=1.2e+02 Score=31.04 Aligned_cols=11 Identities=18% Similarity=0.335 Sum_probs=5.6
Q ss_pred HHHHHHHHHHH
Q 009666 493 KERLAAVSFTL 503 (529)
Q Consensus 493 KQRMALIRKti 503 (529)
+.|...|.|.+
T Consensus 294 ~~~ykel~~~l 304 (310)
T PRK00423 294 RNRYKELAEKL 304 (310)
T ss_pred HHHHHHHHHHh
Confidence 34555555544
No 307
>PRK09087 hypothetical protein; Validated
Probab=27.63 E-value=2.8e+02 Score=26.86 Aligned_cols=50 Identities=24% Similarity=0.074 Sum_probs=31.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHH---HHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 416 PSERLDPDVEDILVDIAEDFVESITM---FGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 416 PsesLDpDVEELLLeIADDFVDsVvs---~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
.+..|++||.+.|++-++.=+..+.. .--+.|+.++. .|++..|+-+|+.
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 22233333333 3778888777764
No 308
>COG4531 ZnuA ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]
Probab=27.52 E-value=1.8e+02 Score=30.92 Aligned_cols=85 Identities=18% Similarity=0.205 Sum_probs=54.0
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHH----HHhhhhcCCCCcchhhHHHHHhhccCcccCCCCc--ccccccCCCCCchHH
Q 009666 419 RLDPDVEDILVDIAEDFVESITMFG----CSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSG--DEIKTFRKPLVCDIH 492 (529)
Q Consensus 419 sLDpDVEELLLeIADDFVDsVvs~A----CrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFss--DEIR~~RK~~ptEaH 492 (529)
.+|++-.+.+-.=..+|.+++.... -+||.-.+.--+-+-|.==|+|..||++-=|+-. .|+.+ =
T Consensus 173 e~dp~~~a~y~aNlk~f~~~La~~d~~i~~~L~pvk~Kpf~VFHDAY~YFE~~ygl~~~G~fTVsPev~P---------G 243 (318)
T COG4531 173 ELDPQNAAKYDANLKDFEAQLAALDKKVGEELAPVKGKPFFVFHDAYGYFENAYGLKPLGHFTVSPEVQP---------G 243 (318)
T ss_pred hhChhhHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCeEEEechHHHHHHhhCccccceEEeCcccCc---------c
Confidence 3444444444444455555544433 3455555566666778888999999999877753 34333 2
Q ss_pred HHHHHHHHHHHhhhhhheee
Q 009666 493 KERLAAVSFTLDIMCLLVIY 512 (529)
Q Consensus 493 KQRMALIRKtiK~m~~~~~~ 512 (529)
.+|++.||+.||+.-.-.+|
T Consensus 244 A~rl~~Ir~~l~e~~a~CvF 263 (318)
T COG4531 244 AKRLAEIRTQLKEQKATCVF 263 (318)
T ss_pred HHHHHHHHHHHHHhCCcEEe
Confidence 57999999999987544443
No 309
>PRK12903 secA preprotein translocase subunit SecA; Reviewed
Probab=27.52 E-value=63 Score=38.45 Aligned_cols=45 Identities=20% Similarity=0.280 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009666 422 PDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (529)
Q Consensus 422 pDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWN 469 (529)
+++.+.+.++.+++|++++..-|.- + ..+..+++.+.-.|+.+|+
T Consensus 616 ~~~~~~i~~~~~~~i~~~~~~~~~~-~--~~~~w~~~~l~~~l~~~~~ 660 (925)
T PRK12903 616 DDLSHVIEKMISRAVEQILKNSFII-L--KNNTINYKELVEFLNDNLL 660 (925)
T ss_pred CcHHHHHHHHHHHHHHHHHHHhcCc-c--chhhcCHHHHHHHHHHHhh
Confidence 4577888888888888888765421 1 2444677888777877765
No 310
>PRK07415 NAD(P)H-quinone oxidoreductase subunit H; Validated
Probab=27.52 E-value=6e+02 Score=27.37 Aligned_cols=59 Identities=14% Similarity=0.077 Sum_probs=34.8
Q ss_pred CHHHHHHHHHhhCCCC--------------CCCHHHHHHHHHHHHHHHHHH-------HHHHHHhhhhcCCCCcchhhHH
Q 009666 403 TKRSIQELVNQIDPSE--------------RLDPDVEDILVDIAEDFVESI-------TMFGCSLAKHRKSDTLEAKDIL 461 (529)
Q Consensus 403 tKrKLqELVrqIDPse--------------sLDpDVEELLLeIADDFVDsV-------vs~ACrLAKHRKSdTLEvKDVQ 461 (529)
-|.++.+|+..|.++- -|+++..+.++++.|+|-.++ +....-+++.++--+|..+|..
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 3677777777775421 355566665555555554333 3334445667777777777763
No 311
>PRK06256 biotin synthase; Validated
Probab=27.48 E-value=85 Score=31.42 Aligned_cols=55 Identities=16% Similarity=0.187 Sum_probs=34.9
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchh
Q 009666 404 KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAK 458 (529)
Q Consensus 404 KrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvK 458 (529)
...|.+|++++-.++.|+.|-...|++..++-++++...|-++-++...+.+++.
T Consensus 4 ~~~~~~~~~~~~~g~~~~~~e~~~ll~~~~~~~~~L~~~A~~~r~~~~g~~v~~~ 58 (336)
T PRK06256 4 MDDILKLARKLLEGEGLTKEEALALLEIPDDDLLELLAAAYEVRKHFCGKKVKLN 58 (336)
T ss_pred hHHHHHHHHHHHcCCCCCHHHHHHHHcCChHHHHHHHHHHHHHHHHhCCCeEEEE
Confidence 3456777777766666776644445554466677777777777666666655443
No 312
>PRK14127 cell division protein GpsB; Provisional
Probab=27.47 E-value=91 Score=28.34 Aligned_cols=17 Identities=12% Similarity=-0.056 Sum_probs=13.2
Q ss_pred CCchHHHHHHHHHHHHH
Q 009666 487 LVCDIHKERLAAVSFTL 503 (529)
Q Consensus 487 ~ptEaHKQRMALIRKti 503 (529)
..+-.+.+|+.-+.|.+
T Consensus 85 ~tn~DiLKRls~LEk~V 101 (109)
T PRK14127 85 ATNYDILKRLSNLEKHV 101 (109)
T ss_pred cchHHHHHHHHHHHHHH
Confidence 45678899999888765
No 313
>CHL00095 clpC Clp protease ATP binding subunit
Probab=27.40 E-value=1.9e+02 Score=33.20 Aligned_cols=46 Identities=4% Similarity=0.112 Sum_probs=30.8
Q ss_pred CHHHHHHHHHhhC------CCCCCCHHHHHHHHHHHHHHHH---------HHHHHHHHhhh
Q 009666 403 TKRSIQELVNQID------PSERLDPDVEDILVDIAEDFVE---------SITMFGCSLAK 448 (529)
Q Consensus 403 tKrKLqELVrqID------PsesLDpDVEELLLeIADDFVD---------sVvs~ACrLAK 448 (529)
+...+.++++.+- -+..+++|+.+.+.++++.||. ++++.||..+|
T Consensus 342 ~~~e~~aILr~l~~~~e~~~~v~i~deal~~i~~ls~~yi~~r~lPdkaidlld~a~a~~~ 402 (821)
T CHL00095 342 SVEETIEILFGLRSRYEKHHNLSISDKALEAAAKLSDQYIADRFLPDKAIDLLDEAGSRVR 402 (821)
T ss_pred CHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHhhccCccccCchHHHHHHHHHHHHHH
Confidence 4455555555442 1345999999999999997776 46777776544
No 314
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=27.39 E-value=74 Score=33.63 Aligned_cols=18 Identities=6% Similarity=0.060 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHhhhhhh
Q 009666 492 HKERLAAVSFTLDIMCLL 509 (529)
Q Consensus 492 HKQRMALIRKtiK~m~~~ 509 (529)
--+||..|||.++++..-
T Consensus 294 ~~krL~ELrR~vr~L~k~ 311 (320)
T TIGR01834 294 AHQRIQQLRREVKSLKKR 311 (320)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 345788888888776543
No 315
>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=27.29 E-value=1.3e+02 Score=27.30 Aligned_cols=42 Identities=17% Similarity=0.237 Sum_probs=33.9
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 009666 404 KRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCS 445 (529)
Q Consensus 404 KrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACr 445 (529)
.+.|-+|.+.++.++++|.--.++|..-..+=.|-++.|..+
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 466889999999999999988888887777666777766654
No 316
>PRK13104 secA preprotein translocase subunit SecA; Reviewed
Probab=27.27 E-value=55 Score=38.73 Aligned_cols=47 Identities=11% Similarity=0.231 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcc
Q 009666 423 DVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMT 471 (529)
Q Consensus 423 DVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~ 471 (529)
++++.+.+|.+|+|++++..-+. .+. ..+..+++.+...|..+|++.
T Consensus 667 ~~~~~i~~~~~~~i~~~~~~~~~-~~~-~~~~~~~~~l~~~~~~~~~~~ 713 (896)
T PRK13104 667 DTQEVVEMMREEVMDSLVDTYIP-PQS-LEDQWDPQALSDVLSDEFKIK 713 (896)
T ss_pred cHHHHHHHHHHHHHHHHHHHhcC-CCc-chhhccHHHHHHHHHHhcCCC
Confidence 45677788888888888775321 111 122346777777777777654
No 317
>PRK07362 isocitrate dehydrogenase; Validated
Probab=27.13 E-value=67 Score=35.68 Aligned_cols=24 Identities=4% Similarity=-0.201 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhc
Q 009666 427 ILVDIAEDFVESITMFGCSLAKHR 450 (529)
Q Consensus 427 LLLeIADDFVDsVvs~ACrLAKHR 450 (529)
-+.-+...=++.|+.+|+.+|+.|
T Consensus 204 ~~k~iTr~g~eRI~r~AFe~A~~r 227 (474)
T PRK07362 204 GIKPVSKTGSQRHIRRAIEHALRL 227 (474)
T ss_pred eeeeccHHHHHHHHHHHHHHHHhc
Confidence 345577888999999999999887
No 318
>PRK02195 V-type ATP synthase subunit D; Provisional
Probab=27.08 E-value=82 Score=30.61 Aligned_cols=26 Identities=15% Similarity=0.176 Sum_probs=20.7
Q ss_pred CCcchhhHHHHHhhccCcccCCCCcc
Q 009666 453 DTLEAKDILVHLERNWNMTLPGFSGD 478 (529)
Q Consensus 453 dTLEvKDVQLhLERnWNI~IPGFssD 478 (529)
..+.+++|.+..+.-+|..||-|...
T Consensus 77 ~~~~~~~v~~~~~nimGV~vP~~~~~ 102 (201)
T PRK02195 77 DLIKVKKVEKDYENIAGVEVPILDSI 102 (201)
T ss_pred hcCCcceEEEeeeeEeeeeeceeeee
Confidence 35567788888888999999988764
No 319
>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=26.97 E-value=2e+02 Score=21.56 Aligned_cols=29 Identities=3% Similarity=-0.029 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHhhhhcCCCCcchhhHH
Q 009666 433 EDFVESITMFGCSLAKHRKSDTLEAKDIL 461 (529)
Q Consensus 433 DDFVDsVvs~ACrLAKHRKSdTLEvKDVQ 461 (529)
++.++.++....+.+--.+...|+..+..
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 56666666666666666677777777653
No 320
>PF10163 EnY2: Transcription factor e(y)2; InterPro: IPR018783 Enhancer of yellow 2 (EnY2) is a small transcription factor which is combined in a complex with the TAFII40 protein []. This protein is conserved from protozoa to humans.; PDB: 4DHX_C 3FWC_P 3M99_C 3KIK_A 3KJL_C 3FWB_C 3MHS_B 3MHH_B.
Probab=26.94 E-value=1e+02 Score=26.08 Aligned_cols=56 Identities=18% Similarity=0.252 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccccccCCCCCchHHHHHHHHHHHHH
Q 009666 433 EDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKTFRKPLVCDIHKERLAAVSFTL 503 (529)
Q Consensus 433 DDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEIR~~RK~~ptEaHKQRMALIRKti 503 (529)
..|.|+|=..+-...+.|+.+.+++.||.-.++-. .+...|.+..++=+.-||..|
T Consensus 30 ~GW~d~vr~~~re~i~~~g~~~~~~~~l~~~i~P~---------------Ar~~VP~~vk~ell~~Ir~~L 85 (86)
T PF10163_consen 30 CGWRDEVRQLCREIIRERGIDNLTFEDLLEEITPK---------------ARAMVPDEVKKELLQRIRAFL 85 (86)
T ss_dssp TTHHHHHHHHHHHHHHHH-TTTSBHHHHHHHHHHH---------------HHHCS-HHHHHHHHHHHHHHH
T ss_pred CChHHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH---------------HHHHCCHHHHHHHHHHHHHHh
Confidence 36777777777777777999999999995444332 133445666666666777665
No 321
>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=26.93 E-value=1.2e+02 Score=30.07 Aligned_cols=47 Identities=15% Similarity=0.166 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHH-hhhhcCC-----------CCcchhhHHHHHhhccCcccCCCCccccc
Q 009666 431 IAEDFVESITMFGCS-LAKHRKS-----------DTLEAKDILVHLERNWNMTLPGFSGDEIK 481 (529)
Q Consensus 431 IADDFVDsVvs~ACr-LAKHRKS-----------dTLEvKDVQLhLERnWNI~IPGFssDEIR 481 (529)
..|.++|+++...++ ++|+.-. ..+|+++|..+++-..+ |+..|+||
T Consensus 281 ~~E~~~d~~~~~~~~~~~~~~~~~~~~~~~yl~~ke~Ei~nlr~I~~gk~~----~l~~e~I~ 339 (343)
T TIGR02923 281 VFERALDEYLIKMATKLSLRYPLSVGPVLGYILKKEREVRNLRAIARGKEE----GLPPEEIK 339 (343)
T ss_pred HHHHHHHHHHHHHHHHHhccCCCchHHHHHHHHHHHHHHHHHHHHHHHHHc----CCCHHHHH
Confidence 344455555555553 3444443 24577777766665432 56666665
No 322
>KOG3902 consensus Histone acetyltransferase PCAF/SAGA, subunit SUPT3H/SPT3 [Transcription]
Probab=26.86 E-value=4.1e+02 Score=28.72 Aligned_cols=60 Identities=22% Similarity=0.269 Sum_probs=38.7
Q ss_pred HHHHHHHHHhhCCCCCCCHHHH--HHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009666 404 KRSIQELVNQIDPSERLDPDVE--DILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (529)
Q Consensus 404 KrKLqELVrqIDPsesLDpDVE--ELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLE 465 (529)
+-.|+.++-.. ++.=|+-+| .|+-+++--=|-.++-.+..+|-.|++..|..+|+.|-+.
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 233344444 3344555555556777889999999999999999976543
No 323
>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=26.83 E-value=48 Score=27.78 Aligned_cols=47 Identities=32% Similarity=0.392 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhcc-CcccCC
Q 009666 425 EDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNW-NMTLPG 474 (529)
Q Consensus 425 EELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnW-NI~IPG 474 (529)
++++-.+|+.| .| ...--+.+-|+.+.+.+|.|.+||-+++ |+.+..
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 324
>PF05427 FIBP: Acidic fibroblast growth factor binding (FIBP) ; InterPro: IPR008614 Acidic fibroblast growth factor (aFGF) intracellular binding protein (FIBP) is a protein found mainly in the nucleus that is thought to be involved in the intracellular function of aFGF [].; GO: 0017134 fibroblast growth factor binding
Probab=26.82 E-value=1e+02 Score=33.26 Aligned_cols=42 Identities=19% Similarity=0.361 Sum_probs=27.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 415 DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 415 DPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
..+..-..|+.+++.||.|.|||=+ +-| ....+||...|+-.
T Consensus 284 a~gLs~sKElRdlF~DLvEK~IEPl-----r~~------~Wt~~dl~~FL~ay 325 (361)
T PF05427_consen 284 ASGLSHSKELRDLFEDLVEKFIEPL-----RQA------GWTKEDLRLFLSAY 325 (361)
T ss_pred HhcCCccHHHHHHHHHHHHHHhHHH-----HHC------CCCHHHHHHHHHHH
Confidence 4455666777788887777777743 222 26677777777653
No 325
>PF03081 Exo70: Exo70 exocyst complex subunit; InterPro: IPR004140 The Exo70 protein forms one subunit of the exocyst complex. First discovered in Saccharomyces cerevisiae [], Exo70 and other exocyst proteins have been observed in several other eukaryotes, including humans. In S. cerevisiae, the exocyst complex is involved in the late stages of exocytosis, and is localized at the tip of the bud, the major site of exocytosis in yeast []. Exo70 interacts with the Rho3 GTPase []. This interaction mediates one of the three known functions of Rho3 in cell polarity: vesicle docking and fusion with the plasma membrane (the other two functions are regulation of actin polarity and transport of exocytic vesicles from the mother cell to the bud) []. In humans, the functions of Exo70 and the exocyst complex are less well characterised: Exo70 is expressed in several tissues and is thought to also be involved in exocytosis [].; GO: 0006887 exocytosis, 0000145 exocyst; PDB: 2PFV_A 2B7M_B 2B1E_A 2PFT_A.
Probab=26.74 E-value=4.3e+02 Score=26.68 Aligned_cols=57 Identities=19% Similarity=0.282 Sum_probs=38.7
Q ss_pred HHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhh---hhcCC--CCcchhhHHHHHhhc
Q 009666 409 ELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLA---KHRKS--DTLEAKDILVHLERN 467 (529)
Q Consensus 409 ELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLA---KHRKS--dTLEvKDVQLhLERn 467 (529)
+|+.+|=+.. +....+.+.+++++-++.++.++-.++ +.+++ ..+++-|+.-+|.+.
T Consensus 21 ~L~~~vf~~~--~~~~~~~f~~i~~~~~~~ll~~~~~v~~~~~~~~~~~~lf~ll~~~~~l~~~ 82 (371)
T PF03081_consen 21 RLCDQVFPES--SSIADECFAEIAKPPLLQLLNFADAVASVRNSQRSPEKLFELLDMYEALSEL 82 (371)
T ss_dssp HHHHHHSSCC--CTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHCCHTCCCCHHHHHHHHHHH
T ss_pred HHHHHhcCCC--cccHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCChHHHHHHHHHHHHHHHH
Confidence 5666664333 222788888999999999999999988 44333 455666776666554
No 326
>PRK13343 F0F1 ATP synthase subunit alpha; Provisional
Probab=26.60 E-value=85 Score=34.84 Aligned_cols=32 Identities=19% Similarity=0.185 Sum_probs=20.6
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH
Q 009666 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVES 438 (529)
Q Consensus 407 LqELVrqIDPsesLDpDVEELLLeIADDFVDs 438 (529)
..++++.|+....|+++.++.|.++..+|.+.
T Consensus 468 ~~~~~~~i~~~~~l~~~~~~~l~~~~~~~~~~ 499 (502)
T PRK13343 468 FAALSLALESPRELDEAWLAALEEILREAGER 499 (502)
T ss_pred hHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHh
Confidence 33555666666667777777777777777653
No 327
>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=26.54 E-value=60 Score=26.46 Aligned_cols=10 Identities=20% Similarity=0.189 Sum_probs=4.9
Q ss_pred HHHHHHHHHh
Q 009666 495 RLAAVSFTLD 504 (529)
Q Consensus 495 RMALIRKtiK 504 (529)
...+|.+.|+
T Consensus 100 ~~~~l~~~l~ 109 (158)
T TIGR02937 100 EREALREALE 109 (158)
T ss_pred HHHHHHHHHH
Confidence 3344555555
No 328
>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=26.52 E-value=1.6e+02 Score=28.69 Aligned_cols=65 Identities=23% Similarity=0.223 Sum_probs=46.1
Q ss_pred HHHHHHHHhhCCCCCCCHH--HHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcc
Q 009666 405 RSIQELVNQIDPSERLDPD--VEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMT 471 (529)
Q Consensus 405 rKLqELVrqIDPsesLDpD--VEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~ 471 (529)
.++-+|+++|=-+..+|+. ..++|.++..++.++|+..+-.+|..|-...+... ..+-|.-.||.
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 4567788877555667765 78999999999999999999999999999976433 33344444443
No 329
>TIGR02903 spore_lon_C ATP-dependent protease, Lon family. Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.
Probab=26.37 E-value=92 Score=34.75 Aligned_cols=66 Identities=18% Similarity=0.152 Sum_probs=44.2
Q ss_pred CCHHHHHHHHHhhCC--CCCCCHHHHHHHHHHHHHH--HHHHHHHHHHhhhhc--------CCCCcchhhHHHHHhhc
Q 009666 402 LTKRSIQELVNQIDP--SERLDPDVEDILVDIAEDF--VESITMFGCSLAKHR--------KSDTLEAKDILVHLERN 467 (529)
Q Consensus 402 LtKrKLqELVrqIDP--sesLDpDVEELLLeIADDF--VDsVvs~ACrLAKHR--------KSdTLEvKDVQLhLERn 467 (529)
+++..+.++++++-. +..|++++.++|.+.+.+- ..+++..+|.++.+| +...|+.+||.-+|++.
T Consensus 353 ls~edi~~Il~~~a~~~~v~ls~eal~~L~~ys~~gRraln~L~~~~~~~~~~~~~~~~~~~~~~I~~edv~~~l~~~ 430 (615)
T TIGR02903 353 LTPEDIALIVLNAAEKINVHLAAGVEELIARYTIEGRKAVNILADVYGYALYRAAEAGKENDKVTITQDDVYEVIQIS 430 (615)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHCCCcHHHHHHHHHHHHHHHHHHHHHhccCCCCeeECHHHHHHHhCCC
Confidence 567778888887633 2468999999999876443 113555555555333 33368889998888865
No 330
>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=26.32 E-value=1.2e+02 Score=28.10 Aligned_cols=47 Identities=17% Similarity=0.338 Sum_probs=26.3
Q ss_pred HHHHHHHH-HHHHHHHHHHHHHhhhhcC-CCCcchhhHHHHHhhccCcccC
Q 009666 425 EDILVDIA-EDFVESITMFGCSLAKHRK-SDTLEAKDILVHLERNWNMTLP 473 (529)
Q Consensus 425 EELLLeIA-DDFVDsVvs~ACrLAKHRK-SdTLEvKDVQLhLERnWNI~IP 473 (529)
..+.++|| ++|+++++...- .|..+ ....+||+=-+.|=+.|...|+
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 35566777 677776554331 12211 1234677777777777776654
No 331
>PRK10569 NAD(P)H-dependent FMN reductase; Provisional
Probab=26.23 E-value=59 Score=30.84 Aligned_cols=26 Identities=15% Similarity=0.362 Sum_probs=21.0
Q ss_pred hCCCCCCCHHHHHHHHHHHHHHHHHH
Q 009666 414 IDPSERLDPDVEDILVDIAEDFVESI 439 (529)
Q Consensus 414 IDPsesLDpDVEELLLeIADDFVDsV 439 (529)
.|.+..+|+++++.|-+++|+|++-+
T Consensus 147 ~d~~~~~d~~~~~rl~~~~~~~~~~~ 172 (191)
T PRK10569 147 YHHQPQFTPNLQTRLDEALETFWQAL 172 (191)
T ss_pred cccccccCHHHHHHHHHHHHHHHHHH
Confidence 35556779999999999999998644
No 332
>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=26.21 E-value=2.2e+02 Score=31.83 Aligned_cols=50 Identities=18% Similarity=0.227 Sum_probs=33.9
Q ss_pred CCCCCCCHHHHHHHHH----HHHHHHHHHHHHHHHhhhhc--CCCCcchhhHHHHHhh
Q 009666 415 DPSERLDPDVEDILVD----IAEDFVESITMFGCSLAKHR--KSDTLEAKDILVHLER 466 (529)
Q Consensus 415 DPsesLDpDVEELLLe----IADDFVDsVvs~ACrLAKHR--KSdTLEvKDVQLhLER 466 (529)
+.....++...+.|+. |.+++.+ +.+||.|||-- ++.-|+-+||+-.|+.
T Consensus 146 ~~~~~~~~h~~~~ll~r~~ii~~~i~~--i~~ai~lAk~~ivn~~iLd~~el~~i~~~ 201 (472)
T PF07253_consen 146 KGDSVDTDHLATTLLHRNRIIKEEIQN--IIRAIQLAKLNIVNSNILDHEELKSILSE 201 (472)
T ss_pred cccccCchHHHHHHHHHHHHHHHHHHH--HHHHHHHHhcCCCChhhcChHHHHHHHHh
Confidence 4445555667777764 3333333 77999999974 4567888888888877
No 333
>PRK12322 NADH dehydrogenase subunit D; Provisional
Probab=26.19 E-value=3.4e+02 Score=28.77 Aligned_cols=58 Identities=10% Similarity=0.057 Sum_probs=35.7
Q ss_pred CHHHHHHHHHhhCCC-------------CCCCHHHHHHHHHHHHHHHHHHHH-------HHHHhhhhcCCCCcchhhH
Q 009666 403 TKRSIQELVNQIDPS-------------ERLDPDVEDILVDIAEDFVESITM-------FGCSLAKHRKSDTLEAKDI 460 (529)
Q Consensus 403 tKrKLqELVrqIDPs-------------esLDpDVEELLLeIADDFVDsVvs-------~ACrLAKHRKSdTLEvKDV 460 (529)
-|.++.+|+..+.++ ..|+++.++.++++.|+|-..+-+ .-.-+.+-++--+|+.+|.
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 477888888887542 246667777777777765444433 3333456666667766665
No 334
>PRK02079 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional
Probab=26.17 E-value=1.2e+02 Score=26.34 Aligned_cols=23 Identities=26% Similarity=0.573 Sum_probs=15.1
Q ss_pred HHHHhhCCCCCCCHHHHHHHHHHHHHH
Q 009666 409 ELVNQIDPSERLDPDVEDILVDIAEDF 435 (529)
Q Consensus 409 ELVrqIDPsesLDpDVEELLLeIADDF 435 (529)
++++.||... .|+|++..|+++|
T Consensus 40 ~Iw~~~DG~~----tv~eIi~~L~~~y 62 (88)
T PRK02079 40 EILGLIDGKR----TVAAIIAELQQQF 62 (88)
T ss_pred HHHHHccCCC----CHHHHHHHHHHHc
Confidence 5677777744 5666666666666
No 335
>PF05746 DALR_1: DALR anticodon binding domain; InterPro: IPR008909 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This all alpha helical domain is the anticodon binding domain of Arginyl tRNA synthetase. This domain is known as the DALR domain after characteristic conserved amino acids [].; GO: 0004814 arginine-tRNA ligase activity, 0005524 ATP binding, 0006420 arginyl-tRNA aminoacylation; PDB: 2ZUE_A 2ZUF_A 3FNR_A 1F7V_A 1F7U_A 1BS2_A 1IQ0_A.
Probab=26.10 E-value=3.3e+02 Score=22.75 Aligned_cols=90 Identities=17% Similarity=0.204 Sum_probs=45.8
Q ss_pred HHHHHHHhhCCCCC---------CCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCC
Q 009666 406 SIQELVNQIDPSER---------LDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFS 476 (529)
Q Consensus 406 KLqELVrqIDPses---------LDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFs 476 (529)
++..++++.+.... +.+|.|..|++...+|.+.|...+-.+.=|+ +-+-.+.|.+.+|-.+ .
T Consensus 7 Ri~sIl~k~~~~~~~~~~~~~~~~~~~~e~~L~~~l~~~~~~l~~a~~~~~p~~------l~~yL~~La~~f~~fy---~ 77 (119)
T PF05746_consen 7 RISSILRKAEESGINDEYDDDFLLEEEEERELLKQLARFPDVLEKAAKDLEPHK------LCDYLYELAQAFNSFY---D 77 (119)
T ss_dssp HHHHHHHHCTCTTCCCCHCCHHHS-SHHHHHHHHHHCTHHHHHHHHHHHT-CHH------HHHHHHHHHHHHHHHH---H
T ss_pred HHHHHHHcCCCcCCccccchhhhcCCHHHHHHHHHHHHHHHHHHHHHHhHHHHH------HHHHHHHHHHHHHHHH---h
Confidence 45666666644321 3456677788888888877766655533333 3333444444444331 0
Q ss_pred cccccccCCCCCchHHHHHHHHHHHHHhhhh
Q 009666 477 GDEIKTFRKPLVCDIHKERLAAVSFTLDIMC 507 (529)
Q Consensus 477 sDEIR~~RK~~ptEaHKQRMALIRKtiK~m~ 507 (529)
+.+ +-..........|++|++...+.|.
T Consensus 78 --~~~-I~~~~~~~~~~~RL~Ll~~v~~vl~ 105 (119)
T PF05746_consen 78 --NVR-ILDEDEEIRKNNRLALLKAVRQVLK 105 (119)
T ss_dssp --HS--STTSTTCHH-HHHHHHHHHHHHHHH
T ss_pred --hcc-ccccchHHHHHHHHHHHHHHHHHHH
Confidence 111 0111112225899999876655544
No 336
>PRK00440 rfc replication factor C small subunit; Reviewed
Probab=26.02 E-value=1.7e+02 Score=28.16 Aligned_cols=64 Identities=11% Similarity=0.089 Sum_probs=38.3
Q ss_pred CCHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 402 LTKRSIQELVNQI--DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 402 LtKrKLqELVrqI--DPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
++...+.+.++.+ ..+..|++++.+.|.+.++--+..+++..-+++.. .+.|+.+||...+.+.
T Consensus 161 l~~~ei~~~l~~~~~~~~~~i~~~al~~l~~~~~gd~r~~~~~l~~~~~~--~~~it~~~v~~~~~~~ 226 (319)
T PRK00440 161 LKKEAVAERLRYIAENEGIEITDDALEAIYYVSEGDMRKAINALQAAAAT--GKEVTEEAVYKITGTA 226 (319)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHc--CCCCCHHHHHHHhCCC
Confidence 4555565555554 23557899999999888775444444433333332 2467777776665443
No 337
>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=25.99 E-value=79 Score=26.17 Aligned_cols=21 Identities=5% Similarity=0.433 Sum_probs=17.1
Q ss_pred CHHHHHHHHHHHHHHHHHHHH
Q 009666 421 DPDVEDILVDIAEDFVESITM 441 (529)
Q Consensus 421 DpDVEELLLeIADDFVDsVvs 441 (529)
+.++.++.+++-|++|+|+-.
T Consensus 9 ~~~l~~~~~~lLdqlIeD~~~ 29 (66)
T PF08165_consen 9 EEELAELWLKLLDQLIEDCSK 29 (66)
T ss_pred HHHHHHHHHHHHHHHHHHhcC
Confidence 456888999999999999644
No 338
>PHA02601 int integrase; Provisional
Probab=25.89 E-value=65 Score=31.29 Aligned_cols=13 Identities=8% Similarity=0.107 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHH
Q 009666 426 DILVDIAEDFVES 438 (529)
Q Consensus 426 ELLLeIADDFVDs 438 (529)
..|.+++|+|++.
T Consensus 59 ~t~~~~~~~~~~~ 71 (333)
T PHA02601 59 RRLSELLQIWWDL 71 (333)
T ss_pred ccHHHHHHHHHHH
Confidence 4677888888875
No 339
>PRK08215 sporulation sigma factor SigG; Reviewed
Probab=25.88 E-value=1.7e+02 Score=28.31 Aligned_cols=59 Identities=10% Similarity=0.099 Sum_probs=36.3
Q ss_pred cCCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhH-HHHHh
Q 009666 397 FGNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDI-LVHLE 465 (529)
Q Consensus 397 ~~nrILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDV-QLhLE 465 (529)
....+|++..+.+|+..+..+ |.+ .+-+|.+.|..-|...|.++. .+..++.|| |-.+-
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 444688999999999987522 332 344555555555555555544 445688998 43333
No 340
>PRK09103 ribonucleotide-diphosphate reductase subunit alpha; Validated
Probab=25.87 E-value=1.5e+02 Score=34.51 Aligned_cols=33 Identities=15% Similarity=0.073 Sum_probs=25.8
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCC
Q 009666 421 DPDVEDILVDIAEDFVESITMFGCSLAKHRKSD 453 (529)
Q Consensus 421 DpDVEELLLeIADDFVDsVvs~ACrLAKHRKSd 453 (529)
++|+.++.-+|++..-...+..+|+|||.||.-
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 341
>PF15604 Toxin_43: Putative toxin 43
Probab=25.47 E-value=1.6e+02 Score=28.36 Aligned_cols=106 Identities=14% Similarity=0.128 Sum_probs=59.1
Q ss_pred ccCCHHHHHHHHHh----hCCCCCCCHHHH-----HHHHHHHHHHHHHHHHH------HHHhhhhcCCCCcchhhHHHHH
Q 009666 400 RILTKRSIQELVNQ----IDPSERLDPDVE-----DILVDIAEDFVESITMF------GCSLAKHRKSDTLEAKDILVHL 464 (529)
Q Consensus 400 rILtKrKLqELVrq----IDPsesLDpDVE-----ELLLeIADDFVDsVvs~------ACrLAKHRKSdTLEvKDVQLhL 464 (529)
.-|++-.++|+++. ++.....|..+. ++--+|.|.|.+.+... |-.+|+..-.+.++-.++ |
T Consensus 17 ~GlN~ltv~eyl~nR~~y~~~~r~~~~~~~~~ar~~~~~ki~e~~~~~l~s~~~~~~~a~~~A~~~A~~~m~tlAA-L-- 93 (152)
T PF15604_consen 17 DGLNNLTVEEYLENREAYIDNGRARDGAAAQRARRELRDKIEELIEDELLSKGMSPREAEIQAEKQAKEWMKTLAA-L-- 93 (152)
T ss_pred HHHhhCCHHHHHHHHHHHHhCCCCCChHHHHHHHHHHHHHHHHHHHHHhhcccCChHHHHHHHHHHHHHHHHHHHh-h--
Confidence 34677788888888 777777777654 33334555555555221 334444444444433333 2
Q ss_pred hhccCcccCCCCcccccccCCCC----CchHHHHHHHHHHHHHhhhhhhe
Q 009666 465 ERNWNMTLPGFSGDEIKTFRKPL----VCDIHKERLAAVSFTLDIMCLLV 510 (529)
Q Consensus 465 ERnWNI~IPGFssDEIR~~RK~~----ptEaHKQRMALIRKtiK~m~~~~ 510 (529)
.|=+|..-|+.. -|-.+.... ...-++.|+..+.+.++++..-.
T Consensus 94 -HNPD~iAGG~~~-~I~g~Gd~~vNsSiG~QWk~Ri~~Ld~aa~~~~~~~ 141 (152)
T PF15604_consen 94 -HNPDMIAGGKDS-NIGGFGDKRVNSSIGSQWKSRIDDLDAAAEKAAKKG 141 (152)
T ss_pred -cCcchhcCCCcc-ccccccchhhhHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 233444433322 122222222 23468999999999999987543
No 342
>KOG2018 consensus Predicted dinucleotide-utilizing enzyme involved in molybdopterin and thiamine biosynthesis [Posttranslational modification, protein turnover, chaperones]
Probab=25.46 E-value=1.5e+02 Score=32.37 Aligned_cols=64 Identities=9% Similarity=0.108 Sum_probs=43.3
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCc--ccCCCCcccccc
Q 009666 418 ERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNM--TLPGFSGDEIKT 482 (529)
Q Consensus 418 esLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI--~IPGFssDEIR~ 482 (529)
..||+-+-.-=+++-|..+...+..+.++--.-.. .|+++||-++.|.-|.= .|+|++.|++-.
T Consensus 306 ~pmepi~~~nrlk~Yd~i~q~l~~e~~r~g~n~er-~l~leev~YiVeEv~~GrS~i~~~st~kltl 371 (430)
T KOG2018|consen 306 YPMEPIENKNRLKHYDLIHQRLIEEMTRYGTNAER-ELDLEEVSYIVEEVFHGRSAISGTSTDKLTL 371 (430)
T ss_pred CCCCcccccchhHHHHHHHHHHHHHHHHhCCCccc-cccHHHHHHHHHHHHcCCCCCCCcccceeEE
Confidence 34444333333566666666666666665544333 79999999999999984 488999987654
No 343
>PRK05870 enoyl-CoA hydratase; Provisional
Probab=25.43 E-value=59 Score=31.44 Aligned_cols=93 Identities=13% Similarity=0.034 Sum_probs=41.9
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHH-HHHH--HHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC-cccCCC
Q 009666 400 RILTKRSIQELVNQIDPSERLDPD-VEDI--LVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN-MTLPGF 475 (529)
Q Consensus 400 rILtKrKLqELVrqIDPsesLDpD-VEEL--LLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWN-I~IPGF 475 (529)
++++.++..+|+-. +..|+.+ +.++ +-+++|++.+.+...+-++|+. ...-++-++..|.+.|+ ..+-..
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 2223344444444444444443 22334444555555444 332111
Q ss_pred CcccccccCCCCCchHHHHHHHH
Q 009666 476 SGDEIKTFRKPLVCDIHKERLAA 498 (529)
Q Consensus 476 ssDEIR~~RK~~ptEaHKQRMAL 498 (529)
...|.....+...++++++.++.
T Consensus 223 ~~~e~~~~~~~~~~~d~~eg~~a 245 (249)
T PRK05870 223 VEFELGPQAASVQSPEFAARLAA 245 (249)
T ss_pred HHHHHHHHHHHhcChhHHHHHHH
Confidence 11133334444556666666554
No 344
>PRK06075 NADH dehydrogenase subunit D; Validated
Probab=25.28 E-value=4.6e+02 Score=28.04 Aligned_cols=57 Identities=7% Similarity=0.137 Sum_probs=33.9
Q ss_pred HHHHHHHHHhhCCC-------------CCCCHHHHHHHHHHHHHHHHHHHHHHHH-------hhhhcCCCCcchhhH
Q 009666 404 KRSIQELVNQIDPS-------------ERLDPDVEDILVDIAEDFVESITMFGCS-------LAKHRKSDTLEAKDI 460 (529)
Q Consensus 404 KrKLqELVrqIDPs-------------esLDpDVEELLLeIADDFVDsVvs~ACr-------LAKHRKSdTLEvKDV 460 (529)
|+.+.+|+..|.++ ..|+++-.+.|+++.|.|-+.+-+..-. +++.++--+|+.+|+
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 444456666666665
No 345
>PF03432 Relaxase: Relaxase/Mobilisation nuclease domain ; InterPro: IPR005094 Relaxases/mobilisation proteins are required for the horizontal transfer of genetic information contained on plasmids that occurs during bacterial conjugation. The relaxase, in conjunction with several auxiliary proteins, forms the relaxation complex or relaxosome. Relaxases nick duplex DNA in a specific manner by catalysing trans-esterification [].
Probab=25.23 E-value=39 Score=31.50 Aligned_cols=57 Identities=21% Similarity=0.369 Sum_probs=35.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHH--HHHHhhhhcCCC-------------------------CcchhhHHHHHhhc
Q 009666 415 DPSERLDPDVEDILVDIAEDFVESITM--FGCSLAKHRKSD-------------------------TLEAKDILVHLERN 467 (529)
Q Consensus 415 DPsesLDpDVEELLLeIADDFVDsVvs--~ACrLAKHRKSd-------------------------TLEvKDVQLhLERn 467 (529)
++++ +++ |.+.+||++|++.+.- .-+-++.|...+ .-+++++--.|+++
T Consensus 65 ~~~e-~~~---e~~~~~~~~~~~~~~~~~~~~v~~~H~D~~h~H~Hivin~v~~~tGk~~~~~~~~~~~~~~~~~~l~~~ 140 (242)
T PF03432_consen 65 PPDE-LTP---EQAHEIAREFAEEMGPGNHQYVVVVHTDTDHPHVHIVINRVDLDTGKKLNPSNKDYRRLREASDELEKE 140 (242)
T ss_pred Cccc-cCH---HHHHHHHHHHHHHcCCCCcceEEEECCCcCeeeeeEEEeecccccccccccchhHHHHHHHHHHHHHHh
Confidence 3444 555 7888999999998764 334455555533 12234555677888
Q ss_pred cCcccCCC
Q 009666 468 WNMTLPGF 475 (529)
Q Consensus 468 WNI~IPGF 475 (529)
||+.+..-
T Consensus 141 ~gl~~~~~ 148 (242)
T PF03432_consen 141 YGLSVVEP 148 (242)
T ss_pred cCCccCcc
Confidence 88887544
No 346
>PF08202 MIS13: Mis12-Mtw1 protein family; InterPro: IPR013218 The Mtw1 kinetochore complex contains at least four essential components including Mtw1, DSN1, NNF1 and NSL1. All proteins exhibit genetic and two-hybrid interactions and all stabley associate in solution. The function of the complex is unclear though it is involved in chromosome segregation [, ].; GO: 0005515 protein binding
Probab=25.12 E-value=1.7e+02 Score=29.99 Aligned_cols=81 Identities=20% Similarity=0.208 Sum_probs=46.0
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccccccCCCCC-chHHHHH
Q 009666 417 SERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKTFRKPLV-CDIHKER 495 (529)
Q Consensus 417 sesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEIR~~RK~~p-tEaHKQR 495 (529)
...-+.++..++..|-|+||+|+.....-+=-..+.+. +..| .=|-.|.+.. |+-+.++++++ +..+.+.
T Consensus 95 ~~~~~~~~~~~ar~I~~e~l~dl~~~~~~~sW~~~~~~-~~~~-------~~d~~l~~~f-e~~~~v~~PNpkNi~N~~~ 165 (301)
T PF08202_consen 95 SGSEDSSAKLIARVIQEEFLKDLRDGSISISWFSREDS-DSPD-------GEDTTLRKLF-EDSKVVLKPNPKNIENEEN 165 (301)
T ss_pred cCCCcccHHHHHHHHHHHHHHHHHcCCccCCccccccc-cccc-------CCcccccccc-cccccccCCCccchhhHHH
Confidence 34668889999999999999998776554433322221 1111 0112222211 11123445554 5677778
Q ss_pred HHHHHHHHhhh
Q 009666 496 LAAVSFTLDIM 506 (529)
Q Consensus 496 MALIRKtiK~m 506 (529)
++.+.+-|+++
T Consensus 166 i~~Lee~I~rL 176 (301)
T PF08202_consen 166 IAELEEKIKRL 176 (301)
T ss_pred HHHHHHHHHHH
Confidence 88877777665
No 347
>PRK13424 F0F1 ATP synthase subunit gamma; Provisional
Probab=25.10 E-value=1.4e+02 Score=30.10 Aligned_cols=30 Identities=20% Similarity=0.304 Sum_probs=24.1
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 009666 418 ERLDPDVEDILVDIAEDFVESITMFGCSLA 447 (529)
Q Consensus 418 esLDpDVEELLLeIADDFVDsVvs~ACrLA 447 (529)
..++++.+++|-+|...||...+-.++.-+
T Consensus 208 ~~~ep~~~~il~~L~~~yl~~~ly~al~es 237 (291)
T PRK13424 208 YIYEPSVEGLLAELLPRFIKVQIYRGLLDT 237 (291)
T ss_pred eeecCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 568889999999999999998776665443
No 348
>PRK13107 preprotein translocase subunit SecA; Reviewed
Probab=25.01 E-value=70 Score=38.00 Aligned_cols=49 Identities=12% Similarity=0.269 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 422 PDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 422 pDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
+++.+.+.++.+|+|++++..-|. .+ ...+..+++.+...|.++|++.+
T Consensus 670 ~~~~~~i~~~~~~~i~~~v~~~~~-~~-~~~~~~~~~~l~~~~~~~~~~~~ 718 (908)
T PRK13107 670 ESIEDTIKNIQDDVINGVIDQYIP-PQ-SVEELWDVPGLEQRLHQEFMLKL 718 (908)
T ss_pred CCHHHHHHHHHHHHHHHHHHHhcC-CC-cchhhccHHHHHHHHHHHcCCCC
Confidence 346777888888888888875321 11 11223467777777777776543
No 349
>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=24.93 E-value=1.5e+02 Score=26.46 Aligned_cols=46 Identities=15% Similarity=0.359 Sum_probs=31.4
Q ss_pred HHHHHHHH-HHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCC
Q 009666 426 DILVDIAE-DFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGF 475 (529)
Q Consensus 426 ELLLeIAD-DFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGF 475 (529)
.+..+||+ +|+++++. +++.+.....+||+-.+.|=.+|...+++.
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 333332333578888888888999887664
No 350
>cd06250 M14_PaAOTO_like An uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the the M14 family of metallocarboxypeptidases. This subgroup includes Pseudomonas aeruginosa AotO and related proteins. ASTE catalyzes the fifth and last step in arginine catabolism by the arginine succinyltransferase pathway, and aspartoacylase (ASPA, also known as aminoacylase 2, and ACY-2; EC:3.5.1.15) cleaves N-acetyl L-aspartic acid (NAA) into aspartate and acetate. NAA is abundant in the brain, and hydrolysis of NAA by ASPA may help maintain white matter. ASPA is an NAA scavenger in other tissues. Mutations in the gene encoding ASPA cause Canavan disease (CD), a fatal progressive neurodegenerative disorder involving dysmyelination and spongiform degeneration of white matter in children. This enzyme binds zinc which is necessary for activity. Measurement of elevated NAA levels in urine is used in the diagnosis of CD. The gene encoding
Probab=24.84 E-value=1.2e+02 Score=31.63 Aligned_cols=21 Identities=5% Similarity=0.148 Sum_probs=15.7
Q ss_pred cCCccCCHHHHHHHHHhhCCC
Q 009666 397 FGNRILTKRSIQELVNQIDPS 417 (529)
Q Consensus 397 ~~nrILtKrKLqELVrqIDPs 417 (529)
-++.+..-..+.+|++++|+.
T Consensus 37 HGdE~~G~~~~~~L~~~l~~~ 57 (359)
T cd06250 37 HADELPGMLVLHHLIELLKKL 57 (359)
T ss_pred ccCchHHHHHHHHHHHHHhhh
Confidence 355566788888999988875
No 351
>PF13963 Transpos_assoc: Transposase-associated domain
Probab=24.73 E-value=72 Score=26.49 Aligned_cols=34 Identities=24% Similarity=0.330 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHH---------HHhhhhcCCCCcchhhHHHHHhhc
Q 009666 432 AEDFVESITMFG---------CSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 432 ADDFVDsVvs~A---------CrLAKHRKSdTLEvKDVQLhLERn 467 (529)
+++||+-+...+ |+-+|+++. ++..||.-||-++
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 566777766 6899999999875
No 352
>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=24.39 E-value=1.6e+02 Score=32.08 Aligned_cols=18 Identities=17% Similarity=0.416 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 009666 423 DVEDILVDIAEDFVESIT 440 (529)
Q Consensus 423 DVEELLLeIADDFVDsVv 440 (529)
.-.|.|++.|.+||+..-
T Consensus 4 ~~~e~l~~~A~~Fi~~~y 21 (372)
T PF02898_consen 4 RSKEELLEEAKEFIDQYY 21 (372)
T ss_dssp -THHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHH
Confidence 346788999999998654
No 353
>PRK12896 methionine aminopeptidase; Reviewed
Probab=24.34 E-value=70 Score=30.35 Aligned_cols=50 Identities=20% Similarity=0.209 Sum_probs=29.4
Q ss_pred CcchhhHHHHHhhccCcccCCCCcccccccCCCCCchHHHHHHHHHHHHHhhh
Q 009666 454 TLEAKDILVHLERNWNMTLPGFSGDEIKTFRKPLVCDIHKERLAAVSFTLDIM 506 (529)
Q Consensus 454 TLEvKDVQLhLERnWNI~IPGFssDEIR~~RK~~ptEaHKQRMALIRKtiK~m 506 (529)
.|..-|+ +.++ ++..+-||.+|--|++---.+++++++-...+++.++++
T Consensus 90 ~l~~Gd~-v~iD--~g~~~~gY~aD~~RT~~vG~~~~~~~~~~~~~~~a~~~~ 139 (255)
T PRK12896 90 VIKDGDL-VNID--VSAYLDGYHGDTGITFAVGPVSEEAEKLCRVAEEALWAG 139 (255)
T ss_pred cCCCCCE-EEEE--EeEEECcEEEeeEEEEECCCCCHHHHHHHHHHHHHHHHH
Confidence 3444565 3333 567788999988787644345666666555555544433
No 354
>cd05133 RasGAP_IQGAP1 IQGAP1 is a homodimeric protein that is widely expressed among vertebrate cell types from early embryogenesis. Mammalian IQGAP1 protein is the best characterized member of the IQGAP family, and contains several protein-interacting domains. Human IQGAP1 is most similar to mouse Iqgap1 (94% identity) and has 62% identity to human IQGAP2. IQGAP1 binds and cross-links actin filaments in vitro and has been implicated in Ca2+/calmodulin signaling, E-cadherin-dependent cell adhesion, cell motility, and invasion. Yeast IQGAP homologues have a role in the recruitment of actin filaments, are components of the spindle pole body, and are required for actomyosin ring assembly and cytokinesis. Furthermore, IQGAP1 over-expression has also been detected in gastric and colorectal carcinomas and gastric cancer cell lines.
Probab=24.33 E-value=4.5e+02 Score=28.13 Aligned_cols=85 Identities=14% Similarity=0.130 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHHHHHHH-------HHhhhh------cCCCCcc----hhhH-HHHHhhccCccc--C-CCCcccccccC
Q 009666 426 DILVDIAEDFVESITMFG-------CSLAKH------RKSDTLE----AKDI-LVHLERNWNMTL--P-GFSGDEIKTFR 484 (529)
Q Consensus 426 ELLLeIADDFVDsVvs~A-------CrLAKH------RKSdTLE----vKDV-QLhLERnWNI~I--P-GFssDEIR~~R 484 (529)
..|.+++|+|++.|+... +-+||+ ++.-.-+ .+=| .|.+.|-+|=.| | +|+--+.. .
T Consensus 124 ~~Lr~i~~~fl~~I~~S~~~~P~~iR~ick~i~~~~~~kFP~~~~~~i~~~vG~fiflRfi~PAIvsPe~~~ii~~~--~ 201 (360)
T cd05133 124 RNMRTVTDKFLSAIVSSVDKIPYGMRFIAKVLKDSLHEKFPDAGEDELLKIVGNLLYYRYMNPAIVAPDAFDIIDLS--A 201 (360)
T ss_pred HHHHHHHHHHHHHHHHhHHhCCHHHHHHHHHHHHHHHHHCCCCchhhHHHHHHHHHHHHhccccccCchhcCccccc--c
Confidence 346899999999998766 222222 1111100 0111 344555555222 2 11111110 0
Q ss_pred CCCCchHHHHHHHHHHHHHhhhhhheee
Q 009666 485 KPLVCDIHKERLAAVSFTLDIMCLLVIY 512 (529)
Q Consensus 485 K~~ptEaHKQRMALIRKtiK~m~~~~~~ 512 (529)
....+..-+.-|.+|-|.|..++-...|
T Consensus 202 ~~~~~~~~rrnL~~iaKvLQ~lan~~~f 229 (360)
T cd05133 202 GGQLTTDQRRNLGSIAKMLQHAASNKMF 229 (360)
T ss_pred CCCCCHHHHhhHHHHHHHHHHHHcCCCC
Confidence 1334666777888999999988877666
No 355
>PRK13292 trifunctional NADH dehydrogenase I subunit B/C/D; Provisional
Probab=24.31 E-value=2.8e+02 Score=32.66 Aligned_cols=58 Identities=12% Similarity=0.166 Sum_probs=36.6
Q ss_pred CHHHHHHHHHhhCCC-------------CCCCHHHHHHHHHHHHHHHHHHHHH-------HHHhhhhcCCCCcchhhH
Q 009666 403 TKRSIQELVNQIDPS-------------ERLDPDVEDILVDIAEDFVESITMF-------GCSLAKHRKSDTLEAKDI 460 (529)
Q Consensus 403 tKrKLqELVrqIDPs-------------esLDpDVEELLLeIADDFVDsVvs~-------ACrLAKHRKSdTLEvKDV 460 (529)
-|.+|.+|+..|.++ .-|+++.++.|+++.++|-+.+-+. -.-+++-++--+|..+|.
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 2455677777777776655444333 333455566667776664
No 356
>PRK05708 2-dehydropantoate 2-reductase; Provisional
Probab=24.30 E-value=1.3e+02 Score=29.98 Aligned_cols=6 Identities=50% Similarity=0.916 Sum_probs=2.4
Q ss_pred cccccc
Q 009666 193 MGVMGS 198 (529)
Q Consensus 193 mG~mGs 198 (529)
.|-||+
T Consensus 10 aGaiG~ 15 (305)
T PRK05708 10 AGSLGS 15 (305)
T ss_pred CCHHHH
Confidence 344443
No 357
>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=24.30 E-value=1.6e+02 Score=26.68 Aligned_cols=50 Identities=18% Similarity=0.294 Sum_probs=38.6
Q ss_pred HHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 406 SIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 406 KLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
.|++++..|| +.||.+=.|+|.-+..|+|.+ .+..+.=+.+|+-..||+.
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 678999999999999999963 2222233588999999986
No 358
>COG4229 Predicted enolase-phosphatase [Energy production and conversion]
Probab=24.29 E-value=3.4e+02 Score=27.78 Aligned_cols=98 Identities=14% Similarity=0.208 Sum_probs=57.7
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHH-HHHHHHHH-HHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccc
Q 009666 403 TKRSIQELVNQIDPSERLDPDVEDILVDIAEDF-VESITMFG-CSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEI 480 (529)
Q Consensus 403 tKrKLqELVrqIDPsesLDpDVEELLLeIADDF-VDsVvs~A-CrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEI 480 (529)
-+++|.++|++=-....+-+-|.+++.+.-.+| .|.++..- --+|+-||... +|-+|=+ ||-=||-+.|+
T Consensus 29 a~~~lp~fv~e~~e~~~v~~~v~~v~~e~g~~~s~E~lva~~~~wiaed~K~t~--lK~lQG~------iWa~Gy~sgel 100 (229)
T COG4229 29 AARKLPDFVRENTEDSEVKKIVDEVLSEFGIANSEEALVALLLEWIAEDSKDTP--LKALQGM------IWAHGYESGEL 100 (229)
T ss_pred HHHHhHHHHHhhccCChhhHHHHHHHHHhCccchHHHHHHHHHHHHhcccccch--HHHHHhH------HHHhccccCcc
Confidence 589999999985443444445556666655555 56555544 34566666554 4555432 45568888776
Q ss_pred cccCCCCCchHHHHHHHHHHHHHhhhhhheeeecc
Q 009666 481 KTFRKPLVCDIHKERLAAVSFTLDIMCLLVIYKDA 515 (529)
Q Consensus 481 R~~RK~~ptEaHKQRMALIRKtiK~m~~~~~~~~~ 515 (529)
+.- .+-.-+..||+-..+=..+.||...
T Consensus 101 kah-------lypDav~~ik~wk~~g~~vyiYSSG 128 (229)
T COG4229 101 KAH-------LYPDAVQAIKRWKALGMRVYIYSSG 128 (229)
T ss_pred ccc-------cCHhHHHHHHHHHHcCCcEEEEcCC
Confidence 641 1223345566666555566777654
No 359
>PRK05720 mtnA methylthioribose-1-phosphate isomerase; Reviewed
Probab=24.21 E-value=1.4e+02 Score=31.45 Aligned_cols=29 Identities=14% Similarity=0.157 Sum_probs=24.1
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 009666 421 DPDVEDILVDIAEDFVESITMFGCSLAKH 449 (529)
Q Consensus 421 DpDVEELLLeIADDFVDsVvs~ACrLAKH 449 (529)
.+++.+.|++-||+|+++.+...-++++|
T Consensus 111 ~~~~~~~l~~~a~~~~~e~~~~~~~I~~~ 139 (344)
T PRK05720 111 GAERKAALEEEAIEIHEEDVEINRAIGEH 139 (344)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788999999999999999766666665
No 360
>PRK06347 autolysin; Reviewed
Probab=24.16 E-value=82 Score=35.58 Aligned_cols=38 Identities=13% Similarity=0.178 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCc
Q 009666 432 AEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNM 470 (529)
Q Consensus 432 ADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI 470 (529)
.++||+.|...|.++||..+--- .|.=-|-+||-.||-
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 47999999999999999888653 455558899998885
No 361
>PLN02353 probable UDP-glucose 6-dehydrogenase
Probab=24.11 E-value=1.9e+02 Score=31.48 Aligned_cols=73 Identities=3% Similarity=-0.039 Sum_probs=50.0
Q ss_pred HHHHHHHHHhhC---CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc----cCcccCCCC
Q 009666 404 KRSIQELVNQID---PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN----WNMTLPGFS 476 (529)
Q Consensus 404 KrKLqELVrqID---PsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn----WNI~IPGFs 476 (529)
.+++.+|.+.+- .-...+.++-|+..-+.+-|.+-=+.|+..||+.-..--+++.||.-.+... |++--||+|
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 456778887774 3346788899999999999988877777766655544456667765555544 455556664
No 362
>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=24.11 E-value=70 Score=27.15 Aligned_cols=38 Identities=24% Similarity=0.357 Sum_probs=21.3
Q ss_pred CHHHHHHHHHhh-----CCCCCCCHHHHHHHHHHHHHHHHHHH
Q 009666 403 TKRSIQELVNQI-----DPSERLDPDVEDILVDIAEDFVESIT 440 (529)
Q Consensus 403 tKrKLqELVrqI-----DPsesLDpDVEELLLeIADDFVDsVv 440 (529)
++.|.+.|+..| +.+...-+|+||+|.++.|+-.+-++
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 456666666555 22233355677777777755444444
No 363
>CHL00059 atpA ATP synthase CF1 alpha subunit
Probab=24.07 E-value=1.2e+02 Score=33.70 Aligned_cols=31 Identities=13% Similarity=0.295 Sum_probs=22.9
Q ss_pred HHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH
Q 009666 408 QELVNQIDPSERLDPDVEDILVDIAEDFVES 438 (529)
Q Consensus 408 qELVrqIDPsesLDpDVEELLLeIADDFVDs 438 (529)
.+++++|+....|+++.++.|.++..+|++.
T Consensus 448 ~~~~~~i~~~~~~~~~~~~~l~~~~~~~~~~ 478 (485)
T CHL00059 448 PQFQEIISSTKTFTEEAEALLKEAIQEQLEL 478 (485)
T ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 3566667667778888888888888888765
No 364
>PRK12921 2-dehydropantoate 2-reductase; Provisional
Probab=23.98 E-value=83 Score=30.32 Aligned_cols=32 Identities=9% Similarity=0.095 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHh
Q 009666 433 EDFVESITMFGCSLAKHRKSDTLEAKDILVHLE 465 (529)
Q Consensus 433 DDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLE 465 (529)
.+.+..++...+++|+..|.+ ++-.++..+++
T Consensus 213 ~~l~~~~~~E~~~v~~a~G~~-~~~~~~~~~~~ 244 (305)
T PRK12921 213 RDLARALLRECLAVARAEGAP-LRDDVVEEIVK 244 (305)
T ss_pred HHHHHHHHHHHHHHHHHcCCC-CChhHHHHHHH
Confidence 345556666778888888776 34444444444
No 365
>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=23.96 E-value=1e+02 Score=25.94 Aligned_cols=46 Identities=13% Similarity=0.121 Sum_probs=21.2
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHHHH-HHHHHHHHHHHHHhhhhc
Q 009666 404 KRSIQELVNQIDPSERLDPDVEDILVDIA-EDFVESITMFGCSLAKHR 450 (529)
Q Consensus 404 KrKLqELVrqIDPsesLDpDVEELLLeIA-DDFVDsVvs~ACrLAKHR 450 (529)
|+++..++.+--...-+++ +.+-|.+|- .+|..+|+..+...|-++
T Consensus 2 ~k~i~~~l~ey~~~~D~~e-a~~~l~~L~~~~~~~~vv~~~i~~~le~ 48 (113)
T smart00544 2 KKKIFLIIEEYLSSGDTDE-AVHCLLELKLPEQHHEVVKVLLTCALEE 48 (113)
T ss_pred hhHHHHHHHHHHHcCCHHH-HHHHHHHhCCCcchHHHHHHHHHHHHcC
Confidence 4566666665433322222 222223222 245555555555555555
No 366
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=23.94 E-value=2.7e+02 Score=29.99 Aligned_cols=17 Identities=24% Similarity=0.397 Sum_probs=12.2
Q ss_pred CCCCCHHHHHHHHHHHH
Q 009666 417 SERLDPDVEDILVDIAE 433 (529)
Q Consensus 417 sesLDpDVEELLLeIAD 433 (529)
+..|++||.+.|++-++
T Consensus 288 ~~~l~~evl~~la~~~~ 304 (445)
T PRK12422 288 SIRIEETALDFLIEALS 304 (445)
T ss_pred CCCCCHHHHHHHHHhcC
Confidence 46788888887765544
No 367
>PRK14963 DNA polymerase III subunits gamma and tau; Provisional
Probab=23.80 E-value=1.7e+02 Score=32.21 Aligned_cols=67 Identities=12% Similarity=0.123 Sum_probs=46.4
Q ss_pred cCCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009666 401 ILTKRSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (529)
Q Consensus 401 ILtKrKLqELVrqID--PsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWN 469 (529)
-|+...|.+.|++|- .+..+|+++.++|.++++.-+.++++.-=+++.. .+.|+..||.-.+...|.
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 235777887766655554
No 368
>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=23.73 E-value=1e+02 Score=27.96 Aligned_cols=35 Identities=14% Similarity=0.172 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhH
Q 009666 426 DILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDI 460 (529)
Q Consensus 426 ELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDV 460 (529)
+=+-.+.+||+..|+..-++.|...+.++|.++|+
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 369
>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=23.71 E-value=1.2e+02 Score=30.05 Aligned_cols=49 Identities=24% Similarity=0.335 Sum_probs=36.0
Q ss_pred cCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHH---------------HHHHHHHHHHHHhhhhcC
Q 009666 401 ILTKRSIQELVNQIDPSERLDPDVEDILVDIAE---------------DFVESITMFGCSLAKHRK 451 (529)
Q Consensus 401 ILtKrKLqELVrqIDPsesLDpDVEELLLeIAD---------------DFVDsVvs~ACrLAKHRK 451 (529)
-|+|.+|.|.++++-...--.+|.|.+|.||-+ -|||.||.... ++|.+
T Consensus 54 kitKtaI~~aLr~mkKsGi~k~EL~~~~~eil~gK~kS~La~ctD~Eal~iDrVI~~vL--~~~~g 117 (176)
T PF06576_consen 54 KITKTAINEALRRMKKSGISKPELEAFLREILNGKQKSWLAFCTDDEALFIDRVIGEVL--AEHPG 117 (176)
T ss_pred cccHHHHHHHHHHHHHhcCCcHHHHHHHHHHhCcccccccceecchHHHHHHHHHHHHH--HhCcc
Confidence 458999999999998877778888888887753 27777776543 33444
No 370
>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=23.69 E-value=1.4e+02 Score=25.61 Aligned_cols=43 Identities=14% Similarity=0.258 Sum_probs=29.6
Q ss_pred HHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH----------HHHHHHHhhhhcC
Q 009666 406 SIQELVNQIDPSERLDPDVEDILVDIAEDFVES----------ITMFGCSLAKHRK 451 (529)
Q Consensus 406 KLqELVrqIDPsesLDpDVEELLLeIADDFVDs----------Vvs~ACrLAKHRK 451 (529)
.+.+|+++++- =++++.+.+.++|++..+| ++.|+..||++-.
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 2456788899999887665 5788999998753
No 371
>PRK06245 cofG FO synthase subunit 1; Reviewed
Probab=23.55 E-value=7.7e+02 Score=24.88 Aligned_cols=22 Identities=9% Similarity=-0.056 Sum_probs=14.2
Q ss_pred cCCCCCchHHHHHHHHHHHHHh
Q 009666 483 FRKPLVCDIHKERLAAVSFTLD 504 (529)
Q Consensus 483 ~RK~~ptEaHKQRMALIRKtiK 504 (529)
.++..+.....+|+..|+...+
T Consensus 143 v~~~~~~~~~~~~l~~i~~a~~ 164 (336)
T PRK06245 143 VHRGSPGKDPELRLETIENAGK 164 (336)
T ss_pred hccCCCCCCHHHHHHHHHHHHH
Confidence 3555566667777777776654
No 372
>PRK06585 holA DNA polymerase III subunit delta; Reviewed
Probab=23.53 E-value=2e+02 Score=28.64 Aligned_cols=69 Identities=14% Similarity=0.198 Sum_probs=45.6
Q ss_pred CCHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 402 LTKRSIQELVNQI--DPSERLDPDVEDILVDIAED---FVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 402 LtKrKLqELVrqI--DPsesLDpDVEELLLeIADD---FVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
++.+.|.++|++. .-+..||+|+.++|.+.+.. -+.+-++.-|.++. +..+|+.+||.-.+...-...|
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 4566677777666 35679999999999998886 34444444444433 2346999999777655444443
No 373
>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=23.50 E-value=87 Score=32.53 Aligned_cols=43 Identities=16% Similarity=0.136 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 429 VDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 429 LeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
...-++||+.+...|.++||.-|-.. ++-=-|-+||-.||-..
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 35568999999999999999888764 55556889999998554
No 374
>PRK14950 DNA polymerase III subunits gamma and tau; Provisional
Probab=23.44 E-value=1.3e+02 Score=33.10 Aligned_cols=65 Identities=11% Similarity=0.107 Sum_probs=41.5
Q ss_pred CCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 402 LTKRSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 402 LtKrKLqELVrqID--PsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
++...|.+.++++- .+..||+++.++|.++++.=+..++...-+|+.+ +.+.|+.+||+-.+...
T Consensus 179 l~~~el~~~L~~~a~~egl~i~~eal~~La~~s~Gdlr~al~~LekL~~y-~~~~It~e~V~~ll~~s 245 (585)
T PRK14950 179 HSVADMAAHLRKIAAAEGINLEPGALEAIARAATGSMRDAENLLQQLATT-YGGEISLSQVQSLLGIS 245 (585)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh-cCCCCCHHHHHHHhcCC
Confidence 34556666666552 3457899999999888875455555555555554 34468888887655543
No 375
>PHA03373 tegument protein; Provisional
Probab=23.43 E-value=39 Score=34.66 Aligned_cols=53 Identities=19% Similarity=0.259 Sum_probs=39.8
Q ss_pred hcCCCCcchhhHHHHHhhccCcccCCCCcccccccCCCCCchHHHHHHHHHHHHH
Q 009666 449 HRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKTFRKPLVCDIHKERLAAVSFTL 503 (529)
Q Consensus 449 HRKSdTLEvKDVQLhLERnWNI~IPGFssDEIR~~RK~~ptEaHKQRMALIRKti 503 (529)
.|-++-+|+.|++-+||.||+-- |....+|+.+.|-..+-.|.-++-=|-|.-
T Consensus 26 L~~sedve~~eL~~flee~f~~l--Git~~Di~~~~rDtEv~khLL~LLP~Yk~c 78 (247)
T PHA03373 26 LRPSEDVELAELEAFLEENFKDF--GITQADIRSLSRDTEVVKHLLQLLPIYKQC 78 (247)
T ss_pred ecCcchhhHHHHHHHHHHhHHhc--CcCHHHHHHHhhhhHHHHHHHHHhHHHHHH
Confidence 45577899999999999977643 778888998888777777776665544443
No 376
>PRK12712 flgJ flagellar rod assembly protein/muramidase FlgJ; Provisional
Probab=23.39 E-value=91 Score=33.33 Aligned_cols=40 Identities=13% Similarity=0.078 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 432 AEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 432 ADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
.++||+.+...|-++||.-|-.. .+-=-|-+||-.||-.+
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 39999999999999999988764 45556899999998654
No 377
>COG1331 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]
Probab=23.36 E-value=93 Score=35.91 Aligned_cols=104 Identities=21% Similarity=0.220 Sum_probs=67.3
Q ss_pred HHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCccccccc--
Q 009666 406 SIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKTF-- 483 (529)
Q Consensus 406 KLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEIR~~-- 483 (529)
-+.+|+.+|+-.-. +=.|-|++.|++-++.+-..+|.-++..-.+.+ ++|+--.|.+.|+...-||++...-+.
T Consensus 138 Gf~~lL~~i~~~W~---edr~~~~~~a~~~~~~l~~~~~~~~~~~l~~~~-l~~~~~~l~~~~D~~~GGfg~~pKFP~~~ 213 (667)
T COG1331 138 GFKQLLEAIRETWR---EDREELLQSAERVLEALEGLARPSAGEELDEEV-LDRAAEALARSFDREYGGFGSAPKFPPPH 213 (667)
T ss_pred CHHHHHHHHHHHHH---hhHHHHHHHHHHHHHHHHhccCCCccccCChHH-HHHHHHHHHHhcchhhCCcCCCCCCCChH
Confidence 46666666632221 334557788888777777666555555555544 678888999999999999998753221
Q ss_pred ------CCCCCchHHHHHHHHHHHHHhhhhhheeeec
Q 009666 484 ------RKPLVCDIHKERLAAVSFTLDIMCLLVIYKD 514 (529)
Q Consensus 484 ------RK~~ptEaHKQRMALIRKtiK~m~~~~~~~~ 514 (529)
|.+..+.+ ..=+.++.++|+.|++--||.-
T Consensus 214 ~l~~Llr~~~~~~d-~~~~~~~~~TL~~ma~GGIyDh 249 (667)
T COG1331 214 LLLFLLRYSLRTGD-ERALDMVLRTLDAMARGGIYDH 249 (667)
T ss_pred HHHHHHHHHHhhCC-HHHHHHHHHHHHHHHccCCccc
Confidence 00101000 1335678999999999999973
No 378
>PF06122 TraH: Conjugative relaxosome accessory transposon protein; InterPro: IPR010927 Six Tra proteins encoded by the F plasmid and required by F(+) cells to elaborate F pili. The six proteins are TraH, TraF, TraW, TraU, TrbI, and TrbB. Except for TrbI, these proteins were all identified as hallmarks of F-like type IV secretion systems (TFSSs), with no homologues among TFSS genes of P-type or I-type systems. With the exception of TrbI, which is an inner membrane protein, the remaining proteins are or are predicted to be periplasmic. TrbI consists of one membrane-spanning segment near its N terminus and an 88-residue, hydrophilic domain that extends into the periplasm []. It has been proposed that the TraH interaction group is to control F-pilus extension and retraction during conjugation [, , ].
Probab=23.29 E-value=1.2e+02 Score=31.74 Aligned_cols=58 Identities=10% Similarity=0.247 Sum_probs=41.5
Q ss_pred CcCCccCCHHHHHHHHHhhCCC----------CCCCHHHHHHHHHHHH--HHHHHHHHHHHHhhhhcCCC
Q 009666 396 EFGNRILTKRSIQELVNQIDPS----------ERLDPDVEDILVDIAE--DFVESITMFGCSLAKHRKSD 453 (529)
Q Consensus 396 e~~nrILtKrKLqELVrqIDPs----------esLDpDVEELLLeIAD--DFVDsVvs~ACrLAKHRKSd 453 (529)
..+=-+|+++.|.+|+|.|-.+ ..|.++..+++-+|-+ +.+++..-.+|++||---..
T Consensus 62 ~GsFSfIn~dqlVq~lr~Ia~nA~gyAF~LAL~t~~p~~~~~~~~lq~~~~~lN~~~~nsCq~aq~lv~~ 131 (361)
T PF06122_consen 62 MGSFSFINSDQLVQMLRNIASNAPGYAFQLALQTLCPQCGNIMDKLQKIAQALNQMNINSCQAAQGLVNG 131 (361)
T ss_pred ccccccCCHHHHHHHHHHHHHhhHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHh
Confidence 3456789999999999999543 3677776666554432 35677888899999864444
No 379
>PRK05684 flgJ flagellar rod assembly protein/muramidase FlgJ; Validated
Probab=23.25 E-value=88 Score=32.85 Aligned_cols=42 Identities=17% Similarity=0.179 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 430 DIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 430 eIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
.-.++||+.|...|.++||.-|-.. .+-=-|-+||-.||-..
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 4458999999999999999888664 44445889999998554
No 380
>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=23.23 E-value=3.4e+02 Score=29.51 Aligned_cols=32 Identities=16% Similarity=0.163 Sum_probs=26.0
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC
Q 009666 421 DPDVEDILVDIAEDFVESITMFGCSLAKHRKS 452 (529)
Q Consensus 421 DpDVEELLLeIADDFVDsVvs~ACrLAKHRKS 452 (529)
++|+.++.-+|++..-...+..+|+|||.||.
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 381
>KOG2389 consensus Predicted bromodomain transcription factor [Transcription]
Probab=23.20 E-value=2.1e+02 Score=30.95 Aligned_cols=64 Identities=11% Similarity=0.244 Sum_probs=51.2
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 402 LtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
|.|-.....+..|. ...++.-+-|.|-+++-.||-++...|-+++-|-|.--..+.||.+.|+-
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 34444555555553 35666668999999999999999999999999999888889999998875
No 382
>PRK14964 DNA polymerase III subunits gamma and tau; Provisional
Probab=23.15 E-value=1.6e+02 Score=32.57 Aligned_cols=62 Identities=10% Similarity=0.098 Sum_probs=38.9
Q ss_pred CCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009666 402 LTKRSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL 464 (529)
Q Consensus 402 LtKrKLqELVrqID--PsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhL 464 (529)
++...|.+.+++|- .+..+|+++.++|.+.++.=+.++++.--+++-+-+ +.|+.+||.-.|
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 35555666666653 356899999999999886544444443333333333 368888886654
No 383
>PRK10467 hydrogenase 2 large subunit; Provisional
Probab=23.14 E-value=2.2e+02 Score=32.18 Aligned_cols=92 Identities=10% Similarity=0.042 Sum_probs=43.8
Q ss_pred CCCCHHHHHHHHHHHHHHHH----------HHHHHHHHhhhhcCCCCcchhhHHHHHhhcc-----CcccCCC-Cccccc
Q 009666 418 ERLDPDVEDILVDIAEDFVE----------SITMFGCSLAKHRKSDTLEAKDILVHLERNW-----NMTLPGF-SGDEIK 481 (529)
Q Consensus 418 esLDpDVEELLLeIADDFVD----------sVvs~ACrLAKHRKSdTLEvKDVQLhLERnW-----NI~IPGF-ssDEIR 481 (529)
+.|.+.+.-+.+-++-||++ .+...+-++...-++..=+.++|+-.++.-. ++..+|| +.+..|
T Consensus 99 eri~sHl~hfy~l~~~D~~~~t~~l~a~~e~~~~l~~~~~~~p~~~~~~~~~v~~~~~~~~~~g~l~~f~~~y~g~~~y~ 178 (567)
T PRK10467 99 HTTHDHIVHFYQLSALDWVDITSALQADPTKASAMLKGVSTWHLNSAEEFTKVQNKIKDLVASGQLGIFANGYWGHPAMK 178 (567)
T ss_pred HHHHHHHHHHHHHhhhhHhhhHHHhhcCHHHHHHHHHHhcCCCCCChHHHHHHHHHHHHHHhccccCcccCCCCCCcccc
Confidence 34444444445556666665 2223333333322233334555555555442 5556777 333333
Q ss_pred ccCCCC--CchHHHHHHHHHHHHHhhhhhh
Q 009666 482 TFRKPL--VCDIHKERLAAVSFTLDIMCLL 509 (529)
Q Consensus 482 ~~RK~~--ptEaHKQRMALIRKtiK~m~~~ 509 (529)
..+..+ ....+.+=+..-|+..|.++++
T Consensus 179 l~~e~n~~~~~hYl~Al~~~r~~~~~~aif 208 (567)
T PRK10467 179 LPPEVNLIAVAHYLQALECQRDANRVVALL 208 (567)
T ss_pred CChhHhHHHHHHHHHHHHHHHHHHHheEEe
Confidence 222222 1234556666667777777654
No 384
>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=22.93 E-value=84 Score=29.07 Aligned_cols=41 Identities=10% Similarity=0.171 Sum_probs=29.3
Q ss_pred CCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 009666 402 LTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFG 443 (529)
Q Consensus 402 LtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~A 443 (529)
+.-.++++++..+-. .+.+.+|+++|+++.+-++...+..+
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 34899999999999998888776544
No 385
>PRK08699 DNA polymerase III subunit delta'; Validated
Probab=22.83 E-value=2.8e+02 Score=28.64 Aligned_cols=68 Identities=12% Similarity=0.204 Sum_probs=47.9
Q ss_pred ccCCHHHHHHHHHhh--------------CCCCCCCHHHHHHHHHHHHHHH------------HHHHHHHHHhhhhcCCC
Q 009666 400 RILTKRSIQELVNQI--------------DPSERLDPDVEDILVDIAEDFV------------ESITMFGCSLAKHRKSD 453 (529)
Q Consensus 400 rILtKrKLqELVrqI--------------DPsesLDpDVEELLLeIADDFV------------DsVvs~ACrLAKHRKSd 453 (529)
..|.-+.+++|++.+ |+-..||.+....|+++.+++. +.|...--.-|.+=...
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 4567899999999999999873 33333333334444456
Q ss_pred CcchhhHHHHHhhc
Q 009666 454 TLEAKDILVHLERN 467 (529)
Q Consensus 454 TLEvKDVQLhLERn 467 (529)
.++..|+.-.|+++
T Consensus 171 ~~~~~~~~~~L~~~ 184 (325)
T PRK08699 171 APSHEEALAYLRER 184 (325)
T ss_pred CCCHHHHHHHHHhc
Confidence 67778887788765
No 386
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=22.68 E-value=2.3e+02 Score=29.62 Aligned_cols=65 Identities=15% Similarity=0.173 Sum_probs=42.0
Q ss_pred CHHHHHHHHHhhCCCCCCCHH-HHHHHHHHHHHH----HHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 403 TKRSIQELVNQIDPSERLDPD-VEDILVDIAEDF----VESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 403 tKrKLqELVrqIDPsesLDpD-VEELLLeIADDF----VDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
+.....++++..-.+..++++ ..+.|.+.++.| |..++..|+.+|-.++.+.|+.+|+.-.+++-
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 445555566655444455442 223344444433 56788888888888888899999998888874
No 387
>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=22.62 E-value=2.2e+02 Score=27.57 Aligned_cols=59 Identities=10% Similarity=0.061 Sum_probs=36.3
Q ss_pred cCCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhH-HHHHh
Q 009666 397 FGNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDI-LVHLE 465 (529)
Q Consensus 397 ~~nrILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDV-QLhLE 465 (529)
....+|+++...+|+.++-.+ |. +.+-+|.+.|..-|...|.++. .+..++.|| |-.+-
T Consensus 11 ~~~~~l~~~~~~~li~~~~~g---d~---~a~~~L~~~~~~~v~~~a~~~~----~~~~~aeDlvQe~~i 70 (254)
T TIGR02850 11 SKLPVLKNQEMRELFIRMQSG---DT---TAREKLINGNLRLVLSVIQRFN----NRGEYVDDLFQVGCI 70 (254)
T ss_pred cCCCCCCHHHHHHHHHHHHcC---CH---HHHHHHHHHhHHHHHHHHHHHh----CCCCCHHHHHHHHHH
Confidence 456788999999999887322 32 3455555666666555555544 344678888 43333
No 388
>COG2407 FucI L-fucose isomerase and related proteins [Carbohydrate transport and metabolism]
Probab=22.62 E-value=1.1e+02 Score=33.95 Aligned_cols=67 Identities=18% Similarity=0.299 Sum_probs=44.8
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHH--------HHHHHHHhhhh-cCCCCcchhhHHHHHhhccCcccCC
Q 009666 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVES--------ITMFGCSLAKH-RKSDTLEAKDILVHLERNWNMTLPG 474 (529)
Q Consensus 407 LqELVrqIDPsesLDpDVEELLLeIADDFVDs--------Vvs~ACrLAKH-RKSdTLEvKDVQLhLERnWNI~IPG 474 (529)
+.|++|+||....=|++|++.|+.+=.+|-.. +.-.+-++++. |..+.|. --+++-=.+.|+..+++
T Consensus 201 ~~Ei~rr~~~~~~~de~v~~~l~~~~~~~~~~~~~~~~l~l~a~~~~~~~~~~~e~~i~-~a~~C~~~l~~~~~~~~ 276 (470)
T COG2407 201 LEEIFRRVDNESVDDERVERALKWLEKNFRVGQVPAEKLRLMAKAKRLADEGREEEAIG-LAAGCWPQLQWTLGIPP 276 (470)
T ss_pred HHHHHHHhhcccCCHHHHHHHHHHHHhhcccccccHHHHHHHHhhHHHHHhhhhhhhcc-hhhhcchHHHHhcCCCc
Confidence 78999999888888888999999999988777 33344444443 4444443 12345556666666663
No 389
>PHA02102 hypothetical protein
Probab=22.60 E-value=73 Score=27.36 Aligned_cols=35 Identities=17% Similarity=0.200 Sum_probs=27.2
Q ss_pred HHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCC
Q 009666 436 VESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFS 476 (529)
Q Consensus 436 VDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFs 476 (529)
++.+++.|..|+|.- +|+||+ .-|.+||+.|-+++
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 467775 67999999998874
No 390
>PRK08691 DNA polymerase III subunits gamma and tau; Validated
Probab=22.44 E-value=1.9e+02 Score=33.69 Aligned_cols=62 Identities=10% Similarity=0.093 Sum_probs=37.4
Q ss_pred CCHHHHHHHHHhhCC--CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009666 402 LTKRSIQELVNQIDP--SERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL 464 (529)
Q Consensus 402 LtKrKLqELVrqIDP--sesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhL 464 (529)
|+...|.+.|++|-. +..+|+++.++|.+.++.=+.++++..-+++.+ +...|+.+||.-.|
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 457899999999999885444444443333332 33456666665443
No 391
>PRK00170 azoreductase; Reviewed
Probab=22.38 E-value=1.2e+02 Score=27.76 Aligned_cols=52 Identities=13% Similarity=0.141 Sum_probs=29.9
Q ss_pred CCcchhhHHHHHhhccCcccCCCCcccccccCCCC--Cch---HHHHHHHHHHHHHhhhhhhee
Q 009666 453 DTLEAKDILVHLERNWNMTLPGFSGDEIKTFRKPL--VCD---IHKERLAAVSFTLDIMCLLVI 511 (529)
Q Consensus 453 dTLEvKDVQLhLERnWNI~IPGFssDEIR~~RK~~--ptE---aHKQRMALIRKtiK~m~~~~~ 511 (529)
..||+.|+ +++.||.++.+......+.. .++ .....+..|.+.|+++-.+||
T Consensus 36 ~~v~~~dL-------~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~l~~~i~~AD~iV~ 92 (201)
T PRK00170 36 DEVTVRDL-------AAEPIPVLDGEVVGALGKSAETLTPRQQEAVALSDELLEEFLAADKIVI 92 (201)
T ss_pred CeEEEEEC-------CCCCCCCCCHHHHHhhcCCcccCCHHHHHHHHHHHHHHHHHHHCCEEEE
Confidence 35677777 45556777665432222211 122 234677888888888766665
No 392
>PRK12713 flgJ flagellar rod assembly protein/muramidase FlgJ; Provisional
Probab=22.32 E-value=92 Score=33.19 Aligned_cols=39 Identities=18% Similarity=0.142 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 433 EDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 433 DDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
++||+.|...|.++||.-|-.. .+-=-|-+||-.||-.+
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 393
>PHA03362 single-stranded binding protein UL29; Provisional
Probab=22.28 E-value=81 Score=38.54 Aligned_cols=83 Identities=16% Similarity=0.208 Sum_probs=59.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhc-------------------------------CCCCcchhhHHHHHhhccCcc
Q 009666 423 DVEDILVDIAEDFVESITMFGCSLAKHR-------------------------------KSDTLEAKDILVHLERNWNMT 471 (529)
Q Consensus 423 DVEELLLeIADDFVDsVvs~ACrLAKHR-------------------------------KSdTLEvKDVQLhLERnWNI~ 471 (529)
||+.++--.+.-|+|| -...|+||-+. =.+.+ +-|+.|.++-.|-..
T Consensus 253 nv~~viraa~~q~~dd-~~eg~~L~~dktft~~~~~~~~~~~~~~~~~k~~~~~~~e~rlad~m-aaElAlS~~~~~~~s 330 (1189)
T PHA03362 253 NLDAVARGAAHLAFDE-NHEGAVLPADKTFTGFDSTQGKSGRGDGSGGKLSAGGGDERRLASVM-AADLALSIESVVSDS 330 (1189)
T ss_pred cHHHHHHHHHHhhhcc-cccccccCCcceeecccccccccccccccccccCcCccchhhhHHHH-HHHHHHhhhHHhhhc
Confidence 5667777777778887 66677774322 22222 445778888877777
Q ss_pred cCCCCcccccccCCCCC---chHHHHHHHHHHHHHhhhhhhe
Q 009666 472 LPGFSGDEIKTFRKPLV---CDIHKERLAAVSFTLDIMCLLV 510 (529)
Q Consensus 472 IPGFssDEIR~~RK~~p---tEaHKQRMALIRKtiK~m~~~~ 510 (529)
+ | .+++-.|.+|.. .+.|.+|++++.+-+.+++.+|
T Consensus 331 ~--Y-~~~~~~~~~WPi~~~~~t~~~rl~AL~~~~a~lA~hV 369 (1189)
T PHA03362 331 V--Y-DEPPPDVSEWPMLCGAEGHAERLEALGAYMARLAGLV 369 (1189)
T ss_pred c--C-CCCCCCcccCCcccCCCCHHHHHHHHHHHHHHHHHHh
Confidence 6 3 456677888876 3899999999999999988765
No 394
>KOG3341 consensus RNA polymerase II transcription factor complex subunit [Transcription]
Probab=22.27 E-value=2.7e+02 Score=28.80 Aligned_cols=61 Identities=21% Similarity=0.339 Sum_probs=38.2
Q ss_pred HHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHHHHH----HHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 404 KRSIQELVNQI--DPSERLDPDVEDILVDIAEDFVE----SITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 404 KrKLqELVrqI--DPsesLDpDVEELLLeIADDFVD----sVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
|++.++|+..| ||...-+..-.++| -+ .||.- .|| ..|.++||++.--|++.+|--||-+.
T Consensus 63 R~~Fq~Mca~IGvDPlas~kgfw~~~l-gv-gdFYYelgVqvi-EvC~at~~~nGGlislqel~~~l~~~ 129 (249)
T KOG3341|consen 63 RNQFQEMCASIGVDPLASGKGFWAELL-GV-GDFYYELGVQVI-EVCLATKHTNGGLISLQELCNHLLQR 129 (249)
T ss_pred HHHHHHHHHHcCCCccccCcchHHHHh-hh-HHHHHHHhhHHH-HHHHHhhcccCCeeeHHHHHHHHHHH
Confidence 56788888877 66665544333222 22 23322 233 47999999999888888886655443
No 395
>COG0649 NuoD NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]
Probab=22.23 E-value=4.8e+02 Score=28.82 Aligned_cols=69 Identities=17% Similarity=0.320 Sum_probs=43.7
Q ss_pred CHHHHHHHHHhhCC-------------CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhc-------CCCCcchhhHHH
Q 009666 403 TKRSIQELVNQIDP-------------SERLDPDVEDILVDIAEDFVESITMFGCSLAKHR-------KSDTLEAKDILV 462 (529)
Q Consensus 403 tKrKLqELVrqIDP-------------sesLDpDVEELLLeIADDFVDsVvs~ACrLAKHR-------KSdTLEvKDVQL 462 (529)
.|.+|.+|+..+.+ ..-|.++..|.+.++.|.|-+.+=+..-.+.|+| +--+|+.+|.
T Consensus 141 eRE~i~~l~E~~tGaRm~~~y~rpGGV~~DlP~~~~e~i~~f~d~~~~~l~eye~l~~~N~I~~~R~~gVGv~s~e~A-- 218 (398)
T COG0649 141 EREKIMDLFEAITGARMHHAYFRPGGVRRDLPEGWLELIREFLDYFPKRLDEYEKLLTKNRIWRARLEGVGVLSKEEA-- 218 (398)
T ss_pred HHHHHHHHHHHHhcccccccccccCcccccCCHHHHHHHHHHHHHHHHhHHHHHHHHhcChHHHHhcccceeecHHHH--
Confidence 58899999999854 2356777777777777777666655555444433 3334444443
Q ss_pred HHhhccCcccCCCC
Q 009666 463 HLERNWNMTLPGFS 476 (529)
Q Consensus 463 hLERnWNI~IPGFs 476 (529)
.+||+.=|++-
T Consensus 219 ---~~~G~tGp~lR 229 (398)
T COG0649 219 ---LEWGVTGPMLR 229 (398)
T ss_pred ---HHhCCcCcccc
Confidence 45777755443
No 396
>PRK14731 coaE dephospho-CoA kinase; Provisional
Probab=22.15 E-value=1.7e+02 Score=27.64 Aligned_cols=107 Identities=16% Similarity=0.172 Sum_probs=51.8
Q ss_pred cCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcc----cCCCC
Q 009666 401 ILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMT----LPGFS 476 (529)
Q Consensus 401 ILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~----IPGFs 476 (529)
.++|++|.++|-.- ++..+.|-.|..-+|..-+....+.++..+.. +=+-|+-+.+|..|+.. |-=..
T Consensus 71 ~idr~~l~~~vf~~-------~~~~~~l~~i~hp~i~~~~~~~i~~~~~~~~~-vvv~e~pLL~e~~~~~~~d~ii~V~a 142 (208)
T PRK14731 71 LLDRKRIAQVVFSD-------PEKLGALNRLIHPKVFAAFQRAVDRAARRGKR-ILVKEAAILFESGGDAGLDFIVVVAA 142 (208)
T ss_pred ccCHHHHHHHHhCC-------HHHHHHHHHHHCHHHHHHHHHHHHHHHhcCCC-EEEEEeeeeeecCchhcCCeEEEEEC
Confidence 46888887777641 22233333344334443333333334433333 45778888888777532 11122
Q ss_pred cccc---cccCCCC-CchHHHHHHHH---HHHHHhhhhhheeeecce
Q 009666 477 GDEI---KTFRKPL-VCDIHKERLAA---VSFTLDIMCLLVIYKDAC 516 (529)
Q Consensus 477 sDEI---R~~RK~~-ptEaHKQRMAL---IRKtiK~m~~~~~~~~~~ 516 (529)
.+|+ |..+|.. ..|.=++|++. ..+-+ +++..||..+.+
T Consensus 143 ~~e~~~~Rl~~R~~~s~e~~~~Ri~~q~~~~~~~-~~ad~vI~N~g~ 188 (208)
T PRK14731 143 DTELRLERAVQRGMGSREEIRRRIAAQWPQEKLI-ERADYVIYNNGT 188 (208)
T ss_pred CHHHHHHHHHHcCCCCHHHHHHHHHHcCChHHHH-HhCCEEEECCCC
Confidence 2333 2233333 33566677653 11122 346677766544
No 397
>PF04084 ORC2: Origin recognition complex subunit 2 ; InterPro: IPR007220 The Origin Recognition Complex (ORC) is a six-subunit ATP-dependent DNA-binding complex encoded in yeast by ORC1-6 []. ORC is a central component for eukaryotic DNA replication, and binds chromatin at replication origins throughout the cell cycle []. ORC directs DNA replication throughout the genome and is required for its initiation [, , ]. ORC bound at replication origins serves as the foundation for assembly of the pre-replicative complex (pre-RC), which includes Cdc6, Tah11 (aka Cdt1), and the Mcm2-7 complex [, , ]. Pre-RC assembly during G1 is required for replication licensing of chromosomes prior to DNA synthesis during S phase [, , ]. Cell cycle-regulated phosphorylation of Orc2, Orc6, Cdc6, and MCM by the cyclin-dependent protein kinase Cdc28 regulates initiation of DNA replication, including blocking reinitiation in G2/M phase [, , , ]. In yeast, ORC also plays a role in the establishment of silencing at the mating-type loci Hidden MAT Left (HML) and Hidden MAT Right (HMR) [, , ]. ORC participates in the assembly of transcriptionally silent chromatin at HML and HMR by recruiting the Sir1 silencing protein to the HML and HMR silencers [, , ]. Both Orc1 and Orc5 bind ATP, though only Orc1 has ATPase activity []. The binding of ATP by Orc1 is required for ORC binding to DNA and is essential for cell viability []. The ATPase activity of Orc1 is involved in formation of the pre-RC [, , ]. ATP binding by Orc5 is crucial for the stability of ORC as a whole. Only the Orc1-5 subunits are required for origin binding; Orc6 is essential for maintenance of pre-RCs once formed []. Interactions within ORC suggest that Orc2-3-6 may form a core complex []. ORC homologues have been found in various eukaryotes, including fission yeast, insects, amphibians, and humans []. This entry represents subunit 2, which binds the origin of replication. It plays a role in chromosome replication and mating type transcriptional silencing.; GO: 0006260 DNA replication, 0000808 origin recognition complex, 0005634 nucleus
Probab=22.08 E-value=2.2e+02 Score=29.69 Aligned_cols=55 Identities=15% Similarity=0.187 Sum_probs=36.7
Q ss_pred CCCCHHHHHHHHH-HHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcc
Q 009666 418 ERLDPDVEDILVD-IAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGD 478 (529)
Q Consensus 418 esLDpDVEELLLe-IADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssD 478 (529)
..||.|..+-+++ +.|++.++-....-++.+.+ .-.-.|.|...||+-+-|||+.
T Consensus 10 ~~l~~~e~~~~l~~~~~~~~~~~~~~l~~~~~~~------F~qW~~eL~~GFnlL~YG~GSK 65 (326)
T PF04084_consen 10 PLLDHEEYFSLLQELSDDSHQKEKEALFELHRKL------FPQWMFELSQGFNLLFYGYGSK 65 (326)
T ss_pred ccCCHHHHHHHHHHhchhhhHHHHHHHHHHHHHH------HHHHHHHHhCCCeEEEEecChH
Confidence 3567665555555 44666555555544443322 6677899999999999999983
No 398
>PRK14949 DNA polymerase III subunits gamma and tau; Provisional
Probab=22.01 E-value=92 Score=37.26 Aligned_cols=59 Identities=14% Similarity=0.112 Sum_probs=36.2
Q ss_pred CCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHh-hhhcCCCCcchhhHHH
Q 009666 402 LTKRSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSL-AKHRKSDTLEAKDILV 462 (529)
Q Consensus 402 LtKrKLqELVrqID--PsesLDpDVEELLLeIADDFVDsVvs~ACrL-AKHRKSdTLEvKDVQL 462 (529)
|++..|.+.|+.|- .+..+|+++.++|.++++-=+.+++...-+. |. +.+.++.++|.-
T Consensus 178 Ls~eEI~~~L~~il~~EgI~~edeAL~lIA~~S~Gd~R~ALnLLdQala~--~~~~It~~~V~~ 239 (944)
T PRK14949 178 LTQDEIGTQLNHILTQEQLPFEAEALTLLAKAANGSMRDALSLTDQAIAF--GGGQVMLTQVQT 239 (944)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHh--cCCcccHHHHHH
Confidence 46777777777653 3467899999999999887554444432211 22 233466666643
No 399
>COG2766 PrkA Putative Ser protein kinase [Signal transduction mechanisms]
Probab=21.97 E-value=1e+02 Score=35.37 Aligned_cols=66 Identities=15% Similarity=0.234 Sum_probs=48.2
Q ss_pred CCcCCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchh---hHHHHHhhc
Q 009666 395 DEFGNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAK---DILVHLERN 467 (529)
Q Consensus 395 ~e~~nrILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvK---DVQLhLERn 467 (529)
++..+++++++.|..++++|..-.-|+.| -.+||-++|+.++.+.=.||+...++.. -+.-+|||+
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 34788999999999999999888888877 5789999999999974444434434333 334456664
No 400
>PF01813 ATP-synt_D: ATP synthase subunit D ; InterPro: IPR002699 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents the D subunit found in V1 and A1 complexes of V- and A-ATPases, respectively. Subunit D appears to be located in the central stalk, whereas subunits E and G form part of the peripheral stalk connecting V1 and V0. This subunit is the most likely homologue to the gamma subunit of the F1 complex in F-ATPases, which undergoes rotation during ATP hydrolysis and serves an essential function in rotary catalysis [, ]. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0042626 ATPase activity, coupled to transmembrane movement of substances, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 3A5C_G 3A5D_G 3J0J_G 3AON_A.
Probab=21.94 E-value=9.4 Score=36.03 Aligned_cols=23 Identities=13% Similarity=0.167 Sum_probs=16.8
Q ss_pred hhhHHHHHhhccCcccCCCCccc
Q 009666 457 AKDILVHLERNWNMTLPGFSGDE 479 (529)
Q Consensus 457 vKDVQLhLERnWNI~IPGFssDE 479 (529)
..+|.+..+.-+|..||.|...+
T Consensus 78 ~~~v~~~~~ni~GV~vP~~~~~~ 100 (196)
T PF01813_consen 78 SVEVEVKERNIMGVRVPVLEVKE 100 (196)
T ss_dssp --EEEEEEEEETTEEEEEEEEE-
T ss_pred CcEEEEEEEEEEEEEeceEEeee
Confidence 56677778888999999997665
No 401
>PRK08084 DNA replication initiation factor; Provisional
Probab=21.93 E-value=3.9e+02 Score=25.76 Aligned_cols=18 Identities=22% Similarity=0.228 Sum_probs=14.6
Q ss_pred CCCCCCHHHHHHHHHHHH
Q 009666 416 PSERLDPDVEDILVDIAE 433 (529)
Q Consensus 416 PsesLDpDVEELLLeIAD 433 (529)
-+..|++||.+.|++-++
T Consensus 183 ~~~~l~~~v~~~L~~~~~ 200 (235)
T PRK08084 183 RGFELPEDVGRFLLKRLD 200 (235)
T ss_pred cCCCCCHHHHHHHHHhhc
Confidence 357899999999988776
No 402
>PRK12292 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=21.91 E-value=1.4e+02 Score=30.98 Aligned_cols=35 Identities=20% Similarity=0.129 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHhhhhhh-eeeecceeeEeeeeec
Q 009666 491 IHKERLAAVSFTLDIMCLL-VIYKDACLSVHFTYHC 525 (529)
Q Consensus 491 aHKQRMALIRKtiK~m~~~-~~~~~~~~~~~~~~~~ 525 (529)
+..+++..|-+.++.+..- -|+-|-.+.-++.|+.
T Consensus 237 ~~l~~L~~l~~~l~~~~~~~~i~~D~~lvrgl~YYt 272 (391)
T PRK12292 237 RALDELEALAEALEKYGYGIPLSLDLGLLRHLDYYT 272 (391)
T ss_pred HHHHHHHHHHHHHHHhCCCceEEEehhhccCCcCcc
Confidence 3556666666777766443 3666776766777764
No 403
>COG0803 LraI ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]
Probab=21.87 E-value=4.1e+02 Score=26.92 Aligned_cols=108 Identities=17% Similarity=0.261 Sum_probs=66.7
Q ss_pred CCcCCccCCHHHHHHHHHhh-CCCCCCCHHHHHHHHHHHHHHHHHHHHH----HHHhhhhc-CCCCcchhhHHHHHhhcc
Q 009666 395 DEFGNRILTKRSIQELVNQI-DPSERLDPDVEDILVDIAEDFVESITMF----GCSLAKHR-KSDTLEAKDILVHLERNW 468 (529)
Q Consensus 395 ~e~~nrILtKrKLqELVrqI-DPsesLDpDVEELLLeIADDFVDsVvs~----ACrLAKHR-KSdTLEvKDVQLhLERnW 468 (529)
..+----|+-.+...+|+.| |.-.++|++-++...+-+++|++.+-.. .-++++-. +.+.|...+.-=||.|.|
T Consensus 130 ~~dpH~Wldp~na~~~v~~I~~~L~~~dP~~~~~y~~N~~~y~~kL~~l~~~~~~~~~~~~~~r~~vt~h~af~Y~~~~~ 209 (303)
T COG0803 130 VNDPHVWLDPKNAKIYAENIADALVELDPENKETYEKNAEAYLKKLNKLDEEAKAKLSKIPAQRDVVTSHGAFGYLARDY 209 (303)
T ss_pred CCCCCeecCHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcCcEEEeecchHHHHHhcc
Confidence 34556677888888888888 4456889998888888888888765432 22334434 456667777767777765
Q ss_pred C---cccCCCCcccccccCCCCCchHHHHHHHHHHHHHhhhhhheee
Q 009666 469 N---MTLPGFSGDEIKTFRKPLVCDIHKERLAAVSFTLDIMCLLVIY 512 (529)
Q Consensus 469 N---I~IPGFssDEIR~~RK~~ptEaHKQRMALIRKtiK~m~~~~~~ 512 (529)
| +.|.|.+.|+-.+ -..|+.|.+.||+=-.-+|+
T Consensus 210 g~~~~~i~~~~~~~e~s----------~~~l~~l~~~ik~~~i~~If 246 (303)
T COG0803 210 GLKQVAIAGISPEAEPS----------PKDLAKLVDLIKKKNIKAIF 246 (303)
T ss_pred CCccccccCcCcccCCC----------HHHHHHHHHHHHHcCCCEEE
Confidence 4 3345555432111 24455555555554444444
No 404
>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain
Probab=21.84 E-value=48 Score=27.75 Aligned_cols=41 Identities=10% Similarity=0.022 Sum_probs=28.0
Q ss_pred HHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 009666 407 IQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLA 447 (529)
Q Consensus 407 LqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLA 447 (529)
+.++++.+-....++++..+.|.-.++|.+.+++..+..-.
T Consensus 11 ~r~~~~~~~~~~~~~~~~~~~~~lav~E~~~Nav~H~~~~~ 51 (125)
T PF13581_consen 11 ARAFLREFLERLGLPEEDRDDLELAVSEALTNAVEHGYPGD 51 (125)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHcCCCC
Confidence 44555555444778888777777788888878777766533
No 405
>PRK10187 trehalose-6-phosphate phosphatase; Provisional
Probab=21.82 E-value=1.2e+02 Score=29.85 Aligned_cols=15 Identities=13% Similarity=0.023 Sum_probs=7.8
Q ss_pred CCCHHHHHHHHHHHH
Q 009666 419 RLDPDVEDILVDIAE 433 (529)
Q Consensus 419 sLDpDVEELLLeIAD 433 (529)
.+++++.++|.+|++
T Consensus 36 ~i~~~~~~~L~~L~~ 50 (266)
T PRK10187 36 VVPDNILQGLQLLAT 50 (266)
T ss_pred cCCHHHHHHHHHHHh
Confidence 445555555555544
No 406
>PF14630 ORC5_C: Origin recognition complex (ORC) subunit 5 C-terminus
Probab=21.66 E-value=2.8e+02 Score=27.46 Aligned_cols=63 Identities=17% Similarity=0.211 Sum_probs=45.2
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 403 TKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 403 tKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
+|..|.++|..-.+ ..+.....|...+|...||+-|++--+..+. + ++.++....++.|...+
T Consensus 7 s~~e~~~IL~~~~~-~~~~~~~~~~~~~ly~~f~~~i~~~~~~~~~---r---dl~eL~~i~~~lwp~y~ 69 (271)
T PF14630_consen 7 SKDELLEILSLDQP-SELPDLPDDIDRELYNQFVNLILDSFYSYTG---R---DLNELRHIAAKLWPKYV 69 (271)
T ss_pred CHHHHHHHHhhCCC-cccccccchHHHHHHHHHHHHHHHHHhhhcC---C---CHHHHHHHHHHHHHHHH
Confidence 57777777775433 3344667788889999999999988887773 2 46677777888888654
No 407
>KOG0960 consensus Mitochondrial processing peptidase, beta subunit, and related enzymes (insulinase superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=21.58 E-value=1.4e+02 Score=33.21 Aligned_cols=48 Identities=17% Similarity=0.247 Sum_probs=33.7
Q ss_pred ccCCCCcccccccCCCCCchHHHHHHHHH-HHHHhhhhhheeeecceeeE
Q 009666 471 TLPGFSGDEIKTFRKPLVCDIHKERLAAV-SFTLDIMCLLVIYKDACLSV 519 (529)
Q Consensus 471 ~IPGFssDEIR~~RK~~ptEaHKQRMALI-RKtiK~m~~~~~~~~~~~~~ 519 (529)
.|=++.+.++-.|.|..+..+--.|+..| .|.+++.|--.|| |-|+++
T Consensus 395 pi~ediGrqlL~~Grri~l~El~~rId~vt~~~Vr~va~k~iy-d~~iAi 443 (467)
T KOG0960|consen 395 PIAEDIGRQLLTYGRRIPLAELEARIDAVTAKDVREVASKYIY-DKDIAI 443 (467)
T ss_pred chHHHHHHHHhhcCCcCChHHHHHHHhhccHHHHHHHHHHHhh-cCCcce
Confidence 34455566777787777766655566555 6889999999998 556665
No 408
>PRK06246 fumarate hydratase; Provisional
Probab=21.54 E-value=1.6e+02 Score=30.64 Aligned_cols=49 Identities=18% Similarity=0.232 Sum_probs=31.8
Q ss_pred cCCHHHHHHHHHhh--CCCCCCCHHHHHHHHH--------HHHHHHHHHHHHHHHhhhh
Q 009666 401 ILTKRSIQELVNQI--DPSERLDPDVEDILVD--------IAEDFVESITMFGCSLAKH 449 (529)
Q Consensus 401 ILtKrKLqELVrqI--DPsesLDpDVEELLLe--------IADDFVDsVvs~ACrLAKH 449 (529)
.+...+|.+.|+++ +.+..|.+||.+.|.+ +|..+++.+++.+.--+|.
T Consensus 3 ~i~~~~i~~~v~~~~~~a~~~lp~Dv~~~l~~a~~~E~s~~ak~~l~~ileN~~iA~~~ 61 (280)
T PRK06246 3 EIHVEDIIEAVAELCIEANYYLPDDVKEALKKAYEKEESPIGKEILKAILENAEIAKEE 61 (280)
T ss_pred cccHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHhccChhHHHHHHHHHHHHHHHhcC
Confidence 34455566555554 4567888888888887 6666677666666544443
No 409
>KOG0034 consensus Ca2+/calmodulin-dependent protein phosphatase (calcineurin subunit B), EF-Hand superfamily protein [Signal transduction mechanisms]
Probab=21.53 E-value=3.1e+02 Score=26.75 Aligned_cols=61 Identities=11% Similarity=0.178 Sum_probs=39.8
Q ss_pred cCCccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 397 FGNRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 397 ~~nrILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
++...|+|..|..+|+.+=.. ..|. ++|.+.+|+ ++...-|-+-+...|...|-.=++++.
T Consensus 116 ~~~G~I~reel~~iv~~~~~~-~~~~-~~e~~~~i~--------d~t~~e~D~d~DG~IsfeEf~~~v~~~ 176 (187)
T KOG0034|consen 116 DGDGFISREELKQILRMMVGE-NDDM-SDEQLEDIV--------DKTFEEADTDGDGKISFEEFCKVVEKQ 176 (187)
T ss_pred CCCCcCcHHHHHHHHHHHHcc-CCcc-hHHHHHHHH--------HHHHHHhCCCCCCcCcHHHHHHHHHcC
Confidence 445568888888888877332 2222 555555554 466667788888888888876666654
No 410
>PTZ00436 60S ribosomal protein L19-like protein; Provisional
Probab=21.48 E-value=3.6e+02 Score=29.12 Aligned_cols=91 Identities=14% Similarity=0.038 Sum_probs=60.2
Q ss_pred CCCCCHH-HHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccccccCCCCCchHHHHH
Q 009666 417 SERLDPD-VEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKTFRKPLVCDIHKER 495 (529)
Q Consensus 417 sesLDpD-VEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEIR~~RK~~ptEaHKQR 495 (529)
..-||++ ++|+-.-+.-|=|..+|....-..|-.+... ..+==..+..|.+|..- |+|+..=.-.-|...-+.|..|
T Consensus 21 RVWiDPnel~eIa~AiTReDIRkLIkdGlIikKp~KGhS-RgRaRkr~eaKrKGRhr-G~GsRKGTk~AR~P~K~~WIrR 98 (357)
T PTZ00436 21 RVWLDPNEASEISNANSRKSVRKLIKDGLIIRKPVKVHS-RSRWRHMKEAKSMGRHE-GAGRREGTREARMPSKELWMRR 98 (357)
T ss_pred ceeeCHHHHHHHHHhhhHHHHHHHHHCCCeeecCcccCC-hHHHHHHHHHHHhCcCC-CCCCCcCcccccCcHHHHHHHH
Confidence 3468887 6777777888888888887766666554442 23333456666666553 6666421112234455899999
Q ss_pred HHHHHHHHhhhhhh
Q 009666 496 LAAVSFTLDIMCLL 509 (529)
Q Consensus 496 MALIRKtiK~m~~~ 509 (529)
|-.||+.|++|..-
T Consensus 99 IRaLRRlLKklRd~ 112 (357)
T PTZ00436 99 LRILRRLLRKYREE 112 (357)
T ss_pred HHHHHHHHHHHHhc
Confidence 99999999998753
No 411
>PRK06645 DNA polymerase III subunits gamma and tau; Validated
Probab=21.37 E-value=2e+02 Score=31.87 Aligned_cols=66 Identities=15% Similarity=0.062 Sum_probs=43.0
Q ss_pred cCCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC--CCCcchhhHHHHHhh
Q 009666 401 ILTKRSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRK--SDTLEAKDILVHLER 466 (529)
Q Consensus 401 ILtKrKLqELVrqID--PsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRK--SdTLEvKDVQLhLER 466 (529)
-++...|.+.++++- .+..+|+++.++|.+.++--+.++++.-.+++.+-+ .+.|+.+||.-.|.+
T Consensus 186 ~ls~~el~~~L~~i~~~egi~ie~eAL~~Ia~~s~GslR~al~~Ldkai~~~~~~~~~It~~~V~~llg~ 255 (507)
T PRK06645 186 RLSFEEIFKLLEYITKQENLKTDIEALRIIAYKSEGSARDAVSILDQAASMSAKSDNIISPQVINQMLGL 255 (507)
T ss_pred CCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhhccCCCCcCHHHHHHHHCC
Confidence 356677777777663 356789999999999888766666554444433211 235788888655443
No 412
>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=21.37 E-value=1.7e+02 Score=25.75 Aligned_cols=46 Identities=11% Similarity=0.217 Sum_probs=29.5
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHhhhhcC
Q 009666 405 RSIQELVNQIDPSERLDPDVEDILVDIAED---FVESITMFGCSLAKHRK 451 (529)
Q Consensus 405 rKLqELVrqIDPsesLDpDVEELLLeIADD---FVDsVvs~ACrLAKHRK 451 (529)
|++..+++++. ...+|..+++++-..-++ .++.|++.-+.-|...-
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 57888888886 566666666665555543 56666666666555443
No 413
>cd04258 AAK_AKiii-LysC-EC AAK_AKiii-LysC-EC: Amino Acid Kinase Superfamily (AAK), AKiii-LysC-EC: this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKIII. AKIII is a monofunctional class enzyme (LysC) found in some bacteria such as E. coli. Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. In E. coli, LysC is reported to be a homodimer of 50 kD subunits.
Probab=21.37 E-value=3e+02 Score=28.26 Aligned_cols=42 Identities=24% Similarity=0.199 Sum_probs=23.1
Q ss_pred cccCCCCc-c---cccccCCCCCchHHHHHHHHHHHHHhhhhhheeeecce
Q 009666 470 MTLPGFSG-D---EIKTFRKPLVCDIHKERLAAVSFTLDIMCLLVIYKDAC 516 (529)
Q Consensus 470 I~IPGFss-D---EIR~~RK~~ptEaHKQRMALIRKtiK~m~~~~~~~~~~ 516 (529)
.-++||-+ + ++.+..|- -+| -.|.+--..-.+-.++||+|..
T Consensus 181 ~Vv~Gf~g~~~~G~~ttLGrg-gsD----~~a~~~a~~l~a~~~~i~tdv~ 226 (292)
T cd04258 181 VVTQGFIGSTEKGRTTTLGRG-GSD----YSAALLAEALHAEELQIWTDVA 226 (292)
T ss_pred EEECCccccCCCCCEEecCCC-chH----HHHHHHHHHcCCCEEEEEECCC
Confidence 34689943 2 44544443 233 3344444444567888998864
No 414
>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=21.36 E-value=2.6e+02 Score=22.47 Aligned_cols=32 Identities=9% Similarity=0.340 Sum_probs=24.1
Q ss_pred HHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHH
Q 009666 405 RSIQELVNQIDPSERLDPDVEDILVDIAEDFVESIT 440 (529)
Q Consensus 405 rKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVv 440 (529)
+.|+|||.+ ..|+++....+|+-.|.-|++.+
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 456677764 89999999999998888777664
No 415
>PF00331 Glyco_hydro_10: Glycosyl hydrolase family 10; InterPro: IPR001000 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 10 GH10 from CAZY comprises enzymes with a number of known activities; xylanase (3.2.1.8 from EC); endo-1,3-beta-xylanase (3.2.1.32 from EC); cellobiohydrolase (3.2.1.91 from EC). These enzymes were formerly known as cellulase family F. The microbial degradation of cellulose and xylans requires several types of enzymes such as endoglucanases (3.2.1.4 from EC), cellobiohydrolases (3.2.1.91 from EC) (exoglucanases), or xylanases (3.2.1.8 from EC) [, ]. Fungi and bacteria produces a spectrum of cellulolytic enzymes (cellulases) and xylanases which, on the basis of sequence similarities, can be classified into families. One of these families is known as the cellulase family F [] or as the glycosyl hydrolases family 10 []. ; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 1UQZ_A 1UQY_A 1UR2_A 1UR1_A 2CNC_A 1OD8_A 1E0W_A 1E0V_A 1V0M_A 1E0X_B ....
Probab=21.31 E-value=48 Score=33.66 Aligned_cols=21 Identities=29% Similarity=0.320 Sum_probs=15.2
Q ss_pred HHHHHHHHhhhhhheeeecceeeEeee
Q 009666 496 LAAVSFTLDIMCLLVIYKDACLSVHFT 522 (529)
Q Consensus 496 MALIRKtiK~m~~~~~~~~~~~~~~~~ 522 (529)
+..|++.|++++.+ .|.||+|
T Consensus 219 ~~~i~~~l~~~~~~------Gl~i~IT 239 (320)
T PF00331_consen 219 PEQIWNALDRFASL------GLPIHIT 239 (320)
T ss_dssp HHHHHHHHHHHHTT------TSEEEEE
T ss_pred HHHHHHHHHHHHHc------CCceEEE
Confidence 67788888887765 3667765
No 416
>PRK14903 16S rRNA methyltransferase B; Provisional
Probab=21.27 E-value=2.3e+02 Score=30.17 Aligned_cols=64 Identities=20% Similarity=0.194 Sum_probs=39.6
Q ss_pred CHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHH--HHHH-----HHHHHHHhhhhcCCCCcchhhHHHHHhhc
Q 009666 403 TKRSIQELVNQIDPSERLDPDVEDILVDIAED--FVES-----ITMFGCSLAKHRKSDTLEAKDILVHLERN 467 (529)
Q Consensus 403 tKrKLqELVrqIDPsesLDpDVEELLLeIADD--FVDs-----Vvs~ACrLAKHRKSdTLEvKDVQLhLERn 467 (529)
.+..|+.+|+++-.+.+||+.+..+|.-=+.+ |.++ +++.++.|||.++...+ |.-|...+.|+
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 35567777777644447898888776644444 3344 88899999997644322 44444444443
No 417
>PRK00771 signal recognition particle protein Srp54; Provisional
Probab=21.25 E-value=1.8e+02 Score=31.46 Aligned_cols=39 Identities=15% Similarity=0.399 Sum_probs=24.1
Q ss_pred HHHHHHHHhhCCCCCCCHH--------HHHHHH------HHHHHHHHHHHHHH
Q 009666 405 RSIQELVNQIDPSERLDPD--------VEDILV------DIAEDFVESITMFG 443 (529)
Q Consensus 405 rKLqELVrqIDPsesLDpD--------VEELLL------eIADDFVDsVvs~A 443 (529)
.+|...++.|-....||++ ++++|+ +++++|++.|-+.+
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
Confidence 3566666666666677765 455554 46677777766543
No 418
>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=21.25 E-value=1.6e+02 Score=28.00 Aligned_cols=24 Identities=13% Similarity=0.185 Sum_probs=15.7
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHH
Q 009666 418 ERLDPDVEDILVDIAEDFVESITM 441 (529)
Q Consensus 418 esLDpDVEELLLeIADDFVDsVvs 441 (529)
....++++++|.++.|+|++..-.
T Consensus 120 ~~~~e~l~~~~K~~~D~~~k~~~~ 143 (155)
T PF07464_consen 120 EGANEKLQPAIKQAYDDAVKAAQK 143 (155)
T ss_dssp -SS-GGGHHHHHHHHHHHHHHHHH
T ss_pred HhhhHHHHHHHHHHHHHHHHHHHH
Confidence 667777777777777777766544
No 419
>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=21.24 E-value=1.5e+02 Score=31.57 Aligned_cols=70 Identities=23% Similarity=0.414 Sum_probs=50.2
Q ss_pred CcCCccCCHHHHHHHHHhhCC--CCCCCHHHHHHHHHHHHHHHHHHH-------HHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 396 EFGNRILTKRSIQELVNQIDP--SERLDPDVEDILVDIAEDFVESIT-------MFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 396 e~~nrILtKrKLqELVrqIDP--sesLDpDVEELLLeIADDFVDsVv-------s~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
.-++.||.+-+|+++++--|. -+.+++|-++++++|++-+=..|. .+|..|-|.-..+. ++||-.+-|-|
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 457889999999999986554 358999999999999987766554 34555555555553 67776554443
No 420
>CHL00195 ycf46 Ycf46; Provisional
Probab=21.24 E-value=2.5e+02 Score=30.84 Aligned_cols=63 Identities=13% Similarity=0.115 Sum_probs=41.3
Q ss_pred CHHHHHHHHHhhCC--CCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhh
Q 009666 403 TKRSIQELVNQIDP--SERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLER 466 (529)
Q Consensus 403 tKrKLqELVrqIDP--sesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLER 466 (529)
+...|.++++++.. ...+|++..+.|.+.+-.+-..=+..++..|..++.. ++.+|+.++|+.
T Consensus 143 ~~~ei~~~l~~~~~~~~~~~~~~~~~~l~~~~~gls~~~~~~~~~~~~~~~~~-~~~~~~~~i~~~ 207 (489)
T CHL00195 143 TESEIKKELTRLIKSLNIKIDSELLENLTRACQGLSLERIRRVLSKIIATYKT-IDENSIPLILEE 207 (489)
T ss_pred CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCHHHHHHHHHHHHHHcCC-CChhhHHHHHHH
Confidence 56677777777743 4568888888777776665444455555555544443 678887777763
No 421
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=21.15 E-value=2.6e+02 Score=32.33 Aligned_cols=65 Identities=15% Similarity=0.260 Sum_probs=40.4
Q ss_pred CCHHHHHHHHHhh---------CCCCCCCHHHHHHHHHHHH---HHHHHHHHHHHHhhhhcCCC--CcchhhHHHHHhh
Q 009666 402 LTKRSIQELVNQI---------DPSERLDPDVEDILVDIAE---DFVESITMFGCSLAKHRKSD--TLEAKDILVHLER 466 (529)
Q Consensus 402 LtKrKLqELVrqI---------DPsesLDpDVEELLLeIAD---DFVDsVvs~ACrLAKHRKSd--TLEvKDVQLhLER 466 (529)
|+...|.++++++ .....||+|+.+.|.+.++ .-+.++++.+|..+...+.+ .|++.+++-.+.+
T Consensus 168 Ls~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~lln~Le~a~~~~~~~~~~~i~It~~~~~e~l~~ 246 (725)
T PRK13341 168 LSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSLLNALELAVESTPPDEDGLIDITLAIAEESIQQ 246 (725)
T ss_pred CCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccCCCCceeccHHHHHHHHHH
Confidence 3455566666554 2346899999999999987 34556777777555433222 3666666555544
No 422
>PRK13940 glutamyl-tRNA reductase; Provisional
Probab=21.15 E-value=2.2e+02 Score=30.55 Aligned_cols=50 Identities=18% Similarity=0.316 Sum_probs=25.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 421 DPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 421 DpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
+++.++.+-+++..+++.+++.-....|.-..+- +. +..-.|++-||+.|
T Consensus 363 ~~~~~~~i~~~~~~~~~kllh~P~~~lk~~~~~~-~~-~~~~~~~~lf~l~~ 412 (414)
T PRK13940 363 GKDAEEIIKRFAYEIKKKVLHYPVVGMKEASKQG-RS-DCLVCMKRMFGLNV 412 (414)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC-hH-HHHHHHHHHhCCCC
Confidence 4445555555555555566655555555422111 11 33346777777655
No 423
>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=21.08 E-value=94 Score=23.97 Aligned_cols=40 Identities=20% Similarity=0.116 Sum_probs=26.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHHH-HHHhhhhcCCCCcchhhHH
Q 009666 421 DPDVEDILVDIAEDFVESITMF-GCSLAKHRKSDTLEAKDIL 461 (529)
Q Consensus 421 DpDVEELLLeIADDFVDsVvs~-ACrLAKHRKSdTLEvKDVQ 461 (529)
|+|+++.|-+| =-||..-+.. +=++|+.+|.+.|++.+|.
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 5577765554 4579999999999887763
No 424
>PRK14961 DNA polymerase III subunits gamma and tau; Provisional
Probab=21.06 E-value=1.6e+02 Score=30.34 Aligned_cols=59 Identities=14% Similarity=0.112 Sum_probs=35.8
Q ss_pred CCHHHHHHHHHhhCC--CCCCCHHHHHHHHHHHHHHH---HHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009666 402 LTKRSIQELVNQIDP--SERLDPDVEDILVDIAEDFV---ESITMFGCSLAKHRKSDTLEAKDILVHL 464 (529)
Q Consensus 402 LtKrKLqELVrqIDP--sesLDpDVEELLLeIADDFV---DsVvs~ACrLAKHRKSdTLEvKDVQLhL 464 (529)
+++..+.+.|+++-. +..+|+++.++|.+.++.=+ .+.++.+|.+ +.+.|+.+||.-.|
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 456667766666522 35689999888888876533 3334444433 34557777775444
No 425
>TIGR01917 gly_red_sel_B glycine reductase, selenoprotein B. Glycine reductase is a complex with two selenoprotein subunits, A and B. This model represents the glycine reductase selenoprotein B. Closely related to it, but excluded from this model, are selenoprotein B subunits of betaine reductase and sarcosine reductase. All contain selenocysteine incorporated during translation at a specific UGA codon.
Probab=20.93 E-value=78 Score=34.82 Aligned_cols=107 Identities=12% Similarity=0.189 Sum_probs=62.9
Q ss_pred CCcCCccCCHHHHHHHHHhh-----CC-----------CCCCCHHHHHHHHHHHHHHHHHHHHH-HHHhhhhcCCCCcch
Q 009666 395 DEFGNRILTKRSIQELVNQI-----DP-----------SERLDPDVEDILVDIAEDFVESITMF-GCSLAKHRKSDTLEA 457 (529)
Q Consensus 395 ~e~~nrILtKrKLqELVrqI-----DP-----------sesLDpDVEELLLeIADDFVDsVvs~-ACrLAKHRKSdTLEv 457 (529)
.++.|++|.=+.|+||.++- .+ ........+|++.+|-+|=||-|+-- .|=.| ||-..+
T Consensus 280 n~Dpn~v~PlD~LreLe~EG~IG~l~~~fy~t~G~gt~~~~a~~~g~eIa~~Lk~dgVDAvILtstCgtC-trcga~--- 355 (431)
T TIGR01917 280 NEDADRVIPVDVLRDLEKEGKIGELFKYFYSTTGNGTAVANSKQFAKEFSKELLAAGVDAVILTSTUGTC-TRCGAT--- 355 (431)
T ss_pred hcCCCeeeeHHHHHHHHHcCCcccccCeeEEccCCCccHHHHHHHHHHHHHHHHHcCCCEEEEcCCCCcc-hhHHHH---
Confidence 46889999999999999973 11 12344566676667766666665433 33333 222111
Q ss_pred hhHHHHHhhccCc-------------------ccCCCCcccccccCCC--CCchHHHHHHHHHHHHHhhhhhhe
Q 009666 458 KDILVHLERNWNM-------------------TLPGFSGDEIKTFRKP--LVCDIHKERLAAVSFTLDIMCLLV 510 (529)
Q Consensus 458 KDVQLhLERnWNI-------------------~IPGFssDEIR~~RK~--~ptEaHKQRMALIRKtiK~m~~~~ 510 (529)
+..+||| .|| .|||.+.+- +...+ .+.|+.+.|-.+++|+|++++--|
T Consensus 356 --m~keiE~-~GIPvV~i~~~~pI~~~vGanRiv~~~~i~~--PlGnp~l~~~~e~~~rr~~v~~AL~aL~t~~ 424 (431)
T TIGR01917 356 --MVKEIER-AGIPVVHICTVTPIALTVGANRIIPAIAIPH--PLGDPALDAAEEKALRRKIVEKALKALETEI 424 (431)
T ss_pred --HHHHHHH-cCCCEEEEeechhHHHhcCCCceecCCCCCC--CCCCCCCChhHHHHHHHHHHHHHHHHhcCCC
Confidence 2334444 233 345544321 11221 234688899999999999987543
No 426
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=20.91 E-value=2.7e+02 Score=32.94 Aligned_cols=65 Identities=23% Similarity=0.380 Sum_probs=47.4
Q ss_pred HHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhh--HHHHHhhccCcccCCCCccccc
Q 009666 409 ELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKD--ILVHLERNWNMTLPGFSGDEIK 481 (529)
Q Consensus 409 ELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKD--VQLhLERnWNI~IPGFssDEIR 481 (529)
||+++||.-..+.+--+|.|.+|+|.+++.+... |+ +|+-. |++.| +.+.+|+.|+ |.||+-.++
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 6778888777777777788999999999988764 44 33433 55554 4788899998 778885443
No 427
>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=20.85 E-value=1.3e+02 Score=32.65 Aligned_cols=30 Identities=27% Similarity=0.226 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q 009666 422 PDVEDILVDIAEDFVESITMFGCSLAKHRK 451 (529)
Q Consensus 422 pDVEELLLeIADDFVDsVvs~ACrLAKHRK 451 (529)
+|+.+++-+|++..-...+..+|+|||.||
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 667778888888888889999999999977
No 428
>PF10222 DUF2152: Uncharacterized conserved protein (DUF2152); InterPro: IPR018795 This entry includes mainly uncharacterised proteins, though some are described as belonging to the glycoside hydrolase family 65.
Probab=20.85 E-value=83 Score=35.77 Aligned_cols=22 Identities=27% Similarity=0.443 Sum_probs=17.6
Q ss_pred hhhhhheeeecceeeEeeeeec
Q 009666 504 DIMCLLVIYKDACLSVHFTYHC 525 (529)
Q Consensus 504 K~m~~~~~~~~~~~~~~~~~~~ 525 (529)
+.|...+-|.|-|.+-|-|.|-
T Consensus 358 ~~~~~~l~~~~~Cy~gh~tl~a 379 (604)
T PF10222_consen 358 EELESSLNYAEHCYSGHHTLHA 379 (604)
T ss_pred HHHHHhhcccccCCCCccccCh
Confidence 3556667799999999999883
No 429
>cd07956 Anticodon_Ia_Arg Anticodon-binding domain of arginyl tRNA synthetases. This domain is found in arginyl tRNA synthetases (ArgRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain, and recognizes and specifically binds to the tRNA anticodon. ArgRS catalyzes the transfer of arginine to the 3'-end of its tRNA.
Probab=20.83 E-value=4.8e+02 Score=23.43 Aligned_cols=88 Identities=14% Similarity=0.200 Sum_probs=45.3
Q ss_pred CHHHHHHHHHhhCC--C-------CCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcc--
Q 009666 403 TKRSIQELVNQIDP--S-------ERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMT-- 471 (529)
Q Consensus 403 tKrKLqELVrqIDP--s-------esLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~-- 471 (529)
.-.++..|+++.+. . ..+.++.|..|++...+|.+.+... + +.+ +.-.+-+..+.|...+|-.
T Consensus 42 a~aRi~nIl~k~~~~~~~~~~~~~~ll~~~~E~~L~~~l~~~~~~i~~~-~---~~~--~~~~l~~~l~~L~~~~~~ffd 115 (156)
T cd07956 42 AHARLCSILRKAGETIEAEADADLSLLPEPDERDLILLLAKFPEVVKNA-A---ETL--EPHTIATYLFDLAHAFSKFYN 115 (156)
T ss_pred HHHHHHHHHHhCCCcCccccccchhhcCCHHHHHHHHHHHHhHHHHHHH-H---HHc--CcHHHHHHHHHHHHHHHHHHh
Confidence 34556666666541 1 1244567888888888886555443 2 222 2212233334444443322
Q ss_pred -cCCCCcccccccCCCCCchHHHHHHHHHHHHHhhh
Q 009666 472 -LPGFSGDEIKTFRKPLVCDIHKERLAAVSFTLDIM 506 (529)
Q Consensus 472 -IPGFssDEIR~~RK~~ptEaHKQRMALIRKtiK~m 506 (529)
+.-.+.| .+.++.|++|++...+.+
T Consensus 116 ~v~V~~~~----------~~i~~nRL~Ll~~v~~vl 141 (156)
T cd07956 116 ACPVLGAE----------EELRNARLALVAAARQVL 141 (156)
T ss_pred cCcccCCC----------HHHHHHHHHHHHHHHHHH
Confidence 1112111 267889999987765544
No 430
>PRK06893 DNA replication initiation factor; Validated
Probab=20.82 E-value=4e+02 Score=25.50 Aligned_cols=31 Identities=13% Similarity=0.179 Sum_probs=20.3
Q ss_pred CHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHH
Q 009666 403 TKRSIQELVNQI--DPSERLDPDVEDILVDIAE 433 (529)
Q Consensus 403 tKrKLqELVrqI--DPsesLDpDVEELLLeIAD 433 (529)
....+.+++++. +.+..|++||.+.|++-.+
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 3467899999999987766
No 431
>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=20.77 E-value=2.3e+02 Score=26.88 Aligned_cols=92 Identities=11% Similarity=0.103 Sum_probs=51.2
Q ss_pred ccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhH-HHHHhhccCcccCCCCcc
Q 009666 400 RILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDI-LVHLERNWNMTLPGFSGD 478 (529)
Q Consensus 400 rILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDV-QLhLERnWNI~IPGFssD 478 (529)
+.+.-....+|+..+-.+ | ++.+-+|.+.|...|...++++++++ -+++|| |-.+-+-|. .+..|..+
T Consensus 28 ~~~~~~~~~~li~~~~~g---d---~~af~~l~~~y~~~v~~~~~~~~~~~----~dAEDlvQevfi~l~~-~~~~~~~~ 96 (227)
T TIGR02846 28 QPLSEEEEKKYLDRLKEG---D---EEARNVLIERNLRLVAHIVKKFSNTG----EDVDDLISIGTIGLIK-AIDSFDPD 96 (227)
T ss_pred CCCCHHHHHHHHHHHHcC---C---HHHHHHHHHHhHHHHHHHHHHhcCCC----CCHHHHHHHHHHHHHH-HHHhCCcc
Confidence 346666777777766322 2 34677788888888888888876533 378898 555556665 23344433
Q ss_pred cccccCCCCCchHHHHHHHHHHHH
Q 009666 479 EIKTFRKPLVCDIHKERLAAVSFT 502 (529)
Q Consensus 479 EIR~~RK~~ptEaHKQRMALIRKt 502 (529)
.-..++-|.-.-+.+.=+..+||.
T Consensus 97 ~~~~f~twl~~i~rN~~~d~~Rk~ 120 (227)
T TIGR02846 97 KGTRLATYAARCIENEILMHLRAL 120 (227)
T ss_pred cCCChHHHHHHHHHHHHHHHHHHH
Confidence 212233344333333333444443
No 432
>PRK06200 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional
Probab=20.74 E-value=42 Score=31.23 Aligned_cols=13 Identities=8% Similarity=0.250 Sum_probs=7.9
Q ss_pred CHHHHHHHHHhhC
Q 009666 403 TKRSIQELVNQID 415 (529)
Q Consensus 403 tKrKLqELVrqID 415 (529)
++.++.+|..+++
T Consensus 39 ~~~~~~~~~~~~~ 51 (263)
T PRK06200 39 SAEKLASLRQRFG 51 (263)
T ss_pred CHHHHHHHHHHhC
Confidence 4556777766653
No 433
>KOG2467 consensus Glycine/serine hydroxymethyltransferase [Amino acid transport and metabolism]
Probab=20.73 E-value=2.6e+02 Score=31.08 Aligned_cols=60 Identities=17% Similarity=0.244 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccccccCCCCCchHHHHHHHHHHHHHh
Q 009666 425 EDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKTFRKPLVCDIHKERLAAVSFTLD 504 (529)
Q Consensus 425 EELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEIR~~RK~~ptEaHKQRMALIRKtiK 504 (529)
|+-+-++| |||+.+++.+.++.+.++.. .+||..-.|.. ++..+++++.+||.+.
T Consensus 410 e~df~~v~-~fi~~av~i~~~~~~~~~~~--~lkdf~~~~~~----------------------~~~~~~~v~~Lr~~Ve 464 (477)
T KOG2467|consen 410 EEDFEKVA-DFIDRAVKIALEIQKEAGGK--KLKDFKKFLSE----------------------NKVMSEEVAELRKRVE 464 (477)
T ss_pred HHHHHHHH-HHHHHHHHHHHHHHhhcccc--hHHHHHHHhcc----------------------CchhHHHHHHHHHHHH
Confidence 34444554 69999999999999988874 36776544433 2334678888999888
Q ss_pred hhhhh
Q 009666 505 IMCLL 509 (529)
Q Consensus 505 ~m~~~ 509 (529)
+++..
T Consensus 465 ~fa~~ 469 (477)
T KOG2467|consen 465 EFAGQ 469 (477)
T ss_pred HHHhc
Confidence 88753
No 434
>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=20.72 E-value=1.2e+02 Score=27.70 Aligned_cols=25 Identities=0% Similarity=-0.105 Sum_probs=20.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHH
Q 009666 415 DPSERLDPDVEDILVDIAEDFVESI 439 (529)
Q Consensus 415 DPsesLDpDVEELLLeIADDFVDsV 439 (529)
|.++..|+++.+.|.+++|+|++-+
T Consensus 147 ~~g~l~d~~~~~~l~~~~~~~~~~~ 171 (174)
T TIGR03566 147 ADYRLASEALRARIALAVDRAAPLL 171 (174)
T ss_pred ccccccCHHHHHHHHHHHHHHHHHh
Confidence 4455678899999999999998765
No 435
>PRK06522 2-dehydropantoate 2-reductase; Reviewed
Probab=20.69 E-value=5.5e+02 Score=24.67 Aligned_cols=62 Identities=10% Similarity=0.174 Sum_probs=38.8
Q ss_pred HHHHHHHHHhhCCCCCCCHHHHHHHHH--------------------------HHHHHHHHHHHHHHHhhhhcCCCCcch
Q 009666 404 KRSIQELVNQIDPSERLDPDVEDILVD--------------------------IAEDFVESITMFGCSLAKHRKSDTLEA 457 (529)
Q Consensus 404 KrKLqELVrqIDPsesLDpDVEELLLe--------------------------IADDFVDsVvs~ACrLAKHRKSdTLEv 457 (529)
.+.|.+++........+.+|++..+.+ -+.++++.++...+.+|+..|.+ ++.
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 12356777888888888887766 344
Q ss_pred hhHHHHHhh
Q 009666 458 KDILVHLER 466 (529)
Q Consensus 458 KDVQLhLER 466 (529)
.++.-.+++
T Consensus 234 ~~~~~~~~~ 242 (304)
T PRK06522 234 EEVREYVRQ 242 (304)
T ss_pred HHHHHHHHH
Confidence 444444443
No 436
>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=20.64 E-value=78 Score=26.55 Aligned_cols=19 Identities=5% Similarity=0.382 Sum_probs=12.9
Q ss_pred CCCHHHHHHHHHHHHHHHH
Q 009666 419 RLDPDVEDILVDIAEDFVE 437 (529)
Q Consensus 419 sLDpDVEELLLeIADDFVD 437 (529)
-|++|.++.++++|.+-++
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 437
>TIGR00963 secA preprotein translocase, SecA subunit. The proteins SecA-F and SecY, not all of which are necessary, comprise the standard prokaryotic protein translocation apparatus. Other, specialized translocation systems also exist but are not as broadly distributed. This model describes SecA, an essential member of the apparatus.
Probab=20.63 E-value=92 Score=36.27 Aligned_cols=46 Identities=11% Similarity=0.278 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCc
Q 009666 423 DVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNM 470 (529)
Q Consensus 423 DVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI 470 (529)
++++.+.++.+++|++++..-|. .+. ..+..+++.+...|..+|++
T Consensus 597 ~~~~~~~~~~~~~i~~~~~~~~~-~~~-~~~~~~~~~l~~~~~~~~~~ 642 (745)
T TIGR00963 597 DLSELILQMLESTLDEIVDAYIN-EQK-PSEEWDLEGLIEKLKTLFLL 642 (745)
T ss_pred CHHHHHHHHHHHHHHHHHHHhcC-CCC-ChhhcCHHHHHHHHHHHhCc
Confidence 57788888888888888876432 121 22345777777777777643
No 438
>PF14677 FANCI_S3: FANCI solenoid 3; PDB: 3S51_A 3S4Z_A 3S4W_A.
Probab=20.56 E-value=2.9e+02 Score=27.43 Aligned_cols=54 Identities=11% Similarity=0.287 Sum_probs=35.0
Q ss_pred HHHHHHHHHhhCCCC-CCC--HHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHH
Q 009666 404 KRSIQELVNQIDPSE-RLD--PDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILV 462 (529)
Q Consensus 404 KrKLqELVrqIDPse-sLD--pDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQL 462 (529)
.+|+.++++.||... .-+ .|+.+.+.++-+.|-+.+.++-- ...+....|++.+
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 578999999998632 222 68999999999999998887644 3444445566644
No 439
>PRK14962 DNA polymerase III subunits gamma and tau; Provisional
Probab=20.50 E-value=2.3e+02 Score=30.94 Aligned_cols=67 Identities=7% Similarity=0.022 Sum_probs=41.8
Q ss_pred CCHHHHHHHHHhhC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccC
Q 009666 402 LTKRSIQELVNQID--PSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWN 469 (529)
Q Consensus 402 LtKrKLqELVrqID--PsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWN 469 (529)
++...|.++++++- .+..||+++.++|.+.++-=+..+++.-.+++...+ +.|+.+||.-.|.....
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 356899999999999876322333333333333222 24889999877765433
No 440
>COG1893 ApbA Ketopantoate reductase [Coenzyme metabolism]
Probab=20.47 E-value=1.7e+02 Score=29.78 Aligned_cols=37 Identities=16% Similarity=0.210 Sum_probs=21.6
Q ss_pred CCCCCHHHHHHHHHHHHHH-HHHHHHHHHHhhhhcCCC
Q 009666 417 SERLDPDVEDILVDIAEDF-VESITMFGCSLAKHRKSD 453 (529)
Q Consensus 417 sesLDpDVEELLLeIADDF-VDsVvs~ACrLAKHRKSd 453 (529)
+..+|+++.|.++.+.++. =+...++.-.++|.|.-+
T Consensus 230 g~~~~~~~~~~v~~~~~~~~~~~~sSM~qDl~~gr~tE 267 (307)
T COG1893 230 GVELPEEVVERVLAVIRATDAENYSSMLQDLEKGRPTE 267 (307)
T ss_pred cCCCCHHHHHHHHHHHHhcccccCchHHHHHHcCCccc
Confidence 3567777777777777777 344444444444444433
No 441
>PRK12709 flgJ flagellar rod assembly protein/muramidase FlgJ; Provisional
Probab=20.44 E-value=1.2e+02 Score=32.13 Aligned_cols=41 Identities=15% Similarity=0.110 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccC
Q 009666 432 AEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLP 473 (529)
Q Consensus 432 ADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IP 473 (529)
.++||+.+...|.+++|.-|-.. .+-=-|-+||-.||-...
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 442
>KOG2948 consensus Predicted metal-binding protein [General function prediction only]
Probab=20.42 E-value=1.7e+02 Score=31.32 Aligned_cols=69 Identities=23% Similarity=0.401 Sum_probs=40.5
Q ss_pred HHHHHHHHhh--CCCCCCCHHHH----HHHHHHHHHHHHHHHHHHHH-----------hhhhcCCC---Ccch-------
Q 009666 405 RSIQELVNQI--DPSERLDPDVE----DILVDIAEDFVESITMFGCS-----------LAKHRKSD---TLEA------- 457 (529)
Q Consensus 405 rKLqELVrqI--DPsesLDpDVE----ELLLeIADDFVDsVvs~ACr-----------LAKHRKSd---TLEv------- 457 (529)
-.|-++|.++ |+++.=|++.+ +++--+-.||++.|-.-+|. |||.-+.+ .|.+
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 44543233333 44445667888888777753 33322221 2222
Q ss_pred hhHHHHHhhccCcccC
Q 009666 458 KDILVHLERNWNMTLP 473 (529)
Q Consensus 458 KDVQLhLERnWNI~IP 473 (529)
||..|.||+++|+...
T Consensus 228 k~hlfelE~e~~ie~~ 243 (327)
T KOG2948|consen 228 KEHLFELEKEYKIEVK 243 (327)
T ss_pred HHHHHHHHHHhCCCcc
Confidence 8899999999998865
No 443
>PRK14958 DNA polymerase III subunits gamma and tau; Provisional
Probab=20.42 E-value=2.4e+02 Score=30.94 Aligned_cols=62 Identities=13% Similarity=0.097 Sum_probs=35.1
Q ss_pred CCHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHH
Q 009666 402 LTKRSIQELVNQI--DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHL 464 (529)
Q Consensus 402 LtKrKLqELVrqI--DPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhL 464 (529)
|+...|.+.|+.| ..+..+|+++.++|.+.++.=+.++++.-=+++-+ +...|+.+||.-.|
T Consensus 178 l~~~~i~~~l~~il~~egi~~~~~al~~ia~~s~GslR~al~lLdq~ia~-~~~~It~~~V~~~l 241 (509)
T PRK14958 178 LPPLQIAAHCQHLLKEENVEFENAALDLLARAANGSVRDALSLLDQSIAY-GNGKVLIADVKTML 241 (509)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCcHHHHHHHHHHHHhc-CCCCcCHHHHHHHH
Confidence 3555666555555 23567899998888888775444443332222222 33456777765433
No 444
>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=20.30 E-value=2.5e+02 Score=25.75 Aligned_cols=54 Identities=26% Similarity=0.402 Sum_probs=42.7
Q ss_pred CccCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHHHHH-------HHhhhhcCC
Q 009666 399 NRILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVESITMFG-------CSLAKHRKS 452 (529)
Q Consensus 399 nrILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVDsVvs~A-------CrLAKHRKS 452 (529)
+...++++-++.+..|.+-..+|+++.+-+.+-.++|.+.+.... -.|.+++-+
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 445
>KOG1988 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.27 E-value=65 Score=38.35 Aligned_cols=74 Identities=24% Similarity=0.114 Sum_probs=51.9
Q ss_pred HHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCCCCcccccccCCCCCchHHHHHHHHHHHHHhhhhhh
Q 009666 430 DIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPGFSGDEIKTFRKPLVCDIHKERLAAVSFTLDIMCLL 509 (529)
Q Consensus 430 eIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEIR~~RK~~ptEaHKQRMALIRKtiK~m~~~ 509 (529)
|...+|.+.--....++++.|+-+- +++|+.+||=-.||+..- -+--+-+|+.+|-.+|..+++
T Consensus 254 d~l~q~~ked~~kivr~~vl~kl~~-La~r~~l~l~s~~rd~a~---------------~~s~~~~~~~vri~~k~~ill 317 (970)
T KOG1988|consen 254 DVLLQFLKEDERKIVRLKVLRKLDF-LAKRLALHLLSCERDFAS---------------EDSSDLEMASVRIFLKGCILL 317 (970)
T ss_pred HHHHHhhcCCchhHHHHHHHHHHHH-Hhhhhhheeccchhhhhc---------------ccchhhhHHHHHHHHHHHHhh
Confidence 3334555555556666677777775 477877777767776542 122356899999999999999
Q ss_pred eeeecceeeE
Q 009666 510 VIYKDACLSV 519 (529)
Q Consensus 510 ~~~~~~~~~~ 519 (529)
.+|.+.|--|
T Consensus 318 ~~yn~~~~l~ 327 (970)
T KOG1988|consen 318 KGYNSKAPLV 327 (970)
T ss_pred hhcCccCceE
Confidence 9999998543
No 446
>PRK05629 hypothetical protein; Validated
Probab=20.25 E-value=3.1e+02 Score=27.47 Aligned_cols=70 Identities=14% Similarity=0.099 Sum_probs=44.2
Q ss_pred CCHHHHHHHHHhh--CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCccc
Q 009666 402 LTKRSIQELVNQI--DPSERLDPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTL 472 (529)
Q Consensus 402 LtKrKLqELVrqI--DPsesLDpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 472 (529)
+..+.|.+.|++. ..+.+||+++.++|++....=...+...-=+|+-+- ...|+.+||+-.+.++-...|
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 346999999888777644443
No 447
>KOG4217 consensus Nuclear receptors of the nerve growth factor-induced protein B type [Transcription]
Probab=20.25 E-value=1.4e+02 Score=33.87 Aligned_cols=78 Identities=21% Similarity=0.338 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHHHH-------HHHHHhhhhcCCCCcchhhH---------HHHHhhccCcccCCCCcccccccCCCC
Q 009666 424 VEDILVDIAEDFVESIT-------MFGCSLAKHRKSDTLEAKDI---------LVHLERNWNMTLPGFSGDEIKTFRKPL 487 (529)
Q Consensus 424 VEELLLeIADDFVDsVv-------s~ACrLAKHRKSdTLEvKDV---------QLhLERnWNI~IPGFssDEIR~~RK~~ 487 (529)
-+-||.-|+...+|.-= .+-|.+--|- +.-|+.+| .++.-|.|-+.||||.. |.+
T Consensus 369 Pi~LltalvrAh~Dstp~~~~ldys~~q~~~~~~--~~tdA~~vqqfy~lLtgsl~virk~aekiPgf~e--l~p----- 439 (605)
T KOG4217|consen 369 PISLLTALVRAHVDSTPSTMTLDYSRFQELVPHF--SGTDALHVQQFYDLLTGSLEVIRKWAEKIPGFAE--LPP----- 439 (605)
T ss_pred chHHHHHHHHHhhcCCCCcchhhHHHhccccccc--cccHHHHHHHHHHHhhhhHHHHHHHHHhCcCccc--CCh-----
Confidence 34566666666665433 2223322222 22356666 35677999999999963 332
Q ss_pred CchHHHHHHHHHHHHHhhhhhheeeec
Q 009666 488 VCDIHKERLAAVSFTLDIMCLLVIYKD 514 (529)
Q Consensus 488 ptEaHKQRMALIRKtiK~m~~~~~~~~ 514 (529)
--+-+-+-+..+..|.|-+.|+-
T Consensus 440 ----aDq~lLlesaflelfvlRlAyRs 462 (605)
T KOG4217|consen 440 ----ADQDLLLESAFLELFVLRLAYRS 462 (605)
T ss_pred ----hhHHHHHHHHHHHHHHHHHHHhc
Confidence 12446666777888888887764
No 448
>PRK12772 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional
Probab=20.23 E-value=50 Score=37.02 Aligned_cols=18 Identities=28% Similarity=0.419 Sum_probs=15.4
Q ss_pred cCCccCCHHHHHHHHHhh
Q 009666 397 FGNRILTKRSIQELVNQI 414 (529)
Q Consensus 397 ~~nrILtKrKLqELVrqI 414 (529)
.=.|+++++.|-||+|.+
T Consensus 389 GlKrlFS~k~l~el~K~l 406 (609)
T PRK12772 389 GFKRMFSMRSVMELLKDL 406 (609)
T ss_pred hHHHhcCHHHHHHHHHHH
Confidence 446888999999999987
No 449
>PRK13018 cell division protein FtsZ; Provisional
Probab=20.17 E-value=1.4e+02 Score=31.88 Aligned_cols=74 Identities=12% Similarity=0.105 Sum_probs=53.2
Q ss_pred HHHHHHHHHhhCCCCCCCHHHH-H--------HHHHHHHHHHHHHHHHHHHhhhhcCCCCcchhhHHHHHhhccCcccCC
Q 009666 404 KRSIQELVNQIDPSERLDPDVE-D--------ILVDIAEDFVESITMFGCSLAKHRKSDTLEAKDILVHLERNWNMTLPG 474 (529)
Q Consensus 404 KrKLqELVrqIDPsesLDpDVE-E--------LLLeIADDFVDsVvs~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPG 474 (529)
..-|.+|.+.+|--..||.|.. + --.+.+|+.|-..+.....+-+..+.-.+|+.||.-.|+. -|+-+=|
T Consensus 165 ~~gL~~L~e~~D~vividNd~L~~i~~~~~i~~af~~~N~iIa~~I~~It~~i~~~G~iN~Df~dv~~vl~~-~G~a~iG 243 (378)
T PRK13018 165 EEGIERLREAADTVIVIDNNRLLDIVPNLPIADAFSVADEVIAETVKGITETITKPSLINLDFADVKSVMKG-GGVAMMG 243 (378)
T ss_pred HHHHHHHHHhCCEEEEEecHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhhhhcccCCceecCHHHHHHHhcc-CCEEEEE
Confidence 4568888888887666666632 1 1345667777777776666777778888999999999975 4888878
Q ss_pred CCcc
Q 009666 475 FSGD 478 (529)
Q Consensus 475 FssD 478 (529)
|+..
T Consensus 244 ~G~a 247 (378)
T PRK13018 244 VGEA 247 (378)
T ss_pred EEEe
Confidence 8653
No 450
>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=20.17 E-value=1.5e+02 Score=24.67 Aligned_cols=43 Identities=21% Similarity=0.276 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhc-CCCCcchhhHHHHHhhccCcccC
Q 009666 423 DVEDILVDIAEDFVESITMFGCSLAKHR-KSDTLEAKDILVHLERNWNMTLP 473 (529)
Q Consensus 423 DVEELLLeIADDFVDsVvs~ACrLAKHR-KSdTLEvKDVQLhLERnWNI~IP 473 (529)
++|+.+..|.+.| ++.|+.. +...|+..|+.-.|+++++-.+.
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 57789999999999887765543
No 451
>KOG2016 consensus NEDD8-activating complex, APP-BP1/UBA5 component [Posttranslational modification, protein turnover, chaperones]
Probab=20.12 E-value=1.7e+02 Score=32.99 Aligned_cols=26 Identities=23% Similarity=0.501 Sum_probs=15.3
Q ss_pred HHHHHHHHhhCCC-CCCCHHHHHHHHH
Q 009666 405 RSIQELVNQIDPS-ERLDPDVEDILVD 430 (529)
Q Consensus 405 rKLqELVrqIDPs-esLDpDVEELLLe 430 (529)
++.+++++++.-. +.|++++.+.+-.
T Consensus 350 ~~v~~vlk~lgr~~~sIs~~~ik~fCk 376 (523)
T KOG2016|consen 350 RRVQEVLKSLGRSPDSISDDVIKLFCK 376 (523)
T ss_pred HHHHHHHHHhCCCccccCHHHHHHHHh
Confidence 3345555555443 6677777776655
No 452
>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]
Probab=20.09 E-value=61 Score=38.77 Aligned_cols=40 Identities=23% Similarity=0.305 Sum_probs=26.8
Q ss_pred hhccCcccCCCCccc---ccccCCCCCchHHH---HHHHHHHHHHh
Q 009666 465 ERNWNMTLPGFSGDE---IKTFRKPLVCDIHK---ERLAAVSFTLD 504 (529)
Q Consensus 465 ERnWNI~IPGFssDE---IR~~RK~~ptEaHK---QRMALIRKtiK 504 (529)
--+||||||-|.+|. +|.++-+.-++.|| +|..+|-.-+.
T Consensus 328 lsEfnmWiP~y~sD~~vrpR~F~vf~LnD~~KT~~~Rakvi~~Wv~ 373 (1387)
T KOG1016|consen 328 LSEFNMWIPKYFSDTGVRPRSFEVFLLNDGVKTFDQRAKVIEQWVQ 373 (1387)
T ss_pred HHHhhhhcCCCcccCCCccceeEEEEecCchhhHHHHHHHHHHHhc
Confidence 357999999988773 45555566677665 56666655443
No 453
>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=20.02 E-value=1.7e+02 Score=32.80 Aligned_cols=35 Identities=17% Similarity=0.112 Sum_probs=27.4
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCCCc
Q 009666 421 DPDVEDILVDIAEDFVESITMFGCSLAKHRKSDTL 455 (529)
Q Consensus 421 DpDVEELLLeIADDFVDsVvs~ACrLAKHRKSdTL 455 (529)
++|+.++.-+|.+..-+..+..+|+|||.||...+
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 454
>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=20.01 E-value=1.8e+02 Score=26.87 Aligned_cols=35 Identities=20% Similarity=0.448 Sum_probs=19.8
Q ss_pred cCCHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHH
Q 009666 401 ILTKRSIQELVNQIDPSERLDPDVEDILVDIAEDFVE 437 (529)
Q Consensus 401 ILtKrKLqELVrqIDPsesLDpDVEELLLeIADDFVD 437 (529)
|-+|+-|.+|++-|+.. .+.+|.+-+|+|.+.+-+
T Consensus 76 vask~Fl~eL~kl~~~~--~~~~Vk~kil~li~~W~~ 110 (144)
T cd03568 76 VASRDFTQELKKLINDR--VHPTVKEKLREVVKQWAD 110 (144)
T ss_pred HhhHHHHHHHHHHhccc--CCHHHHHHHHHHHHHHHH
Confidence 33555566666666554 566666666665555543
Done!