Query 007852
Match_columns 587
No_of_seqs 132 out of 191
Neff 2.6
Searched_HMMs 46136
Date Thu Mar 28 16:12:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007852.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007852hhsearch_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 1.3E-52 2.8E-57 411.4 13.0 252 260-535 2-258 (258)
2 PF03847 TFIID_20kDa: Transcri 100.0 2.6E-29 5.7E-34 205.1 7.0 68 433-500 1-68 (68)
3 COG5624 TAF61 Transcription in 100.0 6.5E-30 1.4E-34 264.1 3.9 104 428-531 380-485 (505)
4 cd07981 TAF12 TATA Binding Pro 99.9 1.4E-24 3E-29 177.1 8.7 72 431-502 1-72 (72)
5 PLN00035 histone H4; Provision 98.7 1E-07 2.3E-12 84.7 8.7 76 430-507 28-103 (103)
6 PTZ00015 histone H4; Provision 98.6 2.7E-07 5.9E-12 81.9 8.5 74 430-505 29-102 (102)
7 cd00076 H4 Histone H4, one of 98.6 3.1E-07 6.6E-12 79.1 8.4 75 429-505 11-85 (85)
8 COG2036 HHT1 Histones H3 and H 98.4 3.4E-07 7.4E-12 79.8 6.0 70 427-497 15-84 (91)
9 PF00125 Histone: Core histone 98.2 2.8E-06 6.1E-11 68.2 5.6 68 429-496 3-74 (75)
10 smart00803 TAF TATA box bindin 98.1 1.1E-05 2.4E-10 66.0 7.7 64 431-495 2-65 (65)
11 PF00808 CBFD_NFYB_HMF: Histon 97.9 2.9E-05 6.2E-10 61.7 6.8 63 432-494 3-65 (65)
12 smart00417 H4 Histone H4. 97.9 3.2E-05 7E-10 65.4 6.5 63 429-492 11-73 (74)
13 cd07979 TAF9 TATA Binding Prot 97.9 4.9E-05 1.1E-09 68.2 7.9 66 435-501 5-70 (117)
14 KOG3467 Histone H4 [Chromatin 97.9 4.4E-05 9.6E-10 67.5 7.4 76 430-507 28-103 (103)
15 smart00428 H3 Histone H3. 97.8 4.4E-05 9.6E-10 68.2 6.7 67 428-494 26-98 (105)
16 PLN00161 histone H3; Provision 97.6 0.0002 4.3E-09 66.8 7.0 77 428-505 52-133 (135)
17 smart00576 BTP Bromodomain tra 97.4 0.0011 2.5E-08 54.9 8.3 69 432-502 7-75 (77)
18 PLN00121 histone H3; Provision 97.3 0.00044 9.5E-09 64.5 5.9 67 428-494 59-129 (136)
19 PTZ00018 histone H3; Provision 97.2 0.00052 1.1E-08 64.0 5.7 67 428-494 59-129 (136)
20 PF02291 TFIID-31kDa: Transcri 97.2 0.0011 2.4E-08 61.1 7.0 72 430-502 9-82 (129)
21 PLN00160 histone H3; Provision 97.2 0.00086 1.9E-08 59.6 5.9 67 428-494 18-89 (97)
22 cd08050 TAF6 TATA Binding Prot 97.1 0.0018 3.9E-08 66.6 9.0 74 434-508 2-75 (343)
23 PF02269 TFIID-18kDa: Transcri 97.0 0.00081 1.8E-08 58.2 4.2 61 437-497 7-67 (93)
24 smart00427 H2B Histone H2B. 96.7 0.0066 1.4E-07 53.4 7.3 64 437-504 7-70 (89)
25 PF15630 CENP-S: Kinetochore c 96.6 0.0046 1E-07 52.6 5.9 60 438-497 12-73 (76)
26 KOG0869 CCAAT-binding factor, 96.4 0.012 2.7E-07 56.7 7.9 72 425-496 26-98 (168)
27 PF02969 TAF: TATA box binding 96.3 0.016 3.6E-07 48.2 7.3 65 430-495 2-66 (66)
28 PLN00158 histone H2B; Provisio 96.2 0.018 3.9E-07 53.0 7.3 64 437-504 33-96 (116)
29 PTZ00463 histone H2B; Provisio 96.1 0.021 4.5E-07 52.7 7.3 64 437-504 34-97 (117)
30 PF07524 Bromo_TP: Bromodomain 95.9 0.054 1.2E-06 44.6 8.3 65 435-501 10-74 (77)
31 cd07978 TAF13 The TATA Binding 95.8 0.052 1.1E-06 47.5 8.1 62 435-497 6-67 (92)
32 cd00074 H2A Histone 2A; H2A is 95.4 0.05 1.1E-06 49.5 7.0 67 430-496 19-85 (115)
33 cd08048 TAF11 TATA Binding Pro 95.3 0.094 2E-06 45.5 8.0 64 432-496 17-83 (85)
34 KOG0871 Class 2 transcription 95.3 0.082 1.8E-06 50.7 8.0 74 424-497 5-79 (156)
35 KOG3334 Transcription initiati 95.1 0.086 1.9E-06 50.3 7.8 68 436-504 18-85 (148)
36 KOG1744 Histone H2B [Chromatin 94.7 0.093 2E-06 49.1 6.7 61 440-504 46-106 (127)
37 PF09415 CENP-X: CENP-S associ 93.8 0.074 1.6E-06 44.9 3.6 60 434-493 2-64 (72)
38 KOG2549 Transcription initiati 93.1 0.44 9.5E-06 53.4 9.2 91 428-519 7-98 (576)
39 PF15511 CENP-T: Centromere ki 93.0 0.17 3.7E-06 54.0 5.8 56 434-489 358-414 (414)
40 KOG0870 DNA polymerase epsilon 92.7 0.46 9.9E-06 46.4 7.6 68 430-497 9-78 (172)
41 PF04719 TAFII28: hTAFII28-lik 92.4 0.53 1.1E-05 41.6 7.0 53 431-483 23-75 (90)
42 PF03540 TFIID_30kDa: Transcri 91.6 0.83 1.8E-05 37.0 6.7 49 431-480 2-50 (51)
43 COG5248 TAF19 Transcription in 90.5 1.1 2.4E-05 41.7 7.4 60 436-497 14-73 (126)
44 cd08045 TAF4 TATA Binding Prot 90.4 0.68 1.5E-05 44.9 6.3 56 428-483 41-99 (212)
45 PF05236 TAF4: Transcription i 90.4 0.28 6E-06 48.9 3.7 57 428-484 40-99 (264)
46 KOG3423 Transcription initiati 90.3 1.2 2.7E-05 43.7 7.8 69 433-502 69-169 (176)
47 KOG1745 Histones H3 and H4 [Ch 90.1 0.2 4.4E-06 47.4 2.3 67 428-494 60-130 (137)
48 COG5094 TAF9 Transcription ini 87.4 1.8 3.8E-05 41.2 6.5 67 435-502 18-87 (145)
49 COG5150 Class 2 transcription 87.1 2.7 5.9E-05 40.1 7.5 77 427-503 7-85 (148)
50 KOG3901 Transcription initiati 86.1 3.4 7.4E-05 38.1 7.4 59 436-497 14-72 (109)
51 COG5162 Transcription initiati 85.8 3.7 8E-05 40.6 8.0 47 435-481 73-137 (197)
52 smart00414 H2A Histone 2A. 80.9 5.2 0.00011 36.2 6.4 66 431-496 9-74 (106)
53 PRK00411 cdc6 cell division co 80.4 7.4 0.00016 39.5 8.1 67 431-497 206-282 (394)
54 smart00350 MCM minichromosome 80.0 5.2 0.00011 43.5 7.3 64 430-495 416-502 (509)
55 TIGR03015 pepcterm_ATPase puta 79.6 6.2 0.00013 37.6 6.9 67 430-496 190-265 (269)
56 TIGR02902 spore_lonB ATP-depen 79.4 5.1 0.00011 44.0 7.0 65 431-495 262-330 (531)
57 COG5095 TAF6 Transcription ini 78.3 7.7 0.00017 42.0 7.6 66 430-496 4-69 (450)
58 TIGR02928 orc1/cdc6 family rep 74.0 12 0.00026 37.5 7.4 66 432-497 199-274 (365)
59 PRK14086 dnaA chromosomal repl 73.8 5.1 0.00011 45.6 5.3 54 476-535 545-599 (617)
60 COG5208 HAP5 CCAAT-binding fac 72.9 5.4 0.00012 41.1 4.7 64 433-497 111-175 (286)
61 COG0593 DnaA ATPase involved i 72.1 5.6 0.00012 43.2 4.9 87 429-523 298-385 (408)
62 KOG3219 Transcription initiati 72.1 3.4 7.3E-05 41.3 3.0 64 430-494 111-175 (195)
63 KOG2680 DNA helicase TIP49, TB 72.0 10 0.00022 41.2 6.6 63 433-495 359-427 (454)
64 KOG4336 TBP-associated transcr 71.5 11 0.00024 40.1 6.8 70 436-507 10-79 (323)
65 TIGR03772 anch_rpt_subst ancho 70.7 6.6 0.00014 43.3 5.1 120 431-557 314-448 (479)
66 COG1224 TIP49 DNA helicase TIP 69.5 8.5 0.00018 42.3 5.5 63 433-495 362-430 (450)
67 PTZ00017 histone H2A; Provisio 69.3 12 0.00025 35.7 5.7 67 430-496 26-92 (134)
68 TIGR02639 ClpA ATP-dependent C 68.1 9.7 0.00021 43.3 5.9 78 433-510 346-442 (731)
69 PF01297 TroA: Periplasmic sol 64.5 8.7 0.00019 37.2 4.1 120 431-557 95-225 (256)
70 PRK00149 dnaA chromosomal repl 62.2 15 0.00032 39.1 5.6 86 430-522 335-422 (450)
71 PTZ00171 acyl carrier protein; 60.3 2.3 4.9E-05 40.2 -0.7 35 470-504 90-124 (148)
72 COG4585 Signal transduction hi 60.3 15 0.00032 37.3 5.0 74 446-534 268-348 (365)
73 cd01137 PsaA Metal binding pro 60.2 24 0.00052 35.6 6.4 122 431-559 120-254 (287)
74 cd01017 AdcA Metal binding pro 60.1 15 0.00033 36.5 5.0 120 432-558 117-247 (282)
75 KOG3489 Mitochondrial import i 58.2 35 0.00075 30.7 6.2 50 433-482 23-82 (86)
76 TIGR00635 ruvB Holliday juncti 56.5 35 0.00076 33.6 6.7 66 431-496 158-228 (305)
77 KOG3598 Thyroid hormone recept 56.4 24 0.00053 44.4 6.5 25 218-244 2030-2054(2220)
78 cd01020 TroA_b Metal binding p 54.5 53 0.0011 32.6 7.6 103 432-538 99-207 (264)
79 KOG1748 Acyl carrier protein/N 54.4 12 0.00026 35.5 3.0 60 453-512 53-115 (131)
80 PF04867 DUF643: Protein of un 54.1 23 0.0005 32.9 4.6 35 452-486 55-89 (114)
81 PRK09545 znuA high-affinity zi 53.9 30 0.00065 35.5 6.0 120 431-557 148-278 (311)
82 CHL00124 acpP acyl carrier pro 53.6 8.5 0.00018 31.5 1.7 30 475-504 30-59 (82)
83 KOG4369 RTK signaling protein 53.5 10 0.00022 46.8 2.8 53 413-465 1948-2012(2131)
84 cd02888 RNR_II_dimer Class II 53.1 51 0.0011 36.1 7.9 86 451-540 315-431 (464)
85 PLN00154 histone H2A; Provisio 52.9 43 0.00093 32.1 6.4 67 430-496 37-104 (136)
86 KOG1659 Class 2 transcription 52.5 37 0.00081 34.8 6.2 60 449-508 31-98 (224)
87 TIGR02442 Cob-chelat-sub cobal 51.8 33 0.00072 38.7 6.4 54 442-495 242-302 (633)
88 PRK14622 hypothetical protein; 51.7 11 0.00023 33.9 2.1 9 499-507 95-103 (103)
89 PLN00156 histone H2AX; Provisi 51.3 69 0.0015 30.9 7.5 65 431-495 29-93 (139)
90 PRK05350 acyl carrier protein; 50.6 9 0.00019 31.8 1.4 24 481-504 37-60 (82)
91 PRK12449 acyl carrier protein; 50.2 4.8 0.0001 32.8 -0.3 35 471-505 26-60 (80)
92 PLN00157 histone H2A; Provisio 49.8 37 0.00081 32.3 5.4 66 430-495 25-90 (132)
93 cd01019 ZnuA Zinc binding prot 48.6 40 0.00087 34.0 5.9 101 431-538 124-229 (286)
94 KOG1658 DNA polymerase epsilon 48.0 14 0.00031 36.1 2.5 68 433-501 61-129 (162)
95 TIGR02030 BchI-ChlI magnesium 47.9 44 0.00095 35.2 6.2 71 430-501 236-313 (337)
96 PRK07360 FO synthase subunit 2 46.8 57 0.0012 34.3 6.8 74 434-507 4-81 (371)
97 TIGR02031 BchD-ChlD magnesium 46.0 32 0.0007 38.6 5.2 72 430-502 185-263 (589)
98 PTZ00361 26 proteosome regulat 45.7 28 0.00061 38.0 4.5 65 433-497 355-424 (438)
99 cd01018 ZntC Metal binding pro 45.0 39 0.00085 33.5 5.1 98 432-538 116-218 (266)
100 cd01016 TroA Metal binding pro 44.5 41 0.0009 33.7 5.2 99 433-538 106-211 (276)
101 PRK13407 bchI magnesium chelat 43.9 60 0.0013 34.3 6.5 72 429-501 232-310 (334)
102 cd06845 Bcl-2_like Apoptosis r 43.5 50 0.0011 30.0 5.2 47 435-484 52-108 (144)
103 PF07030 DUF1320: Protein of u 43.1 72 0.0016 29.0 6.1 46 430-476 9-54 (130)
104 PF00616 RasGAP: GTPase-activa 41.7 53 0.0012 30.3 5.1 80 453-535 97-194 (197)
105 PRK07639 acyl carrier protein; 41.5 8.9 0.00019 32.8 0.1 29 475-503 31-59 (86)
106 TIGR00368 Mg chelatase-related 41.2 48 0.001 36.8 5.5 47 448-494 444-496 (499)
107 cd02202 FtsZ_type2 FtsZ is a G 41.1 77 0.0017 33.4 6.8 109 435-544 152-285 (349)
108 PRK09184 acyl carrier protein; 40.9 16 0.00034 31.8 1.4 32 479-510 39-70 (89)
109 PRK00117 recX recombination re 40.5 54 0.0012 30.0 4.9 55 450-511 40-96 (157)
110 PLN02641 anthranilate phosphor 39.5 48 0.001 35.2 5.0 49 437-486 4-53 (343)
111 TIGR00764 lon_rel lon-related 39.2 1E+02 0.0022 35.0 7.7 45 448-492 329-386 (608)
112 PRK06508 acyl carrier protein; 39.0 26 0.00056 30.8 2.5 31 475-505 28-58 (93)
113 PF08546 ApbA_C: Ketopantoate 38.2 32 0.00069 29.8 3.0 32 462-494 36-67 (125)
114 PRK07081 acyl carrier protein; 37.2 11 0.00024 31.9 -0.0 24 481-504 32-55 (83)
115 cd02191 FtsZ FtsZ is a GTPase 37.1 82 0.0018 32.7 6.1 101 434-546 137-247 (303)
116 TIGR00988 hip integration host 36.6 97 0.0021 26.3 5.5 19 493-511 36-54 (94)
117 cd05395 RasGAP_RASA4 Ras GTPas 36.1 1.6E+02 0.0034 31.6 8.1 80 456-538 148-246 (337)
118 PF13335 Mg_chelatase_2: Magne 36.1 91 0.002 27.4 5.4 47 448-494 41-93 (96)
119 TIGR02999 Sig-70_X6 RNA polyme 35.7 1.2E+02 0.0026 27.4 6.3 88 437-532 4-93 (183)
120 PRK13406 bchD magnesium chelat 35.7 1.3E+02 0.0028 34.3 7.8 65 436-501 183-254 (584)
121 cd01145 TroA_c Periplasmic bin 35.3 44 0.00096 31.9 3.6 77 431-507 111-192 (203)
122 TIGR00362 DnaA chromosomal rep 35.1 47 0.001 34.7 4.1 97 431-537 287-393 (405)
123 PF07261 DnaB_2: Replication i 35.1 1.7E+02 0.0036 23.3 6.4 48 447-496 10-59 (77)
124 PLN00153 histone H2A; Provisio 34.9 96 0.0021 29.6 5.7 66 430-495 23-88 (129)
125 TIGR01560 put_DNA_pack unchara 34.7 74 0.0016 27.1 4.6 35 435-472 3-37 (91)
126 PRK08305 spoVFB dipicolinate s 34.6 45 0.00098 33.1 3.7 79 452-536 92-181 (196)
127 PRK08727 hypothetical protein; 34.2 1.4E+02 0.003 29.2 6.9 65 432-497 162-231 (233)
128 PLN03214 probable enoyl-CoA hy 34.1 6.6 0.00014 39.4 -2.1 107 428-540 160-271 (278)
129 cd05128 RasGAP_GAP1_like The G 33.9 1.7E+02 0.0037 30.9 7.9 80 456-538 132-228 (315)
130 PRK00080 ruvB Holliday junctio 33.4 1E+02 0.0023 31.3 6.1 66 431-496 179-249 (328)
131 cd03565 VHS_Tom1 VHS domain fa 33.4 98 0.0021 28.8 5.5 17 486-502 101-117 (141)
132 PF12767 SAGA-Tad1: Transcript 33.2 1.1E+02 0.0023 30.7 6.1 31 448-478 222-252 (252)
133 COG4296 Uncharacterized protei 32.8 36 0.00078 33.1 2.6 60 451-530 53-115 (156)
134 CHL00176 ftsH cell division pr 32.5 1.7E+02 0.0037 33.6 8.2 66 432-497 353-423 (638)
135 TIGR01688 dltC D-alanine--poly 32.4 20 0.00044 30.6 0.8 21 484-504 33-53 (73)
136 COG1202 Superfamily II helicas 32.2 56 0.0012 38.3 4.3 69 436-504 710-787 (830)
137 PRK13342 recombination factor 31.5 1.5E+02 0.0032 31.5 7.0 62 431-497 150-219 (413)
138 PRK05087 D-alanine--poly(phosp 31.2 22 0.00049 30.1 0.9 23 482-504 34-56 (78)
139 PF00493 MCM: MCM2/3/5 family 31.1 27 0.00059 36.1 1.6 58 436-495 249-324 (331)
140 cd00454 Trunc_globin Truncated 30.4 1.6E+02 0.0035 25.1 6.0 83 455-540 9-96 (116)
141 PRK14700 recombination factor 30.4 2.3E+02 0.0049 30.3 8.1 93 432-538 39-142 (300)
142 PRK07668 hypothetical protein; 30.4 51 0.0011 34.1 3.4 33 436-468 9-41 (254)
143 TIGR00517 acyl_carrier acyl ca 30.1 27 0.00058 28.3 1.1 25 480-504 33-57 (77)
144 PF06570 DUF1129: Protein of u 30.1 57 0.0012 31.6 3.5 34 435-468 8-41 (206)
145 PRK07117 acyl carrier protein; 30.0 29 0.00064 29.5 1.4 33 479-511 34-66 (79)
146 KOG1657 CCAAT-binding factor, 29.8 1E+02 0.0022 31.7 5.3 80 428-511 71-151 (236)
147 COG1474 CDC6 Cdc6-related prot 29.4 1.3E+02 0.0029 32.1 6.3 61 433-493 191-261 (366)
148 cd00043 CYCLIN Cyclin box fold 29.3 1.8E+02 0.0039 22.1 5.5 33 436-468 4-36 (88)
149 cd05132 RasGAP_GAPA GAPA is an 29.2 2.3E+02 0.005 29.7 7.9 81 456-539 123-221 (331)
150 cd03197 GST_C_mPGES2 GST_C fam 29.0 69 0.0015 30.8 3.8 53 437-493 63-115 (149)
151 CHL00081 chlI Mg-protoporyphyr 29.0 1.8E+02 0.004 31.1 7.2 71 431-502 250-327 (350)
152 PRK04195 replication factor C 28.6 1.1E+02 0.0023 33.2 5.6 70 430-501 158-229 (482)
153 TIGR01765 tspaseT_teng_N trans 28.5 84 0.0018 26.0 3.7 46 449-499 7-52 (73)
154 PRK14087 dnaA chromosomal repl 28.4 75 0.0016 34.5 4.4 89 430-525 334-424 (450)
155 PF07516 SecA_SW: SecA Wing an 27.9 1.1E+02 0.0024 29.6 5.0 48 453-502 55-102 (214)
156 PRK12402 replication factor C 27.9 98 0.0021 30.5 4.8 65 430-496 182-248 (337)
157 PTZ00252 histone H2A; Provisio 27.3 1.9E+02 0.0041 27.9 6.2 66 430-495 24-91 (134)
158 PRK05803 sporulation sigma fac 27.2 2E+02 0.0044 27.8 6.7 69 463-532 52-121 (233)
159 PRK09862 putative ATP-dependen 27.1 1.8E+02 0.0038 32.8 7.0 48 448-495 437-490 (506)
160 PRK06030 hypothetical protein; 26.8 1.1E+02 0.0023 28.7 4.5 71 453-533 24-97 (124)
161 PF08625 Utp13: Utp13 specific 26.6 2E+02 0.0042 27.2 6.2 38 490-532 86-130 (141)
162 PRK05828 acyl carrier protein; 26.6 20 0.00044 30.8 -0.2 25 480-504 35-59 (84)
163 TIGR03760 ICE_TraI_Pfluor inte 26.4 2E+02 0.0044 28.9 6.6 54 429-482 10-88 (218)
164 TIGR02852 spore_dpaB dipicolin 26.2 67 0.0015 31.6 3.3 70 455-527 90-170 (187)
165 cd03569 VHS_Hrs_Vps27p VHS dom 26.2 2.1E+02 0.0046 26.7 6.4 19 485-503 99-117 (142)
166 COG0236 AcpP Acyl carrier prot 25.7 19 0.00041 29.8 -0.5 26 480-505 35-60 (80)
167 PRK09281 F0F1 ATP synthase sub 25.4 86 0.0019 35.1 4.3 35 434-468 465-499 (502)
168 PF01432 Peptidase_M3: Peptida 25.2 1.3E+02 0.0028 32.0 5.3 52 446-497 62-118 (458)
169 PRK00982 acpP acyl carrier pro 25.0 56 0.0012 26.4 2.1 25 480-504 33-57 (78)
170 PRK11034 clpA ATP-dependent Cl 24.9 1E+02 0.0022 36.1 4.9 77 433-509 350-445 (758)
171 TIGR00962 atpA proton transloc 24.9 90 0.002 35.0 4.3 35 434-468 464-498 (501)
172 PRK08172 putative acyl carrier 24.4 30 0.00065 29.4 0.5 32 473-504 27-58 (82)
173 TIGR02937 sigma70-ECF RNA poly 24.3 80 0.0017 26.2 2.9 67 463-532 4-71 (158)
174 PF10789 Phage_RpbA: Phage RNA 24.2 50 0.0011 30.6 1.9 38 449-486 49-86 (108)
175 cd05394 RasGAP_RASA2 RASA2 (or 24.0 2E+02 0.0044 30.7 6.5 76 456-538 131-227 (313)
176 KOG2114 Vacuolar assembly/sort 23.9 88 0.0019 37.7 4.1 92 431-529 444-544 (933)
177 PRK13341 recombination factor 23.9 1.9E+02 0.0042 33.8 6.8 65 432-496 168-246 (725)
178 PRK12422 chromosomal replicati 23.9 1E+02 0.0023 33.6 4.5 86 431-523 330-417 (445)
179 cd05137 RasGAP_CLA2_BUD2 CLA2/ 23.5 3.5E+02 0.0077 29.6 8.3 76 456-538 199-296 (395)
180 PF13565 HTH_32: Homeodomain-l 23.2 85 0.0018 25.0 2.8 35 451-502 32-66 (77)
181 PRK15380 pathogenicity island 23.2 1.1E+02 0.0024 32.6 4.3 95 427-530 114-219 (319)
182 COG0776 HimA Bacterial nucleoi 23.0 2.2E+02 0.0047 25.7 5.5 52 432-511 2-54 (94)
183 COG0542 clpA ATP-binding subun 22.9 81 0.0017 37.5 3.6 65 439-511 678-744 (786)
184 cd05022 S-100A13 S-100A13: S-1 22.7 2.5E+02 0.0054 24.4 5.7 52 429-481 23-85 (89)
185 PF12536 DUF3734: Patatin phos 22.7 15 0.00032 32.9 -1.8 54 434-492 21-74 (108)
186 PF14842 FliG_N: FliG N-termin 22.7 1.8E+02 0.0039 25.8 4.9 34 432-468 30-63 (108)
187 PRK08136 glycosyl transferase 22.6 1.1E+02 0.0023 32.4 4.1 50 437-486 3-57 (317)
188 cd05030 calgranulins Calgranul 22.5 1.9E+02 0.0041 24.5 4.9 51 429-481 24-87 (88)
189 PRK00095 mutL DNA mismatch rep 22.5 1.6E+02 0.0034 33.5 5.6 62 453-515 532-604 (617)
190 PRK00199 ihfB integration host 22.4 27 0.00059 29.8 -0.2 19 493-511 36-54 (94)
191 PHA00440 host protein H-NS-int 22.2 2E+02 0.0042 26.6 5.1 42 434-475 26-67 (98)
192 smart00760 Bac_DnaA_C Bacteria 22.2 34 0.00073 27.1 0.3 48 454-504 2-50 (60)
193 PLN02690 Agmatine deiminase 21.9 57 0.0012 35.2 2.0 67 469-536 174-262 (374)
194 PF08429 PLU-1: PLU-1-like pro 21.6 2.1E+02 0.0045 29.2 5.8 70 429-505 80-154 (335)
195 PRK13531 regulatory ATPase Rav 21.5 3.6E+02 0.0078 30.7 8.0 70 429-499 204-286 (498)
196 PRK08150 enoyl-CoA hydratase; 21.5 12 0.00027 36.8 -2.7 97 428-530 144-245 (255)
197 cd08324 CARD_NOD1_CARD4 Caspas 21.4 1.1E+02 0.0023 27.7 3.2 31 435-467 49-79 (85)
198 PRK14955 DNA polymerase III su 21.4 1.9E+02 0.0042 30.6 5.7 61 432-492 186-252 (397)
199 PRK12531 RNA polymerase sigma 21.3 1.6E+02 0.0035 27.4 4.6 93 428-532 5-98 (194)
200 TIGR00362 DnaA chromosomal rep 21.3 3.6E+02 0.0079 28.3 7.6 51 446-497 284-337 (405)
201 PF10163 EnY2: Transcription f 21.2 1.4E+02 0.003 25.8 3.8 55 464-533 31-85 (86)
202 PF08165 FerA: FerA (NUC095) d 21.1 97 0.0021 26.0 2.8 38 451-491 9-46 (66)
203 smart00324 RhoGAP GTPase-activ 21.0 4.4E+02 0.0096 23.9 7.3 34 464-497 112-145 (174)
204 cd05130 RasGAP_Neurofibromin N 20.9 3.8E+02 0.0082 28.6 7.7 22 456-477 135-156 (329)
205 PF02885 Glycos_trans_3N: Glyc 20.7 67 0.0015 26.0 1.8 47 437-483 2-49 (66)
206 PTZ00465 rhoptry-associated pr 20.5 35 0.00076 38.7 0.2 65 439-503 49-125 (565)
207 PRK12710 flgJ flagellar rod as 20.4 1.2E+02 0.0025 32.3 3.8 43 460-503 128-170 (291)
208 TIGR01241 FtsH_fam ATP-depende 20.3 2.5E+02 0.0055 30.5 6.4 32 466-497 264-295 (495)
209 COG3900 Predicted periplasmic 20.1 49 0.0011 34.5 1.0 70 429-503 119-193 (262)
210 PRK10664 transcriptional regul 20.0 1.4E+02 0.003 25.9 3.6 13 499-511 41-53 (90)
No 1
>KOG1142 consensus Transcription initiation factor TFIID, subunit TAF12 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=100.00 E-value=1.3e-52 Score=411.35 Aligned_cols=252 Identities=44% Similarity=0.605 Sum_probs=190.3
Q ss_pred ccccccccCcccccCCcccccccchhHHHHHhhcCCCCCCCCCcccccccccchhHHHHHhhhchhhh-hhccCCCHHHH
Q 007852 260 SLAFMNPQLSGLAQNGQPGMMQNSLSQQQWLKQMPAMSAPGSPSFRLQQHQRQSPVLLQQQLASSPQL-QNSMGLNQQQL 338 (587)
Q Consensus 260 s~a~~n~ql~g~~qngq~~~~q~s~~qqqwlkqm~~~~~p~sps~~~Q~~q~~~~~~~qq~l~~s~ql-q~~~~Ln~qql 338 (587)
.+.+++++.++..++|+.++.|....|++||++++.+.+|.+. +.++ ++ ..++.. ++ +.+|++.+
T Consensus 2 ~l~~~s~~~sp~~~~~~~~~~qlq~~qq~~~~~~~~~~s~~~~-----~s~~-------~q-~~~~~~~~~-~~~~qq~~ 67 (258)
T KOG1142|consen 2 ELYEASPQPSPAEQAGQQGQQQLQARQQQWLRQIQGIPSPESY-----PSQR-------QQ-RFSPTCSIR-ENPNQQWI 67 (258)
T ss_pred cccccCCCCCHHHHHHHHHHHHHHHHHhhhhccccCCCCCCCC-----hhhc-------cc-cCCCccccc-CCCCcccc
Confidence 5789999999999999999999999999999999999988864 1121 12 234555 55 88898888
Q ss_pred HHHHhhccccCccccCCCCCCCChhHHHHHHHHhh--hcccchHHhhhhccCCCccCCCCCCcCc-cCCCCCCCCcc-cc
Q 007852 339 SQLVQQQPQMGHAQLHQPQPQPQPQQQQQLQQQQS--QQQPSLHQQQQQQQSPRISGPAGQKSLS-LTGSQPDATVS-GT 414 (587)
Q Consensus 339 ~q~~qq~~~~~~~ql~qqq~q~q~qqqqq~qqqq~--~qq~~~~qqqqqqqsprm~~p~~qk~~s-l~gsqp~at~~-g~ 414 (587)
+....+. +........+...++..++-.. +++|..+ .++..+-++.....++..+ ..|+ ...++ |.
T Consensus 68 s~~~~~~------~~~n~~~~s~~~~~~~~~~~~~~~~q~P~~~--~~q~~~~~~~~~~~~~~~~P~~~~--~g~~~g~~ 137 (258)
T KOG1142|consen 68 STGYPQP------QVSNGGPPSQALNQQDSQQSAISQQQQPASS--PSQGSSMSNQTSSVQKDPAPVIGS--QGSVSGGG 137 (258)
T ss_pred ccccCcc------ccccCCchHHhhhhhhHHhhccccCCCCccC--CCCCCCccccCcccccCCCCCCCC--CCccCCCC
Confidence 8775441 1222222111222222222111 2222211 1222233444444444433 2222 12222 56
Q ss_pred cCCCCCCCCCcccccccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHH
Q 007852 415 TTPGGSSSQGTEATNQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHL 494 (587)
Q Consensus 415 ~~~Ggs~s~g~e~tnqILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhL 494 (587)
++|+++++...++++++|+|+||+|||++||++++||+||||+|++|||||||+|++|||+||||||++|||+|||+|||
T Consensus 138 ~sp~~s~s~~~~~~~~il~k~kl~dLvqqId~~~~LD~dVedlLleiADdFV~sii~~sC~LAKHRKsdtlEvrDIqLhL 217 (258)
T KOG1142|consen 138 TSPAGSSSQDEPGNNPILSKRKLDDLVQQIDGTTKLDDDVEDLLLEIADDFVSSIIHRSCKLAKHRKSDTVEVRDIQLHL 217 (258)
T ss_pred CCCCcccccccCCCCccccccchhHHHHhhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCccchhheeeee
Confidence 67888888888889999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhcCCccccCCCccccccccCCCCcHHHHHHHHHHHHhhcc
Q 007852 495 EKNWHLTVPGFSSEERNHQRKSLSSDVHSKRLEMIRALMEP 535 (587)
Q Consensus 495 ERnWNI~IPGFssDEir~yrK~~pTeaHkQRMAlIRK~m~s 535 (587)
||+|||+||||++||+++|||+.|||+||+|||+|||.+++
T Consensus 218 Er~~Nm~iPgf~sd~~~~~~k~~pTe~hkqr~a~i~k~~~k 258 (258)
T KOG1142|consen 218 ERNFNMEIPGFSSDEKRSKKKALPTEEHKQRLALIRKQIKK 258 (258)
T ss_pred eccccccCCCccccccccccccCCcHHHHHHHHHHHHhhcC
Confidence 99999999999999999999999999999999999999874
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=2.6e-29 Score=205.14 Aligned_cols=68 Identities=68% Similarity=1.120 Sum_probs=57.9
Q ss_pred ChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCc
Q 007852 433 GKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHL 500 (587)
Q Consensus 433 tKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI 500 (587)
+|++|++||++|||+++||+||||+|++||||||++|+++||+||||||++|||++||+|||||+|||
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=99.96 E-value=6.5e-30 Score=264.15 Aligned_cols=104 Identities=41% Similarity=0.641 Sum_probs=100.9
Q ss_pred ccccCChHHHHHHHHhc-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccCCC
Q 007852 428 TNQLLGKRKIQDLVSQV-DSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFS 506 (587)
Q Consensus 428 tnqILtKrKLqeLVrqI-DP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFs 506 (587)
..+++.||||+||++.| |..++||+||||+||++|||||+.|++|||+||||||+||||++||+|||||||||++|||.
T Consensus 380 ~~Rl~skrkL~el~~~~vd~eekie~eveelll~~ad~fve~vt~FsCrlakhrkSdtlevrD~qlhlErnwnIr~pGf~ 459 (505)
T COG5624 380 LWRLDSKRKLEELQHGGVDEEEKIENEVEELLLSRADGFVEPVTEFSCRLAKHRKSDTLEVRDGQLHLERNWNIRCPGFV 459 (505)
T ss_pred hhhhhhhhhHHHHHhhccCcceeccchHHHHHHhhhcccccccchheeEeeccCCCCceeeccceeeeccccceecCcch
Confidence 37999999999999998 99999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccc-cccCCCCcHHHHHHHHHHHH
Q 007852 507 SEERN-HQRKSLSSDVHSKRLEMIRA 531 (587)
Q Consensus 507 sDEir-~yrK~~pTeaHkQRMAlIRK 531 (587)
+|+|+ +|||+.||..|.++..+|+.
T Consensus 460 ~d~I~~s~rk~~pt~~y~qk~~ai~t 485 (505)
T COG5624 460 DDIIHMSYRKQKPTVEYCQKKLAIKT 485 (505)
T ss_pred HHHHHHHHHhcCCChhHHHHHHhhhh
Confidence 99998 99999999999999999974
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=99.91 E-value=1.4e-24 Score=177.15 Aligned_cols=72 Identities=58% Similarity=1.023 Sum_probs=70.6
Q ss_pred cCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccc
Q 007852 431 LLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTV 502 (587)
Q Consensus 431 ILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 502 (587)
+++|++|.+||++|||++++|+||+++|++++||||++|+++||++|||||++||+++||+|||||+|||+|
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 589999999999999999999999999999999999999999999999999999999999999999999985
No 5
>PLN00035 histone H4; Provisional
Probab=98.66 E-value=1e-07 Score=84.68 Aligned_cols=76 Identities=18% Similarity=0.269 Sum_probs=69.8
Q ss_pred ccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccCCCc
Q 007852 430 QLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFSS 507 (587)
Q Consensus 430 qILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFss 507 (587)
.-|+|..|..|++.-. -..|.+|+.|.|.++.++|++.|+..|+.+|+|.+-.||++.||.|.|+|.+. .+.||+.
T Consensus 28 ~~ipk~~IrRLARr~G-vkRIS~~ay~elr~vle~~l~~I~~dav~ya~HA~RKTV~~~DV~~Alkr~g~-~lyGf~~ 103 (103)
T PLN00035 28 QGITKPAIRRLARRGG-VKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGR-TLYGFGG 103 (103)
T ss_pred ccCCHHHHHHHHHHcC-cccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHcCC-cCCCCCC
Confidence 3489999999999876 58899999999999999999999999999999999999999999999999755 8889863
No 6
>PTZ00015 histone H4; Provisional
Probab=98.56 E-value=2.7e-07 Score=81.87 Aligned_cols=74 Identities=15% Similarity=0.275 Sum_probs=67.8
Q ss_pred ccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccCC
Q 007852 430 QLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGF 505 (587)
Q Consensus 430 qILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGF 505 (587)
+-|+|..|..|++.-. -..|.+|+.|.|.++.++|+++|+..|+.+|+|.+-.||++.||.|.|+|.+. .+.||
T Consensus 29 ~gI~k~~IrRLarr~G-vkRIS~d~y~e~r~vle~~l~~I~rdav~~aeHA~RKTVt~~DV~~AlKr~g~-~~ygf 102 (102)
T PTZ00015 29 RGITKGAIRRLARRGG-VKRISGDIYEEVRGVLKAFLENVVRDSTAYTEYARRKTVTAMDVVYALKRQGR-TLYGF 102 (102)
T ss_pred cCCCHHHHHHHHHHcC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHhcCC-CCCCC
Confidence 4689999999999854 47899999999999999999999999999999999999999999999999755 77776
No 7
>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=98.55 E-value=3.1e-07 Score=79.06 Aligned_cols=75 Identities=19% Similarity=0.293 Sum_probs=69.2
Q ss_pred cccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccCC
Q 007852 429 NQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGF 505 (587)
Q Consensus 429 nqILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGF 505 (587)
..-|+|..|..|++.-+ -..|.+|+.|.+.++.++|+++|+..|+.+|+|.+-.||+..||.+.|+|. |..+-||
T Consensus 11 ~~gi~k~~I~RLarr~G-vkRIS~d~y~e~~~~l~~~l~~I~~dav~ya~Ha~RKTVt~~DV~~alkr~-g~~~ygf 85 (85)
T cd00076 11 IKGITKPAIRRLARRGG-VKRISGGVYDEVRNVLKSYLEDVIRDAVTYTEHAKRKTVTAMDVVYALKRQ-GRTLYGY 85 (85)
T ss_pred hccCCHHHHHHHHHHcC-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCcHHHHHHHHHHC-CCCccCC
Confidence 34599999999999865 578999999999999999999999999999999999999999999999995 7888887
No 8
>COG2036 HHT1 Histones H3 and H4 [Chromatin structure and dynamics]
Probab=98.44 E-value=3.4e-07 Score=79.79 Aligned_cols=70 Identities=24% Similarity=0.438 Sum_probs=66.1
Q ss_pred cccccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhc
Q 007852 427 ATNQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKN 497 (587)
Q Consensus 427 ~tnqILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERn 497 (587)
.+...|++..+..|+|++.+. ++..++.|.|-+.+++|+..|.+.||.+|+|.|..||+.+||++.+++.
T Consensus 15 ~~~~~Lp~apv~Ri~r~~~~~-Rvs~~A~~~l~~~~e~~~~~i~~~A~~~A~ha~RKTV~~~DI~la~~~~ 84 (91)
T COG2036 15 STDLLLPKAPVRRILRKAGAE-RVSSSAIEELQEALEEYLEEIAEDAVELAEHAKRKTVKAEDIKLALKRL 84 (91)
T ss_pred hhhhhcCchHHHHHHHHHhHH-HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeecHHHHHHHHHHh
Confidence 356889999999999999886 9999999999999999999999999999999999999999999999875
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=98.20 E-value=2.8e-06 Score=68.18 Aligned_cols=68 Identities=22% Similarity=0.317 Sum_probs=62.1
Q ss_pred cccCChHHHHHHHHhcCCC----CCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhh
Q 007852 429 NQLLGKRKIQDLVSQVDSQ----GKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEK 496 (587)
Q Consensus 429 nqILtKrKLqeLVrqIDP~----~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLER 496 (587)
...+.|--+..++++|..+ .+++.++.++|-.++|+|+.++++.|+.+|+|.|..||..+||++.+..
T Consensus 3 ~~~~~~~~~~r~~r~i~~~~~~~~ris~~a~~~L~~~~E~~~~~il~~A~~~a~~~kR~tI~~~DI~~A~r~ 74 (75)
T PF00125_consen 3 RRLIPKFPFSRLLREIGEEILSKYRISSEALVALQSVLEYLLVEILEEAGNLARHAKRKTITPRDIQLAVRI 74 (75)
T ss_dssp SHSSSHHHHHHHHHHHHHTTSSSSEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTBSEEGHHHHHHHHHH
T ss_pred ccccCceEEeeeeehhhcccccccccccccchhhhhhhhhhhhhhhhHHHHHHhhcCCcEecHHHHHHHHhc
Confidence 4567788888888888776 7999999999999999999999999999999999999999999998764
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=98.12 E-value=1.1e-05 Score=65.96 Aligned_cols=64 Identities=27% Similarity=0.321 Sum_probs=59.9
Q ss_pred cCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHh
Q 007852 431 LLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLE 495 (587)
Q Consensus 431 ILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLE 495 (587)
+|++..+.++.+.++-. .+.+|+.+.|.+.++.|+..|+..|+++++|=|..||++.||.+.|+
T Consensus 2 ~~p~~~i~ria~~~Gi~-ris~~a~~~l~~~~e~rl~~i~~~A~k~~~hakRktlt~~DI~~Alk 65 (65)
T smart00803 2 WLPKETIKDVAESLGIG-NLSDEAAKLLAEDVEYRIKEIVQEALKFMRHSKRTTLTTSDIDSALR 65 (65)
T ss_pred CCCHHHHHHHHHHCCCc-cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCeecHHHHHHHhC
Confidence 57899999999998764 89999999999999999999999999999999999999999998874
No 11
>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=97.94 E-value=2.9e-05 Score=61.75 Aligned_cols=63 Identities=17% Similarity=0.280 Sum_probs=55.4
Q ss_pred CChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHH
Q 007852 432 LGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHL 494 (587)
Q Consensus 432 LtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhL 494 (587)
|++.++..+++.......+..|+.++|.+.++.||..++..|...|++.+..||..+||...|
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 788999999999855567999999999999999999999999999999999999999997654
No 12
>smart00417 H4 Histone H4.
Probab=97.89 E-value=3.2e-05 Score=65.39 Aligned_cols=63 Identities=17% Similarity=0.249 Sum_probs=58.1
Q ss_pred cccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHH
Q 007852 429 NQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILL 492 (587)
Q Consensus 429 nqILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQL 492 (587)
.+-|+|..|..|++.-+ -..+..++.|.|.++.++|+++|+..|+.+|+|.+-.||+..||.|
T Consensus 11 i~gI~k~~IrRLaRr~G-vkRIS~~~y~elr~vle~~l~~I~rdav~~a~ha~RKTV~~~DV~~ 73 (74)
T smart00417 11 IQGITKPAIRRLARRGG-VKRISGLIYDETRNVLKSFLENVVRDAVTYTEHARRKTVTAMDVVY 73 (74)
T ss_pred hcCCCHHHHHHHHHHcC-cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccHHHhee
Confidence 45689999999999854 4789999999999999999999999999999999999999999976
No 13
>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=97.88 E-value=4.9e-05 Score=68.18 Aligned_cols=66 Identities=20% Similarity=0.320 Sum_probs=57.8
Q ss_pred HHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCcc
Q 007852 435 RKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLT 501 (587)
Q Consensus 435 rKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~ 501 (587)
+-+..+++..+ -..++++|...|+|++..++.+|+..|..+|+|-|.+||++.||.|.++...+..
T Consensus 5 ~~v~~iLk~~G-v~~~~~~v~~~Lle~~~ry~~~il~dA~~~a~hA~r~tV~~eDV~lAi~~r~~~~ 70 (117)
T cd07979 5 RVIAAILKSMG-ITEYEPRVINQLLEFAYRYTTDVLDDAKVYSEHAGKANIDADDVKLAIQSRVDYS 70 (117)
T ss_pred HHHHHHHHHCC-CCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhccC
Confidence 34667777653 3589999999999999999999999999999999999999999999998876633
No 14
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]
Probab=97.88 E-value=4.4e-05 Score=67.50 Aligned_cols=76 Identities=20% Similarity=0.276 Sum_probs=67.0
Q ss_pred ccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccCCCc
Q 007852 430 QLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFSS 507 (587)
Q Consensus 430 qILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFss 507 (587)
.-|+|..|..|.+.-.. ..+..-..|-.-..+.+|+++|+..||..+.|-|..||+..||.+.|+|. ++.+-||++
T Consensus 28 qgitKpaIRRlARr~GV-kRi~G~~yeE~~~~~k~fl~n~i~~A~~yt~HAKRKTvT~~dvv~~LKR~-G~~~~g~~~ 103 (103)
T KOG3467|consen 28 QGITKPAIRRLARRGGV-KRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQ-GRTLYGFGG 103 (103)
T ss_pred cccchHHHHHHHHhcCc-chhchhhHHHHHHHHHHHHHHHHHHHHHHHhhhhhceeeHHHHHHHHHHc-CceeeccCC
Confidence 45789999999987554 45666777778999999999999999999999999999999999999996 999999974
No 15
>smart00428 H3 Histone H3.
Probab=97.83 E-value=4.4e-05 Score=68.22 Aligned_cols=67 Identities=27% Similarity=0.267 Sum_probs=61.6
Q ss_pred ccccCChHHHHHHHHhcCC------CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHH
Q 007852 428 TNQLLGKRKIQDLVSQVDS------QGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHL 494 (587)
Q Consensus 428 tnqILtKrKLqeLVrqIDP------~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhL 494 (587)
++-+|+|--+..||++|.. +..+.+++.++|.+.+|+|+.++.+.|-.+|+|.|-.||.+|||+++.
T Consensus 26 t~lLI~k~pF~RLVREI~~~~~~~~~~R~~~~Al~aLQeasE~ylv~lfeda~~~a~HAkRvTl~~kDi~La~ 98 (105)
T smart00428 26 TDLLIRKAPFQRLVREIAQKFTTGVDLRFQSSAIMALQEAAEAYLVGLFEDTNLLAIHAKRVTIMPKDIQLAR 98 (105)
T ss_pred cccccccccHHHHHHHHHHHcCCCCCceeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCccCcHhhHHHHH
Confidence 4678899999999999943 458999999999999999999999999999999999999999999886
No 16
>PLN00161 histone H3; Provisional
Probab=97.56 E-value=0.0002 Score=66.79 Aligned_cols=77 Identities=22% Similarity=0.117 Sum_probs=66.2
Q ss_pred ccccCChHHHHHHHHhcC-----CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccc
Q 007852 428 TNQLLGKRKIQDLVSQVD-----SQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTV 502 (587)
Q Consensus 428 tnqILtKrKLqeLVrqID-----P~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 502 (587)
++-+|.|--+..||++|- .+..+..++.++|-+.+|+|+-.+.+.+-..|.|.|--||..|||+|+. |--+.++
T Consensus 52 t~lLIpklPF~RLVREI~~~~~~~~~Rfq~~Al~ALQEAsEayLV~lFeda~lcaiHAkRVTlm~kDm~La~-rirg~~~ 130 (135)
T PLN00161 52 TELLIRKLPFARLVREISNEMLREPFRWTAEALLALQEATEDFLVHLFEDCNLCAIHAKRVTIMPKDMQLAR-RIRGPIY 130 (135)
T ss_pred cccccccccHHHHHHHHHHhcCCCCcEeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHH-Hhccccc
Confidence 556889999999999993 2478999999999999999999999999999999999999999999987 4445554
Q ss_pred cCC
Q 007852 503 PGF 505 (587)
Q Consensus 503 PGF 505 (587)
.++
T Consensus 131 ~~~ 133 (135)
T PLN00161 131 GIS 133 (135)
T ss_pred ccC
Confidence 443
No 17
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=97.36 E-value=0.0011 Score=54.95 Aligned_cols=69 Identities=16% Similarity=0.238 Sum_probs=59.5
Q ss_pred CChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccc
Q 007852 432 LGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTV 502 (587)
Q Consensus 432 LtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 502 (587)
|-|..+..+++..+- ++.++++.|.|.+++.+|+..+...+-++|+|-+..++.+.||.+.|++ .|+.+
T Consensus 7 ll~~~Vaqil~~~Gf-~~~~~sale~ltdi~~~yl~~l~~~~~~~a~~agR~~~~~~Dv~~Al~~-~gi~~ 75 (77)
T smart00576 7 LLRIAVAQILESAGF-DSFQESALETLTDILQSYIQELGRTAHSYAELAGRTEPNLGDVVLALEN-LGISV 75 (77)
T ss_pred HHHHHHHHHHHHcCc-cccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH-hCccc
Confidence 445666777776544 7899999999999999999999999999999999999999999999977 47754
No 18
>PLN00121 histone H3; Provisional
Probab=97.31 E-value=0.00044 Score=64.53 Aligned_cols=67 Identities=25% Similarity=0.231 Sum_probs=61.9
Q ss_pred ccccCChHHHHHHHHhcC----CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHH
Q 007852 428 TNQLLGKRKIQDLVSQVD----SQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHL 494 (587)
Q Consensus 428 tnqILtKrKLqeLVrqID----P~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhL 494 (587)
++-+|.|--+..||++|. .+..+..++.++|-+.+|+|+-++.+.+-..|-|.|--||..|||+|+.
T Consensus 59 t~lLI~k~pF~RLVREI~~~~~~~~Rf~~~Al~ALQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ 129 (136)
T PLN00121 59 TELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 129 (136)
T ss_pred cccccccccHHHHHHHHHHHhCccceeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcceecchhhHHHHH
Confidence 467889999999999994 3568999999999999999999999999999999999999999999885
No 19
>PTZ00018 histone H3; Provisional
Probab=97.25 E-value=0.00052 Score=64.03 Aligned_cols=67 Identities=25% Similarity=0.231 Sum_probs=62.1
Q ss_pred ccccCChHHHHHHHHhcC----CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHH
Q 007852 428 TNQLLGKRKIQDLVSQVD----SQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHL 494 (587)
Q Consensus 428 tnqILtKrKLqeLVrqID----P~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhL 494 (587)
++-+|.|--+..||++|. .+..+..++.++|-+.+|+|+-++.+.+-..|.|.|--||..|||+|+.
T Consensus 59 t~lLI~k~pF~RLVREI~~~~~~~~rf~~~al~aLQeaaE~yLv~lfed~~lca~HakRVTl~~kD~~L~~ 129 (136)
T PTZ00018 59 TELLIRKLPFQRLVREIAQDFKTDLRFQSSAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 129 (136)
T ss_pred chhccccccHHHHHHHHHHHcCCcceeeHHHHHHHHHHHHHHHHHHhhhhHHHHHhhcceecchhhHHHHH
Confidence 467889999999999994 4678999999999999999999999999999999999999999999885
No 20
>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=97.18 E-value=0.0011 Score=61.09 Aligned_cols=72 Identities=24% Similarity=0.335 Sum_probs=52.7
Q ss_pred ccCCh--HHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccc
Q 007852 430 QLLGK--RKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTV 502 (587)
Q Consensus 430 qILtK--rKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 502 (587)
..++| +.|..|++..+-. ..|+.|.-.|||+|-.|+.+|+..|-.+|+|.+..++++.||+|.++-..+..+
T Consensus 9 ~~~PrDa~~i~~iL~~~Gv~-~yeprVv~qLLEfayRYt~~vL~DA~~ya~hA~~~~i~~~DVrLAi~~r~~~~f 82 (129)
T PF02291_consen 9 KSLPRDARVIHLILKSMGVT-EYEPRVVNQLLEFAYRYTSDVLEDAQVYADHAGRSTIDADDVRLAIQSRLDHSF 82 (129)
T ss_dssp ----HHHHHHHHHHHHTT----B-THHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSB-HHHHHHHHHHT-----
T ss_pred ccCChHHHHHHHHHHHcCCc-ccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHhhhc
Confidence 34444 4677888988663 579999999999999999999999999999999999999999999996666554
No 21
>PLN00160 histone H3; Provisional
Probab=97.15 E-value=0.00086 Score=59.56 Aligned_cols=67 Identities=21% Similarity=0.149 Sum_probs=61.4
Q ss_pred ccccCChHHHHHHHHhcCC-----CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHH
Q 007852 428 TNQLLGKRKIQDLVSQVDS-----QGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHL 494 (587)
Q Consensus 428 tnqILtKrKLqeLVrqIDP-----~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhL 494 (587)
++-+|+|.-...||++|.. +..+..++.++|-+.++.|+-...+.+-..|.|.|.-||..||++|+.
T Consensus 18 t~lLI~k~pF~RLVREI~~~~~~~~~Rfq~~Al~ALQeAsEayLv~lfed~~lca~HakRVTl~~kD~~L~~ 89 (97)
T PLN00160 18 TDLLIRRLPFARLVREIQMEMSREAYRWQGSAILALQEAAEAHLVGLFEDSNLCAIHGKRVTIMPKDMQLAR 89 (97)
T ss_pred hhhhhccccHHHHHHHHHHHcCCCCcEeeHHHHHHHHHHHHHHHHHHHhhhHHHHHHhcccccchhhHHHHH
Confidence 4568899999999999953 367899999999999999999999999999999999999999999885
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=97.14 E-value=0.0018 Score=66.63 Aligned_cols=74 Identities=22% Similarity=0.257 Sum_probs=62.0
Q ss_pred hHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccCCCcc
Q 007852 434 KRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFSSE 508 (587)
Q Consensus 434 KrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssD 508 (587)
++.+.++++.++- ..+++|+.+.|.+.+++++..|+..|++++||-|..||.+.||...|+..=--.+-||++.
T Consensus 2 ~~~i~~ia~~~Gi-~~~~~~a~~~La~~~e~~~~~i~~~A~k~~~hskR~~l~~~Di~~Al~~~n~eplyG~~~~ 75 (343)
T cd08050 2 QESIKLIAESLGI-DSLSDEVAQLLAEDVEYRLREIIQEAAKFMRHSKRRKLTTSDVNHALRLRNVEPLYGFSSS 75 (343)
T ss_pred hhHHHHHHHHcCC-CcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcCCHHHHHHHHHHhCCCcccCCCCC
Confidence 5567777777654 6899999999999999999999999999999999999999999999976422345666543
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=96.99 E-value=0.00081 Score=58.25 Aligned_cols=61 Identities=25% Similarity=0.391 Sum_probs=30.5
Q ss_pred HHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhc
Q 007852 437 IQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKN 497 (587)
Q Consensus 437 LqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERn 497 (587)
|..|+--.+-.....+|..++|-+|+-+||-+++..|+.+|.+|++.++.++|+.|.|.|+
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 4556655555567788999999999999999999999999999999999999999999875
No 24
>smart00427 H2B Histone H2B.
Probab=96.68 E-value=0.0066 Score=53.45 Aligned_cols=64 Identities=25% Similarity=0.440 Sum_probs=58.5
Q ss_pred HHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccC
Q 007852 437 IQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPG 504 (587)
Q Consensus 437 LqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPG 504 (587)
|-..+++|.|+..|...+..++--+++|+.|.|...|++||+..|..||+.+||+-..+ +.+||
T Consensus 7 i~kvLKqVhpd~giS~kam~imnSfvnDiferIa~EAs~L~~~nkr~TltsreIqtAvr----l~Lpg 70 (89)
T smart00427 7 IYKVLKQVHPDTGISSKAMSIMNSFVNDIFERIAAEASKLARYNKKSTLSSREIQTAVR----LILPG 70 (89)
T ss_pred HHHHHHHhCCCccccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHH----HHccH
Confidence 66789999999999999999999999999999999999999999999999999998764 45676
No 25
>PF15630 CENP-S: Kinetochore component CENP-S; PDB: 4DRA_C 4DRB_H 3V9R_C.
Probab=96.64 E-value=0.0046 Score=52.57 Aligned_cols=60 Identities=22% Similarity=0.287 Sum_probs=49.9
Q ss_pred HHHHHhc--CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhc
Q 007852 438 QDLVSQV--DSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKN 497 (587)
Q Consensus 438 qeLVrqI--DP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERn 497 (587)
..++.+. +.+..+.+++...|.|++=++++++...--..|||.|.+||+..||.|...||
T Consensus 12 ~ki~ee~~~~~~~~~s~~~i~al~ELv~~q~~~~a~DLe~FAkHA~R~tI~~dDV~Ll~Rrn 73 (76)
T PF15630_consen 12 GKIVEEEAKEKGVEVSPQFIAALTELVYKQLENLAKDLEAFAKHAGRSTINMDDVKLLARRN 73 (76)
T ss_dssp HHHHHHCCCCTTSEE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHHHHHHTTT-
T ss_pred HHHHHHHHhccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHHHhhcC
Confidence 3556665 45667999999999999999999999999999999999999999999999886
No 26
>KOG0869 consensus CCAAT-binding factor, subunit A (HAP3) [Transcription]
Probab=96.42 E-value=0.012 Score=56.65 Aligned_cols=72 Identities=17% Similarity=0.336 Sum_probs=64.7
Q ss_pred cccccccCChHHHHHHHHhc-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhh
Q 007852 425 TEATNQLLGKRKIQDLVSQV-DSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEK 496 (587)
Q Consensus 425 ~e~tnqILtKrKLqeLVrqI-DP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLER 496 (587)
.....+.|+=.++-+++|++ .++.+|.+|+.|.+.+++.|||.=|+..|...|-.-|.+||.-.||.+.+..
T Consensus 26 ~reqDr~LPIANV~RIMK~~lP~naKIsKDAKE~vQECVSEfISFvT~EAsekC~~EkRKTIngdDllwAm~t 98 (168)
T KOG0869|consen 26 LREQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFVTGEASEKCQREKRKTINGDDLLWAMST 98 (168)
T ss_pred cchhhhhccHHHHHHHHHhcCCcccccchHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCcccHHHHHHHHHH
Confidence 33467899999999999776 6788999999999999999999999999999999999999999999987765
No 27
>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=96.34 E-value=0.016 Score=48.24 Aligned_cols=65 Identities=17% Similarity=0.284 Sum_probs=50.9
Q ss_pred ccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHh
Q 007852 430 QLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLE 495 (587)
Q Consensus 430 qILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLE 495 (587)
.+++++.+......++- ..|++||...|.+-++-.|..|+..|+++++|-|..+|...||...|+
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 36788888888888765 569999999999999999999999999999999999999999988874
No 28
>PLN00158 histone H2B; Provisional
Probab=96.19 E-value=0.018 Score=52.99 Aligned_cols=64 Identities=22% Similarity=0.406 Sum_probs=58.8
Q ss_pred HHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccC
Q 007852 437 IQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPG 504 (587)
Q Consensus 437 LqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPG 504 (587)
|-..+++|.|+..|...+..++--+.+|++|.|...|++||+..+..||+.+||+-..+ +.+||
T Consensus 33 I~kVLKQVhPd~gIS~kaM~ImnSfvnDiferIA~EAs~La~~nkr~TltsrEIqtAvr----LvLpg 96 (116)
T PLN00158 33 IYKVLKQVHPDTGISSKAMSIMNSFINDIFEKIATEAGKLARYNKKPTVTSREIQTAVR----LILPG 96 (116)
T ss_pred HHHHHHHhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcCCHHHHHHHHH----HhccH
Confidence 78899999999999999999999999999999999999999999999999999987754 45676
No 29
>PTZ00463 histone H2B; Provisional
Probab=96.10 E-value=0.021 Score=52.66 Aligned_cols=64 Identities=22% Similarity=0.370 Sum_probs=59.3
Q ss_pred HHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccC
Q 007852 437 IQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPG 504 (587)
Q Consensus 437 LqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPG 504 (587)
|-..+++|.|+..|...+..++--+.+|.+|.|...|++||+..+..||..+||+-.. .+.+||
T Consensus 34 I~KVLKqVhPd~gIS~kaM~ImnSfvnDifErIA~EAs~La~~nkr~TltsrEIQtAv----rLlLpG 97 (117)
T PTZ00463 34 IFKVLKQVHPDTGISRKSMNIMNSFLVDTFEKIATEASRLCKYTRRDTLSSREIQTAI----RLVLPG 97 (117)
T ss_pred HHHHHHhhCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcCCHHHHHHHH----hhcccH
Confidence 8889999999999999999999999999999999999999999999999999998875 456787
No 30
>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=95.90 E-value=0.054 Score=44.56 Aligned_cols=65 Identities=17% Similarity=0.298 Sum_probs=53.7
Q ss_pred HHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCcc
Q 007852 435 RKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLT 501 (587)
Q Consensus 435 rKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~ 501 (587)
+.+-.+++.++ =+...+.+.|.|.+|+.+||.++...+-++|.|.+.....+.||...|+. .|+.
T Consensus 10 ~~va~il~~~G-F~~~~~~al~~Ltdi~~~yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~~-~gi~ 74 (77)
T PF07524_consen 10 RSVAQILKHAG-FDSASPSALDTLTDILQRYLQELGRTAKRYAEHAGRTEPNLQDVEQALEE-MGIS 74 (77)
T ss_pred HHHHHHHHHcC-ccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHH-hCCC
Confidence 34444454433 25788999999999999999999999999999999999999999999976 4654
No 31
>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=95.78 E-value=0.052 Score=47.50 Aligned_cols=62 Identities=23% Similarity=0.407 Sum_probs=51.3
Q ss_pred HHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhc
Q 007852 435 RKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKN 497 (587)
Q Consensus 435 rKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERn 497 (587)
+.|..|+--.+-...-.+|..++|=+|.-+||.+++..||.+|..|++. +.+.|+.|.|.++
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 3577777766666667888899999999999999999999999944444 6999999999664
No 32
>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=95.43 E-value=0.05 Score=49.52 Aligned_cols=67 Identities=13% Similarity=0.187 Sum_probs=62.2
Q ss_pred ccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhh
Q 007852 430 QLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEK 496 (587)
Q Consensus 430 qILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLER 496 (587)
=+|+-.++..++++-...++++.++-..|..+.|.++.+|++.|...|||.|..+|..+||.+.+..
T Consensus 19 L~fPV~ri~R~Lk~~~~a~RVs~~A~VyLaAvLEYL~aEIlelA~n~ak~~k~krItp~hi~lAi~n 85 (115)
T cd00074 19 LQFPVGRIHRYLKKGRYAERVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKKRITPRHLQLAVRN 85 (115)
T ss_pred ccCcHHHHHHHHHcCccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHcCCCeEcHHHHHHHHhc
Confidence 4678899999999866678999999999999999999999999999999999999999999999865
No 33
>cd08048 TAF11 TATA Binding Protein (TBP) Associated Factor 11 (TAF11) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 11 (TAF11) is one of several TAFs that bind TBP and are involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAF orthologs and paralogs. Several hypothes
Probab=95.33 E-value=0.094 Score=45.47 Aligned_cols=64 Identities=17% Similarity=0.240 Sum_probs=54.5
Q ss_pred CChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCC---CCccchhHHHHHhh
Q 007852 432 LGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKS---STLESKDILLHLEK 496 (587)
Q Consensus 432 LtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKS---dTLEvKDVQLhLER 496 (587)
|+|+++..|+..+.. .++.++|..+|--||..||-++|+.|..+-+.++. .-|..+.|.-.+.|
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 899999999999877 88999999999999999999999999999998877 45566655544444
No 34
>KOG0871 consensus Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=95.25 E-value=0.082 Score=50.74 Aligned_cols=74 Identities=19% Similarity=0.351 Sum_probs=67.8
Q ss_pred CcccccccCChHHHHHHHHhcCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhc
Q 007852 424 GTEATNQLLGKRKIQDLVSQVDS-QGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKN 497 (587)
Q Consensus 424 g~e~tnqILtKrKLqeLVrqIDP-~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERn 497 (587)
+.++.+--|+|.-+..+|++|=| +..+..|+.|+|.+.+-+||.-|...|-.+|-.+...||-.+-|.=.||+-
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 34445667899999999999977 899999999999999999999999999999999999999999999999874
No 35
>KOG3334 consensus Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=95.13 E-value=0.086 Score=50.30 Aligned_cols=68 Identities=21% Similarity=0.303 Sum_probs=59.4
Q ss_pred HHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccC
Q 007852 436 KIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPG 504 (587)
Q Consensus 436 KLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPG 504 (587)
.|.-++++++- ...|+-|.--|||+|=.++..|++.|--+++|-+..++++.||.+.++-.-+..+-+
T Consensus 18 ~i~~iL~s~GI-~eyEprVi~qlLefa~rYtt~vL~DA~vys~HA~ka~i~~eDVrlA~~~~~~~sf~~ 85 (148)
T KOG3334|consen 18 VIASILKSLGI-QEYEPRVINQLLEFAYRYTTTVLDDAKVYSSHAKKATIDAEDVRLAIQMRVDHSFTP 85 (148)
T ss_pred HHHHHHHHcCc-cccChHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHhccccCC
Confidence 45577777655 678999999999999999999999999999999999999999999998877776543
No 36
>KOG1744 consensus Histone H2B [Chromatin structure and dynamics]
Probab=94.73 E-value=0.093 Score=49.05 Aligned_cols=61 Identities=25% Similarity=0.389 Sum_probs=56.0
Q ss_pred HHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccC
Q 007852 440 LVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPG 504 (587)
Q Consensus 440 LVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPG 504 (587)
.+++|+|+.-|..+...++--+.+||+|+|+..|-+||..+|..||..++|+..++ +-+||
T Consensus 46 vlk~Vhpd~gis~~a~~vmnsf~ndife~iA~ea~rla~y~krstisSreiqta~r----LllPg 106 (127)
T KOG1744|consen 46 VLKQVHPDLGISSKAMGVMNSFVNDIFERIASEAGRLAHYNKRSTISSREIQTAVR----LLLPG 106 (127)
T ss_pred hhhcccCCCCcCHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCcccHHHHHHHHH----HhCch
Confidence 88999999999999999999999999999999999999999999999999988544 55676
No 37
>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=93.76 E-value=0.074 Score=44.92 Aligned_cols=60 Identities=18% Similarity=0.185 Sum_probs=47.0
Q ss_pred hHHHHHHHHhc--CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCC-ccchhHHHH
Q 007852 434 KRKIQDLVSQV--DSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSST-LESKDILLH 493 (587)
Q Consensus 434 KrKLqeLVrqI--DP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdT-LEvKDVQLh 493 (587)
|.-|.+|++.- |.+.+|.+|+-+++-++.|-||...+.+|+..|+-.+.+. ||+.|+.-+
T Consensus 2 ~~li~rll~~~f~~~~tkIs~dal~l~~eyl~iFV~EAv~Ra~~~a~~e~~~~~le~e~LEki 64 (72)
T PF09415_consen 2 PELIARLLHEHFKDDKTKISKDALKLSAEYLRIFVREAVARAAEQAEAEGDEGFLEVEHLEKI 64 (72)
T ss_dssp CHHHHHHHCTTSSSTT-EE-CCCHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSEE-HHHHHHH
T ss_pred hHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHH
Confidence 34455666532 6778899999999999999999999999999999999999 999997543
No 38
>KOG2549 consensus Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=93.08 E-value=0.44 Score=53.39 Aligned_cols=91 Identities=19% Similarity=0.196 Sum_probs=75.2
Q ss_pred ccccCC-hHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccCCC
Q 007852 428 TNQLLG-KRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFS 506 (587)
Q Consensus 428 tnqILt-KrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFs 506 (587)
...+++ +..++.+.+.++ -+.|++|+-.+|.+-.+.-|++|+..|.+.-+|-|..+|.+.||...|.-.-=--+-||+
T Consensus 7 ~~~v~s~~Es~k~vAEslG-i~nl~deaa~~La~dv~yrikEI~Q~aaKfm~hskR~kLtv~DV~~ALr~~nVep~yg~~ 85 (576)
T KOG2549|consen 7 SPTVVSPKESVKVVAESLG-ITNLNDEAALLLAEDVEYRIKEIVQDAAKFMVHSKRTKLTVDDVDYALRSLNVEPLYGFG 85 (576)
T ss_pred cccccCcHHHHHHHHHHhC-ccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCcCcHHHHHHHHhhcccccccCcc
Confidence 456666 777777777664 478999999999999999999999999999999999999999999888654234567888
Q ss_pred ccccccccCCCCc
Q 007852 507 SEERNHQRKSLSS 519 (587)
Q Consensus 507 sDEir~yrK~~pT 519 (587)
+-++-+++|...+
T Consensus 86 s~~~i~fr~a~~~ 98 (576)
T KOG2549|consen 86 AQEIIPFRKASGG 98 (576)
T ss_pred cCceeeccccCCC
Confidence 8888778887776
No 39
>PF15511 CENP-T: Centromere kinetochore component CENP-T; PDB: 3B0D_T 3B0C_T 3VH5_T 3VH6_T.
Probab=93.01 E-value=0.17 Score=53.96 Aligned_cols=56 Identities=21% Similarity=0.251 Sum_probs=41.4
Q ss_pred hHHHHHHHHh-cCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchh
Q 007852 434 KRKIQDLVSQ-VDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKD 489 (587)
Q Consensus 434 KrKLqeLVrq-IDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKD 489 (587)
|+-+..++|- --.+.+|.+|+.++|-++.|.|.+.++..-+.+|||-|-+|||..|
T Consensus 358 K~la~~~ak~s~~sK~kiskdal~aleqasdwfFeQl~dDL~aYA~HAgRKTIdesD 414 (414)
T PF15511_consen 358 KKLAQHFAKSSGGSKMKISKDALEALEQASDWFFEQLGDDLEAYAKHAGRKTIDESD 414 (414)
T ss_dssp HHHHHHHH-------S-B-HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SEE-HHH
T ss_pred HHHHHHHHHhhcccCCccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCCCCC
Confidence 5555555552 3346789999999999999999999999999999999999999887
No 40
>KOG0870 consensus DNA polymerase epsilon, subunit D [Transcription]
Probab=92.68 E-value=0.46 Score=46.44 Aligned_cols=68 Identities=25% Similarity=0.269 Sum_probs=62.0
Q ss_pred ccCChHHHHHHHHhcCCC--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhc
Q 007852 430 QLLGKRKIQDLVSQVDSQ--GKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKN 497 (587)
Q Consensus 430 qILtKrKLqeLVrqIDP~--~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERn 497 (587)
-.|++.-|..||+++=|. ..+.+|+..+|.+-|--||..++.+|-.+||.-+..|+.+.||.=.|+.-
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 357899999999999664 57999999999999999999999999999999999999999999999763
No 41
>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=92.40 E-value=0.53 Score=41.58 Aligned_cols=53 Identities=21% Similarity=0.241 Sum_probs=41.8
Q ss_pred cCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCC
Q 007852 431 LLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSS 483 (587)
Q Consensus 431 ILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSd 483 (587)
-|+|..|..|+..+..+..+.+.|.-++.-||.-||-++|+.|..+.+.++..
T Consensus 23 ~~~k~~ikkli~~~~~~qsv~~~v~i~v~g~aKvFVGEiVE~A~~Vq~~~~~~ 75 (90)
T PF04719_consen 23 SFNKAAIKKLINQVLGNQSVSQNVVIAVAGIAKVFVGEIVEEARDVQEEWGET 75 (90)
T ss_dssp ---HHHHHHHHHHHHS-S---HHHHHHHHHHHHHHHHHHHHHHHHHHHHTT--
T ss_pred cCCHHHHHHHHHHHcCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 37899999999999988999999999999999999999999999999866644
No 42
>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=91.63 E-value=0.83 Score=37.00 Aligned_cols=49 Identities=20% Similarity=0.246 Sum_probs=39.3
Q ss_pred cCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 007852 431 LLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHR 480 (587)
Q Consensus 431 ILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHR 480 (587)
+|+..-+.-.+++.+- ..-|+-|..++--.|..||.+|++.|+..+|.|
T Consensus 2 ~IPD~v~~~yL~~~G~-~~~D~rv~RLvSLaaQKFisdI~~dA~q~~k~r 50 (51)
T PF03540_consen 2 TIPDEVTDYYLERSGF-QTSDPRVKRLVSLAAQKFISDIANDAMQYCKIR 50 (51)
T ss_pred CCCHHHHHHHHHHCCC-CCCCHhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3555555555665433 567899999999999999999999999999988
No 43
>COG5248 TAF19 Transcription initiation factor TFIID, subunit TAF13 [Transcription]
Probab=90.50 E-value=1.1 Score=41.67 Aligned_cols=60 Identities=18% Similarity=0.263 Sum_probs=48.2
Q ss_pred HHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhc
Q 007852 436 KIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKN 497 (587)
Q Consensus 436 KLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERn 497 (587)
.|..|+=..+-...--.|..+.|-+++-|++.++|+.|..+|-.|+. +.++|.+|+|.|.
T Consensus 14 DikslmYayGDvv~P~~dt~~~L~e~V~dY~~~~ctna~~~Aq~rnK--~k~eDfkfaLr~D 73 (126)
T COG5248 14 DIKSLMYAYGDVVAPRYDTAEALHEYVLDYMSILCTNAHNMAQVRNK--TKTEDFKFALRRD 73 (126)
T ss_pred HHHHHHHHhCCCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHhccc--chHHHHHHHHhhC
Confidence 35555544444455567888999999999999999999999997765 8889999999875
No 44
>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=90.39 E-value=0.68 Score=44.94 Aligned_cols=56 Identities=16% Similarity=0.280 Sum_probs=48.3
Q ss_pred ccccCChHHHHHHHHhcCCCC---CCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCC
Q 007852 428 TNQLLGKRKIQDLVSQVDSQG---KVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSS 483 (587)
Q Consensus 428 tnqILtKrKLqeLVrqIDP~~---kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSd 483 (587)
...+|.+..|...+.+|-... .+|+|+.++|...+.+|+.+|++....+|+||...
T Consensus 41 ~~~fl~~~~l~~~~~~i~~~~g~~~~~~d~~~lis~a~e~rlr~li~k~~~~s~hR~~~ 99 (212)
T cd08045 41 DPSFLNPSPLAKKIRKIAKKHGLKEVDEDVLDLISLALEERLRNLLEKLIEVSEHRVDS 99 (212)
T ss_pred hhhccCHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 346888888888888885543 57999999999999999999999999999999664
No 45
>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=90.37 E-value=0.28 Score=48.88 Aligned_cols=57 Identities=21% Similarity=0.348 Sum_probs=36.3
Q ss_pred ccccCChHHHHHHHHhcCC---CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCC
Q 007852 428 TNQLLGKRKIQDLVSQVDS---QGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSST 484 (587)
Q Consensus 428 tnqILtKrKLqeLVrqIDP---~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdT 484 (587)
...+|...-|...|.+|.. ...+|+||.++|.--+++++.+||+.+..+|+||....
T Consensus 40 ~~~fL~~~~L~~~i~~i~~~~g~~~~~~d~l~llS~A~e~rLr~lie~~~~~s~hR~~~~ 99 (264)
T PF05236_consen 40 EEPFLNPSPLQKRIQKIAKKHGLKSVDEDVLELLSLATEERLRNLIEKAIVLSRHRRDSS 99 (264)
T ss_dssp ----S-HHHHHHHHHHHHHCTT--EE-TCHHHHHHHHHHHHHHHHHHHHH----------
T ss_pred cccccCHHHHHHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccc
Confidence 3568899899999998863 34589999999999999999999999999999998764
No 46
>KOG3423 consensus Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=90.25 E-value=1.2 Score=43.65 Aligned_cols=69 Identities=23% Similarity=0.378 Sum_probs=55.6
Q ss_pred ChHHHHHHHHhcCCC------------------CCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCC------------
Q 007852 433 GKRKIQDLVSQVDSQ------------------GKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKS------------ 482 (587)
Q Consensus 433 tKrKLqeLVrqIDP~------------------~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKS------------ 482 (587)
.-..|.||+.++|-- .+.|+-|..||--.|-.||.||+..|...+|-|..
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 335678888888642 25778888899999999999999999999999983
Q ss_pred --CCccchhHHHHHhhcCCccc
Q 007852 483 --STLESKDILLHLEKNWHLTV 502 (587)
Q Consensus 483 --dTLEvKDVQLhLERnWNI~I 502 (587)
-||.+.|+.-.|+. |||.|
T Consensus 149 kK~tLtmeDL~~AL~E-yGinv 169 (176)
T KOG3423|consen 149 KKYTLTMEDLSPALAE-YGINV 169 (176)
T ss_pred cceeeeHHHHHHHHHH-hCccc
Confidence 27888898888865 88875
No 47
>KOG1745 consensus Histones H3 and H4 [Chromatin structure and dynamics]
Probab=90.09 E-value=0.2 Score=47.37 Aligned_cols=67 Identities=25% Similarity=0.252 Sum_probs=58.8
Q ss_pred ccccCChHHHHHHHHhcC----CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHH
Q 007852 428 TNQLLGKRKIQDLVSQVD----SQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHL 494 (587)
Q Consensus 428 tnqILtKrKLqeLVrqID----P~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhL 494 (587)
++-+|.|--.+.||++|. ++..+-.+++..|.|.++.|+-...+.+-..|-|-|--||..|||+|+.
T Consensus 60 tdLlI~K~PFqRlvrei~q~f~~dLrfqs~Ai~ALQeA~EayLv~LfEdtnlcAihAkRVTimpkdiQlAr 130 (137)
T KOG1745|consen 60 TDLLIRKLPFQRLVREIAQDFKTDLRFQSSAIAALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLAR 130 (137)
T ss_pred hHHHhhcCcHHHHhHHHHhcccccceehHHHHHHHHHHHHHHHHHhccccchhhhccceeEecccceehhh
Confidence 345667878888998774 4567889999999999999999999999999999999999999999975
No 48
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=87.40 E-value=1.8 Score=41.18 Aligned_cols=67 Identities=27% Similarity=0.293 Sum_probs=53.8
Q ss_pred HHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCC---CCccchhHHHHHhhcCCccc
Q 007852 435 RKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKS---STLESKDILLHLEKNWHLTV 502 (587)
Q Consensus 435 rKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKS---dTLEvKDVQLhLERnWNI~I 502 (587)
|-|+=+++...- +..++.|.=-|+++|-.|-.+|++.|..+|||-++ .+|.++||.|.|.-.-|..+
T Consensus 18 rlihliL~Slgi-~~ye~~VplQLl~FAhRYTq~vl~Dalvya~htgrg~~a~l~veDvrLA~at~v~~~F 87 (145)
T COG5094 18 RLIHLILRSLGI-EEYEPKVPLQLLEFAHRYTQDVLEDALVYAKHTGRGHIATLGVEDVRLALATKVGRHF 87 (145)
T ss_pred hHHHHHHHhcCc-hhhCccchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccCcccHHHHHHHHHHHhcCCc
Confidence 345555665544 55677888889999999999999999999999855 46788999999988777664
No 49
>COG5150 Class 2 transcription repressor NC2, beta subunit (Dr1) [Transcription]
Probab=87.06 E-value=2.7 Score=40.07 Aligned_cols=77 Identities=17% Similarity=0.283 Sum_probs=66.1
Q ss_pred cccccCChHHHHHHHHhc-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhh-cCCcccc
Q 007852 427 ATNQLLGKRKIQDLVSQV-DSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEK-NWHLTVP 503 (587)
Q Consensus 427 ~tnqILtKrKLqeLVrqI-DP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLER-nWNI~IP 503 (587)
+.+--|+|..++.+|..| +.+..+.+|+.|++.+.+=+||.-+...|-..|...+..|+-.+.|--.||. .|+-.||
T Consensus 7 dDe~sLPKATVqKMvS~iLp~dl~ftKearei~in~cieFi~~lsseAne~ce~EaKKTIa~EHviKALenLef~eyi~ 85 (148)
T COG5150 7 DDENSLPKATVQKMVSSILPKDLVFTKEAREIFINACIEFINMLSSEANEACEEEAKKTIAYEHVIKALENLEFEEYIE 85 (148)
T ss_pred cccccCcHHHHHHHHHHhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHhccHHHHHH
Confidence 345678999999999998 5577899999999999999999999999999999999999999999888874 3444444
No 50
>KOG3901 consensus Transcription initiation factor IID subunit [Transcription]
Probab=86.15 E-value=3.4 Score=38.11 Aligned_cols=59 Identities=22% Similarity=0.357 Sum_probs=46.0
Q ss_pred HHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhc
Q 007852 436 KIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKN 497 (587)
Q Consensus 436 KLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERn 497 (587)
.|.-|+=-.+-...-=+|..++|-+|+-|||.++++.|...+ +.+.+.++|+.|.|.|.
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 466666544444455567788999999999999999888888 44559999999999875
No 51
>COG5162 Transcription initiation factor TFIID, subunit TAF10 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=85.83 E-value=3.7 Score=40.65 Aligned_cols=47 Identities=23% Similarity=0.433 Sum_probs=37.8
Q ss_pred HHHHHHHHhcCCCC------------------CCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 007852 435 RKIQDLVSQVDSQG------------------KVDPEVEDLLLEIADDFIDSVTSFACNLAKHRK 481 (587)
Q Consensus 435 rKLqeLVrqIDP~~------------------kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRK 481 (587)
+.|.+|+..+|... +.|.-|..||--+|-.||.||...|..+-|-|-
T Consensus 73 ktlee~l~~mDsy~PliPd~v~DYyl~k~Gf~~~D~rvKkLl~L~aqKFvsDiA~dayqYsrIr~ 137 (197)
T COG5162 73 KTLEELLQNMDSYTPLIPDSVTDYYLEKAGFVTSDQRVKKLLSLLAQKFVSDIAVDAYQYSRIRQ 137 (197)
T ss_pred HHHHHHHHhcccCCCCccHHHHHHHHHhcCceeccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45888888887633 457778888999999999999998888777665
No 52
>smart00414 H2A Histone 2A.
Probab=80.88 E-value=5.2 Score=36.21 Aligned_cols=66 Identities=15% Similarity=0.220 Sum_probs=59.9
Q ss_pred cCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhh
Q 007852 431 LLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEK 496 (587)
Q Consensus 431 ILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLER 496 (587)
.++-.+++.++++-.-..+++..+--.|.-+-|-++.+|++.|...|+.-|...+..+||.+.+..
T Consensus 9 ~fPVgRi~r~Lk~~~~~~Rv~~~A~VyLaAvLEYLtaEILeLagn~a~~~k~~rItp~hi~lAi~n 74 (106)
T smart00414 9 QFPVGRIHRLLRKGTYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKRRITPRHLQLAIRN 74 (106)
T ss_pred cCchHHHHHHHHcCccccccccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccchHHHhhhccC
Confidence 567788999999877778999999999999999999999999999999999999999999988854
No 53
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=80.40 E-value=7.4 Score=39.48 Aligned_cols=67 Identities=22% Similarity=0.261 Sum_probs=50.8
Q ss_pred cCChHHHHHHHHhc-C---CCCCCCHHHHHHHHHHHHH------HHHHHHHHHHHHhhhcCCCCccchhHHHHHhhc
Q 007852 431 LLGKRKIQDLVSQV-D---SQGKVDPEVEDLLLEIADD------FIDSVTSFACNLAKHRKSSTLESKDILLHLEKN 497 (587)
Q Consensus 431 ILtKrKLqeLVrqI-D---P~~kLD~DVEELLLeIADD------FVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERn 497 (587)
-++++.+.++++.- . ....+++++.+++.+++.. ++-+++..|+.+|+.|++++|+.+||.-.+++.
T Consensus 206 py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~~ 282 (394)
T PRK00411 206 PYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKS 282 (394)
T ss_pred CCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 34566666655432 1 1346899999999998854 345778899999999999999999999888875
No 54
>smart00350 MCM minichromosome maintenance proteins.
Probab=80.03 E-value=5.2 Score=43.49 Aligned_cols=64 Identities=17% Similarity=0.265 Sum_probs=51.0
Q ss_pred ccCChHHHHHHH---Hh-cCCCCCCCHHHHHHHHHHHHHHH-------------------HHHHHHHHHHhhhcCCCCcc
Q 007852 430 QLLGKRKIQDLV---SQ-VDSQGKVDPEVEDLLLEIADDFI-------------------DSVTSFACNLAKHRKSSTLE 486 (587)
Q Consensus 430 qILtKrKLqeLV---rq-IDP~~kLD~DVEELLLeIADDFV-------------------dsVvt~ACrLAKHRKSdTLE 486 (587)
.+++...|.+.+ |+ +.| .|++++.++|.++..+.= +.++..|..+||.|.+++|+
T Consensus 416 ~~~~~~~l~~yi~~ar~~~~P--~ls~~~~~~i~~~y~~~R~~~~~~~~~~~~~~t~R~l~sliRla~A~A~l~~r~~V~ 493 (509)
T smart00350 416 VPISQEFLRKYIAYAREKIKP--KLSEEAAEKLVKAYVDLRKEDSQSEARSSIPITVRQLESIIRLSEAHAKMRLSDVVE 493 (509)
T ss_pred ccCCHHHHHHHHHHHHhcCCC--CCCHHHHHHHHHHHHHhcccccccccccccCcCHHHHHHHHHHHHHHHHHcCCCccC
Confidence 467777777666 44 444 489999999998876632 67889999999999999999
Q ss_pred chhHHHHHh
Q 007852 487 SKDILLHLE 495 (587)
Q Consensus 487 vKDVQLhLE 495 (587)
.+||...++
T Consensus 494 ~~Dv~~ai~ 502 (509)
T smart00350 494 EADVEEAIR 502 (509)
T ss_pred HHHHHHHHH
Confidence 999987764
No 55
>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=79.63 E-value=6.2 Score=37.60 Aligned_cols=67 Identities=6% Similarity=0.064 Sum_probs=53.9
Q ss_pred ccCChHHHHHHHHhc------CCCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHHhhhcCCCCccchhHHHHHhh
Q 007852 430 QLLGKRKIQDLVSQV------DSQGKVDPEVEDLLLEIADD---FIDSVTSFACNLAKHRKSSTLESKDILLHLEK 496 (587)
Q Consensus 430 qILtKrKLqeLVrqI------DP~~kLD~DVEELLLeIADD---FVdsVvt~ACrLAKHRKSdTLEvKDVQLhLER 496 (587)
.-++...+.+++... +....+++++.+.|.++++- +|+.++..+...|.-++.++|+..||...+..
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 345667777766532 22346999999999999997 89999999999999999999999999887764
No 56
>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=79.39 E-value=5.1 Score=44.03 Aligned_cols=65 Identities=14% Similarity=0.184 Sum_probs=50.3
Q ss_pred cCChHHHHHHHHhcCC--CCCCCHHHHHHHHHHHHH--HHHHHHHHHHHHhhhcCCCCccchhHHHHHh
Q 007852 431 LLGKRKIQDLVSQVDS--QGKVDPEVEDLLLEIADD--FIDSVTSFACNLAKHRKSSTLESKDILLHLE 495 (587)
Q Consensus 431 ILtKrKLqeLVrqIDP--~~kLD~DVEELLLeIADD--FVdsVvt~ACrLAKHRKSdTLEvKDVQLhLE 495 (587)
-+++..+.++++..-. +..+++++.++|...+.+ .+.+++..||.+|..++..+|+.+||..+|+
T Consensus 262 pL~~eei~~Il~~~a~k~~i~is~~al~~I~~y~~n~Rel~nll~~Aa~~A~~~~~~~It~~dI~~vl~ 330 (531)
T TIGR02902 262 PLLDEEIKEIAKNAAEKIGINLEKHALELIVKYASNGREAVNIVQLAAGIALGEGRKRILAEDIEWVAE 330 (531)
T ss_pred CCCHHHHHHHHHHHHHHcCCCcCHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCcEEcHHHHHHHhC
Confidence 3456667777665522 357899999988877653 3557888999999999999999999999986
No 57
>COG5095 TAF6 Transcription initiation factor TFIID, subunit TAF6 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=78.25 E-value=7.7 Score=41.97 Aligned_cols=66 Identities=21% Similarity=0.244 Sum_probs=57.8
Q ss_pred ccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhh
Q 007852 430 QLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEK 496 (587)
Q Consensus 430 qILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLER 496 (587)
.+.+|+.|.++....+ -+.||||+-.+|..=.+--|..||..|.+.-.|-|.++|.+.||-..|.-
T Consensus 4 t~ws~et~KdvAeslG-i~Ni~Dd~l~alamDlEYRI~ev~qea~KFmvhSKRtvLt~dDis~ALr~ 69 (450)
T COG5095 4 TLWSKETLKDVAESLG-ISNIDDDALRALAMDLEYRIKEVCQEASKFMVHSKRTVLTIDDISYALRS 69 (450)
T ss_pred eeecHHHHHHHHHHcC-CcccccHHHHHHHHhHHHHHHHHHHHHHHHhhcccceeeeHHhHHHHHHh
Confidence 4678888999887654 47899999998888888899999999999999999999999999988854
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=73.97 E-value=12 Score=37.54 Aligned_cols=66 Identities=15% Similarity=0.167 Sum_probs=50.6
Q ss_pred CChHHHHHHHHhcC----CCCCCCHHHHHHHHHHHH------HHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhc
Q 007852 432 LGKRKIQDLVSQVD----SQGKVDPEVEDLLLEIAD------DFIDSVTSFACNLAKHRKSSTLESKDILLHLEKN 497 (587)
Q Consensus 432 LtKrKLqeLVrqID----P~~kLD~DVEELLLeIAD------DFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERn 497 (587)
.++..+.++++..- ....+|+|+.+++.++++ ..+.+++..|+.+|.-++.++|+.+||.-.++..
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 46667777775431 234699999999988875 3556788889999999999999999998887765
No 59
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=73.83 E-value=5.1 Score=45.60 Aligned_cols=54 Identities=22% Similarity=0.364 Sum_probs=34.9
Q ss_pred HhhhcCCCCccchhHHHHHhhc-CCccccCCCccccccccCCCCcHHHHHHHHHHHHhhcc
Q 007852 476 LAKHRKSSTLESKDILLHLEKN-WHLTVPGFSSEERNHQRKSLSSDVHSKRLEMIRALMEP 535 (587)
Q Consensus 476 LAKHRKSdTLEvKDVQLhLERn-WNI~IPGFssDEir~yrK~~pTeaHkQRMAlIRK~m~s 535 (587)
+.|-|+.+.+.+|.|-.||-|+ +++.++-.| +.+.|.++|-.|--| .|+|.|+.
T Consensus 545 ~s~~R~~~i~~aRqiAMYL~r~lt~~Sl~~IG----~~FgRdHSTV~~A~~--kI~~~~~~ 599 (617)
T PRK14086 545 CGTSRSRVLVTARQIAMYLCRELTDLSLPKIG----QQFGRDHTTVMHADR--KIRALMAE 599 (617)
T ss_pred hCCCCCcccchHHHHHHHHHHHHcCCCHHHHH----HHhCCChhHHHHHHH--HHHHHHHh
Confidence 5567888999999999999777 456665322 334566666666443 34444443
No 60
>COG5208 HAP5 CCAAT-binding factor, subunit C [Transcription]
Probab=72.87 E-value=5.4 Score=41.06 Aligned_cols=64 Identities=27% Similarity=0.338 Sum_probs=49.4
Q ss_pred ChHHHHHHHHhcCCCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhc
Q 007852 433 GKRKIQDLVSQVDSQGK-VDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKN 497 (587)
Q Consensus 433 tKrKLqeLVrqIDP~~k-LD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERn 497 (587)
+=.+|..+++ +|.+.+ |..||--++.++++.||+.++.+|.-.||..|..||-..||.-.+++.
T Consensus 111 PlARIkkvMK-tdedVkMisaEaPvlFak~~EiFI~ELTmRAW~~ae~NkRRtLQksDia~Av~kS 175 (286)
T COG5208 111 PLARIKKVMK-TDEDVKMISAEAPVLFAKITEIFIEELTMRAWINAEENKRRTLQKSDIAAAVKKS 175 (286)
T ss_pred cHHHHHHHHh-cccchhheecccchHHHHHHHHHHHHHHHHHHHHHhHhhhhHHHHHHHHHHHHHH
Confidence 3334444443 333333 555666789999999999999999999999999999999999888764
No 61
>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]
Probab=72.14 E-value=5.6 Score=43.22 Aligned_cols=87 Identities=15% Similarity=0.308 Sum_probs=62.1
Q ss_pred cccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcC-CccccCCCc
Q 007852 429 NQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNW-HLTVPGFSS 507 (587)
Q Consensus 429 nqILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnW-NI~IPGFss 507 (587)
++.||+.-+.++++.+...... -.+|+++.-+|+.|=-.+-+ -+.|.|+.+.+.+|+|..||-|+. ++++|-.|
T Consensus 298 ~~~iTi~~v~e~L~~~~~~~~~-itie~I~~~Va~~y~v~~~d---l~s~~R~~~i~~~RqiamyL~r~lt~~Slp~IG- 372 (408)
T COG0593 298 KRAITIDLVKEILKDLLRAGEK-ITIEDIQKIVAEYYNVKVSD---LLSKSRTRNIVRPRQIAMYLARELTNLSLPEIG- 372 (408)
T ss_pred CccCcHHHHHHHHHHhhccccc-CCHHHHHHHHHHHhCCCHHH---hhccccccccchHHHHHHHHHHHHccCcHHHHH-
Confidence 4578888888888887665444 66777788888877444433 578999999999999999997764 57777433
Q ss_pred cccccccCCCCcHHHH
Q 007852 508 EERNHQRKSLSSDVHS 523 (587)
Q Consensus 508 DEir~yrK~~pTeaHk 523 (587)
+.+.|.++|-.|.
T Consensus 373 ---~~FgrdHtTV~~a 385 (408)
T COG0593 373 ---KAFGRDHTTVLHA 385 (408)
T ss_pred ---HHhCCCccHHHHH
Confidence 2344666665554
No 62
>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=72.07 E-value=3.4 Score=41.31 Aligned_cols=64 Identities=23% Similarity=0.280 Sum_probs=52.6
Q ss_pred ccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCC-CCccchhHHHHH
Q 007852 430 QLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKS-STLESKDILLHL 494 (587)
Q Consensus 430 qILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKS-dTLEvKDVQLhL 494 (587)
..|+|..|..|+..|.... +++.|.=++--||.-||-+||+.|..+...++. .-|-.+.|.=.+
T Consensus 111 s~f~Ka~iKkL~~~itg~~-v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e~~PLqP~HIREA~ 175 (195)
T KOG3219|consen 111 SAFPKAQIKKLMSSITGQS-VSENVAIAMAGIAKVFVGEVVEEALDVREEWGESGPLQPKHIREAY 175 (195)
T ss_pred hcCCHHHHHHHHHHHhCCc-cCcceeeeecchhhHhHHHHHHHHHHHHHHhccCCCCCcHHHHHHH
Confidence 4789999999999998877 999999999999999999999999888776653 345555554333
No 63
>KOG2680 consensus DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=72.01 E-value=10 Score=41.24 Aligned_cols=63 Identities=19% Similarity=0.303 Sum_probs=49.8
Q ss_pred ChHHHHHHHHh--cCCCCCCCHHHHHHHHHHHHH----HHHHHHHHHHHHhhhcCCCCccchhHHHHHh
Q 007852 433 GKRKIQDLVSQ--VDSQGKVDPEVEDLLLEIADD----FIDSVTSFACNLAKHRKSSTLESKDILLHLE 495 (587)
Q Consensus 433 tKrKLqeLVrq--IDP~~kLD~DVEELLLeIADD----FVdsVvt~ACrLAKHRKSdTLEvKDVQLhLE 495 (587)
+++.+.++++- -..+..|++|+.++|..|..+ |.-..++.|...|..||..++++.||..+++
T Consensus 359 ~~~d~~~IL~iRc~EEdv~m~~~A~d~Lt~i~~~tsLRYai~Lit~a~~~~~krk~~~v~~~di~r~y~ 427 (454)
T KOG2680|consen 359 TEEDIKKILRIRCQEEDVEMNPDALDLLTKIGEATSLRYAIHLITAASLVCLKRKGKVVEVDDIERVYR 427 (454)
T ss_pred cHHHHHHHHHhhhhhhccccCHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHhcCceeehhHHHHHHH
Confidence 45556555531 134568999999999999875 7778899999999999999999999976654
No 64
>KOG4336 consensus TBP-associated transcription factor Prodos [Transcription]
Probab=71.53 E-value=11 Score=40.12 Aligned_cols=70 Identities=13% Similarity=0.215 Sum_probs=56.5
Q ss_pred HHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccCCCc
Q 007852 436 KIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFSS 507 (587)
Q Consensus 436 KLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFss 507 (587)
.+..|+.+..- ..+++.+.|-|+++.+.+|+.+...+--++.|-|.......||.|.|-+ +||.|+-+..
T Consensus 10 VV~~Ll~~~gf-d~is~~aletlvell~~yi~eigrq~~n~celagRT~pT~~Dv~l~Li~-mnI~v~sL~~ 79 (323)
T KOG4336|consen 10 VVSNLLKTKGF-DSISNAALETLVELLQSYIREIGRQLHNYCELAGRTIPTQGDVKLTLIE-MNIKVSSLYA 79 (323)
T ss_pred HHHHHHHHhCc-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcHHHHHHHHHH-hCCChhhhHH
Confidence 45556655433 4588999999999999999999988888888888888999999999966 6888875544
No 65
>TIGR03772 anch_rpt_subst anchored repeat ABC transporter, substrate-binding protein. Members of this protein family are ABC transporter permease subunits as identified by pfam00950, but additionally contain the Actinobacterial insert domain described by TIGR03769. Some homologs (lacking the insert) have been described as transporters of manganese or of chelated iron. Members of this family typically are found along with an ATP-binding cassette protein, a permease, and an LPXTG-anchored protein with two or three copies of the TIGR03769 insert that occurs just once in this protein family.
Probab=70.66 E-value=6.6 Score=43.34 Aligned_cols=120 Identities=18% Similarity=0.194 Sum_probs=73.3
Q ss_pred cCChHHHHHHHHhc-CCCCCCCHHHHHHHHHHHHHHHHHHHHHHH----HHhh--hcCCCCccchhHHHHHhhcCCcccc
Q 007852 431 LLGKRKIQDLVSQV-DSQGKVDPEVEDLLLEIADDFIDSVTSFAC----NLAK--HRKSSTLESKDILLHLEKNWHLTVP 503 (587)
Q Consensus 431 ILtKrKLqeLVrqI-DP~~kLD~DVEELLLeIADDFVdsVvt~AC----rLAK--HRKSdTLEvKDVQLhLERnWNI~IP 503 (587)
-++-+....+++.| +.-.++||+-.+...+=++.|++.+-..-- ++++ .++...+...|.--||+|.||+.+-
T Consensus 314 WlDP~na~~~a~~Ia~~LselDP~na~~Y~~Na~ay~~eL~~Ld~~~~~~la~ip~k~r~vvt~H~af~YLa~~YGL~~~ 393 (479)
T TIGR03772 314 WHNVKNAIAYVEVIRDKLIEVDPRGAQAYRSNASAYIHRLERLDTYVRRTIATIPPSRRHLITTHDAYSYLGQAYGLNIA 393 (479)
T ss_pred CcCHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccCCEEEEECCcHHHHHHHCCCeEE
Confidence 44666667777666 334467777777777777777777654433 4443 2444578889999999999999998
Q ss_pred CCCccccccccCCCCcHHHHHHHHHHHHhhccCCc-----ccccCC-h--HHHHhhccCCCC
Q 007852 504 GFSSEERNHQRKSLSSDVHSKRLEMIRALMEPSQS-----ETITND-P--REMIRQGLGNPV 557 (587)
Q Consensus 504 GFssDEir~yrK~~pTeaHkQRMAlIRK~m~ss~s-----e~~~~~-~--~~~~~~g~~n~~ 557 (587)
||-. +.+-. .|+. ++|+.|.+.|+.... |..... . -+.++...|-++
T Consensus 394 ~~~~--~~~~~--ePS~---~~L~~Li~~IK~~~V~~IF~Epq~~~~~~~l~~IA~e~Gv~V 448 (479)
T TIGR03772 394 GFVT--PNPAV--EPSL---ADRRRLTRTIENLKVPAVFLEPNLAARSTTLNEIADELGVRV 448 (479)
T ss_pred eeec--cCCCC--CCCH---HHHHHHHHHHHHcCCCEEEEeCCCCCchHHHHHHHHHcCCcE
Confidence 8653 22222 2443 445555666665555 333221 1 245555566554
No 66
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=69.52 E-value=8.5 Score=42.34 Aligned_cols=63 Identities=17% Similarity=0.309 Sum_probs=48.0
Q ss_pred ChHHHHHHHHhc--CCCCCCCHHHHHHHHHHHHH----HHHHHHHHHHHHhhhcCCCCccchhHHHHHh
Q 007852 433 GKRKIQDLVSQV--DSQGKVDPEVEDLLLEIADD----FIDSVTSFACNLAKHRKSSTLESKDILLHLE 495 (587)
Q Consensus 433 tKrKLqeLVrqI--DP~~kLD~DVEELLLeIADD----FVdsVvt~ACrLAKHRKSdTLEvKDVQLhLE 495 (587)
+++.|.+.++-= ..+..||+|+-|.|.+|-.+ |.-..++-|.-+||.||+.+|+++||..+-|
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 556666665421 23457999999999988775 6667777788899999999999999976655
No 67
>PTZ00017 histone H2A; Provisional
Probab=69.29 E-value=12 Score=35.67 Aligned_cols=67 Identities=15% Similarity=0.194 Sum_probs=60.6
Q ss_pred ccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhh
Q 007852 430 QLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEK 496 (587)
Q Consensus 430 qILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLER 496 (587)
=.++-.+++.++++-.-..++...+--.|.-+.|-++.+|++.|...|+.-+...|..++|++.+..
T Consensus 26 L~FPVgRi~R~Lk~g~~a~RV~a~A~VYLAAVLEYLtaEILELAgNaa~d~kk~RItPrHi~lAI~n 92 (134)
T PTZ00017 26 LQFPVGRVHRYLKKGRYAKRVGAGAPVYLAAVLEYLTAEVLELAGNAAKDNKKKRITPRHIQLAIRN 92 (134)
T ss_pred cccchHHHHHHHhccchhccccccchhhhHHHHHHHHHHHHHHHHHHHHhcCCCeecHHHHHhhccC
Confidence 4568889999999877778999999999999999999999999999999999999999999998843
No 68
>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA.
Probab=68.11 E-value=9.7 Score=43.26 Aligned_cols=78 Identities=19% Similarity=0.233 Sum_probs=56.0
Q ss_pred ChHHHHHHHHhcCC------CCCCCHHHHHHHHHHHHHHHH---------HHHHHHHHHhhhcC----CCCccchhHHHH
Q 007852 433 GKRKIQDLVSQVDS------QGKVDPEVEDLLLEIADDFID---------SVTSFACNLAKHRK----SSTLESKDILLH 493 (587)
Q Consensus 433 tKrKLqeLVrqIDP------~~kLD~DVEELLLeIADDFVd---------sVvt~ACrLAKHRK----SdTLEvKDVQLh 493 (587)
+...+.++++.+-. +..+++++.+.+.++++.||. ++++.||..++-+. ..+|+..||.-+
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 45555555553322 347999999999999999984 46778887666543 346999999999
Q ss_pred HhhcCCccccCCCcccc
Q 007852 494 LEKNWHLTVPGFSSEER 510 (587)
Q Consensus 494 LERnWNI~IPGFssDEi 510 (587)
+++--||.+..+..||+
T Consensus 426 i~~~tgiP~~~~~~~~~ 442 (731)
T TIGR02639 426 VAKMAHIPVKTVSVDDR 442 (731)
T ss_pred HHHHhCCChhhhhhHHH
Confidence 99976777666655544
No 69
>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=64.52 E-value=8.7 Score=37.24 Aligned_cols=120 Identities=18% Similarity=0.249 Sum_probs=68.7
Q ss_pred cCChHHHHHHHHhcCCC-CCCCHHHHHHHHHHHHHHHHHHHHHH----HHHhhhcCCCCccchhHHHHHhhcCCccccCC
Q 007852 431 LLGKRKIQDLVSQVDSQ-GKVDPEVEDLLLEIADDFIDSVTSFA----CNLAKHRKSSTLESKDILLHLEKNWHLTVPGF 505 (587)
Q Consensus 431 ILtKrKLqeLVrqIDP~-~kLD~DVEELLLeIADDFVdsVvt~A----CrLAKHRKSdTLEvKDVQLhLERnWNI~IPGF 505 (587)
-++-..+..+++.|... .++||+-++...+=++.|++.+-... ..+++.++...+..-|.--||.+.||+.+-|+
T Consensus 95 Wldp~~~~~~~~~Ia~~L~~~~P~~~~~y~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~h~~~~Y~~~~~gl~~~~~ 174 (256)
T PF01297_consen 95 WLDPENAKKMAEAIADALSELDPANKDYYEKNAEKYLKELDELDAEIKEKLAKLPGRPVVVYHDAFQYFAKRYGLKVIGV 174 (256)
T ss_dssp GGSHHHHHHHHHHHHHHHHHHTGGGHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSGGEEEEEESTTHHHHHHTT-EEEEE
T ss_pred HHHHHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCeEEEEChHHHHHHHhcCCceeee
Confidence 34666666666655332 24666767766666777776655443 34566666677889999999999999997765
Q ss_pred CccccccccCCCCcHHHHHHHHHHHHhhccCCc-----cccc-CChHHHHhhccCCCC
Q 007852 506 SSEERNHQRKSLSSDVHSKRLEMIRALMEPSQS-----ETIT-NDPREMIRQGLGNPV 557 (587)
Q Consensus 506 ssDEir~yrK~~pTeaHkQRMAlIRK~m~ss~s-----e~~~-~~~~~~~~~g~~n~~ 557 (587)
- ++.+ ...++. ++++.|.+.|+.... +... ...-+.+....|-++
T Consensus 175 ~--~~~~--~~~ps~---~~l~~l~~~ik~~~v~~i~~e~~~~~~~~~~la~~~g~~v 225 (256)
T PF01297_consen 175 I--EISP--GEEPSP---KDLAELIKLIKENKVKCIFTEPQFSSKLAEALAKETGVKV 225 (256)
T ss_dssp E--SSSS--SSSS-H---HHHHHHHHHHHHTT-SEEEEETTS-THHHHHHHHCCT-EE
T ss_pred e--cccc--ccCCCH---HHHHHHHHHhhhcCCcEEEecCCCChHHHHHHHHHcCCcE
Confidence 4 2222 223333 455556666666555 2221 222345555565443
No 70
>PRK00149 dnaA chromosomal replication initiation protein; Reviewed
Probab=62.24 E-value=15 Score=39.08 Aligned_cols=86 Identities=14% Similarity=0.209 Sum_probs=54.7
Q ss_pred ccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcC-CccccCCCcc
Q 007852 430 QLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNW-HLTVPGFSSE 508 (587)
Q Consensus 430 qILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnW-NI~IPGFssD 508 (587)
+-|+-.-+.++++.+.....-.-.+++++-.+|+.|=-++.+ -+.|-|+.+.+.+|.|..||-|++ ++++|-.|
T Consensus 335 ~~it~~~~~~~l~~~~~~~~~~~~~~~i~~~v~~~~~i~~~~---l~~~~R~~~~~~aR~iamyl~~~~~~~s~~~Ig-- 409 (450)
T PRK00149 335 KPITLELAKEALKDLLAAQKKKITIENIQKVVAEYYNIKVSD---LKSKSRTRNIARPRQIAMYLAKELTDLSLPEIG-- 409 (450)
T ss_pred CCCCHHHHHHHHHHhhccCCCCCCHHHHHHHHHHHcCCCHHH---HhCCCCCcccChHHHHHHHHHHHhcCCCHHHHH--
Confidence 345666666666665433333446677777777777333222 377889999999999999998874 66666322
Q ss_pred ccccc-cCCCCcHHH
Q 007852 509 ERNHQ-RKSLSSDVH 522 (587)
Q Consensus 509 Eir~y-rK~~pTeaH 522 (587)
+.+ .|.++|-.|
T Consensus 410 --~~fg~rdhstV~~ 422 (450)
T PRK00149 410 --RAFGGRDHTTVLH 422 (450)
T ss_pred --HHcCCCCHhHHHH
Confidence 234 455565555
No 71
>PTZ00171 acyl carrier protein; Provisional
Probab=60.33 E-value=2.3 Score=40.24 Aligned_cols=35 Identities=23% Similarity=0.505 Sum_probs=28.9
Q ss_pred HHHHHHHhhhcCCCCccchhHHHHHhhcCCccccC
Q 007852 470 TSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPG 504 (587)
Q Consensus 470 vt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPG 504 (587)
++..+.+..--+-|.|+.-|+.+.||++||+.||-
T Consensus 90 I~~ds~~~~dLg~DSLd~veLv~~LEdeFgI~Ipd 124 (148)
T PTZ00171 90 ITPESNFVKDLGADSLDVVELLIAIEQEFNLTIPD 124 (148)
T ss_pred CCCCcchhhhcCCCHHHHHHHHHHHHHHHCCccCH
Confidence 34445666677889999999999999999999994
No 72
>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=60.27 E-value=15 Score=37.34 Aligned_cols=74 Identities=20% Similarity=0.379 Sum_probs=50.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCC---ccc----cCCCccccccccCCCC
Q 007852 446 SQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWH---LTV----PGFSSEERNHQRKSLS 518 (587)
Q Consensus 446 P~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWN---I~I----PGFssDEir~yrK~~p 518 (587)
+..+||+++|+.|..|+-|.|.+|+ ||=+.+++++ .|+.+.+ +.| .||..|+.. +...
T Consensus 268 ~~~~L~~~~e~~l~rivQEaltN~~-------rHa~A~~v~V-----~l~~~~~~l~l~V~DnG~Gf~~~~~~---~~~G 332 (365)
T COG4585 268 ELERLPPEAEDALFRIVQEALTNAI-------RHAQATEVRV-----TLERTDDELRLEVIDNGVGFDPDKEG---GGFG 332 (365)
T ss_pred ccccCChhHHHHHHHHHHHHHHHHH-------hccCCceEEE-----EEEEcCCEEEEEEEECCcCCCccccC---CCcc
Confidence 3457899999999999999999886 6777765443 3444444 333 455554433 5566
Q ss_pred cHHHHHHHHHHHHhhc
Q 007852 519 SDVHSKRLEMIRALME 534 (587)
Q Consensus 519 TeaHkQRMAlIRK~m~ 534 (587)
-...++|..+|.-.+.
T Consensus 333 L~~mreRv~~lgG~l~ 348 (365)
T COG4585 333 LLGMRERVEALGGTLT 348 (365)
T ss_pred hhhHHHHHHHcCCEEE
Confidence 6888999988865443
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=60.17 E-value=24 Score=35.62 Aligned_cols=122 Identities=11% Similarity=0.171 Sum_probs=71.1
Q ss_pred cCChHHHHHHHHhcCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHH----HHhh--hcCCCCccchhHHHHHhhcCCcccc
Q 007852 431 LLGKRKIQDLVSQVDSQ-GKVDPEVEDLLLEIADDFIDSVTSFAC----NLAK--HRKSSTLESKDILLHLEKNWHLTVP 503 (587)
Q Consensus 431 ILtKrKLqeLVrqIDP~-~kLD~DVEELLLeIADDFVdsVvt~AC----rLAK--HRKSdTLEvKDVQLhLERnWNI~IP 503 (587)
-+.......+++.|... .++||+-.+...+=++.|++.+-...- +++. .++...+..-|.--||.|.||+.+-
T Consensus 120 Wldp~~~~~~a~~Ia~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~l~~~~~~~~~~v~~H~af~Y~~~~yGl~~~ 199 (287)
T cd01137 120 WMSPKNAIIYVKNIAKALSEADPANAETYQKNAAAYKAKLKALDEWAKAKFATIPAEKRKLVTSEGAFSYFAKAYGLKEA 199 (287)
T ss_pred CcCHHHHHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcccCEEEEecccHHHHHHHcCCeEe
Confidence 34666666666666332 356677777777777777776654433 3442 2445567888988899999999976
Q ss_pred CCCccccccccCCCCcHHHHHHHHHHHHhhccCCc-----cccc-CChHHHHhhccCCCCcc
Q 007852 504 GFSSEERNHQRKSLSSDVHSKRLEMIRALMEPSQS-----ETIT-NDPREMIRQGLGNPVGV 559 (587)
Q Consensus 504 GFssDEir~yrK~~pTeaHkQRMAlIRK~m~ss~s-----e~~~-~~~~~~~~~g~~n~~~~ 559 (587)
|.-. +.+-. .|+. ++|+.|.+.|+.... |... ...-+.+...+|-+++.
T Consensus 200 ~~~~--~~~~~--eps~---~~l~~l~~~ik~~~v~~if~e~~~~~~~~~~ia~~~gv~v~~ 254 (287)
T cd01137 200 YLWP--INTEE--EGTP---KQVATLIEQVKKEKVPAVFVESTVNDRLMKQVAKETGAKIGG 254 (287)
T ss_pred eccc--CCCCC--CCCH---HHHHHHHHHHHHhCCCEEEEeCCCChHHHHHHHHHhCCcccc
Confidence 6432 11112 2333 555656666665544 2221 12225666777766544
No 74
>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=60.11 E-value=15 Score=36.49 Aligned_cols=120 Identities=15% Similarity=0.184 Sum_probs=66.5
Q ss_pred CChHHHHHHHHhcCC-CCCCCHHHHHHHHHHHHHHHHHHHHH----HHHHhhhcCCCCccchhHHHHHhhcCCccccCCC
Q 007852 432 LGKRKIQDLVSQVDS-QGKVDPEVEDLLLEIADDFIDSVTSF----ACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFS 506 (587)
Q Consensus 432 LtKrKLqeLVrqIDP-~~kLD~DVEELLLeIADDFVdsVvt~----ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFs 506 (587)
++-.....+++.|.. -.++||+-.+...+=++.|+..+-.. ...+++.++...+..-|.--||.+.||+.+-|.-
T Consensus 117 ldp~~~~~~a~~Ia~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~H~af~Y~~~~~gl~~~~~~ 196 (282)
T cd01017 117 LSPVLAIQQVENIKDALIKLDPDNKEYYEKNAAAYAKKLEALDQEYRAKLAKAKGKTFVTQHAAFGYLARRYGLKQIAIV 196 (282)
T ss_pred cCHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCeEEEecccHHHHHHHCCCeEEecc
Confidence 355555555544422 22455566666666666666655433 3344555566678899999999999999976532
Q ss_pred ccccccccCCCCcHHHHHHHHHHHHhhccCCc-----cccc-CChHHHHhhccCCCCc
Q 007852 507 SEERNHQRKSLSSDVHSKRLEMIRALMEPSQS-----ETIT-NDPREMIRQGLGNPVG 558 (587)
Q Consensus 507 sDEir~yrK~~pTeaHkQRMAlIRK~m~ss~s-----e~~~-~~~~~~~~~g~~n~~~ 558 (587)
++.+... ++. ++|+.|.+.|+.... |... ...-+.+...+|-+++
T Consensus 197 --~~~~~~e--ps~---~~l~~l~~~ik~~~v~~if~e~~~~~~~~~~la~~~g~~v~ 247 (282)
T cd01017 197 --GVSPEVE--PSP---KQLAELVEFVKKSDVKYIFFEENASSKIAETLAKETGAKLL 247 (282)
T ss_pred --cCCCCCC--CCH---HHHHHHHHHHHHcCCCEEEEeCCCChHHHHHHHHHcCCcEE
Confidence 1122222 333 456666666666554 2222 1223445555665543
No 75
>KOG3489 consensus Mitochondrial import inner membrane translocase, subunit TIM8 [Intracellular trafficking, secretion, and vesicular transport]
Probab=58.18 E-value=35 Score=30.70 Aligned_cols=50 Identities=28% Similarity=0.346 Sum_probs=41.9
Q ss_pred ChHHHHHHHHhc----------CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCC
Q 007852 433 GKRKIQDLVSQV----------DSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKS 482 (587)
Q Consensus 433 tKrKLqeLVrqI----------DP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKS 482 (587)
-|.++.+.|.++ +|+.+||...|.-|...+|.|||.-..---+||+-++.
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 477888888766 67889999999999999999999887777777776654
No 76
>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=56.53 E-value=35 Score=33.57 Aligned_cols=66 Identities=14% Similarity=0.180 Sum_probs=50.0
Q ss_pred cCChHHHHHHHHhcC--CCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHHhhhcCCCCccchhHHHHHhh
Q 007852 431 LLGKRKIQDLVSQVD--SQGKVDPEVEDLLLEIADD---FIDSVTSFACNLAKHRKSSTLESKDILLHLEK 496 (587)
Q Consensus 431 ILtKrKLqeLVrqID--P~~kLD~DVEELLLeIADD---FVdsVvt~ACrLAKHRKSdTLEvKDVQLhLER 496 (587)
.++...+.++++++- -...+|+++.+.|.+.++. ++..++..++.+|..++...++.++|.-.++.
T Consensus 158 ~l~~~e~~~il~~~~~~~~~~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~~l~~ 228 (305)
T TIGR00635 158 FYTVEELAEIVSRSAGLLNVEIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALKALEM 228 (305)
T ss_pred CCCHHHHHHHHHHHHHHhCCCcCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHH
Confidence 456677777776552 2457999999888887653 56778888888888777788998998888876
No 77
>KOG3598 consensus Thyroid hormone receptor-associated protein complex, subunit TRAP230 [Transcription]
Probab=56.40 E-value=24 Score=44.36 Aligned_cols=25 Identities=20% Similarity=0.234 Sum_probs=13.1
Q ss_pred ccccCChhhHHhhcchhhhhhhhhhcC
Q 007852 218 SHLRANPLYAQQRMNQGQIRQQLSQQN 244 (587)
Q Consensus 218 sQmr~ng~yaQQr~~~~qmR~qlsqQ~ 244 (587)
+||+|.|...+|- -|-||+-.|+|.
T Consensus 2030 ~q~~ps~~~~~q~--m~~~~q~~s~q~ 2054 (2220)
T KOG3598|consen 2030 HQMGPSMSGMNQN--MGGMNQSMSHQA 2054 (2220)
T ss_pred hccCCcccccccc--hhhhhccccCCC
Confidence 4666666555543 244555445553
No 78
>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=54.48 E-value=53 Score=32.61 Aligned_cols=103 Identities=12% Similarity=0.144 Sum_probs=54.3
Q ss_pred CChHHHHHHHHhcC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHH----HHhhhcCCCCccchhHHHHHhhcCCccccCCC
Q 007852 432 LGKRKIQDLVSQVD-SQGKVDPEVEDLLLEIADDFIDSVTSFAC----NLAKHRKSSTLESKDILLHLEKNWHLTVPGFS 506 (587)
Q Consensus 432 LtKrKLqeLVrqID-P~~kLD~DVEELLLeIADDFVdsVvt~AC----rLAKHRKSdTLEvKDVQLhLERnWNI~IPGFs 506 (587)
++......+++.|. .-.++||+-++...+=+++|++.+-...- .+++.++...+...|.--||+|.||+.+-+..
T Consensus 99 ldp~n~~~~a~~I~~~L~~~dP~~~~~y~~N~~~~~~~l~~l~~~~~~~~~~~~~~~~v~~H~af~Y~~~~yGl~~~~~~ 178 (264)
T cd01020 99 YDPETMSKVANALADALVKADPDNKKYYQANAKKFVASLKPLAAKIAELSAKYKGAPVAATEPVFDYLLDALGMKERTPK 178 (264)
T ss_pred cCHhHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCeEEEeCchHHHHHHHCCCcccCHH
Confidence 34444444444442 22234445555555556666555444322 23444445577888999999999999865321
Q ss_pred c-cccccccCCCCcHHHHHHHHHHHHhhccCCc
Q 007852 507 S-EERNHQRKSLSSDVHSKRLEMIRALMEPSQS 538 (587)
Q Consensus 507 s-DEir~yrK~~pTeaHkQRMAlIRK~m~ss~s 538 (587)
. -++.. .-..++. ++|..|.+.|+....
T Consensus 179 ~~~~~~~-~~~~ps~---~~l~~l~~~ik~~~v 207 (264)
T cd01020 179 GYTATTE-SETEPSP---ADIAAFQNAIKNRQI 207 (264)
T ss_pred HHHhhhc-CCCCCCH---HHHHHHHHHHHhCCC
Confidence 0 00100 1222333 556666666666554
No 79
>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=54.42 E-value=12 Score=35.54 Aligned_cols=60 Identities=20% Similarity=0.364 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHHHH---HHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccCCCcccccc
Q 007852 453 EVEDLLLEIADDFI---DSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFSSEERNH 512 (587)
Q Consensus 453 DVEELLLeIADDFV---dsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEir~ 512 (587)
+++|-++++...|- .+.++-+....|--|.|.||--.|...||.+||+.||---+|++++
T Consensus 53 ~v~~RVl~VVk~~dki~~~k~~~~s~f~~DLGlDSLD~VEiVMAlEEEFgiEIpd~dAdki~t 115 (131)
T KOG1748|consen 53 EVVDRVLDVVKKFDKIDPSKLTTDSDFFKDLGLDSLDTVEIVMALEEEFGIEIPDEDADKIKT 115 (131)
T ss_pred HHHHHHHHHHHHhhcCCccccchhhHHHHhcCCcccccchhhhhhHHHhCCccCcchhhhhCC
Confidence 46666666665554 2445556666777799999999999999999999999877777764
No 80
>PF04867 DUF643: Protein of unknown function (DUF643); InterPro: IPR006951 These are proteins of unknown function found in Borrelia burgdorferi (Lyme disease spirochete)
Probab=54.11 E-value=23 Score=32.92 Aligned_cols=35 Identities=23% Similarity=0.298 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCcc
Q 007852 452 PEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLE 486 (587)
Q Consensus 452 ~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLE 486 (587)
+|++.-+++-+.+||++|+..--.+-||+++..++
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 46666688899999999999999999999885443
No 81
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=53.89 E-value=30 Score=35.55 Aligned_cols=120 Identities=18% Similarity=0.141 Sum_probs=71.8
Q ss_pred cCChHHHHHHHHhcCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHH----HhhhcCCCCccchhHHHHHhhcCCccccCC
Q 007852 431 LLGKRKIQDLVSQVDS-QGKVDPEVEDLLLEIADDFIDSVTSFACN----LAKHRKSSTLESKDILLHLEKNWHLTVPGF 505 (587)
Q Consensus 431 ILtKrKLqeLVrqIDP-~~kLD~DVEELLLeIADDFVdsVvt~ACr----LAKHRKSdTLEvKDVQLhLERnWNI~IPGF 505 (587)
-|+......+++.|.. -.++||+-++...+=++.|.+.+-..--. ++..++...+..-|.--||.|.||+.+-|.
T Consensus 148 Wldp~~~~~~a~~I~~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~l~~~~~~~~i~~H~af~Yf~~~ygl~~~~~ 227 (311)
T PRK09545 148 WLSPEIARATAVAIHDKLVELMPQSKAKLDANLKDFEAQLAQTDKQIGNQLAPVKGKGYFVFHDAYGYFEKHYGLTPLGH 227 (311)
T ss_pred cCCHHHHHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCcEEEECchHHHHHHhCCCceeee
Confidence 3466666666666633 34678888888888888888776544333 333445557788898899999999997553
Q ss_pred CccccccccCCCCcHHHHHHHHHHHHhhccCCc-----cccc-CChHHHHhhccCCCC
Q 007852 506 SSEERNHQRKSLSSDVHSKRLEMIRALMEPSQS-----ETIT-NDPREMIRQGLGNPV 557 (587)
Q Consensus 506 ssDEir~yrK~~pTeaHkQRMAlIRK~m~ss~s-----e~~~-~~~~~~~~~g~~n~~ 557 (587)
- ++.+-. .|+. ++|..|.+.|+.... |... ...-+.+...+|-..
T Consensus 228 ~--~~~~~~--eps~---~~l~~l~~~ik~~~v~~If~e~~~~~~~~~~la~e~g~~v 278 (311)
T PRK09545 228 F--TVNPEI--QPGA---QRLHEIRTQLVEQKATCVFAEPQFRPAVIESVAKGTSVRM 278 (311)
T ss_pred e--ccCCCC--CCCH---HHHHHHHHHHHHcCCCEEEecCCCChHHHHHHHHhcCCeE
Confidence 2 122222 3443 455555666665554 3222 222345556666443
No 82
>CHL00124 acpP acyl carrier protein; Validated
Probab=53.59 E-value=8.5 Score=31.53 Aligned_cols=30 Identities=13% Similarity=0.540 Sum_probs=24.0
Q ss_pred HHhhhcCCCCccchhHHHHHhhcCCccccC
Q 007852 475 NLAKHRKSSTLESKDILLHLEKNWHLTVPG 504 (587)
Q Consensus 475 rLAKHRKSdTLEvKDVQLhLERnWNI~IPG 504 (587)
.+..-=+-+.++.-++...||+.||+.||-
T Consensus 30 ~l~~dlg~DSl~~~eli~~le~~f~i~i~~ 59 (82)
T CHL00124 30 NFTRDLGADSLDVVELVMAIEEKFDIEIPD 59 (82)
T ss_pred chhhhcCCcHHHHHHHHHHHHHHHCCccCH
Confidence 333334778889999999999999999884
No 83
>KOG4369 consensus RTK signaling protein MASK/UNC-44 [Signal transduction mechanisms]
Probab=53.53 E-value=10 Score=46.77 Aligned_cols=53 Identities=26% Similarity=0.332 Sum_probs=34.5
Q ss_pred cccCCCCCCCCCccc--------ccccCChHHHHHH----HHhcCCCCCCCHHHHHHHHHHHHHH
Q 007852 413 GTTTPGGSSSQGTEA--------TNQLLGKRKIQDL----VSQVDSQGKVDPEVEDLLLEIADDF 465 (587)
Q Consensus 413 g~~~~Ggs~s~g~e~--------tnqILtKrKLqeL----VrqIDP~~kLD~DVEELLLeIADDF 465 (587)
+++.+|+.++....+ ..++|+..++-.| ++..|+....+|.|+.+|++-+.+.
T Consensus 1948 ~~g~~~~~~s~~a~s~~~~~~~~~~~~lg~~~~~s~~~~~~~~~~~~~n~~d~~~a~i~~~~~q~ 2012 (2131)
T KOG4369|consen 1948 STGAPGPTSSQLANSYYPSPSYTDASVLGQISMPSLSQRGIKQFDGFNNDSDGVIAAILEQQQQQ 2012 (2131)
T ss_pred cCCCCCCCCCccccCCCCCccccccccccccccchhhhcCccccCCccccchhHHHhccHHHHHH
Confidence 455566666554432 2356665555444 4677888888888999888877654
No 84
>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=53.05 E-value=51 Score=36.14 Aligned_cols=86 Identities=20% Similarity=0.200 Sum_probs=56.1
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCc----------cch------hHHHHHhhcCCcc------c------
Q 007852 451 DPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTL----------ESK------DILLHLEKNWHLT------V------ 502 (587)
Q Consensus 451 D~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTL----------EvK------DVQLhLERnWNI~------I------ 502 (587)
++|..++.-+|++..-...+..+|.|||.|+.-.. -+. |-....-+.||++ |
T Consensus 315 S~ea~~~~~~i~~~i~~~a~~aS~~LA~e~G~fp~f~~s~~~~g~~~~~~~~~w~~l~~~i~~~G~RNs~l~aiAPTgs~ 394 (464)
T cd02888 315 SEEARELAERIMSFIRDAAYRASAELAKERGPFPLFDASRYLMLKVIVNAKELPDDVLEEIEKYGIRNAHLTTIAPTGTI 394 (464)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCcCCCcCcChhhcccchhcchhcHHHHHHHHHHhCcchhceeeeCCcHHH
Confidence 35667777777777777788899999999996211 000 0011111224443 2
Q ss_pred ---cCCCccccccccCCCCcHHHHHHHHHHHHhhccCCccc
Q 007852 503 ---PGFSSEERNHQRKSLSSDVHSKRLEMIRALMEPSQSET 540 (587)
Q Consensus 503 ---PGFssDEir~yrK~~pTeaHkQRMAlIRK~m~ss~se~ 540 (587)
=| .++.|.|+. ..+.|.+-.+.+.|.+..+.|.+
T Consensus 395 S~i~g-~s~gieP~~---~~~~~i~~~a~~Q~~iDqsiS~t 431 (464)
T cd02888 395 SLIAG-TSSGIEPIF---SPEDHVRMQAALQPWVDGAISKT 431 (464)
T ss_pred HHHhC-CCCCcCCCC---CHHHHHHHHHHHhccchhhhcce
Confidence 24 345666666 77899999999999999999954
No 85
>PLN00154 histone H2A; Provisional
Probab=52.87 E-value=43 Score=32.14 Aligned_cols=67 Identities=16% Similarity=0.195 Sum_probs=58.9
Q ss_pred ccCChHHHHHHHHhcC-CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhh
Q 007852 430 QLLGKRKIQDLVSQVD-SQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEK 496 (587)
Q Consensus 430 qILtKrKLqeLVrqID-P~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLER 496 (587)
=.++=.+++.++++-. -..+++..+--.|..+.|-+.-+|++.|...|+.-|...|..++|++.+..
T Consensus 37 L~FPVgRi~r~Lk~g~~~~~RVga~ApVYLAAVLEYLtAEVLELAGNaA~d~kk~RItPrHi~lAIrn 104 (136)
T PLN00154 37 LQFPVGRIHRQLKQRVSAHGRVGATAAVYTAAILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRG 104 (136)
T ss_pred ccCchHHHHHHHHhhhhhccccccchHHHHHHHHHHHHHHHHHHHHHHHHhhCCceecHHHhhhhccC
Confidence 3567788999999875 457999999999999999999999999999999999999999999988743
No 86
>KOG1659 consensus Class 2 transcription repressor NC2, alpha subunit (DRAP1) [Transcription]
Probab=52.50 E-value=37 Score=34.83 Aligned_cols=60 Identities=18% Similarity=0.292 Sum_probs=44.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhc--CC------ccccCCCcc
Q 007852 449 KVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKN--WH------LTVPGFSSE 508 (587)
Q Consensus 449 kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERn--WN------I~IPGFssD 508 (587)
++--.|=-++-+-.+=|++++|..+|+.++-|+++||...-++-+++.. |+ ..||+....
T Consensus 31 KvaqavPViisralElFl~~l~~~t~~~t~~~~aKt~s~~hlkq~v~~~~~FdFLk~~v~~vpd~~~~ 98 (224)
T KOG1659|consen 31 KVAQAVPVIISRALELFLESLLQKTLEITRSRGAKTVSSSHLKQAVESDPKFDFLKEVVEKVPDRQQA 98 (224)
T ss_pred hhhhhhhhHHHHHHHHHHHHHHHHHHHHHHhcCccccCHHHHHHHHhccchhHHHHHHHHhcCCCccc
Confidence 3344455566677788999999999999999999999998887776543 22 346776664
No 87
>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=51.85 E-value=33 Score=38.66 Aligned_cols=54 Identities=13% Similarity=0.101 Sum_probs=44.4
Q ss_pred HhcCCCCCCCHHHHHHHHHHHHHHH-------HHHHHHHHHHhhhcCCCCccchhHHHHHh
Q 007852 442 SQVDSQGKVDPEVEDLLLEIADDFI-------DSVTSFACNLAKHRKSSTLESKDILLHLE 495 (587)
Q Consensus 442 rqIDP~~kLD~DVEELLLeIADDFV-------dsVvt~ACrLAKHRKSdTLEvKDVQLhLE 495 (587)
+++-+...|++++.++|.+++.++- ..++..|..+|..++.++|+.+||...++
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 4556778999999999999999873 23566677899999999999999966554
No 88
>PRK14622 hypothetical protein; Provisional
Probab=51.75 E-value=11 Score=33.95 Aligned_cols=9 Identities=22% Similarity=0.789 Sum_probs=7.2
Q ss_pred CccccCCCc
Q 007852 499 HLTVPGFSS 507 (587)
Q Consensus 499 NI~IPGFss 507 (587)
++.||||++
T Consensus 95 g~~lPG~~~ 103 (103)
T PRK14622 95 GIKIPGIAG 103 (103)
T ss_pred CCCCCCCCC
Confidence 678999974
No 89
>PLN00156 histone H2AX; Provisional
Probab=51.30 E-value=69 Score=30.88 Aligned_cols=65 Identities=15% Similarity=0.191 Sum_probs=58.4
Q ss_pred cCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHh
Q 007852 431 LLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLE 495 (587)
Q Consensus 431 ILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLE 495 (587)
.++=-+++.++++-.-..+|...+--.|.-+.|-.+.+|++.|..-|+.-+...|..++|.+.+.
T Consensus 29 ~FPVgRi~R~Lk~g~ya~RVga~ApVYLAAVLEYLtaEVLELAgNaa~d~kk~RItPrHi~lAIr 93 (139)
T PLN00156 29 QFPVGRIARFLKAGKYAERVGAGAPVYLSAVLEYLAAEVLELAGNAARDNKKNRIVPRHIQLAVR 93 (139)
T ss_pred ccchHHHHHHHhcCChhhccCCccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcCcHHHHHhhcc
Confidence 56777899999987777889999888999999999999999999999999999999999999884
No 90
>PRK05350 acyl carrier protein; Provisional
Probab=50.61 E-value=9 Score=31.81 Aligned_cols=24 Identities=17% Similarity=0.311 Sum_probs=21.7
Q ss_pred CCCCccchhHHHHHhhcCCccccC
Q 007852 481 KSSTLESKDILLHLEKNWHLTVPG 504 (587)
Q Consensus 481 KSdTLEvKDVQLhLERnWNI~IPG 504 (587)
+-+.+++-++.+.||+.||+.||.
T Consensus 37 g~DSld~veli~~lE~~fgI~i~~ 60 (82)
T PRK05350 37 DLDSIDAVDLVVHLQKLTGKKIKP 60 (82)
T ss_pred CCCHHHHHHHHHHHHHHHCCccCH
Confidence 778889999999999999999884
No 91
>PRK12449 acyl carrier protein; Provisional
Probab=50.17 E-value=4.8 Score=32.81 Aligned_cols=35 Identities=14% Similarity=0.390 Sum_probs=27.1
Q ss_pred HHHHHHhhhcCCCCccchhHHHHHhhcCCccccCC
Q 007852 471 SFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGF 505 (587)
Q Consensus 471 t~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGF 505 (587)
+....+-..=+-+.++.-++-.+||..||+.||-.
T Consensus 26 ~~~~~l~~dlg~DSl~~~~li~~lE~~f~i~i~~~ 60 (80)
T PRK12449 26 TEQTHLKDDLAVDSIELVEFIINVEDEFHIAIPDE 60 (80)
T ss_pred CCCCcHHHHcCCcHHHHHHHHHHHHHHhCCCCCHH
Confidence 33444555557888999999999999999998753
No 92
>PLN00157 histone H2A; Provisional
Probab=49.81 E-value=37 Score=32.31 Aligned_cols=66 Identities=17% Similarity=0.179 Sum_probs=59.0
Q ss_pred ccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHh
Q 007852 430 QLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLE 495 (587)
Q Consensus 430 qILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLE 495 (587)
=.++=.+|+.++++-.-..+|...+--.|.-+-|-++.+|++.|...|+.-+...|..++|.+.+.
T Consensus 25 L~FPVgRi~R~Lk~g~~a~RIg~~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~ 90 (132)
T PLN00157 25 LQFPVGRIARYLKAGKYATRVGAGAPVYLAAVLEYLAAEVLELAGNAARDNKKSRIVPRHIQLAVR 90 (132)
T ss_pred cccchHHHHHHHhcCchhhhcCCCcHhHHHHHHHHHHHHHHHHHHHHHHhcCCccccHHHHhhccc
Confidence 356777899999987777889999999999999999999999999999999999999999998874
No 93
>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=48.61 E-value=40 Score=33.96 Aligned_cols=101 Identities=17% Similarity=0.225 Sum_probs=66.1
Q ss_pred cCChHHHHHHHHhcCCC-CCCCHHHHHHHHHHHHHHHHHHHHHHHHH----hhhcCCCCccchhHHHHHhhcCCccccCC
Q 007852 431 LLGKRKIQDLVSQVDSQ-GKVDPEVEDLLLEIADDFIDSVTSFACNL----AKHRKSSTLESKDILLHLEKNWHLTVPGF 505 (587)
Q Consensus 431 ILtKrKLqeLVrqIDP~-~kLD~DVEELLLeIADDFVdsVvt~ACrL----AKHRKSdTLEvKDVQLhLERnWNI~IPGF 505 (587)
-|+.++...+++.|... .++||+-++...+=++.|++.+-..--.+ +..++...+..-|.--||.|.||+.+-++
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 36777788888777443 46788888888888888888876554333 33334445777888899999999997664
Q ss_pred CccccccccCCCCcHHHHHHHHHHHHhhccCCc
Q 007852 506 SSEERNHQRKSLSSDVHSKRLEMIRALMEPSQS 538 (587)
Q Consensus 506 ssDEir~yrK~~pTeaHkQRMAlIRK~m~ss~s 538 (587)
... .+- ..++. ++|..|.+.|+....
T Consensus 204 ~~~--~~~--~eps~---~~l~~l~~~ik~~~v 229 (286)
T cd01019 204 FTI--DPE--IDPGA---KRLAKIRKEIKEKGA 229 (286)
T ss_pred ecC--CCC--CCCCH---HHHHHHHHHHHHcCC
Confidence 321 111 22333 455556666665554
No 94
>KOG1658 consensus DNA polymerase epsilon, subunit C [Replication, recombination and repair]
Probab=48.00 E-value=14 Score=36.14 Aligned_cols=68 Identities=22% Similarity=0.286 Sum_probs=55.3
Q ss_pred ChHHHHHHHHhcCCCCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCcc
Q 007852 433 GKRKIQDLVSQVDSQGK-VDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLT 501 (587)
Q Consensus 433 tKrKLqeLVrqIDP~~k-LD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~ 501 (587)
+=.+++++|+ .||+.. +.+|+.-++..-|+.||..+-..+-..+-.|+..|+..+|+--.+|..|-..
T Consensus 61 pL~rik~vvk-l~pdl~l~~dea~~l~a~aaelfi~~Ln~~~~~~~q~~k~kt~qr~d~D~ai~~~de~~ 129 (162)
T KOG1658|consen 61 PLARIKQVVK-LDPDLTLLNDEASQLIAKAAELFIQELNDVAYTTAQLRKRKTEQRRDYDTAIEAVDEFA 129 (162)
T ss_pred cHHHHHhhcc-CCcchhhhhhHHHHHHHHHHHHHHHHHHhccchhHHHHHhhhhhhhcccccccchHHHH
Confidence 3345566665 466665 4566888999999999999999999999999999999999988888877654
No 95
>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=47.88 E-value=44 Score=35.24 Aligned_cols=71 Identities=15% Similarity=0.019 Sum_probs=53.4
Q ss_pred ccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHH-------HHHHHHHHhhhcCCCCccchhHHHHHhhcCCcc
Q 007852 430 QLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDS-------VTSFACNLAKHRKSSTLESKDILLHLEKNWHLT 501 (587)
Q Consensus 430 qILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVds-------Vvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~ 501 (587)
....+++|...-+ .-+...+++++.+.+.+++..+=.+ .+..|..+|..++.+.|+.+||+...+=-+..+
T Consensus 236 ~~~~~~~I~~a~~-~~~~V~v~d~~~~~i~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~~dDv~~~a~~vL~HR 313 (337)
T TIGR02030 236 QEALQAKIVNAQN-LLPQVTIPYDVLVKVAELCAELDVDGLRGELTLNRAAKALAAFEGRTEVTVDDIRRVAVLALRHR 313 (337)
T ss_pred hhcCHHHHHHHHH-HhccCcCCHHHHHHHHHHHHHHCCCCCcHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHh
Confidence 3355666666544 4477899999999999999987642 566788889999999999999986665444433
No 96
>PRK07360 FO synthase subunit 2; Reviewed
Probab=46.79 E-value=57 Score=34.32 Aligned_cols=74 Identities=18% Similarity=0.140 Sum_probs=43.1
Q ss_pred hHHHHHHHHhcCCCCCCCHHHHHHHHHHHH-HHHHHHHHHHHHHhhhcCCCCccch-h--HHHHHhhcCCccccCCCc
Q 007852 434 KRKIQDLVSQVDSQGKVDPEVEDLLLEIAD-DFIDSVTSFACNLAKHRKSSTLESK-D--ILLHLEKNWHLTVPGFSS 507 (587)
Q Consensus 434 KrKLqeLVrqIDP~~kLD~DVEELLLeIAD-DFVdsVvt~ACrLAKHRKSdTLEvK-D--VQLhLERnWNI~IPGFss 507 (587)
.+.+.++++++-.++.|+.+=...|+...| +.++.+...|-++-++...++|++- . |.+.=..++|+.+=+|+.
T Consensus 4 ~~~~~~~~~~~~~g~~ls~~e~~~Ll~~~~~~~l~~L~~~A~~ir~~~~G~~v~~~~~~~i~~Tn~C~~~C~fC~~~~ 81 (371)
T PRK07360 4 DQIFEDILERARKGKDLSKEDALELLETTEPRRIFEILELADRLRKEQVGDTVTYVVNRNINFTNICEGHCGFCAFRR 81 (371)
T ss_pred hHHHHHHHHHHhcCCCCCHHHHHHHhcCCChHHHHHHHHHHHHHHHHhcCCeEEEEeccCcccchhhhcCCccCCccc
Confidence 455777888777777777764444555543 6677777777777766666655531 1 222233444555444444
No 97
>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=45.98 E-value=32 Score=38.58 Aligned_cols=72 Identities=15% Similarity=0.023 Sum_probs=53.5
Q ss_pred ccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHH-------HHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccc
Q 007852 430 QLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFID-------SVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTV 502 (587)
Q Consensus 430 qILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVd-------sVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 502 (587)
.++.+++|.+ .+++-+...+++++.+.|.+++-++=- .++..|..+|..++.++|+..||....+=-+..++
T Consensus 185 ~~~~~~~i~~-ar~~~~~V~i~~~~~~~l~~~~~~~gv~s~Ra~i~~~r~ArA~Aal~gr~~V~~~Dv~~a~~lvl~hR~ 263 (589)
T TIGR02031 185 LELLRGQIEA-ARELLPQVTISAEQVKELVLTAASLGISGHRADLFAVRAAKAHAALHGRTEVTEEDLKLAVELVLLPRA 263 (589)
T ss_pred hHHHHHHHHH-HHHhcCCccCCHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhhhhc
Confidence 4455666655 455567789999999999999866532 24566778899999999999999888776555443
No 98
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=45.70 E-value=28 Score=38.01 Aligned_cols=65 Identities=15% Similarity=0.167 Sum_probs=43.0
Q ss_pred ChHHHHHHHHhcCCCCCCCHHH-HHHHHHHHHHH----HHHHHHHHHHHhhhcCCCCccchhHHHHHhhc
Q 007852 433 GKRKIQDLVSQVDSQGKVDPEV-EDLLLEIADDF----IDSVTSFACNLAKHRKSSTLESKDILLHLEKN 497 (587)
Q Consensus 433 tKrKLqeLVrqIDP~~kLD~DV-EELLLeIADDF----VdsVvt~ACrLAKHRKSdTLEvKDVQLhLERn 497 (587)
+.....++++..-....++++| .+.|+...+.| |..|+..|+.+|-.++...|+.+|+.-.+++.
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 3444455554333334444443 23344444433 67899999999999999999999999999885
No 99
>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=44.96 E-value=39 Score=33.48 Aligned_cols=98 Identities=12% Similarity=0.161 Sum_probs=57.2
Q ss_pred CChHHHHHHHHhcCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHH----HhhhcCCCCccchhHHHHHhhcCCccccCCC
Q 007852 432 LGKRKIQDLVSQVDS-QGKVDPEVEDLLLEIADDFIDSVTSFACN----LAKHRKSSTLESKDILLHLEKNWHLTVPGFS 506 (587)
Q Consensus 432 LtKrKLqeLVrqIDP-~~kLD~DVEELLLeIADDFVdsVvt~ACr----LAKHRKSdTLEvKDVQLhLERnWNI~IPGFs 506 (587)
++-.....+++.|.. -.++||+-.+..-+=++.|++.+-...-. ++..++...+..-|.--||.|.||+.+-|+.
T Consensus 116 ldp~~~~~~a~~I~~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~~~~~~~~~~v~~H~af~Y~~~~ygl~~~~~~ 195 (266)
T cd01018 116 LSPANAKIMAENIYEALAELDPQNATYYQANLDALLAELDALDSEIRTILSKLKQRAFMVYHPAWGYFARDYGLTQIPIE 195 (266)
T ss_pred cCHHHHHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCeEEEECchhHHHHHHcCCEEEecC
Confidence 455556666655532 23456666666666667776655444322 3333444467888999999999999987653
Q ss_pred ccccccccCCCCcHHHHHHHHHHHHhhccCCc
Q 007852 507 SEERNHQRKSLSSDVHSKRLEMIRALMEPSQS 538 (587)
Q Consensus 507 sDEir~yrK~~pTeaHkQRMAlIRK~m~ss~s 538 (587)
.. ...++. ++++.|.+.++....
T Consensus 196 ~~------~~eps~---~~l~~l~~~ik~~~v 218 (266)
T cd01018 196 EE------GKEPSP---ADLKRLIDLAKEKGV 218 (266)
T ss_pred CC------CCCCCH---HHHHHHHHHHHHcCC
Confidence 21 112333 445555555555544
No 100
>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=44.52 E-value=41 Score=33.70 Aligned_cols=99 Identities=11% Similarity=0.200 Sum_probs=52.8
Q ss_pred ChHHHHHHHHhcCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHH----HHhh--hcCCCCccchhHHHHHhhcCCccccCC
Q 007852 433 GKRKIQDLVSQVDS-QGKVDPEVEDLLLEIADDFIDSVTSFAC----NLAK--HRKSSTLESKDILLHLEKNWHLTVPGF 505 (587)
Q Consensus 433 tKrKLqeLVrqIDP-~~kLD~DVEELLLeIADDFVdsVvt~AC----rLAK--HRKSdTLEvKDVQLhLERnWNI~IPGF 505 (587)
+......+++.|.. -.++||+-.+..-+=++.|++.+-..-- +++. .++..-+..-|.--||.|.||+.+-|.
T Consensus 106 dp~~~~~~a~~I~~~L~~~dP~~~~~y~~N~~~~~~~L~~l~~~~~~~l~~~~~~~~~~~t~H~af~Y~~~~ygl~~~~~ 185 (276)
T cd01016 106 DVKLWKYAVKAVAEVLSEKLPEHKDEFQANSEAYVEELDSLDAYAKKKIAEIPEQQRVLVTAHDAFGYFGRAYGFEVKGL 185 (276)
T ss_pred CHHHHHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHHHHHHHHHHHhhCchhcCeEEEecCcHHHHHHHcCCeEecC
Confidence 44444444444422 2234445555555666666655443333 3333 233445666788899999999997553
Q ss_pred CccccccccCCCCcHHHHHHHHHHHHhhccCCc
Q 007852 506 SSEERNHQRKSLSSDVHSKRLEMIRALMEPSQS 538 (587)
Q Consensus 506 ssDEir~yrK~~pTeaHkQRMAlIRK~m~ss~s 538 (587)
-+. .+-. -|+. ++|+.|.+.++....
T Consensus 186 ~~~--~~~~--eps~---~~l~~l~~~ik~~~v 211 (276)
T cd01016 186 QGI--STDS--EAGL---RDINELVDLIVERKI 211 (276)
T ss_pred cCC--Cccc--CCCH---HHHHHHHHHHHHcCC
Confidence 221 1111 1222 566666666766665
No 101
>PRK13407 bchI magnesium chelatase subunit I; Provisional
Probab=43.86 E-value=60 Score=34.25 Aligned_cols=72 Identities=10% Similarity=-0.018 Sum_probs=56.2
Q ss_pred cccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHH-H------HHHHHHHHhhhcCCCCccchhHHHHHhhcCCcc
Q 007852 429 NQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFID-S------VTSFACNLAKHRKSSTLESKDILLHLEKNWHLT 501 (587)
Q Consensus 429 nqILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVd-s------Vvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~ 501 (587)
..++++.+|.++-+.+ +...+++++.+.+.+++..+=. + ++..|..+|-.++.+.|+.+||+-...--+..+
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 3567888888876554 6688999999999999988753 2 778888999999999999999966554333333
No 102
>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=43.52 E-value=50 Score=30.01 Aligned_cols=47 Identities=15% Similarity=0.288 Sum_probs=34.1
Q ss_pred HHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHH----------HHHHHHHHhhhcCCCC
Q 007852 435 RKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDS----------VTSFACNLAKHRKSST 484 (587)
Q Consensus 435 rKLqeLVrqIDP~~kLD~DVEELLLeIADDFVds----------Vvt~ACrLAKHRKSdT 484 (587)
+.+.+++++++ .-++.+.+.+.++|++..++ ++.|++.||+|-....
T Consensus 52 ~~f~~~~~~l~---~~~~~~~~~f~~v~~~lf~dg~inWGRIval~~f~~~la~~~~~~~ 108 (144)
T cd06845 52 RLFENMCRQLN---ISPDNAYEVFQEVARELFEDGGINWGRIVALFAFGGRLAVKCVEQG 108 (144)
T ss_pred HHHHHHHHHhC---CCcchHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHHHHHHcC
Confidence 34556666665 23556889999999999888 5678999999876553
No 103
>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=43.13 E-value=72 Score=29.01 Aligned_cols=46 Identities=24% Similarity=0.332 Sum_probs=33.6
Q ss_pred ccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 007852 430 QLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNL 476 (587)
Q Consensus 430 qILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrL 476 (587)
..++...|.+|...- ....+|+++.+.-++-|+.+||..+..--.+
T Consensus 9 ~~~~~~el~~ltd~~-~~~~~d~~~v~~Al~dA~~~Id~yL~~RY~l 54 (130)
T PF07030_consen 9 ARFGEQELIQLTDDD-ADGTIDPAVVEAALADASAEIDGYLRGRYDL 54 (130)
T ss_pred HHcCHHHHHHHhccc-ccCCcCHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 345556666664432 5678999999999999999999987654443
No 104
>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=41.67 E-value=53 Score=30.32 Aligned_cols=80 Identities=20% Similarity=0.246 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCC------------------ccccCCCcccccccc
Q 007852 453 EVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWH------------------LTVPGFSSEERNHQR 514 (587)
Q Consensus 453 DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWN------------------I~IPGFssDEir~yr 514 (587)
+-.+.|.+++++|++.++.....+...-+- -.+.+...+++.|. .-.|.+-+-+.-...
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 455788999999999998865433322110 01122222222221 112443333332223
Q ss_pred CCCCcHHHHHHHHHHHHhhcc
Q 007852 515 KSLSSDVHSKRLEMIRALMEP 535 (587)
Q Consensus 515 K~~pTeaHkQRMAlIRK~m~s 535 (587)
...+++.+++.+.+|-|.|-+
T Consensus 174 ~~~~~~~~~r~L~~isKvlq~ 194 (197)
T PF00616_consen 174 DKPPSPNARRNLTLISKVLQS 194 (197)
T ss_dssp SS---HHHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHH
Confidence 456689999999999988743
No 105
>PRK07639 acyl carrier protein; Provisional
Probab=41.50 E-value=8.9 Score=32.78 Aligned_cols=29 Identities=17% Similarity=0.273 Sum_probs=24.0
Q ss_pred HHhhhcCCCCccchhHHHHHhhcCCcccc
Q 007852 475 NLAKHRKSSTLESKDILLHLEKNWHLTVP 503 (587)
Q Consensus 475 rLAKHRKSdTLEvKDVQLhLERnWNI~IP 503 (587)
.|-..-+-+.+++-++.++||..||+.||
T Consensus 31 ~l~edL~lDSld~velv~~lE~~fgi~i~ 59 (86)
T PRK07639 31 RLNEDLYIDSVMMLQLIVYIEMDVKLCVP 59 (86)
T ss_pred CcccccCCChHHHHHHHHHHHHHHCCccC
Confidence 34444577888999999999999999998
No 106
>TIGR00368 Mg chelatase-related protein. The N-terminal end matches very strongly a pfam Mg_chelatase domain.
Probab=41.24 E-value=48 Score=36.77 Aligned_cols=47 Identities=9% Similarity=0.112 Sum_probs=42.6
Q ss_pred CCCCHHHHHHHHHHHHHH------HHHHHHHHHHHhhhcCCCCccchhHHHHH
Q 007852 448 GKVDPEVEDLLLEIADDF------IDSVTSFACNLAKHRKSSTLESKDILLHL 494 (587)
Q Consensus 448 ~kLD~DVEELLLeIADDF------VdsVvt~ACrLAKHRKSdTLEvKDVQLhL 494 (587)
..+|+++.++|.+.++.| .+.|+.-|..+|..++++.++.+||.-.|
T Consensus 444 ~~l~~~~~~~l~~a~~~~~lS~R~~~rilrvArTiAdL~g~~~i~~~hv~eA~ 496 (499)
T TIGR00368 444 CKLSAIDANDLEGALNKLGLSSRATHRILKVARTIADLKEEKNISREHLAEAI 496 (499)
T ss_pred cCCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHhhcCCCCCCHHHHHHHH
Confidence 458999999999999998 78899999999999999999999997665
No 107
>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=41.13 E-value=77 Score=33.45 Aligned_cols=109 Identities=12% Similarity=0.097 Sum_probs=61.2
Q ss_pred HHHHHHHHhcCCCCCCCHHHH-H------HHHHHHHHHHHHHHHHHHHHh-----hhcCCCCccchhHHHHHhhcCCccc
Q 007852 435 RKIQDLVSQVDSQGKVDPEVE-D------LLLEIADDFIDSVTSFACNLA-----KHRKSSTLESKDILLHLEKNWHLTV 502 (587)
Q Consensus 435 rKLqeLVrqIDP~~kLD~DVE-E------LLLeIADDFVdsVvt~ACrLA-----KHRKSdTLEvKDVQLhLERnWNI~I 502 (587)
.-|.+|.+.+|.-..+|.|.- + --.+.+|+-|-.++..-...- +..+.-.+++.||.-.|+. +|+.+
T Consensus 152 ~~l~~L~~~~D~viv~dNd~L~~~~~~~~~~f~~~N~~Ia~~i~~l~~~~r~~~~~~~g~invD~~dv~~~L~~-~G~~~ 230 (349)
T cd02202 152 RSLDALSEEADAIILFDNDAWKRKGESVEEAYDRINEEIARRIGLLLRAGEANAGDSVGESVLDASEVINTLSG-GGFAT 230 (349)
T ss_pred HHHHHHHHhCCEEEEEehHHHhhhccchHHHHHHHHHHHHHHHHHHHHhhhcccCCCCCeEeccHHHHHHHhcc-CCeEE
Confidence 457777777777666666642 1 112333333333332222222 2245567999999999965 79999
Q ss_pred cCCCcccccc--------ccC----CCCcHHHHHHHHHHHHhhccCCcc-cccCC
Q 007852 503 PGFSSEERNH--------QRK----SLSSDVHSKRLEMIRALMEPSQSE-TITND 544 (587)
Q Consensus 503 PGFssDEir~--------yrK----~~pTeaHkQRMAlIRK~m~ss~se-~~~~~ 544 (587)
-||+..+... .++ -...+....-..++||++.+...+ ++..+
T Consensus 231 iG~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~a~~~a~~~~L~~~~d~~~ 285 (349)
T cd02202 231 IGYAREDLETGPSDGKFRLREEDDEVDEKESISRITTLARKAAYGELTVPCDLTS 285 (349)
T ss_pred EEEEEEcccccccccccccccccccccccchhhHHHHHHHHHHcCCCCCCCCccc
Confidence 9998766421 000 001122344556888888888764 44333
No 108
>PRK09184 acyl carrier protein; Provisional
Probab=40.95 E-value=16 Score=31.85 Aligned_cols=32 Identities=9% Similarity=0.197 Sum_probs=25.2
Q ss_pred hcCCCCccchhHHHHHhhcCCccccCCCcccc
Q 007852 479 HRKSSTLESKDILLHLEKNWHLTVPGFSSEER 510 (587)
Q Consensus 479 HRKSdTLEvKDVQLhLERnWNI~IPGFssDEi 510 (587)
.=+-+.|++-++...||+.||+.||.-..+++
T Consensus 39 dLglDSld~velv~~lE~~fgi~i~~~~~~~~ 70 (89)
T PRK09184 39 GLGLDSIDILEIALVISKRYGFQLRSDNPDNQ 70 (89)
T ss_pred cCCCcHHHHHHHHHHHHHHHCCcCCCcchhhh
Confidence 45778899999999999999999985333333
No 109
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=40.50 E-value=54 Score=29.98 Aligned_cols=55 Identities=20% Similarity=0.341 Sum_probs=31.2
Q ss_pred CCHH-HHHHHHHHH-HHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccCCCccccc
Q 007852 450 VDPE-VEDLLLEIA-DDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFSSEERN 511 (587)
Q Consensus 450 LD~D-VEELLLeIA-DDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEir 511 (587)
++++ ++++|-.+. .+||||. .+|..+++.+.....-.+-|...|.+. ||+.+.|.
T Consensus 40 ~~~~~i~~vl~~l~~~~~ldD~-~~a~~~~~~~~~~~~g~~~I~~~L~~k------Gi~~~~I~ 96 (157)
T PRK00117 40 FSEEVIEAVLDRLKEEGLLDDE-RFAESFVRSRARKGYGPRRIRQELRQK------GVDREIIE 96 (157)
T ss_pred CCHHHHHHHHHHHHHcCCCCHH-HHHHHHHHHHHhCCchHHHHHHHHHHc------CCCHHHHH
Confidence 4444 444444443 4678887 888888877633223344555555543 55555443
No 110
>PLN02641 anthranilate phosphoribosyltransferase
Probab=39.54 E-value=48 Score=35.20 Aligned_cols=49 Identities=22% Similarity=0.208 Sum_probs=37.9
Q ss_pred HHHHHHhcCCCCCCCHH-HHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCcc
Q 007852 437 IQDLVSQVDSQGKVDPE-VEDLLLEIADDFIDSVTSFACNLAKHRKSSTLE 486 (587)
Q Consensus 437 LqeLVrqIDP~~kLD~D-VEELLLeIADDFVdsVvt~ACrLAKHRKSdTLE 486 (587)
+.+++++|..+..|+.| +++++-.|.|+ ++++--.|..+|-+-|.+|.|
T Consensus 4 ~~~~l~~l~~g~~Lt~eEa~~~~~~il~~-~~~~qigAfL~alr~kget~e 53 (343)
T PLN02641 4 FRQLIESLIQGTDLTEEEAEAALDFLLDD-ADEAQISAFLVLLRAKGETFE 53 (343)
T ss_pred HHHHHHHHhCCCCCCHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHhCCCHH
Confidence 56788888777777755 88999999998 888877788777776776544
No 111
>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=39.23 E-value=1e+02 Score=35.04 Aligned_cols=45 Identities=11% Similarity=0.144 Sum_probs=34.4
Q ss_pred CCCCHHHHHHHHHHHH-------------HHHHHHHHHHHHHhhhcCCCCccchhHHH
Q 007852 448 GKVDPEVEDLLLEIAD-------------DFIDSVTSFACNLAKHRKSSTLESKDILL 492 (587)
Q Consensus 448 ~kLD~DVEELLLeIAD-------------DFVdsVvt~ACrLAKHRKSdTLEvKDVQL 492 (587)
..||+++.+.|++.+- .-+.+++..|...|+.+++++|+.+||.-
T Consensus 329 ~~~s~~Av~~Li~~~~R~ag~r~~lsl~~R~L~~llR~A~~iA~~~~~~~I~~ehV~~ 386 (608)
T TIGR00764 329 PHFTRDAVEEIVREAQRRAGRKDHLTLRLRELGGLVRAAGDIAKSSGKVYVTAEHVLK 386 (608)
T ss_pred CcCCHHHHHHHHHHHHHHHhcccccCCCHHHHHHHHHHHHHHHHhcCCceecHHHHHH
Confidence 3688887766665433 45778888888888889999999999975
No 112
>PRK06508 acyl carrier protein; Provisional
Probab=38.97 E-value=26 Score=30.83 Aligned_cols=31 Identities=16% Similarity=0.270 Sum_probs=25.0
Q ss_pred HHhhhcCCCCccchhHHHHHhhcCCccccCC
Q 007852 475 NLAKHRKSSTLESKDILLHLEKNWHLTVPGF 505 (587)
Q Consensus 475 rLAKHRKSdTLEvKDVQLhLERnWNI~IPGF 505 (587)
.+-+--+-+.|+.-|+.+.||+.||++||.-
T Consensus 28 ~~~edL~~DSLd~veli~~lE~eFgI~i~~e 58 (93)
T PRK06508 28 HTIDDLGIDSLDFLDIVFAIDKAFGIKLPLE 58 (93)
T ss_pred cchhccCCCHHHHHHHHHHHHHHHCCccCHH
Confidence 3444557788999999999999999998853
No 113
>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=38.24 E-value=32 Score=29.81 Aligned_cols=32 Identities=16% Similarity=0.213 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHhhhcCCCCccchhHHHHH
Q 007852 462 ADDFIDSVTSFACNLAKHRKSSTLESKDILLHL 494 (587)
Q Consensus 462 ADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhL 494 (587)
+.+++..++...+.+|+-.+.. ++.+++.-++
T Consensus 36 ~~~~~~~l~~E~~~va~a~G~~-l~~~~~~~~~ 67 (125)
T PF08546_consen 36 ARELIRALMREVIAVARALGIP-LDPDDLEEAI 67 (125)
T ss_dssp HHHHHHHHHHHHHHHHHHTTSS---HHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhhcc-CcHHHHHHHH
Confidence 3344444444444555544444 4444443333
No 114
>PRK07081 acyl carrier protein; Provisional
Probab=37.24 E-value=11 Score=31.89 Aligned_cols=24 Identities=21% Similarity=0.530 Sum_probs=21.3
Q ss_pred CCCCccchhHHHHHhhcCCccccC
Q 007852 481 KSSTLESKDILLHLEKNWHLTVPG 504 (587)
Q Consensus 481 KSdTLEvKDVQLhLERnWNI~IPG 504 (587)
+-+.+++-++..+||+.||+.||-
T Consensus 32 GlDSl~~v~li~~lE~~f~I~i~~ 55 (83)
T PRK07081 32 GLSSLATVQLMLAIEDAFDIEIPD 55 (83)
T ss_pred CCCHHHHHHHHHHHHHHhCCcCCH
Confidence 677889999999999999999873
No 115
>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=37.07 E-value=82 Score=32.66 Aligned_cols=101 Identities=14% Similarity=0.105 Sum_probs=65.8
Q ss_pred hHHHHHHHHhcCCCCCCCHHHHHH---------HHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccC
Q 007852 434 KRKIQDLVSQVDSQGKVDPEVEDL---------LLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPG 504 (587)
Q Consensus 434 KrKLqeLVrqIDP~~kLD~DVEEL---------LLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPG 504 (587)
..-|.+|.+.+|.-..+|.|.--- -.+.+|+.|-..+..-..+-++.+.-.++++||.-.|+. =|+.+=|
T Consensus 137 ~~~l~~L~~~~D~~iv~dN~~L~~~~~~~~~~~af~~~N~~ia~~i~~it~~i~~~g~invD~~dv~~~l~~-~G~a~ig 215 (303)
T cd02191 137 AEGFQTLVREVDNLMVIPNEKLRQIGEKASLEGAFDHADEVLVRAVGGLFGAIEIEGEINVDFADVKNVMDG-GGVAMVG 215 (303)
T ss_pred HHHHHHHHHhCCEEEEEehHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHhhccCCcccCCHHHHHHHhcc-CCeEEEE
Confidence 345667777777655666552211 234456666666666666667778889999999999964 5888888
Q ss_pred CCccccccccCCCCcHHHHHHHHHHHHhhccCCcc-cccCChH
Q 007852 505 FSSEERNHQRKSLSSDVHSKRLEMIRALMEPSQSE-TITNDPR 546 (587)
Q Consensus 505 FssDEir~yrK~~pTeaHkQRMAlIRK~m~ss~se-~~~~~~~ 546 (587)
||..+- .+.=..+++|++.+...+ ++..+++
T Consensus 216 ~g~~~g-----------~~~~~~a~~~Al~~pll~~~~~~~A~ 247 (303)
T cd02191 216 YGSEDV-----------TNRATEAVRKAALGPLLLPCEIEGAE 247 (303)
T ss_pred EEEecC-----------chHHHHHHHHHHhCCCCCCCCcccCC
Confidence 876552 223345889999888776 4444444
No 116
>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=36.57 E-value=97 Score=26.30 Aligned_cols=19 Identities=21% Similarity=0.298 Sum_probs=13.9
Q ss_pred HHhhcCCccccCCCccccc
Q 007852 493 HLEKNWHLTVPGFSSEERN 511 (587)
Q Consensus 493 hLERnWNI~IPGFssDEir 511 (587)
+|.+.+.+.|+|||.=+++
T Consensus 36 ~L~~g~~V~l~gfG~F~~~ 54 (94)
T TIGR00988 36 ALAQGDRIEIRGFGSFSLH 54 (94)
T ss_pred HHHcCCeEEEcCcEEEEEE
Confidence 4456778888999886655
No 117
>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=36.05 E-value=1.6e+02 Score=31.63 Aligned_cols=80 Identities=11% Similarity=0.154 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHH-------hhh-c-----CCCCccchhHHHH------HhhcCCccccCCCccccccccCC
Q 007852 456 DLLLEIADDFIDSVTSFACNL-------AKH-R-----KSSTLESKDILLH------LEKNWHLTVPGFSSEERNHQRKS 516 (587)
Q Consensus 456 ELLLeIADDFVdsVvt~ACrL-------AKH-R-----KSdTLEvKDVQLh------LERnWNI~IPGFssDEir~yrK~ 516 (587)
+.|.++++.|++.|++.+..+ +|| | +...-+-+|+.+. +=|-++ |..-+-+.-.....
T Consensus 148 ~~L~~~~~~~l~~I~~S~~~~P~~iR~i~~~l~~~v~~rFp~~~~~~~~~~~VggFiFLRFic---PAIvSP~~f~L~~~ 224 (337)
T cd05395 148 QLLQSYLGELLTAILQSASYCPLVIRAVFRQLFLRVQERFPDPQYRKVKFIAVTSFLCLRFFS---PAIMSPKLFHLREK 224 (337)
T ss_pred HHHHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHCCCcchhhhHHHHHHHHHHHHHhc---cccCCchhcCccCC
Confidence 568899999999999865433 333 0 0000000122211 122211 33333233223455
Q ss_pred CCcHHHHHHHHHHHHhhccCCc
Q 007852 517 LSSDVHSKRLEMIRALMEPSQS 538 (587)
Q Consensus 517 ~pTeaHkQRMAlIRK~m~ss~s 538 (587)
.+++..+.-|.+|-|.|-.-+.
T Consensus 225 ~p~~~~rR~LtLIAKvLQnLAN 246 (337)
T cd05395 225 HADARTSRTLLLLAKAVQTVGN 246 (337)
T ss_pred CCCHHHHhHHHHHHHHHHHHhC
Confidence 6777777788888888765443
No 118
>PF13335 Mg_chelatase_2: Magnesium chelatase, subunit ChlI
Probab=36.05 E-value=91 Score=27.36 Aligned_cols=47 Identities=19% Similarity=0.241 Sum_probs=41.6
Q ss_pred CCCCHHHHHHHHHHHHHH------HHHHHHHHHHHhhhcCCCCccchhHHHHH
Q 007852 448 GKVDPEVEDLLLEIADDF------IDSVTSFACNLAKHRKSSTLESKDILLHL 494 (587)
Q Consensus 448 ~kLD~DVEELLLeIADDF------VdsVvt~ACrLAKHRKSdTLEvKDVQLhL 494 (587)
..||+++.++|-++++.| ++.|+.-|-.+|-.-+++.|+..||.-.|
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 468999999999999988 67788889999999999999999987655
No 119
>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=35.73 E-value=1.2e+02 Score=27.44 Aligned_cols=88 Identities=9% Similarity=0.095 Sum_probs=55.2
Q ss_pred HHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCC-ccchhH-HHHHhhcCCccccCCCcccccccc
Q 007852 437 IQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSST-LESKDI-LLHLEKNWHLTVPGFSSEERNHQR 514 (587)
Q Consensus 437 LqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdT-LEvKDV-QLhLERnWNI~IPGFssDEir~yr 514 (587)
+.+|+..+..+ | ++.+-++.+.|...|..++.++.+.+..+. .+++|| +=++-|-|.-.++.|..+ ..++
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 45556554433 2 456777778888888888887777665332 278997 567777886455666432 3456
Q ss_pred CCCCcHHHHHHHHHHHHh
Q 007852 515 KSLSSDVHSKRLEMIRAL 532 (587)
Q Consensus 515 K~~pTeaHkQRMAlIRK~ 532 (587)
.|.-+-.++.=+..+||.
T Consensus 76 ~wl~~i~~n~~~d~~R~~ 93 (183)
T TIGR02999 76 AAAAKAMRRILVDHARRR 93 (183)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 666665666656666653
No 120
>PRK13406 bchD magnesium chelatase subunit D; Provisional
Probab=35.73 E-value=1.3e+02 Score=34.29 Aligned_cols=65 Identities=15% Similarity=0.018 Sum_probs=50.7
Q ss_pred HHHHHHHhcCCCCCCCHHHHHHHHHHHHHHH-------HHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCcc
Q 007852 436 KIQDLVSQVDSQGKVDPEVEDLLLEIADDFI-------DSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLT 501 (587)
Q Consensus 436 KLqeLVrqIDP~~kLD~DVEELLLeIADDFV-------dsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~ 501 (587)
+|.+.-+.+ ++..+++++.+.+.+++.+|- ..++..|..+|-.++.+.|+.+||...++=-+..+
T Consensus 183 ~I~~AR~rl-~~v~v~~~~l~~i~~~~~~~gv~S~Ra~i~llraARa~AaL~Gr~~V~~~dv~~Aa~lvL~hR 254 (584)
T PRK13406 183 DIAAARARL-PAVGPPPEAIAALCAAAAALGIASLRAPLLALRAARAAAALAGRTAVEEEDLALAARLVLAPR 254 (584)
T ss_pred HHHHHHHHH-ccCCCCHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHhh
Confidence 444443344 578999999999999999985 35677889999999999999999987776555433
No 121
>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=35.31 E-value=44 Score=31.89 Aligned_cols=77 Identities=10% Similarity=0.074 Sum_probs=49.3
Q ss_pred cCChHHHHHHHHhcCC-CCCCCHHHHHHHHHHHHHHHHHHHHH----HHHHhhhcCCCCccchhHHHHHhhcCCccccCC
Q 007852 431 LLGKRKIQDLVSQVDS-QGKVDPEVEDLLLEIADDFIDSVTSF----ACNLAKHRKSSTLESKDILLHLEKNWHLTVPGF 505 (587)
Q Consensus 431 ILtKrKLqeLVrqIDP-~~kLD~DVEELLLeIADDFVdsVvt~----ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGF 505 (587)
-++-.....+++.|.. -.++||+-++...+=+++|++.+-.. ...+++..+...+..-|.--||.|.||+.+-|+
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 4455666666665532 23566677777777777787776544 233444444445666898999999999997554
Q ss_pred Cc
Q 007852 506 SS 507 (587)
Q Consensus 506 ss 507 (587)
-.
T Consensus 191 ~~ 192 (203)
T cd01145 191 LE 192 (203)
T ss_pred ec
Confidence 33
No 122
>TIGR00362 DnaA chromosomal replication initiator protein DnaA. DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).
Probab=35.12 E-value=47 Score=34.69 Aligned_cols=97 Identities=12% Similarity=0.156 Sum_probs=48.5
Q ss_pred cCChHHHHHHHHhcCCCCC-CCHHHHHHHHH--------HHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCcc
Q 007852 431 LLGKRKIQDLVSQVDSQGK-VDPEVEDLLLE--------IADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLT 501 (587)
Q Consensus 431 ILtKrKLqeLVrqIDP~~k-LD~DVEELLLe--------IADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~ 501 (587)
.|+.+.|.-|++.++.+.. |...+.. |.. |..+|++.++...+. .+...+++.+|.-...+.||+.
T Consensus 287 ~l~~e~l~~ia~~~~~~~r~l~~~l~~-l~~~a~~~~~~it~~~~~~~L~~~~~----~~~~~it~~~I~~~Va~~~~v~ 361 (405)
T TIGR00362 287 ELPDEVLEFIAKNIRSNVRELEGALNR-LLAYASLTGKPITLELAKEALKDLLR----AKKKEITIENIQEVVAKYYNIK 361 (405)
T ss_pred CCCHHHHHHHHHhcCCCHHHHHHHHHH-HHHHHHHhCCCCCHHHHHHHHHHhcc----ccCCCCCHHHHHHHHHHHcCCC
Confidence 3456666666666655443 1111111 111 122466666654432 1234588888888888888776
Q ss_pred ccCCCccccccc-cCCCCcHHHHHHHHHHHHhhccCC
Q 007852 502 VPGFSSEERNHQ-RKSLSSDVHSKRLEMIRALMEPSQ 537 (587)
Q Consensus 502 IPGFssDEir~y-rK~~pTeaHkQRMAlIRK~m~ss~ 537 (587)
+ +|++.- |+.....+-.==|-+.|+...-+.
T Consensus 362 ~-----~~l~~~~r~~~~~~~R~~amyl~~~~~~~s~ 393 (405)
T TIGR00362 362 V-----SDLKSKKRTRNIVRPRQIAMYLAKELTDLSL 393 (405)
T ss_pred H-----HHHhCCCCCcccchHHHHHHHHHHHHcCCCH
Confidence 3 355432 232333333333446676665543
No 123
>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=35.07 E-value=1.7e+02 Score=23.34 Aligned_cols=48 Identities=19% Similarity=0.091 Sum_probs=33.9
Q ss_pred CCCCCHHHHHHHHHHHH--HHHHHHHHHHHHHhhhcCCCCccchhHHHHHhh
Q 007852 447 QGKVDPEVEDLLLEIAD--DFIDSVTSFACNLAKHRKSSTLESKDILLHLEK 496 (587)
Q Consensus 447 ~~kLD~DVEELLLeIAD--DFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLER 496 (587)
...+.+-..+.|.++.| +|=.+|+..||..|.-++... ++-|.=+|++
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 35678888888999999 999999999999999554433 5555545543
No 124
>PLN00153 histone H2A; Provisional
Probab=34.93 E-value=96 Score=29.56 Aligned_cols=66 Identities=14% Similarity=0.187 Sum_probs=58.3
Q ss_pred ccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHh
Q 007852 430 QLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLE 495 (587)
Q Consensus 430 qILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLE 495 (587)
=.++=-+++.++++-.-..++...+--.|.-+.|-++.+|++.|...|+.-|...|..+.|++.+.
T Consensus 23 L~FpVgRi~R~Lr~g~~a~Rvga~A~VYLAAVLEYLtaEVLELAgnaa~d~kk~RItPrHi~lAI~ 88 (129)
T PLN00153 23 LQFPVGRIARYLKKGKYAERIGAGAPVYLAAVLEYLTAEVLELAGNAARDNKKNRIVPRHIQLAIR 88 (129)
T ss_pred cccchHHHHHHHhcCchhhccCCCchHHHHHHHHHHHHHHHHHHHHHHHhcCCCccChHHHHhhcc
Confidence 355777899999987777788888888999999999999999999999999999999999998874
No 125
>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=34.72 E-value=74 Score=27.12 Aligned_cols=35 Identities=23% Similarity=0.432 Sum_probs=26.9
Q ss_pred HHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 007852 435 RKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSF 472 (587)
Q Consensus 435 rKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ 472 (587)
..++.-+ +||.+. |++.++.+++-|.++|++.+..
T Consensus 3 ~~vK~~L-rId~d~--dD~li~~~i~aA~~~i~~~ig~ 37 (91)
T TIGR01560 3 DEVKLSL-RIDHDD--DDELIKLMIAAAQDYIQSAIGT 37 (91)
T ss_pred HHHHhHh-cCCCCc--cHHHHHHHHHHHHHHHHHHhCC
Confidence 3455555 588875 8999999999999999887653
No 126
>PRK08305 spoVFB dipicolinate synthase subunit B; Reviewed
Probab=34.60 E-value=45 Score=33.10 Aligned_cols=79 Identities=15% Similarity=0.241 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh-hhcCCCCc----------cchhHHHHHhhcCCccccCCCccccccccCCCCcH
Q 007852 452 PEVEDLLLEIADDFIDSVTSFACNLA-KHRKSSTL----------ESKDILLHLEKNWHLTVPGFSSEERNHQRKSLSSD 520 (587)
Q Consensus 452 ~DVEELLLeIADDFVdsVvt~ACrLA-KHRKSdTL----------EvKDVQLhLERnWNI~IPGFssDEir~yrK~~pTe 520 (587)
|-.-..|-+||.-+-|+.++.+|..+ |.|+ ..| +-.+-.-.|++.||+.|-+||-|+ +++|+.+
T Consensus 92 PaSanTLAKiA~GiaDnll~~aa~a~lke~~-PvvlaPAMN~~M~~~~~ni~~L~~~~g~~~i~~~~~~--~~~~~~~-- 166 (196)
T PRK08305 92 PCTGNTMAKLANAITDSPVLMAAKATLRNQR-PVVLAISTNDALGLNAKNLGRLLNTKNIYFVPFGQDD--PVKKPNS-- 166 (196)
T ss_pred eCCHhHHHHHHccccCcHHHHHHHHHhcCCC-CEEEEECCCHHHHhCHHHHHHHHhcCCEEEEecCCCC--CCCCchh--
Confidence 34457888999888899999888764 2222 111 102223345666999999999999 6677765
Q ss_pred HHHHHHHHHHHhhccC
Q 007852 521 VHSKRLEMIRALMEPS 536 (587)
Q Consensus 521 aHkQRMAlIRK~m~ss 536 (587)
.+-|+.++-.+++.+
T Consensus 167 -~~~~~~~~~~~~~~~ 181 (196)
T PRK08305 167 -LVARMDLLIDTVEEA 181 (196)
T ss_pred -HHhhHHhhHHHHHHH
Confidence 445777777666543
No 127
>PRK08727 hypothetical protein; Validated
Probab=34.24 E-value=1.4e+02 Score=29.19 Aligned_cols=65 Identities=12% Similarity=0.057 Sum_probs=41.5
Q ss_pred CChHHHHHHHHhc--CCCCCCCHHHHHHHHHHHH-HH--HHHHHHHHHHHhhhcCCCCccchhHHHHHhhc
Q 007852 432 LGKRKIQDLVSQV--DSQGKVDPEVEDLLLEIAD-DF--IDSVTSFACNLAKHRKSSTLESKDILLHLEKN 497 (587)
Q Consensus 432 LtKrKLqeLVrqI--DP~~kLD~DVEELLLeIAD-DF--VdsVvt~ACrLAKHRKSdTLEvKDVQLhLERn 497 (587)
++...+.+++++. +....+|+||.+.|++-++ |+ +.++++..-..+...+. .|++..|+-+|+++
T Consensus 162 ~~~e~~~~iL~~~a~~~~l~l~~e~~~~La~~~~rd~r~~l~~L~~l~~~~~~~~~-~it~~~~~~~l~~~ 231 (233)
T PRK08727 162 LDDVARAAVLRERAQRRGLALDEAAIDWLLTHGERELAGLVALLDRLDRESLAAKR-RVTVPFLRRVLEEG 231 (233)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHhhc
Confidence 3455666666642 3467899999999999987 32 33334444333333333 58888888888764
No 128
>PLN03214 probable enoyl-CoA hydratase/isomerase; Provisional
Probab=34.11 E-value=6.6 Score=39.43 Aligned_cols=107 Identities=15% Similarity=0.178 Sum_probs=54.9
Q ss_pred ccccCChHHHHHHHHhcCCCCCCCHH-HHHH--HHHH--HHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccc
Q 007852 428 TNQLLGKRKIQDLVSQVDSQGKVDPE-VEDL--LLEI--ADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTV 502 (587)
Q Consensus 428 tnqILtKrKLqeLVrqIDP~~kLD~D-VEEL--LLeI--ADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 502 (587)
..+++++.+-.+|+-.- ..|+.+ ++++ +-++ .|++.+.+..++.+|++ .....++-++-.+.+.|+..+
T Consensus 160 l~~~~G~~~a~~llltg---~~~~a~eA~~~Glv~~vv~~~~l~~~a~~~a~~l~~---~~~~a~~~~K~~l~~~~~~~l 233 (278)
T PLN03214 160 MGRVIDRKVAESLLLRG---RLVRPAEAKQLGLIDEVVPAAALMEAAASAMERALK---LPSAARAATKALLREEFSAAW 233 (278)
T ss_pred HHHhcCHHHHHHHHHcC---CccCHHHHHHcCCCcEecChHHHHHHHHHHHHHHHc---CCHHHHHHHHHHHHhhHHHHH
Confidence 45778888888887432 223222 1111 0111 13344444444444443 223444445555555555554
Q ss_pred cCCCccccccccCCCCcHHHHHHHHHHHHhhccCCccc
Q 007852 503 PGFSSEERNHQRKSLSSDVHSKRLEMIRALMEPSQSET 540 (587)
Q Consensus 503 PGFssDEir~yrK~~pTeaHkQRMAlIRK~m~ss~se~ 540 (587)
...-..|.+...+...++++++.+..+-+-+++-+-++
T Consensus 234 ~~~~~~e~~~~~~~~~s~d~~egi~aflek~~~~~~~~ 271 (278)
T PLN03214 234 EAYYEEEAKGGWKMLSEPSIIKALGGVMERLSSGKEKK 271 (278)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhccccc
Confidence 44333454445556678888888887655555544443
No 129
>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=33.87 E-value=1.7e+02 Score=30.85 Aligned_cols=80 Identities=13% Similarity=0.160 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh-------hcCCC---C-ccchhHHH------HHhhcCCccccCCCccccccccCCCC
Q 007852 456 DLLLEIADDFIDSVTSFACNLAK-------HRKSS---T-LESKDILL------HLEKNWHLTVPGFSSEERNHQRKSLS 518 (587)
Q Consensus 456 ELLLeIADDFVdsVvt~ACrLAK-------HRKSd---T-LEvKDVQL------hLERnWNI~IPGFssDEir~yrK~~p 518 (587)
+.|.+++++|++.|++..+.+.. +=+.. . .+.+|+.+ ..=|-+ -|.+-+-+.-......+
T Consensus 132 ~~L~~~~~~~~~~I~~S~~~~P~~lr~i~~~l~~~v~~kFp~~~~~~~~~V~gfiFLRfi---~PAIvsP~~f~l~~~~p 208 (315)
T cd05128 132 ENLRYYLDRLFEAITKSSVSCPTVMCDIFYQLRERVGERFPGDPDVQYLAVSSFLFLRFF---APAILSPKLFHLRPHHA 208 (315)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCCccchHHHHHHHHHHHHH---hHHhcChHhcCCCCCCC
Confidence 57899999999999986544432 11110 0 01112221 111211 23333333222344556
Q ss_pred cHHHHHHHHHHHHhhccCCc
Q 007852 519 SDVHSKRLEMIRALMEPSQS 538 (587)
Q Consensus 519 TeaHkQRMAlIRK~m~ss~s 538 (587)
+...++-|.+|-|.+-.-..
T Consensus 209 ~~~~rR~L~lIaKvLQnlaN 228 (315)
T cd05128 209 DARTSRTLLLLSKAVQTLGN 228 (315)
T ss_pred CHHHHHHHHHHHHHHHHHhC
Confidence 77778888899998876555
No 130
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=33.41 E-value=1e+02 Score=31.27 Aligned_cols=66 Identities=8% Similarity=0.063 Sum_probs=47.4
Q ss_pred cCChHHHHHHHHhcC--CCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHHhhhcCCCCccchhHHHHHhh
Q 007852 431 LLGKRKIQDLVSQVD--SQGKVDPEVEDLLLEIADD---FIDSVTSFACNLAKHRKSSTLESKDILLHLEK 496 (587)
Q Consensus 431 ILtKrKLqeLVrqID--P~~kLD~DVEELLLeIADD---FVdsVvt~ACrLAKHRKSdTLEvKDVQLhLER 496 (587)
.++...+.++++..- -+..+|+|+.+.|.+.++- ++..++...+..|.-++...++..+|.-.|+.
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 567777777776552 3457899988888877744 36666677777776666678999999888854
No 131
>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=33.41 E-value=98 Score=28.80 Aligned_cols=17 Identities=18% Similarity=0.315 Sum_probs=8.0
Q ss_pred cchhHHHHHhhcCCccc
Q 007852 486 ESKDILLHLEKNWHLTV 502 (587)
Q Consensus 486 EvKDVQLhLERnWNI~I 502 (587)
+||+-.+.|=+.|...+
T Consensus 101 ~Vk~kil~li~~W~~~f 117 (141)
T cd03565 101 IVQEKVLALIQAWADAF 117 (141)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 44444444444454444
No 132
>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=33.25 E-value=1.1e+02 Score=30.68 Aligned_cols=31 Identities=16% Similarity=0.262 Sum_probs=28.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 007852 448 GKVDPEVEDLLLEIADDFIDSVTSFACNLAK 478 (587)
Q Consensus 448 ~kLD~DVEELLLeIADDFVdsVvt~ACrLAK 478 (587)
+.+++|+.++|.--.|.|+.++++..+.++|
T Consensus 222 ~gvs~~~a~ll~~ale~~LK~lI~s~l~~~r 252 (252)
T PF12767_consen 222 GGVSDDCANLLNLALEVHLKNLIKSCLDLVR 252 (252)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 5799999999999999999999999998875
No 133
>COG4296 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.81 E-value=36 Score=33.11 Aligned_cols=60 Identities=23% Similarity=0.288 Sum_probs=35.2
Q ss_pred CHHHHHHHHHHHHHHHHHHHHH---HHHHhhhcCCCCccchhHHHHHhhcCCccccCCCccccccccCCCCcHHHHHHHH
Q 007852 451 DPEVEDLLLEIADDFIDSVTSF---ACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFSSEERNHQRKSLSSDVHSKRLE 527 (587)
Q Consensus 451 D~DVEELLLeIADDFVdsVvt~---ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEir~yrK~~pTeaHkQRMA 527 (587)
|++-.|-++..||+|+.+.... +|+.|- .+-|+.|. .-.|| -|| ...+.|..|+||+
T Consensus 53 D~~~~~s~l~~a~~f~rnql~~~k~~~~yaV---~klL~lkn-E~Wle-----------EDe-----~~iTpE~fk~Rm~ 112 (156)
T COG4296 53 DGAGQDSLLVYADAFLRNQLRRDKPGLRYAV---AKLLTLKN-EDWLE-----------EDE-----QPITPESFKERMA 112 (156)
T ss_pred CCcchhhHHHHHHHHHHHHHHhcchHHHHHH---HHHHhcch-hhhhh-----------ccC-----CccCHHHHHHHhh
Confidence 4456788999999999987765 444442 11122221 11111 222 3456799999998
Q ss_pred HHH
Q 007852 528 MIR 530 (587)
Q Consensus 528 lIR 530 (587)
+=.
T Consensus 113 Le~ 115 (156)
T COG4296 113 LEN 115 (156)
T ss_pred hhc
Confidence 744
No 134
>CHL00176 ftsH cell division protein; Validated
Probab=32.47 E-value=1.7e+02 Score=33.65 Aligned_cols=66 Identities=18% Similarity=0.242 Sum_probs=43.3
Q ss_pred CChHHHHHHHHhcCCCCCCCHHH-HHHHHHHHHH----HHHHHHHHHHHHhhhcCCCCccchhHHHHHhhc
Q 007852 432 LGKRKIQDLVSQVDSQGKVDPEV-EDLLLEIADD----FIDSVTSFACNLAKHRKSSTLESKDILLHLEKN 497 (587)
Q Consensus 432 LtKrKLqeLVrqIDP~~kLD~DV-EELLLeIADD----FVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERn 497 (587)
-+.+...++++..-....+++++ -+.|.+.++- -|.+++..|+.+|..|+...|+..|+...++|-
T Consensus 353 Pd~~~R~~IL~~~l~~~~~~~d~~l~~lA~~t~G~sgaDL~~lvneAal~a~r~~~~~It~~dl~~Ai~rv 423 (638)
T CHL00176 353 PDREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLANLLNEAAILTARRKKATITMKEIDTAIDRV 423 (638)
T ss_pred CCHHHHHHHHHHHHhhcccchhHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhCCCCcCHHHHHHHHHHH
Confidence 34455555555544444555543 2223332222 477899999999888888899999999999984
No 135
>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=32.40 E-value=20 Score=30.62 Aligned_cols=21 Identities=19% Similarity=0.539 Sum_probs=17.1
Q ss_pred CccchhHHHHHhhcCCccccC
Q 007852 484 TLESKDILLHLEKNWHLTVPG 504 (587)
Q Consensus 484 TLEvKDVQLhLERnWNI~IPG 504 (587)
.+.+-++.+.||..|++.||-
T Consensus 33 S~~~v~Li~~lE~ef~I~i~~ 53 (73)
T TIGR01688 33 SFGTVQLLLEIQNQFDIDVPI 53 (73)
T ss_pred HHHHHHHHHHHHHHhCCccCH
Confidence 355677899999999999883
No 136
>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]
Probab=32.21 E-value=56 Score=38.30 Aligned_cols=69 Identities=28% Similarity=0.452 Sum_probs=48.8
Q ss_pred HHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCC--------CccchhHHHHHhhcCCccc-cC
Q 007852 436 KIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSS--------TLESKDILLHLEKNWHLTV-PG 504 (587)
Q Consensus 436 KLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSd--------TLEvKDVQLhLERnWNI~I-PG 504 (587)
.+.+.+.+.|.-..||+...|.|+.|.-||..-.+...|..|..|-|+ -.++--|--+|++.|+|.. ||
T Consensus 710 a~~~I~~e~d~ii~ld~k~~e~l~~i~~df~~c~c~d~ce~~~~~lse~ii~lR~~gk~p~~Isr~l~~~Ygi~aYpg 787 (830)
T COG1202 710 ALLDILEEGDKIIELDPKLKEKLLLIYMDFLNCTCRDCCECAEQRLSEKIIELRIEGKDPSQISRILEKRYGIQAYPG 787 (830)
T ss_pred HHHHHHhchhhhhcCCHHHHHHHHHHHHHHhcCchhhhHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHhhCeeecCh
Confidence 445566666766689999999999999999764444445444443332 2566678899999999885 55
No 137
>PRK13342 recombination factor protein RarA; Reviewed
Probab=31.48 E-value=1.5e+02 Score=31.49 Aligned_cols=62 Identities=18% Similarity=0.192 Sum_probs=41.0
Q ss_pred cCChHHHHHHHHhc----CCCC-CCCHHHHHHHHHHHHHHHH---HHHHHHHHHhhhcCCCCccchhHHHHHhhc
Q 007852 431 LLGKRKIQDLVSQV----DSQG-KVDPEVEDLLLEIADDFID---SVTSFACNLAKHRKSSTLESKDILLHLEKN 497 (587)
Q Consensus 431 ILtKrKLqeLVrqI----DP~~-kLD~DVEELLLeIADDFVd---sVvt~ACrLAKHRKSdTLEvKDVQLhLERn 497 (587)
-+++..+.++++++ +.+. .+++++.+.|+++++.-+. ++++.+|.+ ...|+.+||.-.+.+.
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 44566777777664 2233 7999999999998764443 344444433 4568999998888764
No 138
>PRK05087 D-alanine--poly(phosphoribitol) ligase subunit 2; Validated
Probab=31.20 E-value=22 Score=30.13 Aligned_cols=23 Identities=22% Similarity=0.530 Sum_probs=19.7
Q ss_pred CCCccchhHHHHHhhcCCccccC
Q 007852 482 SSTLESKDILLHLEKNWHLTVPG 504 (587)
Q Consensus 482 SdTLEvKDVQLhLERnWNI~IPG 504 (587)
-+.+++-++.+.||+.||++||.
T Consensus 34 lDSl~~veli~~lE~~fgi~i~~ 56 (78)
T PRK05087 34 LDSMGTVELLVELENRFDIEVPV 56 (78)
T ss_pred cchHHHHHHHHHHHHHhCCccCh
Confidence 46678888999999999999873
No 139
>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=31.06 E-value=27 Score=36.07 Aligned_cols=58 Identities=14% Similarity=0.221 Sum_probs=44.1
Q ss_pred HHHHHHH-hcCCCCCCCHHHHHHHHHHHHH-----------------HHHHHHHHHHHHhhhcCCCCccchhHHHHHh
Q 007852 436 KIQDLVS-QVDSQGKVDPEVEDLLLEIADD-----------------FIDSVTSFACNLAKHRKSSTLESKDILLHLE 495 (587)
Q Consensus 436 KLqeLVr-qIDP~~kLD~DVEELLLeIADD-----------------FVdsVvt~ACrLAKHRKSdTLEvKDVQLhLE 495 (587)
+.-.++| .+.| .|++|++++|.++--+ .+++++.-|...||-|-+++|+.+||..+++
T Consensus 249 ~yI~yar~~~~P--~ls~ea~~~I~~~Yv~lR~~~~~~~~~~~iT~R~LeSLIRLseA~AKl~lr~~V~~~Dv~~Ai~ 324 (331)
T PF00493_consen 249 KYIAYARQNIHP--VLSEEAKELIINYYVELRKESKSNNKSIPITIRQLESLIRLSEAHAKLRLRDEVTEEDVEEAIR 324 (331)
T ss_dssp HHHHHHHHHC----EE-HHCHHHHHHHHCCCCHCHHCHSS-B-SSCCCCCHHHHHHHHHHHCTTSSECSHHHHHHHHH
T ss_pred HHHHHHHhhccc--ccCHHHHHHHHHHHHHhcccccccccccccchhhHHHHHHHHHHHHHHhccCceeHHHHHHHHH
Confidence 4555667 6766 7999999998776321 3578999999999999999999999987764
No 140
>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=30.44 E-value=1.6e+02 Score=25.13 Aligned_cols=83 Identities=12% Similarity=0.109 Sum_probs=49.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccC---CCccccc-cccCCCCcHHHHHH-HHHH
Q 007852 455 EDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPG---FSSEERN-HQRKSLSSDVHSKR-LEMI 529 (587)
Q Consensus 455 EELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPG---FssDEir-~yrK~~pTeaHkQR-MAlI 529 (587)
++.|..++|+|.+.|... ..++..-.. ++..++.-.+.+-|-..+-| |.+.+.+ .-+.-..++.|-.+ +..+
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 467888999999997765 345554432 33666666666666555433 3233332 12233466666555 4588
Q ss_pred HHhhccCCccc
Q 007852 530 RALMEPSQSET 540 (587)
Q Consensus 530 RK~m~ss~se~ 540 (587)
+++|+.-....
T Consensus 86 ~~al~~~~~~~ 96 (116)
T cd00454 86 RDALDELGVPA 96 (116)
T ss_pred HHHHHHhCCCH
Confidence 88888766543
No 141
>PRK14700 recombination factor protein RarA; Provisional
Probab=30.41 E-value=2.3e+02 Score=30.33 Aligned_cols=93 Identities=9% Similarity=0.021 Sum_probs=55.2
Q ss_pred CChHHHHHHHHhcC--------CCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCc
Q 007852 432 LGKRKIQDLVSQVD--------SQGKVDPEVEDLLLEIADD---FIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHL 500 (587)
Q Consensus 432 LtKrKLqeLVrqID--------P~~kLD~DVEELLLeIADD---FVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI 500 (587)
|++..|..++++.= ....+|+|+.+.|.+++|- +.=++++.+|.++...+...|+.++|+-.+.+..
T Consensus 39 L~~~di~~il~ral~~~~~~~~~~~~i~~~al~~ia~~a~GDaR~aLN~LE~a~~~~~~~~~~~it~~~~~~~~~~~~-- 116 (300)
T PRK14700 39 LSLVATQKLIEKALSQDEVLAKHKFKIDDGLYNAMHNYNEGDCRKILNLLERMFLISTRGDEIYLNKELFDQAVGETS-- 116 (300)
T ss_pred CCHHHHHHHHHHHHHhhhccCCcCCCcCHHHHHHHHHhcCCHHHHHHHHHHHHHhhccccCCCccCHHHHHHHHhHHH--
Confidence 45556666664432 1357999999999999874 2334556666544222122377777766665431
Q ss_pred cccCCCccccccccCCCCcHHHHHHHHHHHHhhccCCc
Q 007852 501 TVPGFSSEERNHQRKSLSSDVHSKRLEMIRALMEPSQS 538 (587)
Q Consensus 501 ~IPGFssDEir~yrK~~pTeaHkQRMAlIRK~m~ss~s 538 (587)
. .|. ...+.|=.=+.++-|.|.-|..
T Consensus 117 --~--------~yD--k~gd~HYd~iSAf~KSiRGSDp 142 (300)
T PRK14700 117 --R--------DFH--REGKEFYEQLSAFHKSVRGTDP 142 (300)
T ss_pred --h--------ccc--CCcchhHHHHHHHHHHhhcCCc
Confidence 0 121 2346677777777777777765
No 142
>PRK07668 hypothetical protein; Validated
Probab=30.38 E-value=51 Score=34.09 Aligned_cols=33 Identities=15% Similarity=0.256 Sum_probs=26.2
Q ss_pred HHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHH
Q 007852 436 KIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDS 468 (587)
Q Consensus 436 KLqeLVrqIDP~~kLD~DVEELLLeIADDFVds 468 (587)
=+.+|.+.+.....-|+|+||+|.|+.|+|+|.
T Consensus 9 fl~~L~~yL~~~glseeeieeiL~Ei~~hLlEg 41 (254)
T PRK07668 9 FLDDTRVYLIAKGIKEEDIESFLEDAELHLIEG 41 (254)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHH
Confidence 355777777555566889999999999999874
No 143
>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=30.12 E-value=27 Score=28.31 Aligned_cols=25 Identities=16% Similarity=0.571 Sum_probs=21.4
Q ss_pred cCCCCccchhHHHHHhhcCCccccC
Q 007852 480 RKSSTLESKDILLHLEKNWHLTVPG 504 (587)
Q Consensus 480 RKSdTLEvKDVQLhLERnWNI~IPG 504 (587)
-+-+.++.-++...||+.||+.||.
T Consensus 33 lglDSl~~veli~~lE~~f~i~i~~ 57 (77)
T TIGR00517 33 LGADSLDTVELVMALEEEFDIEIPD 57 (77)
T ss_pred cCCcHHHHHHHHHHHHHHHCCCCCH
Confidence 3567788889999999999999974
No 144
>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=30.11 E-value=57 Score=31.59 Aligned_cols=34 Identities=32% Similarity=0.469 Sum_probs=26.8
Q ss_pred HHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHH
Q 007852 435 RKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDS 468 (587)
Q Consensus 435 rKLqeLVrqIDP~~kLD~DVEELLLeIADDFVds 468 (587)
+=+.+|.+.++....=|.|+||+|.||.|+-+|.
T Consensus 8 ~y~~~l~~~L~~~~~~e~~~e~~L~eil~~Llea 41 (206)
T PF06570_consen 8 EYIFDLRKYLRSSGVSEEEIEELLEEILPHLLEA 41 (206)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHH
Confidence 3356888888776777888999999999987764
No 145
>PRK07117 acyl carrier protein; Validated
Probab=30.03 E-value=29 Score=29.50 Aligned_cols=33 Identities=9% Similarity=0.203 Sum_probs=26.3
Q ss_pred hcCCCCccchhHHHHHhhcCCccccCCCccccc
Q 007852 479 HRKSSTLESKDILLHLEKNWHLTVPGFSSEERN 511 (587)
Q Consensus 479 HRKSdTLEvKDVQLhLERnWNI~IPGFssDEir 511 (587)
.=+.+.|++-|+...||..||+.||---.+.++
T Consensus 34 DLg~DSlD~veiv~~led~f~i~I~~~~~~~i~ 66 (79)
T PRK07117 34 DLGANSMDRAEIVIMTLESLSLKIPLVEFAGAK 66 (79)
T ss_pred hcCCChHHHHHHHHHHHHHHCCccCHHHHHhcC
Confidence 368899999999999999999999854333343
No 146
>KOG1657 consensus CCAAT-binding factor, subunit C (HAP5) [Transcription]
Probab=29.80 E-value=1e+02 Score=31.65 Aligned_cols=80 Identities=19% Similarity=0.247 Sum_probs=61.1
Q ss_pred ccccCChHHHHHHHHhcCCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccCCC
Q 007852 428 TNQLLGKRKIQDLVSQVDSQG-KVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFS 506 (587)
Q Consensus 428 tnqILtKrKLqeLVrqIDP~~-kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFs 506 (587)
-+..|+..+|....|. |+.. .|..|+--++...++-||..+..++-.-+.--+..|+.-+||.=++.+.-... |.
T Consensus 71 ~~~~lPlaRiKkimK~-dedv~mI~~Eapvl~aka~E~Fi~elt~~sw~~Tee~~rrtl~~sdia~av~~s~~fd---FL 146 (236)
T KOG1657|consen 71 KNHILPLARIKKIMKS-DEDVSMITAEAPVLFAKACELFITELTLRSWVHTEENKRRTLQKSDIAAAVTQSETFD---FL 146 (236)
T ss_pred hhccCcHhhccccccc-cccccccchhHHHHHHHHHHHHHHHHHHHhhhhhcccccccchHHHHHHHhccCCCcc---ce
Confidence 3455565555555443 3332 57778888899999999999999999999999999999999999998875544 66
Q ss_pred ccccc
Q 007852 507 SEERN 511 (587)
Q Consensus 507 sDEir 511 (587)
.|.+.
T Consensus 147 ~DivP 151 (236)
T KOG1657|consen 147 RDIVP 151 (236)
T ss_pred ecccc
Confidence 66654
No 147
>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]
Probab=29.40 E-value=1.3e+02 Score=32.05 Aligned_cols=61 Identities=15% Similarity=0.163 Sum_probs=47.8
Q ss_pred ChHHHHHHHHh----cCCCCCCCHHHHHHHHHHHHHHH------HHHHHHHHHHhhhcCCCCccchhHHHH
Q 007852 433 GKRKIQDLVSQ----VDSQGKVDPEVEDLLLEIADDFI------DSVTSFACNLAKHRKSSTLESKDILLH 493 (587)
Q Consensus 433 tKrKLqeLVrq----IDP~~kLD~DVEELLLeIADDFV------dsVvt~ACrLAKHRKSdTLEvKDVQLh 493 (587)
+...|.+.++. .-....+|++|.++...++...- -+++..|+.+|..++++++...||...
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 44555555432 22356899999999998887644 689999999999999999999999887
No 148
>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=29.30 E-value=1.8e+02 Score=22.05 Aligned_cols=33 Identities=21% Similarity=0.322 Sum_probs=25.0
Q ss_pred HHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHH
Q 007852 436 KIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDS 468 (587)
Q Consensus 436 KLqeLVrqIDP~~kLD~DVEELLLeIADDFVds 468 (587)
.+-+++.++-....+++++..+=..++|.|+..
T Consensus 4 ~~~~~l~~~~~~~~~~~~~~~~A~~~~~~~~~~ 36 (88)
T cd00043 4 TPLDFLRRVAKALGLSPETLTLAVNLLDRFLLD 36 (88)
T ss_pred hHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHh
Confidence 344555555556689999999999999999874
No 149
>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=29.15 E-value=2.3e+02 Score=29.72 Aligned_cols=81 Identities=21% Similarity=0.329 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH-------hhh------cCCCCccchhH-----HHHHhhcCCccccCCCccccccccCCC
Q 007852 456 DLLLEIADDFIDSVTSFACNL-------AKH------RKSSTLESKDI-----LLHLEKNWHLTVPGFSSEERNHQRKSL 517 (587)
Q Consensus 456 ELLLeIADDFVdsVvt~ACrL-------AKH------RKSdTLEvKDV-----QLhLERnWNI~IPGFssDEir~yrK~~ 517 (587)
+.|.++++.|++.|+....++ ||+ ++-...+-.++ -|.+.|-.+ |.+-+-+.--.....
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 367899999999988765443 333 11110110011 223334333 333222222122334
Q ss_pred CcHHHHHHHHHHHHhhccCCcc
Q 007852 518 SSDVHSKRLEMIRALMEPSQSE 539 (587)
Q Consensus 518 pTeaHkQRMAlIRK~m~ss~se 539 (587)
+++..+.-|.+|-|.|-.-...
T Consensus 200 ~~~~~rrnL~lIaKvLQ~lan~ 221 (331)
T cd05132 200 PSDTARKNLTLIAKMLQNLANK 221 (331)
T ss_pred CCHHHHHHHHHHHHHHHHHhCC
Confidence 6777888899999988766553
No 150
>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=29.03 E-value=69 Score=30.77 Aligned_cols=53 Identities=8% Similarity=0.142 Sum_probs=37.3
Q ss_pred HHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHH
Q 007852 437 IQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLH 493 (587)
Q Consensus 437 LqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLh 493 (587)
+--+-+.+....-|++|+.+.|.+-+|+|++.+... -+-=+.+.+++=||-++
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 333445555567788999999999999999875442 12234478999999654
No 151
>CHL00081 chlI Mg-protoporyphyrin IX chelatase
Probab=28.99 E-value=1.8e+02 Score=31.15 Aligned_cols=71 Identities=14% Similarity=0.092 Sum_probs=56.2
Q ss_pred cCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHH-------HHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccc
Q 007852 431 LLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFID-------SVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTV 502 (587)
Q Consensus 431 ILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVd-------sVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 502 (587)
.+.+.+|.+.-+.+ +...+++++.+.+.+|+..+=. ..+..|..+|-.++.+.|+..||+...+--+..++
T Consensus 250 ~~~~~~I~~ar~~~-~~V~v~~~~~~yi~~l~~~~~~~s~Ra~i~l~raArA~Aal~GR~~V~pdDv~~~a~~vL~HR~ 327 (350)
T CHL00081 250 EELRSKIVAAQNLL-PKVEIDYDLRVKISQICSELDVDGLRGDIVTNRAAKALAAFEGRTEVTPKDIFKVITLCLRHRL 327 (350)
T ss_pred ccCHHHHHHHHHhc-CCCccCHHHHHHHHHHHHHHCCCCChHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHhC
Confidence 35777887765544 5689999999999999998753 24566778899999999999999888776666554
No 152
>PRK04195 replication factor C large subunit; Provisional
Probab=28.57 E-value=1.1e+02 Score=33.19 Aligned_cols=70 Identities=14% Similarity=0.088 Sum_probs=48.4
Q ss_pred ccCChHHHHHHHHhcC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCcc
Q 007852 430 QLLGKRKIQDLVSQVD--SQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLT 501 (587)
Q Consensus 430 qILtKrKLqeLVrqID--P~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~ 501 (587)
.-++.+.+...++.|- .+..+|+++.+.|.+.+.-=+..++.....+|. +...++..||.-.+.|.|...
T Consensus 158 ~~~~~~~i~~~L~~i~~~egi~i~~eaL~~Ia~~s~GDlR~ain~Lq~~a~--~~~~it~~~v~~~~~~d~~~~ 229 (482)
T PRK04195 158 KRLSTRSIVPVLKRICRKEGIECDDEALKEIAERSGGDLRSAINDLQAIAE--GYGKLTLEDVKTLGRRDREES 229 (482)
T ss_pred cCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHhc--CCCCCcHHHHHHhhcCCCCCC
Confidence 3456667777776663 355799999999988887667777776666665 344678888876666666544
No 153
>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=28.50 E-value=84 Score=25.98 Aligned_cols=46 Identities=15% Similarity=0.272 Sum_probs=28.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCC
Q 007852 449 KVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWH 499 (587)
Q Consensus 449 kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWN 499 (587)
.+++|..+.|+++++.|-+ ||..|-.|.-+.-..+|++..|.+-+.
T Consensus 7 ~~~~e~~~~L~~tm~~f~~-----A~n~~~~~~~e~~~~~~~k~~L~~l~y 52 (73)
T TIGR01765 7 NFEDKEKEYLLDLIRAFSS-----AVNFVIKRLLEGKSHSELKKELQRLYY 52 (73)
T ss_pred ecChhhHHHHHHHHHHHHH-----HHHHHHHHHHCCCChhHHHHHHHHHHh
Confidence 3456667999999998853 445553333333444666666665543
No 154
>PRK14087 dnaA chromosomal replication initiation protein; Provisional
Probab=28.36 E-value=75 Score=34.55 Aligned_cols=89 Identities=15% Similarity=0.199 Sum_probs=52.9
Q ss_pred ccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcC-CccccCCCcc
Q 007852 430 QLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNW-HLTVPGFSSE 508 (587)
Q Consensus 430 qILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnW-NI~IPGFssD 508 (587)
+.|+..-+.++++.+....+-.-.+++++-.+|+.|=-++.+ .+-|-|+.+.+.+|.|..||-|++ ++.+|-.|
T Consensus 334 ~~it~~~v~~~l~~~~~~~~~~~t~~~I~~~Va~~~~i~~~d---l~s~~R~~~i~~~RqiamyL~r~~t~~sl~~IG-- 408 (450)
T PRK14087 334 KIITIEIVSDLFRDIPTSKLGILNVKKIKEVVSEKYGISVNA---IDGKARSKSIVTARHIAMYLTKEILNHTLAQIG-- 408 (450)
T ss_pred CCCCHHHHHHHHhhccccccCCCCHHHHHHHHHHHcCCCHHH---HhCCCCCccccHHHHHHHHHHHHHcCCCHHHHH--
Confidence 446666666666655332221224455555566666333322 467889999999999999997764 46665322
Q ss_pred ccccc-cCCCCcHHHHHH
Q 007852 509 ERNHQ-RKSLSSDVHSKR 525 (587)
Q Consensus 509 Eir~y-rK~~pTeaHkQR 525 (587)
+.+ .|.++|-.|--|
T Consensus 409 --~~FggrdHsTV~~a~~ 424 (450)
T PRK14087 409 --EEFGGRDHTTVINAER 424 (450)
T ss_pred --HHhCCCChHHHHHHHH
Confidence 334 366776666433
No 155
>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=27.94 E-value=1.1e+02 Score=29.64 Aligned_cols=48 Identities=19% Similarity=0.358 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccc
Q 007852 453 EVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTV 502 (587)
Q Consensus 453 DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 502 (587)
++++.+.++++++|++++..-|.--.+. +..++..+.-.|.+.|++.+
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 3666677777777777776555333222 45778888888999988643
No 156
>PRK12402 replication factor C small subunit 2; Reviewed
Probab=27.91 E-value=98 Score=30.53 Aligned_cols=65 Identities=9% Similarity=0.035 Sum_probs=43.3
Q ss_pred ccCChHHHHHHHHhcC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhh
Q 007852 430 QLLGKRKIQDLVSQVD--SQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEK 496 (587)
Q Consensus 430 qILtKrKLqeLVrqID--P~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLER 496 (587)
.-++...+.++++++- .+..+++++.+.|.+.+..=+..++...-+++. +.++|+.+||.-++.+
T Consensus 182 ~~~~~~~~~~~l~~~~~~~~~~~~~~al~~l~~~~~gdlr~l~~~l~~~~~--~~~~It~~~v~~~~~~ 248 (337)
T PRK12402 182 RAPTDDELVDVLESIAEAEGVDYDDDGLELIAYYAGGDLRKAILTLQTAAL--AAGEITMEAAYEALGD 248 (337)
T ss_pred cCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH--cCCCCCHHHHHHHhCC
Confidence 3456667777777663 244689999999998885545555554444442 3347999999887765
No 157
>PTZ00252 histone H2A; Provisional
Probab=27.30 E-value=1.9e+02 Score=27.93 Aligned_cols=66 Identities=8% Similarity=0.186 Sum_probs=56.2
Q ss_pred ccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhc--CCCCccchhHHHHHh
Q 007852 430 QLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHR--KSSTLESKDILLHLE 495 (587)
Q Consensus 430 qILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHR--KSdTLEvKDVQLhLE 495 (587)
=.++=-+++.++++-.-..+|...+--.|..+-|-.+.+|++.|...|+.+ |...|..++|++.+.
T Consensus 24 L~FPVgRi~R~Lr~g~ya~RIga~ApVYLAAVLEYLtaEVLELAgnaa~d~~~kk~RItPrHi~lAIr 91 (134)
T PTZ00252 24 LIFPVGRVGSLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQAKKPKRLTPRTVTLAVR 91 (134)
T ss_pred ccCchHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccHHHHHhhcc
Confidence 456778899999988777889998888899999999999999999999763 556799999998884
No 158
>PRK05803 sporulation sigma factor SigK; Reviewed
Probab=27.23 E-value=2e+02 Score=27.79 Aligned_cols=69 Identities=10% Similarity=0.148 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHHhhhcCCCCccchhH-HHHHhhcCCccccCCCccccccccCCCCcHHHHHHHHHHHHh
Q 007852 463 DDFIDSVTSFACNLAKHRKSSTLESKDI-LLHLEKNWHLTVPGFSSEERNHQRKSLSSDVHSKRLEMIRAL 532 (587)
Q Consensus 463 DDFVdsVvt~ACrLAKHRKSdTLEvKDV-QLhLERnWNI~IPGFssDEir~yrK~~pTeaHkQRMAlIRK~ 532 (587)
+++++.-...-+.+|.++-.+.-+++|| +=.+-+-|. .+..|..+...+++.|.-.-.+..-+..+||.
T Consensus 52 ~~l~~~y~~~l~~~a~~~~~~~~daeDlvQE~fi~l~~-~~~~f~~~~~~~f~~wl~~i~rn~~id~~Rk~ 121 (233)
T PRK05803 52 NILIERNLRLVAHIVKKFENTGEDVDDLISIGTIGLIK-AIESFDAGKGTKLATYAARCIENEILMHLRNL 121 (233)
T ss_pred HHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHH-HHHhcCcccCCChHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555666655566788998 334445554 23445544333456666665666666666654
No 159
>PRK09862 putative ATP-dependent protease; Provisional
Probab=27.14 E-value=1.8e+02 Score=32.81 Aligned_cols=48 Identities=15% Similarity=0.131 Sum_probs=40.8
Q ss_pred CCCCHHHHHHHHHHHHHH------HHHHHHHHHHHhhhcCCCCccchhHHHHHh
Q 007852 448 GKVDPEVEDLLLEIADDF------IDSVTSFACNLAKHRKSSTLESKDILLHLE 495 (587)
Q Consensus 448 ~kLD~DVEELLLeIADDF------VdsVvt~ACrLAKHRKSdTLEvKDVQLhLE 495 (587)
..+++++.++|-+.+++| .+.++.-|-.+|..++++.|+..||...++
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 357888888888887776 567888889999999999999999988886
No 160
>PRK06030 hypothetical protein; Provisional
Probab=26.85 E-value=1.1e+02 Score=28.67 Aligned_cols=71 Identities=14% Similarity=-0.015 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhcC-CCCccchhHHHHHhhcC-CccccCCCcccc-ccccCCCCcHHHHHHHHHH
Q 007852 453 EVEDLLLEIADDFIDSVTSFACNLAKHRK-SSTLESKDILLHLEKNW-HLTVPGFSSEER-NHQRKSLSSDVHSKRLEMI 529 (587)
Q Consensus 453 DVEELLLeIADDFVdsVvt~ACrLAKHRK-SdTLEvKDVQLhLERnW-NI~IPGFssDEi-r~yrK~~pTeaHkQRMAlI 529 (587)
.+++++-.+|+.|=-++ +--+.|-|+ .+.+.++.|-.||-|++ ++.++ +| +.+.|.++|-.|--| .|
T Consensus 24 t~d~Ii~~Va~~f~I~~---~di~sk~R~rk~i~~aRqIAMYL~r~~~~~sl~-----~IG~~FGRDHSTV~haik--kI 93 (124)
T PRK06030 24 LCEAVIDLLALAFGVSG---AEIASPLRGRREVSRIRQIAMYVAHVSLGWPMN-----EVALAFGRDRTTVGHACH--TV 93 (124)
T ss_pred CHHHHHHHHHHHhCCCH---HHHhCCCCCCcccchHHHHHHHHHHHHcCCCHH-----HHHHHHCCChhHHHHHHH--HH
Confidence 55666666777773222 224567776 78999999999998765 34444 44 334577777777665 55
Q ss_pred HHhh
Q 007852 530 RALM 533 (587)
Q Consensus 530 RK~m 533 (587)
++.+
T Consensus 94 e~~~ 97 (124)
T PRK06030 94 EDLR 97 (124)
T ss_pred HHHh
Confidence 5544
No 161
>PF08625 Utp13: Utp13 specific WD40 associated domain; InterPro: IPR013934 A large ribonuclear protein complex is required for the processing of the small-ribosomal-subunit rRNA - the small-subunit (SSU) processome [, ]. This preribosomal complex contains the U3 snoRNA and at least 40 proteins, which have the following properties: They are nucleolar. They are able to coimmunoprecipitate with the U3 snoRNA and Mpp10 (a protein specific to the SSU processome). They are required for 18S rRNA biogenesis. There appears to be a linkage between polymerase I transcription and the formation of the SSU processome; as some, but not all, of the SSU processome components are required for pre-rRNA transcription initiation. These SSU processome components have been termed t-Utps. They form a pre-complex with pre-18S rRNA in the absence of snoRNA U3 and other SSU processome components. It has been proposed that the t-Utp complex proteins are both rDNA and rRNA binding proteins that are involved in the initiation of pre18S rRNA transcription. Initially binding to rDNA then associating with the 5' end of the nascent pre18S rRNA. The t-Utpcomplex forms the nucleus around which the rest of the SSU processome components, including snoRNA U3, assemble []. From electron microscopy the SSU processome may correspond to the terminal knobs visualized at the 5' ends of nascent 18S rRNA. Utp13 is a nucleolar protein and component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA []. Upt13 is also a component of the Pwp2 complex that forms part of a stable particle subunit independent of the U3 small nucleolar ribonucleoprotein that is essential for the initial assembly steps of the 90S pre-ribosome []. Components of the Pwp2 complex are: Utp1 (Pwp2), Utp6, Utp12 (Dip2), Utp13, Utp18, and Utp21. The relationship between the Pwp2 complex and the t-Utps complex [] that also associates with the 5' end of nascent pre-18S rRNA is unclear. ; GO: 0006364 rRNA processing, 0032040 small-subunit processome
Probab=26.57 E-value=2e+02 Score=27.19 Aligned_cols=38 Identities=21% Similarity=0.366 Sum_probs=23.8
Q ss_pred HHHHHhhcCCc----cccCCCc--cccccccCCCCcHHHHHHHH-HHHHh
Q 007852 490 ILLHLEKNWHL----TVPGFSS--EERNHQRKSLSSDVHSKRLE-MIRAL 532 (587)
Q Consensus 490 VQLhLERnWNI----~IPGFss--DEir~yrK~~pTeaHkQRMA-lIRK~ 532 (587)
|..++=+.|.. .+||+.. |.+.+| |+.|-+|+. +++|+
T Consensus 86 vL~~il~~~~~~~L~~~~~~~~~le~lipY-----teRH~~Rl~~L~q~s 130 (141)
T PF08625_consen 86 VLNAILKSHPPEELLKIPGLKEILEALIPY-----TERHFQRLDRLLQKS 130 (141)
T ss_pred HHHHHHHhCCHHHHHccccHHHHHHHHhhh-----HHHHHHHHHHHHHHH
Confidence 34444555553 4677665 555556 799999998 55543
No 162
>PRK05828 acyl carrier protein; Validated
Probab=26.55 E-value=20 Score=30.83 Aligned_cols=25 Identities=20% Similarity=0.385 Sum_probs=22.6
Q ss_pred cCCCCccchhHHHHHhhcCCccccC
Q 007852 480 RKSSTLESKDILLHLEKNWHLTVPG 504 (587)
Q Consensus 480 RKSdTLEvKDVQLhLERnWNI~IPG 504 (587)
=+-+.|+.-++...||+.||+.||.
T Consensus 35 Lg~DSLd~velv~~lE~~f~I~i~~ 59 (84)
T PRK05828 35 LKIDSLDMFSIIVSLESEFNIEFSD 59 (84)
T ss_pred cCCCHHHHHHHHHHHHHHHCCCcCH
Confidence 4788899999999999999999884
No 163
>TIGR03760 ICE_TraI_Pfluor integrating conjugative element relaxase, PFL_4751 family. Members of this protein family are the TraI putative relaxases required for transfer by a subclass of integrating conjugative elements (ICE) as found in Pseudomonas fluorescens Pf-5, and understood from study of two related ICE, SXT and R391. This model represents the N-terminal domain. Note that no homology is detected to the similarly named TraI relaxase of the F plasmid.
Probab=26.36 E-value=2e+02 Score=28.88 Aligned_cols=54 Identities=24% Similarity=0.273 Sum_probs=37.0
Q ss_pred cccCChHHHHHHHHhcCCCCCCCHH-HHHHHHHHHHHHHHH------------------------HHHHHHHHhhhcCC
Q 007852 429 NQLLGKRKIQDLVSQVDSQGKVDPE-VEDLLLEIADDFIDS------------------------VTSFACNLAKHRKS 482 (587)
Q Consensus 429 nqILtKrKLqeLVrqIDP~~kLD~D-VEELLLeIADDFVds------------------------Vvt~ACrLAKHRKS 482 (587)
..+|.+.+-++||++|--...|.++ -+++.+.+.++|++- |+..|.++||....
T Consensus 10 ~~LL~~~~r~~ll~~i~~~~~l~~~~~~~l~~~~l~~~~~~~~~~PAs~~~Hha~~GGLl~HtLev~~~a~~l~~~y~~ 88 (218)
T TIGR03760 10 SDLLSTPRRQQLLQQLWRNSSLSAAVYEQLYLQPLERLAELVQQLPASENHHHAYLGGLLDHTLEVTAAAVRLSKGYLL 88 (218)
T ss_pred HHHhcchhHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHhCCCCCcCCccccchHHHHHHHHHHHHHHHHhhcCC
Confidence 4667666667899888777666665 445555665665554 67778899988753
No 164
>TIGR02852 spore_dpaB dipicolinic acid synthetase, B subunit. Members of this family represent the B subunit of dipicolinic acid synthetase, an enzyme that synthesizes a small molecule that appears to confer heat stability to bacterial endospores such as those of Bacillus subtilis. The A and B subunits are together in what was originally designated the spoVF locus for stage V of endospore formation.
Probab=26.24 E-value=67 Score=31.62 Aligned_cols=70 Identities=16% Similarity=0.195 Sum_probs=48.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh-hhcCCCCc----------cchhHHHHHhhcCCccccCCCccccccccCCCCcHHHH
Q 007852 455 EDLLLEIADDFIDSVTSFACNLA-KHRKSSTL----------ESKDILLHLEKNWHLTVPGFSSEERNHQRKSLSSDVHS 523 (587)
Q Consensus 455 EELLLeIADDFVdsVvt~ACrLA-KHRKSdTL----------EvKDVQLhLERnWNI~IPGFssDEir~yrK~~pTeaHk 523 (587)
-..|-+||.-+.|+.++.+|..+ |.++-=.| ..|.|.. |.+.||+.|-+||-|+ +.+|+.+--+|-
T Consensus 90 anTLAKiA~GiaDnlv~~aa~a~Lke~rPlvlaPamN~~m~~~~~Ni~~-L~~~~g~~~v~f~qd~--~~~k~~s~~~~~ 166 (187)
T TIGR02852 90 GNSMSKLANAMTDSPVLMAAKATLRNNKPVVLAISTNDALGLNAVNLMR-LLNTKNIYFVPFGQDD--PFKKPNSLVAKM 166 (187)
T ss_pred HhHHHHHHccccCcHHHHHHHHHhcCCCCEEEEECcCHHHHhCHHHHHH-HHHcCCEEEEeecCCC--CCCCchhHHhhH
Confidence 46788999999999999998876 33332100 1244332 3456899999999999 668888877665
Q ss_pred HHHH
Q 007852 524 KRLE 527 (587)
Q Consensus 524 QRMA 527 (587)
+++.
T Consensus 167 ~~~~ 170 (187)
T TIGR02852 167 DYLI 170 (187)
T ss_pred HhhH
Confidence 5543
No 165
>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=26.21 E-value=2.1e+02 Score=26.65 Aligned_cols=19 Identities=26% Similarity=0.496 Sum_probs=8.9
Q ss_pred ccchhHHHHHhhcCCcccc
Q 007852 485 LESKDILLHLEKNWHLTVP 503 (587)
Q Consensus 485 LEvKDVQLhLERnWNI~IP 503 (587)
.+||+=.+.|=.+|...++
T Consensus 99 ~~Vk~kil~li~~W~~~f~ 117 (142)
T cd03569 99 EEVRQKILELIQAWALAFR 117 (142)
T ss_pred HHHHHHHHHHHHHHHHHhC
Confidence 3444444444455554443
No 166
>COG0236 AcpP Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=25.69 E-value=19 Score=29.78 Aligned_cols=26 Identities=15% Similarity=0.390 Sum_probs=22.3
Q ss_pred cCCCCccchhHHHHHhhcCCccccCC
Q 007852 480 RKSSTLESKDILLHLEKNWHLTVPGF 505 (587)
Q Consensus 480 RKSdTLEvKDVQLhLERnWNI~IPGF 505 (587)
=+-+.|++-++-+.||+.|++.||.-
T Consensus 35 lg~DSld~veLi~~lE~~f~i~i~~e 60 (80)
T COG0236 35 LGLDSLDLVELVMALEEEFGIEIPDE 60 (80)
T ss_pred cCccHHHHHHHHHHHHHHHCCcCCHH
Confidence 36778888999999999999999853
No 167
>PRK09281 F0F1 ATP synthase subunit alpha; Validated
Probab=25.45 E-value=86 Score=35.15 Aligned_cols=35 Identities=17% Similarity=0.361 Sum_probs=29.9
Q ss_pred hHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHH
Q 007852 434 KRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDS 468 (587)
Q Consensus 434 KrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVds 468 (587)
+.+..++++.||.+..||+++++.|.++..+|++.
T Consensus 465 ~~~~~~~~~~I~~~~~l~~~~~~~L~~~i~~~~~~ 499 (502)
T PRK09281 465 RSNHADLLEEIRETKDLSDEIEAKLKAAIEEFKKT 499 (502)
T ss_pred HHhhHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHH
Confidence 34566788888888899999999999999999875
No 168
>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=25.18 E-value=1.3e+02 Score=31.96 Aligned_cols=52 Identities=19% Similarity=0.112 Sum_probs=40.3
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhh----hcCCC-CccchhHHHHHhhc
Q 007852 446 SQGKVDPEVEDLLLEIADDFIDSVTSFACNLAK----HRKSS-TLESKDILLHLEKN 497 (587)
Q Consensus 446 P~~kLD~DVEELLLeIADDFVdsVvt~ACrLAK----HRKSd-TLEvKDVQLhLERn 497 (587)
.....+++|.++|.+++++...-+....-.++| ..+.+ +|+.=|+-|+.++.
T Consensus 62 ~m~~~~~~v~~fL~~~~~~~~p~~~~~~~~l~~~~~~~~g~~~~l~~wD~~y~~~~~ 118 (458)
T PF01432_consen 62 KMAKNPENVLDFLDELVKKLKPLLERELELLKKLKKKRLGLEKKLRPWDVAYYMEQY 118 (458)
T ss_dssp STTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-SSSBBGGGHHHHHHHH
T ss_pred hhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccccccchhHHHhhHH
Confidence 346778889999999999888877777666666 66776 89999998876654
No 169
>PRK00982 acpP acyl carrier protein; Provisional
Probab=25.05 E-value=56 Score=26.35 Aligned_cols=25 Identities=16% Similarity=0.547 Sum_probs=21.5
Q ss_pred cCCCCccchhHHHHHhhcCCccccC
Q 007852 480 RKSSTLESKDILLHLEKNWHLTVPG 504 (587)
Q Consensus 480 RKSdTLEvKDVQLhLERnWNI~IPG 504 (587)
-+-+.+..-++...||+.||+.||-
T Consensus 33 lglDSl~~~~li~~le~~f~i~i~~ 57 (78)
T PRK00982 33 LGADSLDTVELVMALEEEFGIEIPD 57 (78)
T ss_pred cCCCHHHHHHHHHHHHHHHCCCcCH
Confidence 4778888889999999999999874
No 170
>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional
Probab=24.87 E-value=1e+02 Score=36.14 Aligned_cols=77 Identities=13% Similarity=0.172 Sum_probs=53.5
Q ss_pred ChHHHHHHHHhc------CCCCCCCHHHHHHHHHHHHHHHH---------HHHHHHHHHhhh----cCCCCccchhHHHH
Q 007852 433 GKRKIQDLVSQV------DSQGKVDPEVEDLLLEIADDFID---------SVTSFACNLAKH----RKSSTLESKDILLH 493 (587)
Q Consensus 433 tKrKLqeLVrqI------DP~~kLD~DVEELLLeIADDFVd---------sVvt~ACrLAKH----RKSdTLEvKDVQLh 493 (587)
+.....++++.+ ..+..+++++.+..+++++.||. ++++.||..++- ++..+|+..||.-+
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 344444444433 34668999999999999999876 477888864432 33457899999999
Q ss_pred HhhcCCccccCCCccc
Q 007852 494 LEKNWHLTVPGFSSEE 509 (587)
Q Consensus 494 LERnWNI~IPGFssDE 509 (587)
+++.-||.+--+..+|
T Consensus 430 ~~~~tgip~~~~~~~~ 445 (758)
T PRK11034 430 VARIARIPEKSVSQSD 445 (758)
T ss_pred HHHHhCCChhhhhhhH
Confidence 9998777655444444
No 171
>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=24.86 E-value=90 Score=35.00 Aligned_cols=35 Identities=23% Similarity=0.438 Sum_probs=30.1
Q ss_pred hHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHH
Q 007852 434 KRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDS 468 (587)
Q Consensus 434 KrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVds 468 (587)
+.+..++++.|+.+..||+++++.|.++..+|++.
T Consensus 464 ~~~~~~~~~~i~~~~~l~~~~~~~L~~~i~~~~~~ 498 (501)
T TIGR00962 464 DANHPDILEEINTKKKLTEELEDKLKEALKNFKKT 498 (501)
T ss_pred HHhhHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHh
Confidence 34566888899999999999999999999999875
No 172
>PRK08172 putative acyl carrier protein IacP; Validated
Probab=24.36 E-value=30 Score=29.43 Aligned_cols=32 Identities=16% Similarity=0.330 Sum_probs=25.6
Q ss_pred HHHHhhhcCCCCccchhHHHHHhhcCCccccC
Q 007852 473 ACNLAKHRKSSTLESKDILLHLEKNWHLTVPG 504 (587)
Q Consensus 473 ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPG 504 (587)
...+..--+-+.|++-|+...||..||+.||.
T Consensus 27 d~~l~~dL~~DSld~v~lv~~lEe~F~I~i~~ 58 (82)
T PRK08172 27 QTHLVEDLYADSLDLIDIVFGLSEEFDISCNE 58 (82)
T ss_pred CcchhhhcCCCHHHHHHHHHHHHHHHCCCcCH
Confidence 34444555678899999999999999999875
No 173
>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=24.25 E-value=80 Score=26.19 Aligned_cols=67 Identities=12% Similarity=0.143 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHhhhcCCCCccchhH-HHHHhhcCCccccCCCccccccccCCCCcHHHHHHHHHHHHh
Q 007852 463 DDFIDSVTSFACNLAKHRKSSTLESKDI-LLHLEKNWHLTVPGFSSEERNHQRKSLSSDVHSKRLEMIRAL 532 (587)
Q Consensus 463 DDFVdsVvt~ACrLAKHRKSdTLEvKDV-QLhLERnWNI~IPGFssDEir~yrK~~pTeaHkQRMAlIRK~ 532 (587)
++|++......+.+|+.+..+..|..|| +-.+-+-|.. +.+|..+ ..+..+.-.-.+..-+..+||.
T Consensus 4 ~~l~~~~~~~v~~~~~~~~~~~~~~~D~~qe~~~~l~~~-~~~~~~~--~~~~~~~~~~~~~~~~~~~rk~ 71 (158)
T TIGR02937 4 EELYERYLPLLYRYARRYLGDDADAEDLVQEAFLKLLEA-LDRFDPE--GSFKAWLFRIARNLILDYLRRK 71 (158)
T ss_pred HHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHHh-HHhcCCc--chHHHHHHHHHHHHHHHHHHHh
Confidence 3444444444555555555555556665 3333333321 1333333 2234444444444444455543
No 174
>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=24.22 E-value=50 Score=30.65 Aligned_cols=38 Identities=16% Similarity=0.301 Sum_probs=31.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCcc
Q 007852 449 KVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLE 486 (587)
Q Consensus 449 kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLE 486 (587)
.+|++|.++-.+|..+|-++.+....++-+-++++.||
T Consensus 49 ~iD~~V~~~wi~Lm~~~r~~sl~~Gak~V~~~g~~rle 86 (108)
T PF10789_consen 49 EIDEDVSDKWIELMRKHREDSLAAGAKFVRVNGKERLE 86 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHccCceeccCCceecc
Confidence 58899999999999999999998887777766665443
No 175
>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=24.03 E-value=2e+02 Score=30.70 Aligned_cols=76 Identities=17% Similarity=0.124 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccC---------------------CCcccccccc
Q 007852 456 DLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPG---------------------FSSEERNHQR 514 (587)
Q Consensus 456 ELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPG---------------------FssDEir~yr 514 (587)
+.|..+++.|++.|++.++.+.. ++++|--+|.+.-.-++|+ .-+-+.-...
T Consensus 131 ~~L~~~~~~~~~~I~~S~~~~P~-------~lr~i~~~lr~~v~~rFp~~~~~~~~aVsgFlFLRF~cPAIlSP~lf~L~ 203 (313)
T cd05394 131 ENLRYYVDKVFFCIVKSSMSCPT-------VMCDIFYSLRHMAVKRFPNDPHVQYSAVSSFVFLRFFAVAVVSPHTFHLR 203 (313)
T ss_pred HHHHHHHHHHHHHHHhCcccCcH-------HHHHHHHHHHHHHHHHCCChHhhHHHHHHHHHHHHHhhhhhcCccccccc
Confidence 67899999999999988765543 3455544433222222232 2222222233
Q ss_pred CCCCcHHHHHHHHHHHHhhccCCc
Q 007852 515 KSLSSDVHSKRLEMIRALMEPSQS 538 (587)
Q Consensus 515 K~~pTeaHkQRMAlIRK~m~ss~s 538 (587)
...+++.-+.-+-+|-|.|-.-+.
T Consensus 204 ~~~p~~~~~RtLtLIaKvLQnLAN 227 (313)
T cd05394 204 PHHPDAQTSRTLTLISKTIQTLGS 227 (313)
T ss_pred CCCCChhhhHHHHHHHHHHHHHhC
Confidence 445555556677788887765443
No 176
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.90 E-value=88 Score=37.69 Aligned_cols=92 Identities=23% Similarity=0.176 Sum_probs=57.7
Q ss_pred cCChHHHHHHHHhcCCCCCC-CH-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccCCCc-
Q 007852 431 LLGKRKIQDLVSQVDSQGKV-DP-EVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFSS- 507 (587)
Q Consensus 431 ILtKrKLqeLVrqIDP~~kL-D~-DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFss- 507 (587)
+=.++||.++|+..|.++.+ |- .+.++|.+ -+..+.|-.|||.++. ...+-||.++.+.||..-|-=+++
T Consensus 444 lkd~~kL~efI~~~~~g~~~fd~e~al~Ilr~------snyl~~a~~LA~k~~~-he~vl~ille~~~ny~eAl~yi~sl 516 (933)
T KOG2114|consen 444 LKDVEKLTEFISKCDKGEWFFDVETALEILRK------SNYLDEAELLATKFKK-HEWVLDILLEDLHNYEEALRYISSL 516 (933)
T ss_pred hcchHHHHHHHhcCCCcceeeeHHHHHHHHHH------hChHHHHHHHHHHhcc-CHHHHHHHHHHhcCHHHHHHHHhcC
Confidence 44678999999999955543 32 24444443 2566778899998887 488899999999988754322222
Q ss_pred --cc----cccccCCCCcHHHHHHHHHH
Q 007852 508 --EE----RNHQRKSLSSDVHSKRLEMI 529 (587)
Q Consensus 508 --DE----ir~yrK~~pTeaHkQRMAlI 529 (587)
++ +..|.|+.-...=.+=|++.
T Consensus 517 p~~e~l~~l~kyGk~Ll~h~P~~t~~il 544 (933)
T KOG2114|consen 517 PISELLRTLNKYGKILLEHDPEETMKIL 544 (933)
T ss_pred CHHHHHHHHHHHHHHHHhhChHHHHHHH
Confidence 11 12455555444444555533
No 177
>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed
Probab=23.89 E-value=1.9e+02 Score=33.76 Aligned_cols=65 Identities=14% Similarity=0.254 Sum_probs=37.6
Q ss_pred CChHHHHHHHHhc---------CCCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHHhhhcCC--CCccchhHHHHHhh
Q 007852 432 LGKRKIQDLVSQV---------DSQGKVDPEVEDLLLEIADD---FIDSVTSFACNLAKHRKS--STLESKDILLHLEK 496 (587)
Q Consensus 432 LtKrKLqeLVrqI---------DP~~kLD~DVEELLLeIADD---FVdsVvt~ACrLAKHRKS--dTLEvKDVQLhLER 496 (587)
|+...+.++++.+ .....+|+|+.+.|.+.++. -+.++++.+|..+...+. .+|+..++.=++.+
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 3445555555443 23467999999999998873 445666666654432222 22555555544443
No 178
>PRK12422 chromosomal replication initiation protein; Provisional
Probab=23.89 E-value=1e+02 Score=33.56 Aligned_cols=86 Identities=16% Similarity=0.147 Sum_probs=51.4
Q ss_pred cCChHHHHHHHHhcCC-CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcC-CccccCCCcc
Q 007852 431 LLGKRKIQDLVSQVDS-QGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNW-HLTVPGFSSE 508 (587)
Q Consensus 431 ILtKrKLqeLVrqIDP-~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnW-NI~IPGFssD 508 (587)
.|+-.-+.++++.+-. ..+..-.+++++-.+|+.|=-++.+ -+-|.|+.+.+.+|.|-.||-|++ ++++|-.|
T Consensus 330 ~i~~~~~~~~l~~~~~~~~~~~~t~~~I~~~Va~~~~v~~~d---l~s~~R~~~i~~~Rqiamyl~r~~t~~s~~~IG-- 404 (445)
T PRK12422 330 LLYVDDIKALLHDVLEAAESVRLTPSKIIRAVAQYYGVSPES---ILGRSQSREYVLPRQVAMYLCRQKLSLSYVKIG-- 404 (445)
T ss_pred CCCHHHHHHHHHHhhhcccCCCCCHHHHHHHHHHHhCCCHHH---HhcCCCCcccccHHHHHHHHHHHhcCCCHHHHH--
Confidence 3555556666655422 2221224456666666666433333 467889999999999999997764 56666433
Q ss_pred ccccccCCCCcHHHH
Q 007852 509 ERNHQRKSLSSDVHS 523 (587)
Q Consensus 509 Eir~yrK~~pTeaHk 523 (587)
+.+.|.++|-.|-
T Consensus 405 --~~fgrdHsTV~~a 417 (445)
T PRK12422 405 --DVFSRDHSTVISS 417 (445)
T ss_pred --HHhCCChHHHHHH
Confidence 2344666666664
No 179
>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=23.55 E-value=3.5e+02 Score=29.58 Aligned_cols=76 Identities=11% Similarity=0.204 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCcc----------------------ccCCCccccccc
Q 007852 456 DLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLT----------------------VPGFSSEERNHQ 513 (587)
Q Consensus 456 ELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~----------------------IPGFssDEir~y 513 (587)
+.|.+++++|++.|++..+.+.. ++|.|--+|.+.-... -|..-+-+.-..
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 56899999999999988765543 1222222221111111 133333332223
Q ss_pred cCCCCcHHHHHHHHHHHHhhccCCc
Q 007852 514 RKSLSSDVHSKRLEMIRALMEPSQS 538 (587)
Q Consensus 514 rK~~pTeaHkQRMAlIRK~m~ss~s 538 (587)
.+..+++.-++-+.+|-|.|-.-+.
T Consensus 272 ~~~~p~~~~rRtLtLIAKvLQnLAN 296 (395)
T cd05137 272 LRDHPQPRAQRTLTLIAKVLQNLAN 296 (395)
T ss_pred CcCCCCHHHHHHHHHHHHHHHHHhc
Confidence 3455666666778888887766544
No 180
>PF13565 HTH_32: Homeodomain-like domain
Probab=23.22 E-value=85 Score=25.00 Aligned_cols=35 Identities=20% Similarity=0.456 Sum_probs=26.5
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccc
Q 007852 451 DPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTV 502 (587)
Q Consensus 451 D~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 502 (587)
|+++++.|++++++.- ....+.|.-+|+++||+.+
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 6777777777665322 6788999999999999875
No 181
>PRK15380 pathogenicity island 1 protein SopD2; Provisional
Probab=23.20 E-value=1.1e+02 Score=32.56 Aligned_cols=95 Identities=14% Similarity=0.228 Sum_probs=61.7
Q ss_pred cccccCChHHHHHHHHhcCC--CCCCCHHHHHHHHHHHHHHHHHHHH-------HHHHHhhhcCCCCccchhHHHHHhhc
Q 007852 427 ATNQLLGKRKIQDLVSQVDS--QGKVDPEVEDLLLEIADDFIDSVTS-------FACNLAKHRKSSTLESKDILLHLEKN 497 (587)
Q Consensus 427 ~tnqILtKrKLqeLVrqIDP--~~kLD~DVEELLLeIADDFVdsVvt-------~ACrLAKHRKSdTLEvKDVQLhLERn 497 (587)
.+..||+|.+|++++.--|. -+.++.|-+|++++|++.+=+.|+. +|..|-|.-.++ .++||..+-|
T Consensus 114 i~~~vI~q~~i~~iLN~sdn~i~k~M~~~E~eLFlkiC~~~G~~i~~~peLLq~~as~Lrk~V~~~-~~IK~aVY~l--- 189 (319)
T PRK15380 114 IDGKVIDKCNLHRLLNVSENCIFKVMEEDEEELFFKICIKYGEKIARYPELLEGFANKLKDAVNED-DDIKDEVYKL--- 189 (319)
T ss_pred eCCEEeehhhHHHHhccchhheeeccchhHHHHHHHHHHHhccccccCHHHHHHHHHHHHHHhccc-cHHHHHHHHh---
Confidence 35689999999999975443 2368999999999999987666543 455555555554 6677755444
Q ss_pred CCccccCCCccccccccCCC--CcHHHHHHHHHHH
Q 007852 498 WHLTVPGFSSEERNHQRKSL--SSDVHSKRLEMIR 530 (587)
Q Consensus 498 WNI~IPGFssDEir~yrK~~--pTeaHkQRMAlIR 530 (587)
.=||-..+. .--.|. .|++-+.+++.|.
T Consensus 190 ---mR~~E~~~~--~~vew~~~lt~~e~~~l~cl~ 219 (319)
T PRK15380 190 ---MRSGEDRKM--ECVEWNGTLTEEEKNKLRCLQ 219 (319)
T ss_pred ---hCCccCCCC--cceeecCccCHhHHHHHHHhh
Confidence 334422221 223333 4577777877775
No 182
>COG0776 HimA Bacterial nucleoid DNA-binding protein [DNA replication, recombination, and repair]
Probab=23.01 E-value=2.2e+02 Score=25.69 Aligned_cols=52 Identities=21% Similarity=0.443 Sum_probs=27.9
Q ss_pred CChHHHHHHHHhcCCCCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccCCCcccc
Q 007852 432 LGKRKIQDLVSQVDSQGKVDP-EVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFSSEER 510 (587)
Q Consensus 432 LtKrKLqeLVrqIDP~~kLD~-DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEi 510 (587)
++|..|-+.|.+ ...|.. |++++ .|.|+|.|++ .|++-=.+.|+|||.=++
T Consensus 2 mtKseli~~ia~---~~~l~k~~a~~~----v~~~~~~i~~---------------------aL~~G~~V~l~gFG~F~v 53 (94)
T COG0776 2 MTKSELIDAIAE---KAGLSKKDAEEA----VDAFLEEITE---------------------ALAKGERVELRGFGTFEV 53 (94)
T ss_pred CCHHHHHHHHHH---HcCCCHHHHHHH----HHHHHHHHHH---------------------HHHcCCeEEEeeeeeeEe
Confidence 566666655543 222555 55553 3555555544 233333567777777655
Q ss_pred c
Q 007852 511 N 511 (587)
Q Consensus 511 r 511 (587)
+
T Consensus 54 ~ 54 (94)
T COG0776 54 R 54 (94)
T ss_pred e
Confidence 4
No 183
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=22.94 E-value=81 Score=37.45 Aligned_cols=65 Identities=22% Similarity=0.357 Sum_probs=47.8
Q ss_pred HHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchh--HHHHHhhcCCccccCCCccccc
Q 007852 439 DLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKD--ILLHLEKNWHLTVPGFSSEERN 511 (587)
Q Consensus 439 eLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKD--VQLhLERnWNI~IPGFssDEir 511 (587)
||+.+||.-..+.+--+|.|.+|+|.+++.+.. +|+ +|+-. |++.| +.+.+|+.|+ |.||+.-++
T Consensus 678 EFLNRid~II~F~~L~~~~l~~Iv~~~L~~l~~---~L~-~~~i~-l~~s~~a~~~l~~~gyd---~~~GARpL~ 744 (786)
T COG0542 678 EFLNRIDEIIPFNPLSKEVLERIVDLQLNRLAK---RLA-ERGIT-LELSDEAKDFLAEKGYD---PEYGARPLR 744 (786)
T ss_pred HHHhhcccEEeccCCCHHHHHHHHHHHHHHHHH---HHH-hCCce-EEECHHHHHHHHHhccC---CCcCchHHH
Confidence 566777766666666678899999999999987 566 33333 55555 4677899999 889987665
No 184
>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=22.71 E-value=2.5e+02 Score=24.40 Aligned_cols=52 Identities=17% Similarity=0.313 Sum_probs=34.8
Q ss_pred cccCChHHHHHHHHh-cCCCCCCC-HHHHHHHHHH---------HHHHHHHHHHHHHHHhhhcC
Q 007852 429 NQLLGKRKIQDLVSQ-VDSQGKVD-PEVEDLLLEI---------ADDFIDSVTSFACNLAKHRK 481 (587)
Q Consensus 429 nqILtKrKLqeLVrq-IDP~~kLD-~DVEELLLeI---------ADDFVdsVvt~ACrLAKHRK 481 (587)
+-.|++..|..++++ +..... + ++|++++.++ -+||+.-+..-++...+.|.
T Consensus 23 ~g~i~~~ELk~ll~~elg~~ls-~~~~v~~mi~~~D~d~DG~I~F~EF~~l~~~l~~~~~~~~~ 85 (89)
T cd05022 23 KESLTASEFQELLTQQLPHLLK-DVEGLEEKMKNLDVNQDSKLSFEEFWELIGELAKAVKGEKH 85 (89)
T ss_pred CCeECHHHHHHHHHHHhhhhcc-CHHHHHHHHHHhCCCCCCCCcHHHHHHHHHHHHHHHHHHhh
Confidence 457889999999988 643322 2 5777777554 35788877777666655543
No 185
>PF12536 DUF3734: Patatin phospholipase ; InterPro: IPR021095 This entry represents bacterial proteins of approximately 110 amino acids in length. These proteins are found in association with PF01734 from PFAM. There are two completely conserved residues (F and G) that may be functionally important. The proteins in this family are frequently annotated as patatin family phospholipases however there is little accompanying literature to confirm this.
Probab=22.67 E-value=15 Score=32.92 Aligned_cols=54 Identities=24% Similarity=0.328 Sum_probs=29.5
Q ss_pred hHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHH
Q 007852 434 KRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILL 492 (587)
Q Consensus 434 KrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQL 492 (587)
++.|.+|++.|++..+-|+++.. |..+++...-+||. |...++......||..|
T Consensus 21 r~~i~~Ll~~lP~~~r~dp~~~~-l~~~~~~~~~~Ivh----Liy~~~~~e~~sKDyeF 74 (108)
T PF12536_consen 21 RHAIRELLERLPEELRDDPDVRE-LAELGCGKRVNIVH----LIYRRKPYEGHSKDYEF 74 (108)
T ss_pred HHHHHHHHHcCCHHHhCCHHHHH-HHHhcCCCceEEEE----eecCCCCccccccCccC
Confidence 45667777777776666777654 44555544444443 33344444444566443
No 186
>PF14842 FliG_N: FliG N-terminal domain; PDB: 3HJL_A 3AJC_A 3USY_B.
Probab=22.67 E-value=1.8e+02 Score=25.77 Aligned_cols=34 Identities=26% Similarity=0.571 Sum_probs=18.6
Q ss_pred CChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHH
Q 007852 432 LGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDS 468 (587)
Q Consensus 432 LtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVds 468 (587)
|+.+.+..|.++|-.-..+|++..+ ++.+||.+.
T Consensus 30 l~~~ei~~i~~~ma~l~~v~~~~~~---~Vl~EF~~~ 63 (108)
T PF14842_consen 30 LDEEEIERISREMAKLGSVSPEEVE---EVLEEFYDE 63 (108)
T ss_dssp S-HHHHHHHHHHHHT-----HHHHH---HHHHHHHHH
T ss_pred CCHHHHHHHHHHHHccCCCCHHHHH---HHHHHHHHH
Confidence 5777888888888777777777543 344566653
No 187
>PRK08136 glycosyl transferase family protein; Provisional
Probab=22.59 E-value=1.1e+02 Score=32.38 Aligned_cols=50 Identities=12% Similarity=0.130 Sum_probs=36.6
Q ss_pred HHHHHHhcCCC----CCCCHH-HHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCcc
Q 007852 437 IQDLVSQVDSQ----GKVDPE-VEDLLLEIADDFIDSVTSFACNLAKHRKSSTLE 486 (587)
Q Consensus 437 LqeLVrqIDP~----~kLD~D-VEELLLeIADDFVdsVvt~ACrLAKHRKSdTLE 486 (587)
+.++|++|..+ ..|+.| +++++-.|.|.=++++--.|..+|-+-|.+|.|
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 34566666555 566654 888888888888888888888888777777665
No 188
>cd05030 calgranulins Calgranulins: S-100 domain found in proteins belonging to the Calgranulin subgroup of the S100 family of EF-hand calcium-modulated proteins, including S100A8, S100A9, and S100A12 . Note that the S-100 hierarchy, to which this Calgranulin group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. These proteins are expressed mainly in granulocytes, and are involved in inflammation, allergy, and neuritogenesis, as well as in host-parasite response. Calgranulins are modulated not only by calcium, but also by other metals such as zinc and copper. Structural data suggested that calgranulins may exist in multiple structural forms, homodimers, as well as hetero-oligomers. For example, the S100A8/S100A9 complex called calprotectin plays important roles in the regulation of inflammatory processes, wound repair, and regulating zinc-dependent enzymes as well as microbial growth.
Probab=22.50 E-value=1.9e+02 Score=24.48 Aligned_cols=51 Identities=20% Similarity=0.344 Sum_probs=29.5
Q ss_pred cccCChHHHHHHHHhcCCC----CCCCHHHHHHHHHH---------HHHHHHHHHHHHHHHhhhcC
Q 007852 429 NQLLGKRKIQDLVSQVDSQ----GKVDPEVEDLLLEI---------ADDFIDSVTSFACNLAKHRK 481 (587)
Q Consensus 429 nqILtKrKLqeLVrqIDP~----~kLD~DVEELLLeI---------ADDFVdsVvt~ACrLAKHRK 481 (587)
+..|++..|..++...-+. ...++++.+++.++ -++|+.-+.. +..|-|++
T Consensus 24 ~~~Is~~El~~ll~~~~g~~~t~~~~~~~v~~i~~~~D~d~dG~I~f~eF~~~~~~--~~~~~~~~ 87 (88)
T cd05030 24 PDTLYKKEFKQLVEKELPNFLKKEKNQKAIDKIFEDLDTNQDGQLSFEEFLVLVIK--VGVAAHEK 87 (88)
T ss_pred cccCCHHHHHHHHHHHhhHhhccCCCHHHHHHHHHHcCCCCCCcCcHHHHHHHHHH--HHHHhccc
Confidence 4578888888888632221 12246677766554 2577765443 34455554
No 189
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=22.46 E-value=1.6e+02 Score=33.46 Aligned_cols=62 Identities=19% Similarity=0.291 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHHHHH-----------HHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccCCCccccccccC
Q 007852 453 EVEDLLLEIADDFID-----------SVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFSSEERNHQRK 515 (587)
Q Consensus 453 DVEELLLeIADDFVd-----------sVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEir~yrK 515 (587)
+.+++|.+|.|+..+ -+.+.||+-|.-.+. .|+...+.--|++-..+..|-.......++.+
T Consensus 532 ~~~~~l~ell~~l~~~~~~~~~~~~~~las~ACr~AIk~g~-~Ls~~E~~~Ll~~L~~~~~P~~CPHGRPt~i~ 604 (617)
T PRK00095 532 ELEELIRDLLDELAEEGDSDTLKERELLATMACHGAIRAGR-RLTLEEMNALLRQLEATENPGTCPHGRPTYIE 604 (617)
T ss_pred CHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhccC-CCCHHHHHHHHHHHHhcccccCCCCCCeeEEE
Confidence 356667777665543 478889999986665 58888888888888888888666554444433
No 190
>PRK00199 ihfB integration host factor subunit beta; Reviewed
Probab=22.43 E-value=27 Score=29.77 Aligned_cols=19 Identities=21% Similarity=0.319 Sum_probs=13.2
Q ss_pred HHhhcCCccccCCCccccc
Q 007852 493 HLEKNWHLTVPGFSSEERN 511 (587)
Q Consensus 493 hLERnWNI~IPGFssDEir 511 (587)
+|++.+.+.|+|||.=+++
T Consensus 36 ~L~~g~~V~l~gfG~F~~~ 54 (94)
T PRK00199 36 ALARGDRIEIRGFGSFSLH 54 (94)
T ss_pred HHHcCCeEEEcCCEEEEEE
Confidence 3456677888888886655
No 191
>PHA00440 host protein H-NS-interacting protein
Probab=22.22 E-value=2e+02 Score=26.64 Aligned_cols=42 Identities=24% Similarity=0.389 Sum_probs=35.2
Q ss_pred hHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 007852 434 KRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACN 475 (587)
Q Consensus 434 KrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACr 475 (587)
++.|.+|.+.++.++++|+--.++|..-.-.=.|-++.|+.+
T Consensus 26 ~e~l~~Lak~v~~GE~~~~~~re~lvqaLT~G~egai~F~~k 67 (98)
T PHA00440 26 EEDILDLAKQAGAGEEVNPKDKELLVQALTHGPEGAAAFAVR 67 (98)
T ss_pred HHHHHHHHhhcCCcccCChHHHHHHHHHHhhChHHHHHHHHH
Confidence 468999999999999999999998888777777777777665
No 192
>smart00760 Bac_DnaA_C Bacterial dnaA protein helix-turn-helix domain. Could be involved in DNA-binding.
Probab=22.17 E-value=34 Score=27.13 Aligned_cols=48 Identities=23% Similarity=0.368 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhc-CCccccC
Q 007852 454 VEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKN-WHLTVPG 504 (587)
Q Consensus 454 VEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERn-WNI~IPG 504 (587)
+++++-.+|+.|= |.. .--+.+-|+.+..++|.|..+|-|+ +|++++.
T Consensus 2 ~~~I~~~Va~~~~--i~~-~~i~s~~R~~~~~~aR~iamyla~~~~~~sl~~ 50 (60)
T smart00760 2 IEEIIEAVAEYFG--VKP-EDLKSKSRKREIVLARQIAMYLARELTDLSLPE 50 (60)
T ss_pred HHHHHHHHHHHhC--CCH-HHHhcCCCCcchhHHHHHHHHHHHHHHCCCHHH
Confidence 4667777777772 222 2246777888899999999999776 6666553
No 193
>PLN02690 Agmatine deiminase
Probab=21.95 E-value=57 Score=35.18 Aligned_cols=67 Identities=15% Similarity=0.199 Sum_probs=46.6
Q ss_pred HHHHHHHHhhhcCCCCccchhHHHHHhhcCC----ccccC-CCccc--------c-c---c----c-cCCCCcHHHHHHH
Q 007852 469 VTSFACNLAKHRKSSTLESKDILLHLEKNWH----LTVPG-FSSEE--------R-N---H----Q-RKSLSSDVHSKRL 526 (587)
Q Consensus 469 Vvt~ACrLAKHRKSdTLEvKDVQLhLERnWN----I~IPG-FssDE--------i-r---~----y-rK~~pTeaHkQRM 526 (587)
+++.+|.|-.+|+-+ +.-.+|.-.|++.+| ||+|+ +..|+ + | + + .-..+.+.|..++
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 778899999999987 888999999999999 67885 44432 1 1 0 0 1122345566777
Q ss_pred HHHHHhhccC
Q 007852 527 EMIRALMEPS 536 (587)
Q Consensus 527 AlIRK~m~ss 536 (587)
...++.+++.
T Consensus 253 ~~~~~~L~~~ 262 (374)
T PLN02690 253 VEALSILSNT 262 (374)
T ss_pred HHHHHHHHhh
Confidence 7766666554
No 194
>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=21.56 E-value=2.1e+02 Score=29.18 Aligned_cols=70 Identities=17% Similarity=0.358 Sum_probs=40.3
Q ss_pred cccCChHHHHHHHHhcCCCCCCCHHHHHHHHHH---HHHHHHHHHHHHHHHhhhcCCCCccchhH--HHHHhhcCCcccc
Q 007852 429 NQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEI---ADDFIDSVTSFACNLAKHRKSSTLESKDI--LLHLEKNWHLTVP 503 (587)
Q Consensus 429 nqILtKrKLqeLVrqIDP~~kLD~DVEELLLeI---ADDFVdsVvt~ACrLAKHRKSdTLEvKDV--QLhLERnWNI~IP 503 (587)
...++=..|..||.+++.-...-+++. .|.++ +++|.+.+-. .|.+ ....++.++ .+..-..+|+.+|
T Consensus 80 ~~~~~l~~l~~Ll~e~~~L~~~~pEi~-~L~~l~~~ve~f~~~a~~---~L~~---~~~~~~~~le~Ll~~g~s~~v~lp 152 (335)
T PF08429_consen 80 RNKLTLEELEALLEEIESLPFDCPEID-QLKELLEEVEEFQSRAQE---ALSD---PESPSLEELEELLEEGESFGVDLP 152 (335)
T ss_pred cccCCHHHHHHHHHHHhcCCeeCchHH-HHHHHHHHHHHHHHHHHH---HHhc---cccCCHHHHHHHHHhcccCceeCh
Confidence 456778889999999987655556643 34444 4455554433 2222 222334444 4444566777777
Q ss_pred CC
Q 007852 504 GF 505 (587)
Q Consensus 504 GF 505 (587)
.+
T Consensus 153 el 154 (335)
T PF08429_consen 153 EL 154 (335)
T ss_pred hH
Confidence 43
No 195
>PRK13531 regulatory ATPase RavA; Provisional
Probab=21.52 E-value=3.6e+02 Score=30.73 Aligned_cols=70 Identities=11% Similarity=0.216 Sum_probs=52.5
Q ss_pred cccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHH-------------HHHHHHHHHHHhhhcCCCCccchhHHHHHh
Q 007852 429 NQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDF-------------IDSVTSFACNLAKHRKSSTLESKDILLHLE 495 (587)
Q Consensus 429 nqILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDF-------------VdsVvt~ACrLAKHRKSdTLEvKDVQLhLE 495 (587)
..+|+...|.++-+.|+ ...++++|.|.+.+|++.- .-.++..+-..|-..|.+.|...||.+...
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 35788888988888875 5789999999999998631 123445555667788999999999995444
Q ss_pred hcCC
Q 007852 496 KNWH 499 (587)
Q Consensus 496 RnWN 499 (587)
--|+
T Consensus 283 vL~H 286 (498)
T PRK13531 283 CLWH 286 (498)
T ss_pred Hhcc
Confidence 4565
No 196
>PRK08150 enoyl-CoA hydratase; Provisional
Probab=21.50 E-value=12 Score=36.85 Aligned_cols=97 Identities=18% Similarity=0.173 Sum_probs=41.5
Q ss_pred ccccCChHHHHHHHHhcCCCCCCCHH-HHHH--HHHH--HHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccc
Q 007852 428 TNQLLGKRKIQDLVSQVDSQGKVDPE-VEDL--LLEI--ADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTV 502 (587)
Q Consensus 428 tnqILtKrKLqeLVrqIDP~~kLD~D-VEEL--LLeI--ADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~I 502 (587)
..++++..+-.+|+-. ...||.+ +.++ +-++ .|++.+.+...+-++|+. ...-+.-++-.|.+.|+..+
T Consensus 144 l~~~iG~~~a~~l~lt---g~~~~a~eA~~~Glv~~vv~~~~l~~~a~~~a~~la~~---~~~a~~~~K~~l~~~~~~~~ 217 (255)
T PRK08150 144 VPRLIGVARMTDMMLT---GRVYDAQEGERLGLAQYLVPAGEALDKAMELARRIAQN---APLTNFAVLNALPRIADMSA 217 (255)
T ss_pred HHHHhCHHHHHHHHHc---CCcCCHHHHHHcCCccEeeCchHHHHHHHHHHHHHHhC---CHHHHHHHHHHHHHhccCCH
Confidence 3567787788888732 2223221 1110 0011 133444444444444432 22222223333333333332
Q ss_pred cCCCccccccccCCCCcHHHHHHHHHHH
Q 007852 503 PGFSSEERNHQRKSLSSDVHSKRLEMIR 530 (587)
Q Consensus 503 PGFssDEir~yrK~~pTeaHkQRMAlIR 530 (587)
..--..|.+...+...++++++++..+.
T Consensus 218 ~~~~~~e~~~~~~~~~s~d~~eg~~af~ 245 (255)
T PRK08150 218 DDGLFVESLMAAVAQSAPEAKERLRAFL 245 (255)
T ss_pred HHHHHHHHHHHHHHhcCHHHHHHHHHHh
Confidence 1111122333445556777877776553
No 197
>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=21.43 E-value=1.1e+02 Score=27.65 Aligned_cols=31 Identities=39% Similarity=0.518 Sum_probs=20.8
Q ss_pred HHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHH
Q 007852 435 RKIQDLVSQVDSQGKVDPEVEDLLLEIADDFID 467 (587)
Q Consensus 435 rKLqeLVrqIDP~~kLD~DVEELLLeIADDFVd 467 (587)
|+|-++|+. +++.--+--.++|.+++|+|||
T Consensus 49 RkLld~v~a--kG~~~k~~F~~iL~e~~~~y~~ 79 (85)
T cd08324 49 RKILDLVQS--KGEEVSEYFLYLLQQLADAYVD 79 (85)
T ss_pred HHHHHHHHh--cCchHHHHHHHHHHHHHHhhhh
Confidence 455555553 3344445577889999999997
No 198
>PRK14955 DNA polymerase III subunits gamma and tau; Provisional
Probab=21.42 E-value=1.9e+02 Score=30.58 Aligned_cols=61 Identities=11% Similarity=0.090 Sum_probs=38.0
Q ss_pred CChHHHHHHHHhcC--CCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHHhh-hcCCCCccchhHHH
Q 007852 432 LGKRKIQDLVSQVD--SQGKVDPEVEDLLLEIADD---FIDSVTSFACNLAK-HRKSSTLESKDILL 492 (587)
Q Consensus 432 LtKrKLqeLVrqID--P~~kLD~DVEELLLeIADD---FVdsVvt~ACrLAK-HRKSdTLEvKDVQL 492 (587)
++...|.+.++++- .+..+|+++.++|.++++. .+.+.++..|.++. +-...+|+.+||.-
T Consensus 186 l~~~ei~~~l~~~~~~~g~~i~~~al~~l~~~s~g~lr~a~~~L~kl~~~~~~~~~~~~It~~~v~~ 252 (397)
T PRK14955 186 IPLEEIQQQLQGICEAEGISVDADALQLIGRKAQGSMRDAQSILDQVIAFSVESEGEGSIRYDKVAE 252 (397)
T ss_pred CCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhccccCCCCccCHHHHHH
Confidence 44555555555432 2456999999999999987 44455556666663 22234677766643
No 199
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=21.35 E-value=1.6e+02 Score=27.38 Aligned_cols=93 Identities=10% Similarity=0.237 Sum_probs=57.7
Q ss_pred ccccCChHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhH-HHHHhhcCCccccCCC
Q 007852 428 TNQLLGKRKIQDLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDI-LLHLEKNWHLTVPGFS 506 (587)
Q Consensus 428 tnqILtKrKLqeLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDV-QLhLERnWNI~IPGFs 506 (587)
.....+|..+.+|+..+..+ | ++.+-++.+.+-..|..++.++.+. .-+++|| +=++-+-|. .++.|.
T Consensus 5 ~~~~~~~~~~~~li~~~~~~---d---~~af~~l~~~y~~~l~~~~~~~~~~----~~~AeDlvQev~l~l~~-~~~~~~ 73 (194)
T PRK12531 5 SPHTFGRQEWLECMEKVKSR---D---KQAFALVFSYYAPKLKQFAMKHVGN----EQVAMEMVQETMSTVWQ-KAHLFD 73 (194)
T ss_pred CccccccHhHHHHHHHHHcC---C---HHHHHHHHHHHHHHHHHHHHHHhCC----HHHHHHHHHHHHHHHHH-hHHhcC
Confidence 45667888999999887653 3 3345556666666666666666543 3467887 445556665 334443
Q ss_pred ccccccccCCCCcHHHHHHHHHHHHh
Q 007852 507 SEERNHQRKSLSSDVHSKRLEMIRAL 532 (587)
Q Consensus 507 sDEir~yrK~~pTeaHkQRMAlIRK~ 532 (587)
. +..+++-|...-+++.-+..+||.
T Consensus 74 ~-~~~~~~~wL~~iarn~~ld~~Rk~ 98 (194)
T PRK12531 74 G-QKSALSTWIYTIIRNLCFDLLRKQ 98 (194)
T ss_pred c-ccchHHHHHHHHHHHHHHHHHHHh
Confidence 2 222456677777777777777764
No 200
>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=21.30 E-value=3.6e+02 Score=28.30 Aligned_cols=51 Identities=8% Similarity=-0.037 Sum_probs=37.0
Q ss_pred CCCCCCHHHHHHHHHHHHH---HHHHHHHHHHHHhhhcCCCCccchhHHHHHhhc
Q 007852 446 SQGKVDPEVEDLLLEIADD---FIDSVTSFACNLAKHRKSSTLESKDILLHLEKN 497 (587)
Q Consensus 446 P~~kLD~DVEELLLeIADD---FVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERn 497 (587)
....+++||.+.|.+-.+. -++.++..-|..|+..+.. +++..+.-+|+..
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 3578899998888877652 3556777778888776644 8888887777754
No 201
>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=21.22 E-value=1.4e+02 Score=25.76 Aligned_cols=55 Identities=22% Similarity=0.390 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCccccCCCccccccccCCCCcHHHHHHHHHHHHhh
Q 007852 464 DFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVPGFSSEERNHQRKSLSSDVHSKRLEMIRALM 533 (587)
Q Consensus 464 DFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IPGFssDEir~yrK~~pTeaHkQRMAlIRK~m 533 (587)
.|.|+|-..+-...+.|+.+.+++.||.=.++-. .+...|.+..++=+.-||+++
T Consensus 31 GW~d~vr~~~re~i~~~g~~~~~~~~l~~~i~P~---------------Ar~~VP~~vk~ell~~Ir~~L 85 (86)
T PF10163_consen 31 GWRDEVRQLCREIIRERGIDNLTFEDLLEEITPK---------------ARAMVPDEVKKELLQRIRAFL 85 (86)
T ss_dssp THHHHHHHHHHHHHHHH-TTTSBHHHHHHHHHHH---------------HHHCS-HHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHH---------------HHHHCCHHHHHHHHHHHHHHh
Confidence 6777777777777777999999999986554322 344556666666677777765
No 202
>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=21.08 E-value=97 Score=26.01 Aligned_cols=38 Identities=18% Similarity=0.319 Sum_probs=26.2
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCccchhHH
Q 007852 451 DPEVEDLLLEIADDFIDSVTSFACNLAKHRKSSTLESKDIL 491 (587)
Q Consensus 451 D~DVEELLLeIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQ 491 (587)
+.++.++.+++-|++|+|+-. -|..-++...++.-|.+
T Consensus 9 ~~~l~~~~~~lLdqlIeD~~~---pLP~~~~~~~~t~LD~~ 46 (66)
T PF08165_consen 9 EEELAELWLKLLDQLIEDCSK---PLPSLEGKPNATELDRQ 46 (66)
T ss_pred HHHHHHHHHHHHHHHHHHhcC---CCCCCCCCCCCCHHHHH
Confidence 457889999999999999655 45444554445555543
No 203
>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=21.01 E-value=4.4e+02 Score=23.91 Aligned_cols=34 Identities=6% Similarity=0.224 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhc
Q 007852 464 DFIDSVTSFACNLAKHRKSSTLESKDILLHLEKN 497 (587)
Q Consensus 464 DFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERn 497 (587)
+++.-++.+-.++++|...+..+++.+-.++-.+
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 5666777788888888888888888877766553
No 204
>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=20.88 E-value=3.8e+02 Score=28.58 Aligned_cols=22 Identities=14% Similarity=0.418 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 007852 456 DLLLEIADDFIDSVTSFACNLA 477 (587)
Q Consensus 456 ELLLeIADDFVdsVvt~ACrLA 477 (587)
+.|.+++|+|++.|++..+++.
T Consensus 135 ~~L~~~~~~fl~~I~~S~~~~P 156 (329)
T cd05130 135 RNLLQLTEKFFHAIINSSSEFP 156 (329)
T ss_pred HHHHHHHHHHHHHHHHhHHhCC
Confidence 5689999999999999765443
No 205
>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=20.73 E-value=67 Score=25.97 Aligned_cols=47 Identities=15% Similarity=0.187 Sum_probs=29.9
Q ss_pred HHHHHHhcCCCCCCCHH-HHHHHHHHHHHHHHHHHHHHHHHhhhcCCC
Q 007852 437 IQDLVSQVDSQGKVDPE-VEDLLLEIADDFIDSVTSFACNLAKHRKSS 483 (587)
Q Consensus 437 LqeLVrqIDP~~kLD~D-VEELLLeIADDFVdsVvt~ACrLAKHRKSd 483 (587)
+.++++++-.+..|+.| +++++-.|.|+=++++--.|...|-+-|..
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 55677776666777665 888888888888888888887777664543
No 206
>PTZ00465 rhoptry-associated protein 1 (RAP-1); Provisional
Probab=20.54 E-value=35 Score=38.74 Aligned_cols=65 Identities=15% Similarity=0.332 Sum_probs=47.2
Q ss_pred HHHHhcCCCCCCCHHHHHHHHHHHHHHHHHHHHHH-----HH------HhhhcCCCCccchhHHHHHhhcCC-cccc
Q 007852 439 DLVSQVDSQGKVDPEVEDLLLEIADDFIDSVTSFA-----CN------LAKHRKSSTLESKDILLHLEKNWH-LTVP 503 (587)
Q Consensus 439 eLVrqIDP~~kLD~DVEELLLeIADDFVdsVvt~A-----Cr------LAKHRKSdTLEvKDVQLhLERnWN-I~IP 503 (587)
+++..++-.+.|.+|..+.|...-|+|+|+||..+ |+ +++=...+.+.+.-|.+-+++.|- +.+|
T Consensus 49 ~~i~a~~~~~~i~~dM~~~l~~~~e~~vD~VC~~~~E~s~Cr~~V~~YV~RCk~gDCLTID~VkyP~n~eyqpL~LP 125 (565)
T PTZ00465 49 TLMTLRDHMHNITKDMKHVLSNGREQIVNDVCSNAPEDSNCREVVNNYADRCEMYGCFTIDNVKYPLYQEYQPLSLP 125 (565)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhCchHHHHHHHhCCCchhhHHHHHHHHHHHhccCCceeeehhhccccCCCCCCCCC
Confidence 44444556778899999999999999999999874 33 344456677777777777776654 5555
No 207
>PRK12710 flgJ flagellar rod assembly protein/muramidase FlgJ; Provisional
Probab=20.44 E-value=1.2e+02 Score=32.28 Aligned_cols=43 Identities=26% Similarity=0.202 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhcCCCCccchhHHHHHhhcCCcccc
Q 007852 460 EIADDFIDSVTSFACNLAKHRKSSTLESKDILLHLEKNWHLTVP 503 (587)
Q Consensus 460 eIADDFVdsVvt~ACrLAKHRKSdTLEvKDVQLhLERnWNI~IP 503 (587)
+..++||+.|.-.|.++||.-+-. -.|-=-+-+||-.||-++.
T Consensus 128 ~~~~~FI~~i~p~A~~~a~~~Gv~-pSv~iAQAaLESGWGks~l 170 (291)
T PRK12710 128 SVVDDFVKSVWPTAKQAASLIGLD-PKLLVAQAALETGWGKFVT 170 (291)
T ss_pred ccHHHHHHHHHHHHHHHHHHhCcC-hHHHHHHHHHHccCCcccc
Confidence 557899999999999999988765 3344447789999996653
No 208
>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=20.30 E-value=2.5e+02 Score=30.51 Aligned_cols=32 Identities=16% Similarity=0.239 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHhhhcCCCCccchhHHHHHhhc
Q 007852 466 IDSVTSFACNLAKHRKSSTLESKDILLHLEKN 497 (587)
Q Consensus 466 VdsVvt~ACrLAKHRKSdTLEvKDVQLhLERn 497 (587)
|+.++..|+..|-.++...|+.+|+.-.+++.
T Consensus 264 l~~l~~eA~~~a~~~~~~~i~~~~l~~a~~~~ 295 (495)
T TIGR01241 264 LANLLNEAALLAARKNKTEITMNDIEEAIDRV 295 (495)
T ss_pred HHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHH
Confidence 56777777777777777889999999999875
No 209
>COG3900 Predicted periplasmic protein [Function unknown]
Probab=20.05 E-value=49 Score=34.53 Aligned_cols=70 Identities=21% Similarity=0.342 Sum_probs=47.8
Q ss_pred cccCChHHHHHHHHhcCCCCCCCHHHHHHHH-HHHHHHHHHHHHHHHHHhhhcCCCCccchhH-HHHH---hhcCCcccc
Q 007852 429 NQLLGKRKIQDLVSQVDSQGKVDPEVEDLLL-EIADDFIDSVTSFACNLAKHRKSSTLESKDI-LLHL---EKNWHLTVP 503 (587)
Q Consensus 429 nqILtKrKLqeLVrqIDP~~kLD~DVEELLL-eIADDFVdsVvt~ACrLAKHRKSdTLEvKDV-QLhL---ERnWNI~IP 503 (587)
++|=.+..|++||.+||..+-|+-...|+|. +..|+.|+-|.+ +||-+...|.-.+- +|.+ .+.|-|||-
T Consensus 119 aqieapgTiD~lvdei~~kyG~~lp~adllsadpyd~L~~gv~s-----s~~vg~~vVgg~ecd~lafr~ddvDfqIWIs 193 (262)
T COG3900 119 AQIEAPGTIDELVDEIDDKYGITLPGADLLSADPYDDLIAGVES-----SKFVGNAVVGGEECDQLAFRKDDVDFQIWIS 193 (262)
T ss_pred eeccCCCcHHHHHHHHHhhcCCCccchhhhccChHHHHHhhhhh-----hhhhhhhccCceeehhhhccCCCCceEEEee
Confidence 3455566899999999998888877777664 677888877765 56666665544443 2333 356888863
No 210
>PRK10664 transcriptional regulator HU subunit beta; Provisional
Probab=20.01 E-value=1.4e+02 Score=25.91 Aligned_cols=13 Identities=15% Similarity=0.340 Sum_probs=9.8
Q ss_pred CccccCCCccccc
Q 007852 499 HLTVPGFSSEERN 511 (587)
Q Consensus 499 NI~IPGFssDEir 511 (587)
.+.|||||.=+++
T Consensus 41 ~v~l~gfG~F~v~ 53 (90)
T PRK10664 41 DVALVGFGTFAVK 53 (90)
T ss_pred EEEECCcEEEEEE
Confidence 5778888886665
Done!