Query 012071
Match_columns 471
No_of_seqs 237 out of 758
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 08:19:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012071.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012071hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07526 POX: Associated with 100.0 1.9E-48 4.1E-53 352.2 13.2 139 221-361 1-140 (140)
2 smart00574 POX domain associat 100.0 2.6E-47 5.6E-52 343.1 13.1 138 217-361 1-140 (140)
3 KOG0773 Transcription factor M 100.0 2.1E-36 4.6E-41 303.4 8.2 249 219-471 45-303 (342)
4 KOG0774 Transcription factor P 99.6 1.2E-15 2.5E-20 150.5 13.2 147 292-470 101-251 (334)
5 PF05920 Homeobox_KN: Homeobox 99.6 2.9E-16 6.3E-21 115.2 1.9 39 426-464 1-40 (40)
6 cd00086 homeodomain Homeodomai 99.3 4.7E-12 1E-16 95.7 5.0 55 410-467 2-57 (59)
7 KOG0775 Transcription factor S 99.2 9.3E-12 2E-16 123.7 5.7 67 396-465 161-231 (304)
8 smart00389 HOX Homeodomain. DN 99.2 2.3E-11 5E-16 91.6 4.9 51 412-465 4-55 (56)
9 PF00046 Homeobox: Homeobox do 99.1 2.9E-11 6.3E-16 92.1 3.8 55 409-466 1-56 (57)
10 KOG0842 Transcription factor t 98.4 1.7E-07 3.7E-12 95.3 4.3 59 409-470 153-213 (307)
11 KOG0488 Transcription factor B 98.4 1.9E-07 4E-12 95.1 3.8 58 410-470 173-231 (309)
12 TIGR01565 homeo_ZF_HD homeobox 98.3 9.3E-07 2E-11 70.1 5.6 49 410-461 3-55 (58)
13 KOG0485 Transcription factor N 98.2 5E-07 1.1E-11 88.3 2.5 53 414-469 110-162 (268)
14 KOG0487 Transcription factor A 98.2 9.7E-07 2.1E-11 89.9 4.4 57 408-467 234-292 (308)
15 KOG3802 Transcription factor O 98.2 1.6E-06 3.4E-11 90.6 5.8 59 409-470 294-353 (398)
16 KOG0489 Transcription factor z 98.2 5.6E-07 1.2E-11 89.3 2.3 58 408-468 159-216 (261)
17 KOG0843 Transcription factor E 98.2 1.7E-06 3.7E-11 82.4 4.1 54 411-467 105-159 (197)
18 KOG2251 Homeobox transcription 98.1 2.6E-06 5.6E-11 83.2 5.1 55 410-467 39-93 (228)
19 KOG0850 Transcription factor D 98.1 2.3E-06 4.9E-11 84.1 3.8 59 407-468 121-180 (245)
20 KOG0493 Transcription factor E 98.1 2.5E-06 5.4E-11 85.3 3.9 59 407-468 245-304 (342)
21 KOG0483 Transcription factor H 98.1 2.9E-06 6.2E-11 81.9 3.7 58 408-468 50-107 (198)
22 KOG0486 Transcription factor P 98.1 2.2E-06 4.8E-11 87.3 2.9 56 410-468 113-169 (351)
23 KOG0494 Transcription factor C 98.0 4.1E-06 8.9E-11 83.7 3.8 51 415-468 148-198 (332)
24 COG5576 Homeodomain-containing 97.8 2E-05 4.3E-10 73.6 4.6 57 408-467 51-108 (156)
25 KOG0492 Transcription factor M 97.5 7.3E-05 1.6E-09 73.0 4.2 55 409-466 145-200 (246)
26 KOG0773 Transcription factor M 97.5 2.6E-05 5.6E-10 79.2 0.8 61 408-469 95-156 (342)
27 KOG0484 Transcription factor P 97.5 4.3E-05 9.3E-10 67.7 1.9 51 414-467 23-74 (125)
28 KOG0491 Transcription factor B 97.3 6.3E-05 1.4E-09 71.2 0.1 56 409-467 100-157 (194)
29 KOG2252 CCAAT displacement pro 97.2 0.00026 5.6E-09 76.9 4.3 54 408-464 420-474 (558)
30 KOG0490 Transcription factor, 97.2 0.00019 4.1E-09 67.6 2.4 56 410-468 62-117 (235)
31 KOG0847 Transcription factor, 97.0 0.00031 6.8E-09 69.2 2.3 64 402-468 159-224 (288)
32 KOG4577 Transcription factor L 96.9 0.00071 1.5E-08 69.0 3.7 55 407-464 166-221 (383)
33 KOG0848 Transcription factor C 96.8 0.00039 8.5E-09 70.1 1.2 48 415-465 206-254 (317)
34 KOG0849 Transcription factor P 96.7 0.0011 2.5E-08 68.8 3.5 55 410-467 178-233 (354)
35 KOG0844 Transcription factor E 96.6 0.0008 1.7E-08 69.0 1.6 52 414-469 187-240 (408)
36 KOG1168 Transcription factor A 95.6 0.0061 1.3E-07 62.4 2.1 56 409-467 310-366 (385)
37 PF11569 Homez: Homeodomain le 95.1 0.011 2.5E-07 47.0 1.5 38 421-461 11-48 (56)
38 KOG0490 Transcription factor, 91.0 0.18 4E-06 47.5 3.0 57 408-467 153-210 (235)
39 PF03791 KNOX2: KNOX2 domain ; 84.3 1.4 3.1E-05 34.7 3.7 42 327-368 4-52 (52)
40 PF11285 DUF3086: Protein of u 83.1 11 0.00024 38.7 10.3 121 294-430 7-155 (283)
41 KOG1146 Homeobox protein [Gene 76.6 1.7 3.6E-05 52.5 2.5 58 409-469 903-962 (1406)
42 PRK12851 groEL chaperonin GroE 75.7 18 0.00039 40.0 10.0 82 289-371 358-459 (541)
43 PF04218 CENP-B_N: CENP-B N-te 74.9 3 6.4E-05 32.3 2.7 48 410-465 2-49 (53)
44 CHL00093 groEL chaperonin GroE 72.9 26 0.00056 38.6 10.3 82 289-371 357-460 (529)
45 PRK12849 groEL chaperonin GroE 70.6 25 0.00055 38.9 9.6 81 290-371 358-458 (542)
46 TIGR02348 GroEL chaperonin Gro 69.7 29 0.00063 38.1 9.8 82 289-371 356-457 (524)
47 cd03344 GroEL GroEL_like type 64.8 40 0.00086 37.1 9.6 81 290-371 356-456 (520)
48 PRK12852 groEL chaperonin GroE 64.6 42 0.00091 37.1 9.9 80 291-371 360-459 (545)
49 PRK00013 groEL chaperonin GroE 62.3 38 0.00083 37.5 9.0 82 289-371 357-458 (542)
50 PRK12850 groEL chaperonin GroE 59.6 52 0.0011 36.4 9.5 80 291-371 360-459 (544)
51 cd00569 HTH_Hin_like Helix-tur 57.4 22 0.00048 22.1 3.9 39 413-459 4-42 (42)
52 PTZ00114 Heat shock protein 60 57.0 53 0.0012 36.4 9.0 81 290-371 371-474 (555)
53 KOG3623 Homeobox transcription 56.7 9.7 0.00021 44.0 3.3 42 420-464 568-610 (1007)
54 PRK14104 chaperonin GroEL; Pro 53.8 90 0.0019 34.7 10.1 81 290-371 359-459 (546)
55 PF04740 LXG: LXG domain of WX 46.9 1.1E+02 0.0023 28.9 8.2 76 302-377 7-91 (204)
56 TIGR02481 hemeryth_dom hemeryt 46.7 90 0.0019 27.0 7.1 18 414-431 98-115 (126)
57 PF01527 HTH_Tnp_1: Transposas 45.2 26 0.00056 27.6 3.2 44 410-461 2-46 (76)
58 cd06171 Sigma70_r4 Sigma70, re 43.6 16 0.00035 25.5 1.7 43 415-465 11-54 (55)
59 PF07765 KIP1: KIP1-like prote 41.3 29 0.00063 29.4 3.0 28 290-317 41-69 (74)
60 cd00309 chaperonin_type_I_II c 38.5 1.2E+02 0.0025 32.5 7.8 67 305-371 323-397 (464)
61 KOG0809 SNARE protein TLG2/Syn 38.2 91 0.002 32.7 6.6 63 306-368 105-172 (305)
62 PF00118 Cpn60_TCP1: TCP-1/cpn 37.1 93 0.002 32.8 6.8 67 305-371 342-416 (485)
63 PTZ00212 T-complex protein 1 s 36.6 1.2E+02 0.0026 33.4 7.8 67 305-371 383-457 (533)
64 PF04545 Sigma70_r4: Sigma-70, 35.9 23 0.0005 26.2 1.5 45 414-466 4-49 (50)
65 cd03342 TCP1_zeta TCP-1 (CTT o 35.4 1.2E+02 0.0027 32.9 7.5 67 305-371 340-414 (484)
66 PF13443 HTH_26: Cro/C1-type H 35.4 34 0.00073 26.1 2.4 22 440-461 12-33 (63)
67 TIGR02345 chap_CCT_eta T-compl 33.5 1.5E+02 0.0032 32.6 7.8 67 305-371 377-451 (522)
68 TIGR02346 chap_CCT_theta T-com 31.9 1.4E+02 0.0031 32.8 7.4 64 305-371 375-449 (531)
69 PF14943 MRP-S26: Mitochondria 31.6 50 0.0011 31.7 3.3 21 309-329 28-48 (170)
70 TIGR02342 chap_CCT_delta T-com 31.3 1.7E+02 0.0036 32.1 7.7 45 305-349 374-418 (517)
71 cd03341 TCP1_theta TCP-1 (CTT 30.5 1.6E+02 0.0034 31.9 7.3 64 305-371 327-401 (472)
72 cd07597 BAR_SNX8 The Bin/Amphi 30.2 3.2E+02 0.007 27.2 8.9 76 295-371 33-119 (246)
73 PF13945 NST1: Salt tolerance 29.6 1.5E+02 0.0032 29.2 6.2 49 287-335 113-183 (190)
74 TIGR02341 chap_CCT_beta T-comp 29.5 1.8E+02 0.0039 32.0 7.6 67 305-371 372-446 (519)
75 PRK11511 DNA-binding transcrip 28.9 58 0.0013 28.8 3.1 45 413-461 4-48 (127)
76 cd03340 TCP1_eta TCP-1 (CTT or 28.3 2E+02 0.0043 31.5 7.7 67 305-371 376-450 (522)
77 cd03335 TCP1_alpha TCP-1 (CTT 28.2 1.9E+02 0.0041 31.7 7.5 67 305-371 375-449 (527)
78 PF08281 Sigma70_r4_2: Sigma-7 27.9 39 0.00084 25.1 1.6 43 414-464 10-53 (54)
79 PLN00064 photosystem II protei 27.7 2E+02 0.0044 27.9 6.6 62 293-370 90-162 (166)
80 TIGR02347 chap_CCT_zeta T-comp 27.6 2E+02 0.0044 31.8 7.6 67 305-371 383-457 (531)
81 PF10168 Nup88: Nuclear pore c 27.5 1E+03 0.022 27.8 13.4 17 414-430 681-697 (717)
82 TIGR02344 chap_CCT_gamma T-com 26.8 2.6E+02 0.0056 30.7 8.2 67 305-371 378-452 (525)
83 cd07307 BAR The Bin/Amphiphysi 26.6 4.4E+02 0.0094 23.1 8.3 71 296-366 5-84 (194)
84 PF10281 Ish1: Putative stress 26.3 54 0.0012 23.6 2.0 28 417-445 3-31 (38)
85 TIGR02340 chap_CCT_alpha T-com 25.9 2.1E+02 0.0045 31.5 7.4 64 305-371 379-453 (536)
86 cd03336 TCP1_beta TCP-1 (CTT o 25.8 2.4E+02 0.0051 31.0 7.7 67 305-371 371-445 (517)
87 cd03339 TCP1_epsilon TCP-1 (CT 25.0 2.4E+02 0.0051 31.0 7.5 67 305-371 384-458 (526)
88 TIGR02339 thermosome_arch ther 24.9 2.5E+02 0.0054 30.7 7.7 64 305-371 377-451 (519)
89 TIGR02343 chap_CCT_epsi T-comp 24.2 2.4E+02 0.0052 31.1 7.4 67 305-371 388-462 (532)
90 cd03338 TCP1_delta TCP-1 (CTT 23.9 2.5E+02 0.0054 30.7 7.4 67 305-371 373-447 (515)
91 cd03343 cpn60 cpn60 chaperonin 23.6 2.9E+02 0.0064 30.1 7.9 64 305-371 374-448 (517)
92 PRK00808 hypothetical protein; 23.5 2.7E+02 0.0059 25.4 6.6 17 415-431 100-116 (150)
93 PRK00118 putative DNA-binding 23.5 54 0.0012 29.1 1.9 46 414-467 17-63 (104)
94 PRK04053 rps13p 30S ribosomal 23.1 86 0.0019 29.6 3.3 35 400-436 43-77 (149)
95 PHA03247 large tegument protei 22.1 2.5E+02 0.0054 37.6 7.6 52 285-336 975-1033(3151)
96 PF09325 Vps5: Vps5 C terminal 21.8 6.1E+02 0.013 24.0 8.9 75 296-371 36-110 (236)
97 TIGR02985 Sig70_bacteroi1 RNA 21.7 65 0.0014 27.9 2.1 47 414-468 113-160 (161)
98 PRK12514 RNA polymerase sigma 21.6 64 0.0014 29.3 2.1 47 414-468 129-176 (179)
99 COG0459 GroL Chaperonin GroEL 21.2 3.5E+02 0.0075 30.3 7.9 68 305-372 371-447 (524)
100 KOG4196 bZIP transcription fac 21.0 2E+02 0.0044 27.0 5.1 41 292-332 75-115 (135)
101 KOG0930 Guanine nucleotide exc 20.3 2.7E+02 0.0058 29.6 6.3 28 285-312 8-35 (395)
102 PRK09644 RNA polymerase sigma 20.2 71 0.0015 28.6 2.1 47 413-467 107-154 (165)
103 cd03337 TCP1_gamma TCP-1 (CTT 20.2 3.4E+02 0.0074 29.5 7.5 67 305-371 337-411 (480)
104 PRK13188 bifunctional UDP-3-O- 20.1 60 0.0013 35.8 1.8 97 360-461 224-332 (464)
No 1
>PF07526 POX: Associated with HOX; InterPro: IPR006563 This domain in found exclusively in plant proteins, associated with HOX domains which may suggest these proteins are homeodomain transcription factors.
Probab=100.00 E-value=1.9e-48 Score=352.16 Aligned_cols=139 Identities=55% Similarity=0.701 Sum_probs=106.4
Q ss_pred ccccCCccchHHHHHHHHHHhhhhhcc-CCCCCCCCccccCCCCCCCCCCcCCCCCCCCCCCCCCCccCCHHHHHHHHHH
Q 012071 221 STILKSKHLKAAQQLLDEAVNIQKALK-LPNSNKNDAKETDGRSSSMLPAFHGILSNPTESVSNSSSELSHAERQELLNK 299 (471)
Q Consensus 221 ~~l~~SryLk~aQeLL~E~~~v~~~~~-~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~ls~~er~elq~k 299 (471)
++|++|||||||||||||||+|++..+ ......... .. +...+......+..++...+..+..++++++||+|+|+|
T Consensus 1 q~l~~SryLk~aQeLL~E~~~v~~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~ls~~~~~e~q~k 78 (140)
T PF07526_consen 1 QVLLGSRYLKPAQELLDEFCSVGGANKKKSDDSSSGA-PG-GANSSGSSSSSGGSSSSSSSSDSSSPELSPAERQELQRK 78 (140)
T ss_pred CccccchhHHHHHHHHHHHHcccchhhhcchhhcccc-cc-ccccCCCCCCCCCCCCCccccCCCCCCCChhhHHHHHHH
Confidence 479999999999999999999986311 111111111 00 011111111122223333344455689999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHHhhhHHHHHHHH
Q 012071 300 KTKLLSMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRHFRSLRDAISD 361 (471)
Q Consensus 300 k~KLl~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~srhfr~lrd~I~~ 361 (471)
|+|||+|||||||||||||||||+||+|||+|||+|+|++||+||+||||||||||||+|++
T Consensus 79 K~KLl~mL~eVd~RY~qY~~Qmq~VvssFe~vaG~gaA~~YtalAlqamSrhFR~LRdaI~~ 140 (140)
T PF07526_consen 79 KAKLLSMLDEVDRRYRQYYDQMQAVVSSFEAVAGLGAAAPYTALALQAMSRHFRCLRDAISD 140 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcchhhHHHHHHHHHHHHHHHHHHhcC
Confidence 99999999999999999999999999999999999999999999999999999999999974
No 2
>smart00574 POX domain associated with HOX domains.
Probab=100.00 E-value=2.6e-47 Score=343.12 Aligned_cols=138 Identities=54% Similarity=0.650 Sum_probs=110.3
Q ss_pred ccccccccCCccchHHHHHHHHHHhhhhhccCCCCCCCC-ccccCCCCCCCCCCcCCCCCC-CCCCCCCCCccCCHHHHH
Q 012071 217 IGFNSTILKSKHLKAAQQLLDEAVNIQKALKLPNSNKND-AKETDGRSSSMLPAFHGILSN-PTESVSNSSSELSHAERQ 294 (471)
Q Consensus 217 ~~~a~~l~~SryLk~aQeLL~E~~~v~~~~~~~~~~~~~-~~~~~~~~~s~~~~~~~~~~~-~~~~~~~~~~~ls~~er~ 294 (471)
+||+++|++|||||||||||||||+|+++++.....+.. ..... . .. .+...+ ...+..+.+++|+++||+
T Consensus 1 ~g~~~~l~~SkyLk~aQeLLdEf~sv~~~~~~~~~~~~~~~~~~~--~-~~----~~~~~~~~g~s~~~~~~~ls~~~r~ 73 (140)
T smart00574 1 TGGVFILRNSKYLKAAQELLDEFCNVGRGSSKKKKQSGNDSPVST--S-SN----EGGGENLSGGSSSSEVPPLSTAERQ 73 (140)
T ss_pred CchhhhccCccccccHHHHHHHHhcccHHhhcccccccccccccc--c-cc----CCCcCCCCCCCCCCCCCCCchhHHH
Confidence 478999999999999999999999999887765432210 00000 0 00 000011 111223456899999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHHhhhHHHHHHHH
Q 012071 295 ELLNKKTKLLSMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRHFRSLRDAISD 361 (471)
Q Consensus 295 elq~kk~KLl~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~srhfr~lrd~I~~ 361 (471)
|+|+||+|||+|||||||||+|||||||+|+++||+|||+|+|++||+||+||||||||||||+|.+
T Consensus 74 e~q~kk~kLl~mL~eVd~RY~qY~~qmq~v~ssFe~vaG~g~a~~yt~lAl~a~SrhFr~LrdaI~g 140 (140)
T smart00574 74 ELQRKKAKLLSMLEEVDRRYKHYYEQMQTVVSSFDQAAGLGAAKPYTALALKTISRHFRCLKDAIAG 140 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 9999999999999999999999999999999999999999999999999999999999999999963
No 3
>KOG0773 consensus Transcription factor MEIS1 and related HOX domain proteins [Transcription]
Probab=100.00 E-value=2.1e-36 Score=303.40 Aligned_cols=249 Identities=35% Similarity=0.426 Sum_probs=190.7
Q ss_pred ccccccCCccchHHHHHHHHHHhhhhhccCCCCCCCCccccCCCCCCCCCCcCCCCCCCCCCCCCCCccCCHHHHHHHHH
Q 012071 219 FNSTILKSKHLKAAQQLLDEAVNIQKALKLPNSNKNDAKETDGRSSSMLPAFHGILSNPTESVSNSSSELSHAERQELLN 298 (471)
Q Consensus 219 ~a~~l~~SryLk~aQeLL~E~~~v~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~ls~~er~elq~ 298 (471)
+...+..++||++||+||+++|++.................+.... ...............++...+..++++++.
T Consensus 45 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~n~~~~s~~~~~~~~~~~~~~ 120 (342)
T KOG0773|consen 45 IMVSLASSKYLTAAQELLDEFCSAGLDCLKGKMPYDPVPRSPASLS----PPEDKGARRGNATRESATLKAWLEEHRLNP 120 (342)
T ss_pred cccccccccccccchhHHhHHhhccccccccccCcCcccccccccc----Cccccccccccccccccccccchhhhhhcc
Confidence 5677899999999999999999997543322221111000000000 000000000000111133456779999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHHhhhHHHH--HHHHHHHHHhhhcCcccc-
Q 012071 299 KKTKLLSMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRHFRSLRD--AISDQIQVTGRSLGEQET- 375 (471)
Q Consensus 299 kk~KLl~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~srhfr~lrd--~I~~qi~~~~~~~ge~~~- 375 (471)
+++|++.||.+|+.+|.+|+..|+.|.++|+.+.|++.+..|+.+++..+++||+++++ +|..|+......+|+.+.
T Consensus 121 ~~~k~~~~ll~~~~~~~~~~~~~~~~~a~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~~~~~~~~~ 200 (342)
T KOG0773|consen 121 YPSKLEKILLAVITKLTLTQVSTWFANARRRLKKELKMTWGPTPLALDGISRHFSDLEKEKAIGGQLSSSEELLGESEQD 200 (342)
T ss_pred CchHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhccCCCCCCccccccchhhhhhhhhhccccccccccccccccccccc
Confidence 99999999999999999999999999999999999999999999999999999999999 999999999998875432
Q ss_pred -CCCCCC---CCCccccchhhhHHHHH-HHhhcc-ccccCCCCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhC
Q 012071 376 -SSNGQA---SIPRLRFVDHQSRQQRA-LQQLGV-MRHAWRPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTG 449 (471)
Q Consensus 376 -~~~~~~---~~~rl~~~d~~l~q~ra-~q~~g~-~~~~~r~rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TG 449 (471)
...... ..++.+..++.+++++. ....+. ..+.||++++||++++.+||+|+++|+.||||++.+|.+||++||
T Consensus 201 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~lP~~a~~ilr~Wl~~h~~~PYPse~~K~~La~~TG 280 (342)
T KOG0773|consen 201 DSEDESGPSGSEPPLRLAKQSLRQQRSAYDGSGGKKQSKWRPQRGLPKEAVSILRAWLFEHLLHPYPSDDEKLMLAKQTG 280 (342)
T ss_pred ccccccCcccccCCcccccccccccccccccccccccCCCCCCCCCCHHHHHHHHHHHHHhccCCCCcchhccccchhcC
Confidence 111112 26777778888887764 222222 245899999999999999999999999999999999999999999
Q ss_pred CCchhhcccccc-cchhhhcCCC
Q 012071 450 LSKNQVRKIEIL-LLELWIMKFT 471 (471)
Q Consensus 450 Ls~sQVsNWFiN-RrRl~Kp~i~ 471 (471)
|++.||.||||| |+|+|||||+
T Consensus 281 Ls~~Qv~NWFINaR~R~w~p~~~ 303 (342)
T KOG0773|consen 281 LSRPQVSNWFINARVRLWKPMIE 303 (342)
T ss_pred CCcccCCchhhhcccccCCchHH
Confidence 999999999999 9999999974
No 4
>KOG0774 consensus Transcription factor PBX and related HOX domain proteins [Transcription]
Probab=99.65 E-value=1.2e-15 Score=150.45 Aligned_cols=147 Identities=18% Similarity=0.229 Sum_probs=98.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc-ccccCCc-hhhcHHHHHHHHHHhhhHHHHHHHHHHHHH-hh
Q 012071 292 ERQELLNKKTKLLSMLEEVDRGYKQYYHQMQIVASSFD-MVAGHGA-AKSYTVLALQTISRHFRSLRDAISDQIQVT-GR 368 (471)
Q Consensus 292 er~elq~kk~KLl~mLdEVdrRY~qY~~qmq~v~ssF~-~vag~g~-a~~yt~lal~~~srhfr~lrd~I~~qi~~~-~~ 368 (471)
+.-|...|..++-.++.+--+.|+|-|.+.-.-|...= .-..... +.--+.-.++.|++-|.. |..||+.. |.
T Consensus 101 ~hsdYR~kL~qiR~iy~~ElekyeqaCneftthV~nlL~eQsr~RPi~~ke~e~m~~~i~~kF~~----iq~~lkqstce 176 (334)
T KOG0774|consen 101 DHSDYRAKLLQIRQIYHNELEKYEQACNEFTTHVMNLLREQSRTRPIMPKEIERMVQIISKKFSH----IQMQLKQSTCE 176 (334)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHH----HHHHHHHHHHH
Confidence 34466677777777777777788887776443332221 1111111 111234455667777753 33333321 11
Q ss_pred hcCccccCCCCCCCCCccccchhhhHHHHHHHhhccccccCCCCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHh
Q 012071 369 SLGEQETSSNGQASIPRLRFVDHQSRQQRALQQLGVMRHAWRPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQT 448 (471)
Q Consensus 369 ~~ge~~~~~~~~~~~~rl~~~d~~l~q~ra~q~~g~~~~~~r~rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~T 448 (471)
.. + .|| .| +.+.+||||+|+|.++.||..||+.|..||||++++|+.||+++
T Consensus 177 ~v---------------m-----iLr-~r-------~ldarRKRRNFsK~aTeiLneyF~~h~~nPYPSee~K~eLAkqC 228 (334)
T KOG0774|consen 177 AV---------------M-----ILR-SR-------FLDARRKRRNFSKQATEILNEYFYSHLSNPYPSEEAKEELAKQC 228 (334)
T ss_pred HH---------------H-----HHH-HH-------HHHHHHhhcccchhHHHHHHHHHHHhcCCCCCcHHHHHHHHHHc
Confidence 00 0 011 11 12357899999999999999999999999999999999999999
Q ss_pred CCCchhhcccccc-cchhhhcCC
Q 012071 449 GLSKNQVRKIEIL-LLELWIMKF 470 (471)
Q Consensus 449 GLs~sQVsNWFiN-RrRl~Kp~i 470 (471)
|++.+||+|||.| |-|.+|.|.
T Consensus 229 nItvsQvsnwfgnkrIrykK~~~ 251 (334)
T KOG0774|consen 229 NITVSQVSNWFGNKRIRYKKNMG 251 (334)
T ss_pred Cceehhhccccccceeehhhhhh
Confidence 9999999999999 999999874
No 5
>PF05920 Homeobox_KN: Homeobox KN domain; InterPro: IPR008422 This entry represents a homeobox transcription factor KN domain conserved from fungi to human and plants [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3K2A_B 2LK2_A 1X2N_A 2DMN_A.
Probab=99.59 E-value=2.9e-16 Score=115.15 Aligned_cols=39 Identities=49% Similarity=0.740 Sum_probs=35.3
Q ss_pred HHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cch
Q 012071 426 WLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLE 464 (471)
Q Consensus 426 Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrR 464 (471)
||.+|..||||+++||++||++|||+++||+|||+| |+|
T Consensus 1 Wl~~h~~nPYPs~~ek~~L~~~tgls~~Qi~~WF~NaRrR 40 (40)
T PF05920_consen 1 WLLEHLHNPYPSKEEKEELAKQTGLSRKQISNWFINARRR 40 (40)
T ss_dssp HHHHTTTSGS--HHHHHHHHHHHTS-HHHHHHHHHHHHHH
T ss_pred CHHHHCCCCCCCHHHHHHHHHHcCCCHHHHHHHHHHhHcc
Confidence 999999999999999999999999999999999999 887
No 6
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=99.27 E-value=4.7e-12 Score=95.73 Aligned_cols=55 Identities=25% Similarity=0.286 Sum_probs=49.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhhh
Q 012071 410 RPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELWI 467 (471)
Q Consensus 410 r~rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~K 467 (471)
+++..|+++++.+|++||.. +|||+.++++.||.++||+..||.+||.| |.+.++
T Consensus 2 ~~r~~~~~~~~~~Le~~f~~---~~~P~~~~~~~la~~~~l~~~qV~~WF~nrR~~~~~ 57 (59)
T cd00086 2 RKRTRFTPEQLEELEKEFEK---NPYPSREEREELAKELGLTERQVKIWFQNRRAKLKR 57 (59)
T ss_pred CCCCcCCHHHHHHHHHHHHh---CCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHHhc
Confidence 45566999999999999996 79999999999999999999999999999 666554
No 7
>KOG0775 consensus Transcription factor SIX and related HOX domain proteins [Transcription]
Probab=99.23 E-value=9.3e-12 Score=123.69 Aligned_cols=67 Identities=31% Similarity=0.447 Sum_probs=57.8
Q ss_pred HHHHHhhccccccCCCCCC---CCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchh
Q 012071 396 QRALQQLGVMRHAWRPQRG---LPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLEL 465 (471)
Q Consensus 396 ~ra~q~~g~~~~~~r~rRg---lpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl 465 (471)
.|..+++-+++.+|----. |.+.++.+||+|+. .+|||++.+|.+||+.|||+..||.|||+| |-|-
T Consensus 161 YRvRrKfPlPrTIWDGEet~yCFKekSR~~LrewY~---~~~YPsp~eKReLA~aTgLt~tQVsNWFKNRRQRD 231 (304)
T KOG0775|consen 161 YRVRRKFPLPRTIWDGEETVYCFKEKSRSLLREWYL---QNPYPSPREKRELAEATGLTITQVSNWFKNRRQRD 231 (304)
T ss_pred ceeeccCCCCCccccCceeeeehhHhhHHHHHHHHh---cCCCCChHHHHHHHHHhCCchhhhhhhhhhhhhhh
Confidence 4444678888888866543 99999999999999 679999999999999999999999999999 5553
No 8
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=99.19 E-value=2.3e-11 Score=91.61 Aligned_cols=51 Identities=24% Similarity=0.268 Sum_probs=46.0
Q ss_pred CCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchh
Q 012071 412 QRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLEL 465 (471)
Q Consensus 412 rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl 465 (471)
+..|+.+++.+|++||. .+|||+.+++..||.++||+..||.+||.| |+|.
T Consensus 4 r~~~~~~~~~~L~~~f~---~~~~P~~~~~~~la~~~~l~~~qV~~WF~nrR~~~ 55 (56)
T smart00389 4 RTSFTPEQLEELEKEFQ---KNPYPSREEREELAAKLGLSERQVKVWFQNRRAKW 55 (56)
T ss_pred CCcCCHHHHHHHHHHHH---hCCCCCHHHHHHHHHHHCcCHHHHHHhHHHHhhcc
Confidence 33499999999999999 458999999999999999999999999999 6654
No 9
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=99.15 E-value=2.9e-11 Score=92.06 Aligned_cols=55 Identities=25% Similarity=0.375 Sum_probs=49.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhh
Q 012071 409 WRPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELW 466 (471)
Q Consensus 409 ~r~rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~ 466 (471)
+|+++.|+.+++.+|+.+|.. +|||+.++++.||.++||+..||.+||.| |.+.+
T Consensus 1 kr~r~~~t~~q~~~L~~~f~~---~~~p~~~~~~~la~~l~l~~~~V~~WF~nrR~k~k 56 (57)
T PF00046_consen 1 KRKRTRFTKEQLKVLEEYFQE---NPYPSKEEREELAKELGLTERQVKNWFQNRRRKEK 56 (57)
T ss_dssp SSSSSSSSHHHHHHHHHHHHH---SSSCHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHH
T ss_pred CcCCCCCCHHHHHHHHHHHHH---hccccccccccccccccccccccccCHHHhHHHhC
Confidence 356677999999999999995 69999999999999999999999999999 65554
No 10
>KOG0842 consensus Transcription factor tinman/NKX2-3, contains HOX domain [Transcription]
Probab=98.43 E-value=1.7e-07 Score=95.32 Aligned_cols=59 Identities=19% Similarity=0.084 Sum_probs=50.5
Q ss_pred CCCCCC-CCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhhhcCC
Q 012071 409 WRPQRG-LPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELWIMKF 470 (471)
Q Consensus 409 ~r~rRg-lpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~Kp~i 470 (471)
+||+|. |++.+|-.|+.-|.+. -|-+-.||+.||+..+||.+||+.||+| |-+.|+..+
T Consensus 153 kRKrRVLFSqAQV~ELERRFrqQ---RYLSAPERE~LA~~LrLT~TQVKIWFQNrRYK~KR~~~ 213 (307)
T KOG0842|consen 153 KRKRRVLFSQAQVYELERRFRQQ---RYLSAPEREHLASSLRLTPTQVKIWFQNRRYKTKRQQK 213 (307)
T ss_pred ccccccccchhHHHHHHHHHHhh---hccccHhHHHHHHhcCCCchheeeeeecchhhhhhhhh
Confidence 455555 9999999999999855 5999999999999999999999999999 666665444
No 11
>KOG0488 consensus Transcription factor BarH and related HOX domain proteins [General function prediction only]
Probab=98.40 E-value=1.9e-07 Score=95.10 Aligned_cols=58 Identities=21% Similarity=0.244 Sum_probs=51.0
Q ss_pred CCCCC-CCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccccchhhhcCC
Q 012071 410 RPQRG-LPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEILLLELWIMKF 470 (471)
Q Consensus 410 r~rRg-lpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiNRrRl~Kp~i 470 (471)
|+.|. |+..++.-|+.-|..- =|-+..||..||+..|||-.||..||+|||-+||..+
T Consensus 173 RksRTaFT~~Ql~~LEkrF~~Q---KYLS~~DR~~LA~~LgLTdaQVKtWfQNRRtKWKrq~ 231 (309)
T KOG0488|consen 173 RKSRTAFSDHQLFELEKRFEKQ---KYLSVADRIELAASLGLTDAQVKTWFQNRRTKWKRQT 231 (309)
T ss_pred ccchhhhhHHHHHHHHHHHHHh---hcccHHHHHHHHHHcCCchhhHHHHHhhhhHHHHHHH
Confidence 44455 9999999998877744 3999999999999999999999999999999999754
No 12
>TIGR01565 homeo_ZF_HD homeobox domain, ZF-HD class. This model represents a class of homoebox domain that differs substantially from the typical homoebox domain described in pfam model pfam00046. It is found in both C4 and C3 plants.
Probab=98.34 E-value=9.3e-07 Score=70.14 Aligned_cols=49 Identities=8% Similarity=0.091 Sum_probs=44.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHhcCCCC----CCHHHHHHHHHHhCCCchhhcccccc
Q 012071 410 RPQRGLPESSVSILRAWLFEHFLHPY----PNDSEKIMLAKQTGLSKNQVRKIEIL 461 (471)
Q Consensus 410 r~rRglpk~a~~iLr~Wl~eH~~~PY----Ps~~eK~~LA~~TGLs~sQVsNWFiN 461 (471)
|+|..|+.+++..|+.-|. ..+| |+..+++.||..+||++.+|..||.|
T Consensus 3 R~RT~Ft~~Q~~~Le~~fe---~~~y~~~~~~~~~r~~la~~lgl~~~vvKVWfqN 55 (58)
T TIGR01565 3 RRRTKFTAEQKEKMRDFAE---KLGWKLKDKRREEVREFCEEIGVTRKVFKVWMHN 55 (58)
T ss_pred CCCCCCCHHHHHHHHHHHH---HcCCCCCCCCHHHHHHHHHHhCCCHHHeeeeccc
Confidence 4455599999999999888 4589 99999999999999999999999999
No 13
>KOG0485 consensus Transcription factor NKX-5.1/HMX1, contains HOX domain [Transcription]
Probab=98.24 E-value=5e-07 Score=88.25 Aligned_cols=53 Identities=19% Similarity=0.128 Sum_probs=49.2
Q ss_pred CCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccccchhhhcC
Q 012071 414 GLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEILLLELWIMK 469 (471)
Q Consensus 414 glpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiNRrRl~Kp~ 469 (471)
.|++.++..|+.-|... -|-+.+|+.-||++..||+.||+.||+|||-+||..
T Consensus 110 vFSraQV~qLEs~Fe~k---rYLSsaeRa~LA~sLqLTETQVKIWFQNRRnKwKRq 162 (268)
T KOG0485|consen 110 VFSRAQVFQLESTFELK---RYLSSAERAGLAASLQLTETQVKIWFQNRRNKWKRQ 162 (268)
T ss_pred hhhHHHHHHHHHHHHHH---hhhhHHHHhHHHHhhhhhhhhhhhhhhhhhHHHHHH
Confidence 49999999999988855 699999999999999999999999999999999974
No 14
>KOG0487 consensus Transcription factor Abd-B, contains HOX domain [Transcription]
Probab=98.22 E-value=9.7e-07 Score=89.93 Aligned_cols=57 Identities=14% Similarity=0.114 Sum_probs=46.4
Q ss_pred cCCCCCC-CCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhhh
Q 012071 408 AWRPQRG-LPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELWI 467 (471)
Q Consensus 408 ~~r~rRg-lpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~K 467 (471)
..||||- .+|.++..|+.=|+ -|=|-|++-|.+|++.++||..||++||+| |++.||
T Consensus 234 ~~RKKRcPYTK~QtlELEkEFl---fN~YitkeKR~ElSr~lNLTeRQVKIWFQNRRMK~KK 292 (308)
T KOG0487|consen 234 RGRKKRCPYTKHQTLELEKEFL---FNMYITKEKRLELSRTLNLTERQVKIWFQNRRMKEKK 292 (308)
T ss_pred ccccccCCchHHHHHHHHHHHH---HHHHHhHHHHHHHHHhcccchhheeeeehhhhhHHhh
Confidence 4466665 99999999954333 234999999999999999999999999999 666555
No 15
>KOG3802 consensus Transcription factor OCT-1, contains POU and HOX domains [Transcription]
Probab=98.22 E-value=1.6e-06 Score=90.62 Aligned_cols=59 Identities=19% Similarity=0.083 Sum_probs=52.4
Q ss_pred CCCCCC-CCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccccchhhhcCC
Q 012071 409 WRPQRG-LPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEILLLELWIMKF 470 (471)
Q Consensus 409 ~r~rRg-lpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiNRrRl~Kp~i 470 (471)
+||||+ +.-.++..|+.-|. .||.|+.+|.-.||.+.+|.+..|+.||||||.+.|.+.
T Consensus 294 kRKKRTSie~~vr~aLE~~F~---~npKPt~qEIt~iA~~L~leKEVVRVWFCNRRQkeKR~~ 353 (398)
T KOG3802|consen 294 KRKKRTSIEVNVRGALEKHFL---KNPKPTSQEITHIAESLQLEKEVVRVWFCNRRQKEKRIT 353 (398)
T ss_pred ccccccceeHHHHHHHHHHHH---hCCCCCHHHHHHHHHHhccccceEEEEeeccccccccCC
Confidence 455665 99999999999888 669999999999999999999999999999888777764
No 16
>KOG0489 consensus Transcription factor zerknullt and related HOX domain proteins [General function prediction only]
Probab=98.21 E-value=5.6e-07 Score=89.32 Aligned_cols=58 Identities=16% Similarity=0.162 Sum_probs=49.8
Q ss_pred cCCCCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccccchhhhc
Q 012071 408 AWRPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEILLLELWIM 468 (471)
Q Consensus 408 ~~r~rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiNRrRl~Kp 468 (471)
.+|.|..|+..++..|+.=|. .|.|-+..-|++||..+.|++.||++||+|||.+||.
T Consensus 159 ~kR~RtayT~~QllELEkEFh---fN~YLtR~RRiEiA~~L~LtErQIKIWFQNRRMK~Kk 216 (261)
T KOG0489|consen 159 SKRRRTAFTRYQLLELEKEFH---FNKYLTRSRRIEIAHALNLTERQIKIWFQNRRMKWKK 216 (261)
T ss_pred CCCCCcccchhhhhhhhhhhc---cccccchHHHHHHHhhcchhHHHHHHHHHHHHHHHHH
Confidence 345555599999999986554 6789999999999999999999999999998888874
No 17
>KOG0843 consensus Transcription factor EMX1 and related HOX domain proteins [Transcription]
Probab=98.15 E-value=1.7e-06 Score=82.42 Aligned_cols=54 Identities=17% Similarity=0.044 Sum_probs=46.2
Q ss_pred CCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhhh
Q 012071 411 PQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELWI 467 (471)
Q Consensus 411 ~rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~K 467 (471)
.|..|+.++...|+..|.. +-|-.-+||+.||+..+|++.||+.||+| |.+.+|
T Consensus 105 ~RT~ft~~Ql~~LE~~F~~---~~Yvvg~eR~~LA~~L~LsetQVkvWFQNRRtk~kr 159 (197)
T KOG0843|consen 105 IRTAFTPEQLLKLEHAFEG---NQYVVGAERKQLAQSLSLSETQVKVWFQNRRTKHKR 159 (197)
T ss_pred cccccCHHHHHHHHHHHhc---CCeeechHHHHHHHHcCCChhHhhhhhhhhhHHHHH
Confidence 3334999999999999984 47999999999999999999999999999 544443
No 18
>KOG2251 consensus Homeobox transcription factor [Transcription]
Probab=98.14 E-value=2.6e-06 Score=83.24 Aligned_cols=55 Identities=16% Similarity=0.136 Sum_probs=47.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccccchhhh
Q 012071 410 RPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEILLLELWI 467 (471)
Q Consensus 410 r~rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiNRrRl~K 467 (471)
|.|..|+..+..+|++-|.+. -||+...+++||.+.+|.+++|++||.|||-+||
T Consensus 39 RERTtFtr~QlevLe~LF~kT---qYPDv~~rEelAlklnLpeSrVqVWFKNRRAK~r 93 (228)
T KOG2251|consen 39 RERTTFTRKQLEVLEALFAKT---QYPDVFMREELALKLNLPESRVQVWFKNRRAKCR 93 (228)
T ss_pred cccceecHHHHHHHHHHHHhh---cCccHHHHHHHHHHhCCchhhhhhhhccccchhh
Confidence 333459999999999988865 6999999999999999999999999999554443
No 19
>KOG0850 consensus Transcription factor DLX and related proteins with LIM Zn-binding and HOX domains [Transcription]
Probab=98.09 E-value=2.3e-06 Score=84.11 Aligned_cols=59 Identities=17% Similarity=0.125 Sum_probs=49.3
Q ss_pred ccCCCCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhhhc
Q 012071 407 HAWRPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELWIM 468 (471)
Q Consensus 407 ~~~r~rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~Kp 468 (471)
..|++|.-++.-+...|+.-|. ..-|---.||.+||...|||..||+.||+| |-+.+|-
T Consensus 121 K~RKPRTIYSS~QLqaL~rRFQ---kTQYLALPERAeLAAsLGLTQTQVKIWFQNrRSK~KKl 180 (245)
T KOG0850|consen 121 KVRKPRTIYSSLQLQALNRRFQ---QTQYLALPERAELAASLGLTQTQVKIWFQNRRSKFKKL 180 (245)
T ss_pred cccCCcccccHHHHHHHHHHHh---hcchhcCcHHHHHHHHhCCchhHhhhhhhhhHHHHHHH
Confidence 3444555599999999999888 457999999999999999999999999999 6555553
No 20
>KOG0493 consensus Transcription factor Engrailed, contains HOX domain [General function prediction only]
Probab=98.08 E-value=2.5e-06 Score=85.31 Aligned_cols=59 Identities=19% Similarity=0.231 Sum_probs=53.9
Q ss_pred ccCCCCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhhhc
Q 012071 407 HAWRPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELWIM 468 (471)
Q Consensus 407 ~~~r~rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~Kp 468 (471)
+-+|||.-|+.++.+-||+=|.++ -|-++.-|+.||.+.||.++||+.||+| |.+++|.
T Consensus 245 eeKRPRTAFtaeQL~RLK~EF~en---RYlTEqRRQ~La~ELgLNEsQIKIWFQNKRAKiKKs 304 (342)
T KOG0493|consen 245 EEKRPRTAFTAEQLQRLKAEFQEN---RYLTEQRRQELAQELGLNESQIKIWFQNKRAKIKKS 304 (342)
T ss_pred hhcCccccccHHHHHHHHHHHhhh---hhHHHHHHHHHHHHhCcCHHHhhHHhhhhhhhhhhc
Confidence 456777779999999999999866 6999999999999999999999999999 9999884
No 21
>KOG0483 consensus Transcription factor HEX, contains HOX and HALZ domains [Transcription]
Probab=98.06 E-value=2.9e-06 Score=81.86 Aligned_cols=58 Identities=22% Similarity=0.136 Sum_probs=50.2
Q ss_pred cCCCCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccccchhhhc
Q 012071 408 AWRPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEILLLELWIM 468 (471)
Q Consensus 408 ~~r~rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiNRrRl~Kp 468 (471)
.++++++|+.+++..|+.-|..| -|-.+..|..||++.||..-||..||+|||-.||-
T Consensus 50 ~~~kk~Rlt~eQ~~~LE~~F~~~---~~L~p~~K~~LAk~LgL~pRQVavWFQNRRARwK~ 107 (198)
T KOG0483|consen 50 GKGKKRRLTSEQVKFLEKSFESE---KKLEPERKKKLAKELGLQPRQVAVWFQNRRARWKT 107 (198)
T ss_pred cccccccccHHHHHHhHHhhccc---cccChHHHHHHHHhhCCChhHHHHHHhhccccccc
Confidence 56888999999999999988865 46666999999999999999999999996666653
No 22
>KOG0486 consensus Transcription factor PTX1, contains HOX domain [Transcription]
Probab=98.05 E-value=2.2e-06 Score=87.35 Aligned_cols=56 Identities=25% Similarity=0.248 Sum_probs=50.2
Q ss_pred CCCCC-CCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccccchhhhc
Q 012071 410 RPQRG-LPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEILLLELWIM 468 (471)
Q Consensus 410 r~rRg-lpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiNRrRl~Kp 468 (471)
|++|+ |+..+.+.|+.||.. |-||+.+.+++||-.|+||+.+|++||+|||-+|+.
T Consensus 113 rrQrthFtSqqlqele~tF~r---NrypdMstrEEIavwtNlTE~rvrvwfknrrakwrk 169 (351)
T KOG0486|consen 113 RRQRTHFTSQQLQELEATFQR---NRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRK 169 (351)
T ss_pred hhhhhhhHHHHHHHHHHHHhh---ccCCccchhhHHHhhccccchhhhhhcccchhhhhh
Confidence 34455 999999999999996 579999999999999999999999999998777764
No 23
>KOG0494 consensus Transcription factor CHX10 and related HOX domain proteins [General function prediction only]
Probab=98.01 E-value=4.1e-06 Score=83.71 Aligned_cols=51 Identities=20% Similarity=0.220 Sum_probs=47.6
Q ss_pred CCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccccchhhhc
Q 012071 415 LPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEILLLELWIM 468 (471)
Q Consensus 415 lpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiNRrRl~Kp 468 (471)
|+..+...|+.-|.|. -||....|++||.+|+|.+.+|+.||+|||-+|+.
T Consensus 148 FT~~Qle~LEkaFkea---HYPDv~Are~la~ktelpEDRIqVWfQNRRAKWRk 198 (332)
T KOG0494|consen 148 FTSYQLEELEKAFKEA---HYPDVYAREMLADKTELPEDRIQVWFQNRRAKWRK 198 (332)
T ss_pred hhHHHHHHHHHHHhhc---cCccHHHHHHHhhhccCchhhhhHHhhhhhHHhhh
Confidence 9999999999999865 59999999999999999999999999998888875
No 24
>COG5576 Homeodomain-containing transcription factor [Transcription]
Probab=97.82 E-value=2e-05 Score=73.56 Aligned_cols=57 Identities=14% Similarity=0.129 Sum_probs=51.3
Q ss_pred cCCCCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhhh
Q 012071 408 AWRPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELWI 467 (471)
Q Consensus 408 ~~r~rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~K 467 (471)
..++++..+..+..+|+.-|. .+|||+..+|..|+..++++++-|+.||+| |.+.++
T Consensus 51 ~~~~r~R~t~~Q~~vL~~~F~---i~p~Ps~~~r~~L~~~lnm~~ksVqIWFQNkR~~~k~ 108 (156)
T COG5576 51 PKSKRRRTTDEQLMVLEREFE---INPYPSSITRIKLSLLLNMPPKSVQIWFQNKRAKEKK 108 (156)
T ss_pred CcccceechHHHHHHHHHHhc---cCCCCCHHHHHHHHHhcCCChhhhhhhhchHHHHHHH
Confidence 556677799999999999888 679999999999999999999999999999 877654
No 25
>KOG0492 consensus Transcription factor MSH, contains HOX domain [General function prediction only]
Probab=97.55 E-value=7.3e-05 Score=72.98 Aligned_cols=55 Identities=15% Similarity=0.110 Sum_probs=47.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhh
Q 012071 409 WRPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELW 466 (471)
Q Consensus 409 ~r~rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~ 466 (471)
++||.-|+..+...|+.-|.+. .|-+.+|+.+++.-..||+.||+.||+| |.|-+
T Consensus 145 RkPRtPFTtqQLlaLErkfrek---qYLSiaEraefSsSL~LTeTqVKIWFQNRRAKaK 200 (246)
T KOG0492|consen 145 RKPRTPFTTQQLLALERKFREK---QYLSIAERAEFSSSLELTETQVKIWFQNRRAKAK 200 (246)
T ss_pred CCCCCCCCHHHHHHHHHHHhHh---hhhhHHHHHhhhhhhhhhhhheehhhhhhhHHHH
Confidence 3444459999999999988865 6999999999999999999999999999 65544
No 26
>KOG0773 consensus Transcription factor MEIS1 and related HOX domain proteins [Transcription]
Probab=97.52 E-value=2.6e-05 Score=79.23 Aligned_cols=61 Identities=34% Similarity=0.346 Sum_probs=55.2
Q ss_pred cCCCCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhhhcC
Q 012071 408 AWRPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELWIMK 469 (471)
Q Consensus 408 ~~r~rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~Kp~ 469 (471)
..+++.+++++. .+|+.|+.+|..+|||++.++.+|+-.++++..||++||+| |||+.+.+
T Consensus 95 ~~~~~~n~~~~s-~~~~~~~~~~~~~~~~~k~~~~ll~~~~~~~~~~~~~~~~~a~r~~~~~~ 156 (342)
T KOG0773|consen 95 KGARRGNATRES-ATLKAWLEEHRLNPYPSKLEKILLAVITKLTLTQVSTWFANARRRLKKEL 156 (342)
T ss_pred cccccccccccc-cccccchhhhhhccCchHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhcc
Confidence 445556699999 99999999999999999999999999999999999999999 99987643
No 27
>KOG0484 consensus Transcription factor PHOX2/ARIX, contains HOX domain [Transcription]
Probab=97.51 E-value=4.3e-05 Score=67.67 Aligned_cols=51 Identities=14% Similarity=0.102 Sum_probs=45.7
Q ss_pred CCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhhh
Q 012071 414 GLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELWI 467 (471)
Q Consensus 414 glpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~K 467 (471)
.|+..+.+.|+.-|.+. -||..-.+++||.+..|++.+|+.||+| |.+..|
T Consensus 23 TFTS~QLkELErvF~ET---HYPDIYTREEiA~kidLTEARVQVWFQNRRAKfRK 74 (125)
T KOG0484|consen 23 TFTSAQLKELERVFAET---HYPDIYTREEIALKIDLTEARVQVWFQNRRAKFRK 74 (125)
T ss_pred hhhHHHHHHHHHHHHhh---cCCcchhHHHHHHhhhhhHHHHHHHHHhhHHHHHH
Confidence 49999999999888864 5999999999999999999999999999 766554
No 28
>KOG0491 consensus Transcription factor BSH, contains HOX domain [General function prediction only]
Probab=97.28 E-value=6.3e-05 Score=71.21 Aligned_cols=56 Identities=21% Similarity=0.169 Sum_probs=47.7
Q ss_pred CCCCCC-CCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhhh
Q 012071 409 WRPQRG-LPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELWI 467 (471)
Q Consensus 409 ~r~rRg-lpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~K 467 (471)
+||.|. |+..+...|..-|..- -|-+-.|+.+||...+|+++||+.||+| |.+.+|
T Consensus 100 r~K~Rtvfs~~ql~~l~~rFe~Q---rYLS~~e~~ELan~L~LS~~QVKTWFQNrRMK~Kk 157 (194)
T KOG0491|consen 100 RRKARTVFSDPQLSGLEKRFERQ---RYLSTPERQELANALSLSETQVKTWFQNRRMKHKK 157 (194)
T ss_pred hhhhcccccCccccccHHHHhhh---hhcccHHHHHHHHHhhhhHHHHHHHHHHHHHHHHH
Confidence 345555 9999999998888743 5899999999999999999999999999 887665
No 29
>KOG2252 consensus CCAAT displacement protein and related homeoproteins [Transcription]
Probab=97.25 E-value=0.00026 Score=76.85 Aligned_cols=54 Identities=15% Similarity=0.129 Sum_probs=49.0
Q ss_pred cCCCCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cch
Q 012071 408 AWRPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLE 464 (471)
Q Consensus 408 ~~r~rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrR 464 (471)
.+|||-.|+..+++.|++-|.+ +++|+.+.-+.|+.+.+|.++-|.|||-| |||
T Consensus 420 ~KKPRlVfTd~QkrTL~aiFke---~~RPS~Emq~tIS~qL~L~~sTV~NfFmNaRRR 474 (558)
T KOG2252|consen 420 TKKPRLVFTDIQKRTLQAIFKE---NKRPSREMQETISQQLNLELSTVINFFMNARRR 474 (558)
T ss_pred CCCceeeecHHHHHHHHHHHhc---CCCCCHHHHHHHHHHhCCcHHHHHHHHHhhhhh
Confidence 4455556999999999999995 59999999999999999999999999999 998
No 30
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=97.20 E-value=0.00019 Score=67.65 Aligned_cols=56 Identities=11% Similarity=-0.201 Sum_probs=48.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccccchhhhc
Q 012071 410 RPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEILLLELWIM 468 (471)
Q Consensus 410 r~rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiNRrRl~Kp 468 (471)
|.+.+|+..+..+|+.-|... +||....++.||..+++++..|.+||.|||..|+.
T Consensus 62 r~rt~~~~~ql~~ler~f~~~---h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~ 117 (235)
T KOG0490|consen 62 CARCKFTISQLDELERAFEKV---HLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRK 117 (235)
T ss_pred ccCCCCCcCHHHHHHHhhcCC---CcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhh
Confidence 444459999999999988854 89999999999999999999999999996666653
No 31
>KOG0847 consensus Transcription factor, contains HOX domain [Transcription]
Probab=97.04 E-value=0.00031 Score=69.20 Aligned_cols=64 Identities=16% Similarity=0.147 Sum_probs=52.1
Q ss_pred hccccccCCCCC--CCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccccchhhhc
Q 012071 402 LGVMRHAWRPQR--GLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEILLLELWIM 468 (471)
Q Consensus 402 ~g~~~~~~r~rR--glpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiNRrRl~Kp 468 (471)
+++.....|++. +|.-.+...|..-|.+. -||--.++.+||...|.+++||..||+|||.+|+.
T Consensus 159 ~~~~kdG~rk~srPTf~g~qi~~le~~feqt---kylaG~~ra~lA~~lgmteSqvkVWFQNRRTKWRK 224 (288)
T KOG0847|consen 159 LSPNLNGQRKQSRPTFTGHQIYQLERKFEQT---KYLAGADRAQLAQELNMTESQVKVWFQNRRTKWRK 224 (288)
T ss_pred cCcCcCccccccCCCccchhhhhhhhhhhhh---hcccchhHHHhhccccccHHHHHHHHhcchhhhhh
Confidence 333344455543 39999999998888755 59999999999999999999999999999998875
No 32
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=96.93 E-value=0.00071 Score=68.95 Aligned_cols=55 Identities=18% Similarity=0.178 Sum_probs=49.6
Q ss_pred ccCCCCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cch
Q 012071 407 HAWRPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLE 464 (471)
Q Consensus 407 ~~~r~rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrR 464 (471)
..+|||.+++..+.+.||..+. ..|.|-.--|++|+.+|||....|+.||+| |.+
T Consensus 166 ~nKRPRTTItAKqLETLK~AYn---~SpKPARHVREQLsseTGLDMRVVQVWFQNRRAK 221 (383)
T KOG4577|consen 166 SNKRPRTTITAKQLETLKQAYN---TSPKPARHVREQLSSETGLDMRVVQVWFQNRRAK 221 (383)
T ss_pred ccCCCcceeeHHHHHHHHHHhc---CCCchhHHHHHHhhhccCcceeehhhhhhhhhHH
Confidence 4678888899999999999887 569999999999999999999999999999 543
No 33
>KOG0848 consensus Transcription factor Caudal, contains HOX domain [Transcription]
Probab=96.85 E-value=0.00039 Score=70.10 Aligned_cols=48 Identities=21% Similarity=0.050 Sum_probs=40.6
Q ss_pred CCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchh
Q 012071 415 LPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLEL 465 (471)
Q Consensus 415 lpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl 465 (471)
.+..++-.|+.=|. ..+|-|..-|.+||...||++.||+.||+| |.+.
T Consensus 206 YTDhQRLELEKEfh---~SryITirRKSELA~~LgLsERQVKIWFQNRRAKE 254 (317)
T KOG0848|consen 206 YTDHQRLELEKEFH---TSRYITIRRKSELAATLGLSERQVKIWFQNRRAKE 254 (317)
T ss_pred ecchhhhhhhhhhc---cccceeeehhHHHHHhhCccHhhhhHhhhhhhHHH
Confidence 67777777875444 679999999999999999999999999999 5443
No 34
>KOG0849 consensus Transcription factor PRD and related proteins, contain PAX and HOX domains [Transcription]
Probab=96.72 E-value=0.0011 Score=68.83 Aligned_cols=55 Identities=24% Similarity=0.260 Sum_probs=47.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhhh
Q 012071 410 RPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELWI 467 (471)
Q Consensus 410 r~rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~K 467 (471)
|.|..|+..+...|..||. ..|||....++.||++++|+..+|+.||.| |.+..|
T Consensus 178 r~rtsft~~Q~~~le~~f~---rt~yP~i~~Re~La~~i~l~e~riqvwf~nrra~~rr 233 (354)
T KOG0849|consen 178 RNRTSFSPSQLEALEECFQ---RTPYPDIVGRETLAKETGLPEPRVQVWFQNRRAKWRR 233 (354)
T ss_pred ccccccccchHHHHHHHhc---CCCCCchhhHHHHhhhccCCchHHHHHHhhhhhhhhh
Confidence 3334599999999999999 557999999999999999999999999999 554443
No 35
>KOG0844 consensus Transcription factor EVX1, contains HOX domain [Transcription]
Probab=96.64 E-value=0.0008 Score=68.99 Aligned_cols=52 Identities=12% Similarity=0.127 Sum_probs=43.5
Q ss_pred CCCHHHHHHHHH-HHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhhhcC
Q 012071 414 GLPESSVSILRA-WLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELWIMK 469 (471)
Q Consensus 414 glpk~a~~iLr~-Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~Kp~ 469 (471)
-|++++..-|+. ++.|| |-+..-|.+||...+|.+.-|+.||+| |.+-|+..
T Consensus 187 AFTReQIaRLEKEFyrEN----YVSRprRcELAAaLNLPEtTIKVWFQNRRMKDKRQR 240 (408)
T KOG0844|consen 187 AFTREQIARLEKEFYREN----YVSRPRRCELAAALNLPETTIKVWFQNRRMKDKRQR 240 (408)
T ss_pred hhhHHHHHHHHHHHHHhc----cccCchhhhHHHhhCCCcceeehhhhhchhhhhhhh
Confidence 399999999955 44455 888899999999999999999999999 77766543
No 36
>KOG1168 consensus Transcription factor ACJ6/BRN-3, contains POU and HOX domains [Transcription]
Probab=95.64 E-value=0.0061 Score=62.39 Aligned_cols=56 Identities=20% Similarity=0.186 Sum_probs=45.9
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhhh
Q 012071 409 WRPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELWI 467 (471)
Q Consensus 409 ~r~rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~K 467 (471)
+|||...-..-++-|+++|. ..|-|+-+-...+|.+..|.+..|..||+| |-+.++
T Consensus 310 KRKRTSIAAPEKRsLEayFa---vQPRPS~EkIAaIAekLDLKKNVVRVWFCNQRQKQKR 366 (385)
T KOG1168|consen 310 KRKRTSIAAPEKRSLEAYFA---VQPRPSGEKIAAIAEKLDLKKNVVRVWFCNQRQKQKR 366 (385)
T ss_pred ccccccccCcccccHHHHhc---cCCCCchhHHHHHHHhhhhhhceEEEEeeccHHHHHH
Confidence 34444465666788999998 569999999999999999999999999999 766544
No 37
>PF11569 Homez: Homeodomain leucine-zipper encoding, Homez; PDB: 2YS9_A.
Probab=95.05 E-value=0.011 Score=46.99 Aligned_cols=38 Identities=18% Similarity=0.190 Sum_probs=28.8
Q ss_pred HHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc
Q 012071 421 SILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL 461 (471)
Q Consensus 421 ~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN 461 (471)
+.|++.|..| .+..+.+...|+.+++|+..||.+||.-
T Consensus 11 ~pL~~Yy~~h---~~L~E~DL~~L~~kS~ms~qqVr~WFa~ 48 (56)
T PF11569_consen 11 QPLEDYYLKH---KQLQEEDLDELCDKSRMSYQQVRDWFAE 48 (56)
T ss_dssp HHHHHHHHHT-------TTHHHHHHHHTT--HHHHHHHHHH
T ss_pred HHHHHHHHHc---CCccHhhHHHHHHHHCCCHHHHHHHHHH
Confidence 3499988866 6888999999999999999999999986
No 38
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=91.03 E-value=0.18 Score=47.51 Aligned_cols=57 Identities=23% Similarity=0.323 Sum_probs=46.7
Q ss_pred cCCCCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhhh
Q 012071 408 AWRPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELWI 467 (471)
Q Consensus 408 ~~r~rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~K 467 (471)
.++++.++......++..-|. ..+||....++.|+..+|++...|.+||.| |.+.++
T Consensus 153 ~~~~~~~~~~~~~~~~~~~~~---~~~~P~~~~~~~l~~~~~~~~~~~q~~~~~~~~~~~~ 210 (235)
T KOG0490|consen 153 PRRPRTTFTENQLEVLETVFR---ATPKPDADDREQLAEETGLSERVIQVWFQNRRAKLRK 210 (235)
T ss_pred cCCCccccccchhHhhhhccc---CCCCCchhhHHHHHHhcCCChhhhhhhcccHHHHHHh
Confidence 344455688888888877555 679999999999999999999999999999 666554
No 39
>PF03791 KNOX2: KNOX2 domain ; InterPro: IPR005541 The MEINOX region is comprised of two domains, KNOX1 and KNOX2. KNOX1 plays a role in suppressing target gene expression. KNOX2, essential for function, is thought to be necessary for homo-dimerization [].; GO: 0003677 DNA binding, 0005634 nucleus
Probab=84.27 E-value=1.4 Score=34.73 Aligned_cols=42 Identities=14% Similarity=0.219 Sum_probs=35.5
Q ss_pred hhcccccCCc-hhhcHHHHHHH---HHHhhh---HHHHHHHHHHHHHhh
Q 012071 327 SFDMVAGHGA-AKSYTVLALQT---ISRHFR---SLRDAISDQIQVTGR 368 (471)
Q Consensus 327 sF~~vag~g~-a~~yt~lal~~---~srhfr---~lrd~I~~qi~~~~~ 368 (471)
+..+.++|+- +..||.+..+. ++|||+ .+.+.|+.||..+++
T Consensus 4 ~~~~dpELDqFMeaYc~~L~kykeeL~~p~~EA~~f~~~ie~qL~~Lt~ 52 (52)
T PF03791_consen 4 SIGADPELDQFMEAYCDMLVKYKEELQRPFQEAMEFCREIEQQLSSLTG 52 (52)
T ss_pred CCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 4566778886 89999999988 999999 788889999998763
No 40
>PF11285 DUF3086: Protein of unknown function (DUF3086); InterPro: IPR021437 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=83.10 E-value=11 Score=38.66 Aligned_cols=121 Identities=21% Similarity=0.373 Sum_probs=79.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHHhhhHHHHHHHHHHHHHhhhcCc-
Q 012071 294 QELLNKKTKLLSMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRHFRSLRDAISDQIQVTGRSLGE- 372 (471)
Q Consensus 294 ~elq~kk~KLl~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~srhfr~lrd~I~~qi~~~~~~~ge- 372 (471)
.||+.+|..|..=+++++||-++-..+|.. +| ||- .+.|.+.-+-+||.+.+.|+.+..+.-.
T Consensus 7 ~eL~qrk~~Lq~eIe~LerR~~ri~~Emrt---sF---aG~----------Sq~lA~RVqGFkdYLvGsLQDLa~saEqL 70 (283)
T PF11285_consen 7 KELEQRKQALQIEIEQLERRRERIEKEMRT---SF---AGQ----------SQDLAIRVQGFKDYLVGSLQDLAQSAEQL 70 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHc---cc---ccc----------hHHHHHHHhhhHHHHHHHHHHHHHHHHhh
Confidence 589999999999999999999999988764 44 332 2456677788999999999988764210
Q ss_pred --------cccC-------CCCC---CCCCccccchhhhHH-----HHHHHhhcc----ccccCCCCCCCCHHHHHHHHH
Q 012071 373 --------QETS-------SNGQ---ASIPRLRFVDHQSRQ-----QRALQQLGV----MRHAWRPQRGLPESSVSILRA 425 (471)
Q Consensus 373 --------~~~~-------~~~~---~~~~rl~~~d~~l~q-----~ra~q~~g~----~~~~~r~rRglpk~a~~iLr~ 425 (471)
...+ .... ...+...+..+.++. .+.+.++.- .-.+|+-||.|-.--...+.+
T Consensus 71 eLv~~~~~~~psp~~~~~~~~~~~~~~~~~~~~~~~~~F~~~~~~Ir~~l~qyr~~PDyYg~PWqLRRtfe~~hae~v~~ 150 (283)
T PF11285_consen 71 ELVPQPVVVQPSPLDEPAPPPQANAAKNPPTPQFAAQTFQPDERQIRRLLDQYRTQPDYYGPPWQLRRTFEPIHAERVED 150 (283)
T ss_pred ccCCCCcCCCCCcccccccCcccccccCCCCCcchhhhcchHHHHHHHHHHHHhhCCCccCChHHHHhcccHHHHHHHHH
Confidence 0000 0000 011222233333222 234555533 245999999999999999999
Q ss_pred HHHHh
Q 012071 426 WLFEH 430 (471)
Q Consensus 426 Wl~eH 430 (471)
|||.-
T Consensus 151 WFF~q 155 (283)
T PF11285_consen 151 WFFNQ 155 (283)
T ss_pred HHhcc
Confidence 99964
No 41
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=76.57 E-value=1.7 Score=52.48 Aligned_cols=58 Identities=19% Similarity=0.107 Sum_probs=49.6
Q ss_pred CCCCCC-CCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhhhcC
Q 012071 409 WRPQRG-LPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELWIMK 469 (471)
Q Consensus 409 ~r~rRg-lpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~Kp~ 469 (471)
+|.+|. +....+++|++.+.+- -||++++-+.|....+|.+..|..||.| |..-+|+.
T Consensus 903 r~a~~~~~~d~qlk~i~~~~~~q---~~~~~~~~E~l~~~~~~~~~~i~vw~qna~~~s~k~~ 962 (1406)
T KOG1146|consen 903 RRAYRTQESDLQLKIIKACYEAQ---RTPTMQECEVLEEPIGLPKRVIQVWFQNARAKSKKAK 962 (1406)
T ss_pred hhhhccchhHHHHHHHHHHHhhc---cCChHHHHHhhcccccCCcchhHHhhhhhhhhhhhhh
Confidence 344444 8999999999988854 5999999999999999999999999999 98877653
No 42
>PRK12851 groEL chaperonin GroEL; Reviewed
Probab=75.67 E-value=18 Score=39.99 Aligned_cols=82 Identities=21% Similarity=0.293 Sum_probs=60.4
Q ss_pred CHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHH-----
Q 012071 289 SHAERQELLNKKTKLL-------------SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISR----- 350 (471)
Q Consensus 289 s~~er~elq~kk~KLl-------------~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~sr----- 350 (471)
++.+|..|+.+.++|- ..|+|++|+++--..-++..+.. .-|+|.|++..+++.+|+.++.
T Consensus 358 ~~~~~~~l~~ri~~l~g~~~tI~irG~t~~~l~E~er~i~DAl~a~~~al~~-g~VpGGGa~e~~~s~~L~~~~~~~~~~ 436 (541)
T PRK12851 358 SDYDREKLQERLAKLAGGVAVIRVGASTEVEVKEKKDRVDDALHATRAAVEE-GIVPGGGVALLRAVKALDKLETANGDQ 436 (541)
T ss_pred CHHHHHHHHHHHHHhcCCeEEEEecCCCHHHHHHHHHHHHHHHHHHHHHHHc-CcccCchHHHHHHHHHHHHHhcCCcHH
Confidence 4457777888876663 47899999999988888888888 5999999998888888875432
Q ss_pred --hhhHHHHHHHHHHHHHhhhcC
Q 012071 351 --HFRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 351 --hfr~lrd~I~~qi~~~~~~~g 371 (471)
-++.+.+++..-.+.+.+..|
T Consensus 437 ~~~~~~~a~AL~~ip~~La~NaG 459 (541)
T PRK12851 437 RTGVEIVRRALEAPVRQIAENAG 459 (541)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcC
Confidence 134666666666666666544
No 43
>PF04218 CENP-B_N: CENP-B N-terminal DNA-binding domain; InterPro: IPR006695 Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure [].; GO: 0003677 DNA binding, 0000775 chromosome, centromeric region; PDB: 1BW6_A 1HLV_A 2ELH_A.
Probab=74.91 E-value=3 Score=32.28 Aligned_cols=48 Identities=21% Similarity=0.148 Sum_probs=30.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccccchh
Q 012071 410 RPQRGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEILLLEL 465 (471)
Q Consensus 410 r~rRglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiNRrRl 465 (471)
|+++.|+-+..--+-.-+.+. + -+..+|++.|++.++|++|..||.+.
T Consensus 2 rkR~~LTl~eK~~iI~~~e~g---~-----s~~~ia~~fgv~~sTv~~I~K~k~~i 49 (53)
T PF04218_consen 2 RKRKSLTLEEKLEIIKRLEEG---E-----SKRDIAREFGVSRSTVSTILKNKDKI 49 (53)
T ss_dssp SSSSS--HHHHHHHHHHHHCT---T------HHHHHHHHT--CCHHHHHHHCHHHH
T ss_pred CCCccCCHHHHHHHHHHHHcC---C-----CHHHHHHHhCCCHHHHHHHHHhHHHH
Confidence 556667666554444434432 2 58899999999999999999995544
No 44
>CHL00093 groEL chaperonin GroEL
Probab=72.92 E-value=26 Score=38.56 Aligned_cols=82 Identities=17% Similarity=0.195 Sum_probs=62.5
Q ss_pred CHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHH-----
Q 012071 289 SHAERQELLNKKTKLL-------------SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISR----- 350 (471)
Q Consensus 289 s~~er~elq~kk~KLl-------------~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~sr----- 350 (471)
+..||..|+.+.++|- ..|+|.+|+++--..-++.++.. ..|+|.|++..+++.+|+-...
T Consensus 357 ~~~~~~~l~eR~~~l~g~~~~I~irg~t~~~l~E~er~i~DAl~a~r~a~~~-gvVpGGGa~e~~~s~~L~~~~~~~~~g 435 (529)
T CHL00093 357 SSYEKEKLQERLAKLSGGVAVIKVGAATETEMKDKKLRLEDAINATKAAVEE-GIVPGGGATLVHLSENLKTWAKNNLKE 435 (529)
T ss_pred CHHHHHHHHHHHHHhcCCeEEEEeccCcHHHHHHHHHHHHHHHHHHHHHHHc-CcccCCcHHHHHHHHHHHHHhccCCCh
Confidence 3457777888888773 47899999999888888888888 6999999998888888875432
Q ss_pred ----hhhHHHHHHHHHHHHHhhhcC
Q 012071 351 ----HFRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 351 ----hfr~lrd~I~~qi~~~~~~~g 371 (471)
=++.+.+|+..-.+.++...|
T Consensus 436 ~~~~~i~~~a~AL~~ip~~La~NaG 460 (529)
T CHL00093 436 DELIGALIVARAILAPLKRIAENAG 460 (529)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 145677777777777766655
No 45
>PRK12849 groEL chaperonin GroEL; Reviewed
Probab=70.56 E-value=25 Score=38.89 Aligned_cols=81 Identities=19% Similarity=0.265 Sum_probs=60.5
Q ss_pred HHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHH-------
Q 012071 290 HAERQELLNKKTKLL-------------SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTIS------- 349 (471)
Q Consensus 290 ~~er~elq~kk~KLl-------------~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~s------- 349 (471)
..+++.|+.+.++|. .+|||++|+++-...-++.++.. .-|+|.|++..+++.+|+...
T Consensus 358 ~~~~~~l~eR~~~l~~~~~TI~irG~t~~~l~E~er~i~DAl~~~~~a~~~-g~VpGGGa~e~~ls~~L~~~~~~~g~~~ 436 (542)
T PRK12849 358 DYDREKLQERLAKLAGGVAVIKVGAATEVELKERKDRVEDALNATRAAVEE-GIVPGGGVALLRAAKALDELAGLNGDQA 436 (542)
T ss_pred HHHHHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHHHHHHHHHHHHHHc-CeecCCCHHHHHHHHHHHHhhCCChHHH
Confidence 356777888887774 47999999999999999988888 599999998888887776443
Q ss_pred HhhhHHHHHHHHHHHHHhhhcC
Q 012071 350 RHFRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 350 rhfr~lrd~I~~qi~~~~~~~g 371 (471)
--++.+.+++..-.+.+++..|
T Consensus 437 ~~i~~~a~Al~~ip~~La~NaG 458 (542)
T PRK12849 437 AGVEIVRRALEAPLRQIAENAG 458 (542)
T ss_pred HHHHHHHHHHHHHHHHHHHHCC
Confidence 1134566666666666666554
No 46
>TIGR02348 GroEL chaperonin GroL. This family consists of GroEL, the larger subunit of the GroEL/GroES cytosolic chaperonin. It is found in bacteria, organelles derived from bacteria, and occasionally in the Archaea. The bacterial GroEL/GroES group I chaperonin is replaced a group II chaperonin, usually called the thermosome in the Archaeota and CCT (chaperone-containing TCP) in the Eukaryota. GroEL, thermosome subunits, and CCT subunits all fall under the scope of Pfam model pfam00118.
Probab=69.68 E-value=29 Score=38.14 Aligned_cols=82 Identities=17% Similarity=0.253 Sum_probs=60.7
Q ss_pred CHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHH-----
Q 012071 289 SHAERQELLNKKTKL-------------LSMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISR----- 350 (471)
Q Consensus 289 s~~er~elq~kk~KL-------------l~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~sr----- 350 (471)
+..+|+.|+.+.++| -..++|++|+++--..-++..+.. .-|+|.|++..+++.+|.-+..
T Consensus 356 ~~~~~~~l~eR~~~l~~~~~tI~irG~t~~~l~E~er~i~Dal~~~r~a~~~-g~VpGGGa~e~~~s~~L~~~~~~~~~~ 434 (524)
T TIGR02348 356 SDYDREKLQERLAKLAGGVAVIKVGAATETEMKEKKLRVEDALNATRAAVEE-GIVPGGGVALLRAAAALEGLKGDNEDE 434 (524)
T ss_pred CHHHHHHHHHHHHHhcCCeEEEEecCCCHHHHHHHHHHHHHHHHHHHHHHhc-CCccCCcHHHHHHHHHHHHhccCChHH
Confidence 456788888888885 247899999999998888888888 4999999988888877764211
Q ss_pred --hhhHHHHHHHHHHHHHhhhcC
Q 012071 351 --HFRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 351 --hfr~lrd~I~~qi~~~~~~~g 371 (471)
=++.+.+++..-.+.+.+..|
T Consensus 435 ~~~~~~~a~AL~~ip~~La~NaG 457 (524)
T TIGR02348 435 AIGIDIVKRALEAPLRQIAENAG 457 (524)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCC
Confidence 134666666666666666554
No 47
>cd03344 GroEL GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found in eubacteria (GroEL) and in organelles of eubacterial descent (hsp60 and RBP). With the aid of cochaperonin GroES, GroEL encapsulates non-native substrate proteins inside the cavity of the GroEL-ES complex and promotes folding by using energy derived from ATP hydrolysis.
Probab=64.81 E-value=40 Score=37.12 Aligned_cols=81 Identities=17% Similarity=0.250 Sum_probs=59.8
Q ss_pred HHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHH------
Q 012071 290 HAERQELLNKKTKLL-------------SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISR------ 350 (471)
Q Consensus 290 ~~er~elq~kk~KLl-------------~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~sr------ 350 (471)
..+|+.|..+.++|. .+|||++|+++--..-++.++.. .-|+|.|++..+++-+|+..+.
T Consensus 356 ~~~~~~l~eR~~~l~~~~~TI~irG~t~~~l~E~~r~i~Dal~~~k~a~~~-g~VpGGGa~e~~~s~~L~~~~~~~~~~~ 434 (520)
T cd03344 356 DYDKEKLQERLAKLSGGVAVIKVGGATEVELKEKKDRVEDALNATRAAVEE-GIVPGGGVALLRASPALDKLKALNGDEK 434 (520)
T ss_pred HHHHHHHHHHHHHhcCCeEEEEEecCcHHHHHHHHHHHHHHHHHHHHHHhc-CCCcCCcHHHHHHHHHHHHhccCChHHH
Confidence 357777887777774 47899999999999888888888 5999999988888877775432
Q ss_pred -hhhHHHHHHHHHHHHHhhhcC
Q 012071 351 -HFRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 351 -hfr~lrd~I~~qi~~~~~~~g 371 (471)
-++.+.+|+..-.+.+.+..|
T Consensus 435 ~~~~~~a~Al~~ip~~La~NaG 456 (520)
T cd03344 435 LGIEIVRRALEAPLRQIAENAG 456 (520)
T ss_pred HHHHHHHHHHHHHHHHHHHhcC
Confidence 123566666666666666554
No 48
>PRK12852 groEL chaperonin GroEL; Reviewed
Probab=64.65 E-value=42 Score=37.09 Aligned_cols=80 Identities=18% Similarity=0.232 Sum_probs=57.0
Q ss_pred HHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHHh------
Q 012071 291 AERQELLNKKTKLL-------------SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRH------ 351 (471)
Q Consensus 291 ~er~elq~kk~KLl-------------~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~srh------ 351 (471)
.++..|+.+.++|- ..|+|++|+++--..-++..+.. .-|+|.|++..+++.+|..++.-
T Consensus 360 ~~~~~l~~R~~~l~~~~~tI~irG~t~~~l~E~er~i~DAl~a~~~a~~~-g~VpGGGa~e~~~s~~L~~~~~~~~~~q~ 438 (545)
T PRK12852 360 YDREKLQERLAKLAGGVAVIRVGGATEVEVKEKKDRVEDALNATRAAVQE-GIVPGGGVALLRAKKAVGRINNDNADVQA 438 (545)
T ss_pred HHHHHHHHHHHHhCCCeEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHhc-CCCcCchHHHHHHHHHHHHhhcCCcHHHH
Confidence 45666777766663 46899999988888888888888 59999999888888777754321
Q ss_pred -hhHHHHHHHHHHHHHhhhcC
Q 012071 352 -FRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 352 -fr~lrd~I~~qi~~~~~~~g 371 (471)
++.+.+++..-.+.+.+..|
T Consensus 439 ~i~~~a~AL~~ip~~La~NaG 459 (545)
T PRK12852 439 GINIVLKALEAPIRQIAENAG 459 (545)
T ss_pred HHHHHHHHHHHHHHHHHHHcC
Confidence 34566666666666655544
No 49
>PRK00013 groEL chaperonin GroEL; Reviewed
Probab=62.33 E-value=38 Score=37.50 Aligned_cols=82 Identities=18% Similarity=0.265 Sum_probs=59.4
Q ss_pred CHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHH------
Q 012071 289 SHAERQELLNKKTKLL-------------SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTIS------ 349 (471)
Q Consensus 289 s~~er~elq~kk~KLl-------------~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~s------ 349 (471)
+..+|+.|+.+.++|- ..+||++|+++--..-++..+.. ..|+|.|++..+++-+|+.+.
T Consensus 357 ~~~~~~~l~eRi~~l~g~~~tI~irG~t~~~l~E~er~i~Dal~~vk~al~~-g~VpGGGa~e~~~s~~L~~~~~~~~~~ 435 (542)
T PRK00013 357 SDYDREKLQERLAKLAGGVAVIKVGAATEVEMKEKKDRVEDALHATRAAVEE-GIVPGGGVALLRAAPALEALKGLNGDE 435 (542)
T ss_pred CHHHHHHHHHHHHHhcCCeEEEEecCCCHHHHHHHHHHHHHHHHHHHHHHHc-CcccCcHHHHHHHHHHHHHhcCCChHH
Confidence 4457888888887763 47899999999888888888888 599999998888877776431
Q ss_pred -HhhhHHHHHHHHHHHHHhhhcC
Q 012071 350 -RHFRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 350 -rhfr~lrd~I~~qi~~~~~~~g 371 (471)
--++.+.+|+..-.+.+.+..|
T Consensus 436 ~~~i~~~a~Al~~ip~~La~NaG 458 (542)
T PRK00013 436 ATGINIVLRALEAPLRQIAENAG 458 (542)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcC
Confidence 1134566666666666665544
No 50
>PRK12850 groEL chaperonin GroEL; Reviewed
Probab=59.61 E-value=52 Score=36.44 Aligned_cols=80 Identities=19% Similarity=0.264 Sum_probs=58.0
Q ss_pred HHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHH-------
Q 012071 291 AERQELLNKKTKL-------------LSMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISR------- 350 (471)
Q Consensus 291 ~er~elq~kk~KL-------------l~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~sr------- 350 (471)
.+|..|+.+.++| -..|||++|+.+--..-++..+.. ..|+|.|++..+++..|+.+..
T Consensus 360 ~~~~~l~eR~~~l~~~~~tI~irG~t~~~l~E~er~i~DAl~~~k~a~~~-g~VpGGGa~e~~~s~~L~~~~~~~~~~~~ 438 (544)
T PRK12850 360 YDREKLQERLAKLAGGVAVIRVGGATEVEVKEKKDRVDDALHATRAAVEE-GIVPGGGVALLRARSALRGLKGANADETA 438 (544)
T ss_pred HHHHHHHHHHHHhcCCeEEEEECCCcHHHHHHHHHHHHHHHHHHHHHHhc-CCccCCcHHHHHHHHHHHhccCCChHHHH
Confidence 4566677777666 357899999999999998888888 5999999988888877765411
Q ss_pred hhhHHHHHHHHHHHHHhhhcC
Q 012071 351 HFRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 351 hfr~lrd~I~~qi~~~~~~~g 371 (471)
-++.+.+|+..-.+.+.+..|
T Consensus 439 ~i~~~a~Al~~ip~~La~NaG 459 (544)
T PRK12850 439 GIDIVRRALEEPLRQIATNAG 459 (544)
T ss_pred HHHHHHHHHHHHHHHHHHhcC
Confidence 134566666666666665544
No 51
>cd00569 HTH_Hin_like Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed helical bundle. The principal DNA-protein interface is formed by the third helix, the recognition helix, inserting itself into the major groove of the DNA. A diverse array of HTH domains participate in a variety of functions that depend on their DNA-binding properties. HTH_Hin represents one of the simplest versions of the HTH domains; the characterization of homologous relationships between various sequence-diverse HTH domain families remains difficult. The Hin recombinase induces the site-specific inversion of a chromosomal DNA segment containing a promoter, which controls the alternate expression of two genes by reversibly switching orientation. The Hin recombinase consists of a single polypeptide chain containing a D
Probab=57.43 E-value=22 Score=22.06 Aligned_cols=39 Identities=15% Similarity=0.168 Sum_probs=26.6
Q ss_pred CCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccc
Q 012071 413 RGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIE 459 (471)
Q Consensus 413 Rglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWF 459 (471)
+.++.+....+..++.+ .+ ....+|+..|++...|.+|.
T Consensus 4 ~~~~~~~~~~i~~~~~~----~~----s~~~ia~~~~is~~tv~~~~ 42 (42)
T cd00569 4 PKLTPEQIEEARRLLAA----GE----SVAEIARRLGVSRSTLYRYL 42 (42)
T ss_pred CcCCHHHHHHHHHHHHc----CC----CHHHHHHHHCCCHHHHHHhC
Confidence 34666666656555442 22 45678899999999999985
No 52
>PTZ00114 Heat shock protein 60; Provisional
Probab=57.04 E-value=53 Score=36.44 Aligned_cols=81 Identities=15% Similarity=0.193 Sum_probs=59.0
Q ss_pred HHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHH------
Q 012071 290 HAERQELLNKKTKLL-------------SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISR------ 350 (471)
Q Consensus 290 ~~er~elq~kk~KLl-------------~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~sr------ 350 (471)
..+|..|+.+.++|- ..|||++|+++--..-++..+... -|+|.|++..+++..|+.++.
T Consensus 371 ~~~~~~l~eR~~~l~~~~~tI~i~G~t~~~l~E~~r~i~Dal~~~k~a~~~g-vVpGGGa~e~~~s~~L~~~~~~~~~~~ 449 (555)
T PTZ00114 371 EYDKEKLKERLAKLSGGVAVIKVGGASEVEVNEKKDRIEDALNATRAAVEEG-IVPGGGVALLRASKLLDKLEEDNELTP 449 (555)
T ss_pred HHHHHHHHHHHHhcCCCeEEEEecCCCHHHHHHHHHHHHHHHHHHHHHHhcC-cccCCcHHHHHHHHHHHHHhhccCCch
Confidence 456777777777765 368999999998888888888875 999999988888877775432
Q ss_pred ----hhhHHHHHHHHHHHHHhhhcC
Q 012071 351 ----HFRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 351 ----hfr~lrd~I~~qi~~~~~~~g 371 (471)
=++.+.+|+..-.+.+.+..|
T Consensus 450 ~~~~~i~~~a~AL~~ip~~La~NaG 474 (555)
T PTZ00114 450 DQRTGVKIVRNALRLPTKQIAENAG 474 (555)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 134666666666666666544
No 53
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=56.74 E-value=9.7 Score=44.03 Aligned_cols=42 Identities=29% Similarity=0.298 Sum_probs=38.1
Q ss_pred HHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cch
Q 012071 420 VSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLE 464 (471)
Q Consensus 420 ~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrR 464 (471)
..+|++.+. .|+.|+.+|...+|.+.||...-|+.||.+ +..
T Consensus 568 ~sllkayya---ln~~ps~eelskia~qvglp~~vvk~wfE~~~a~ 610 (1007)
T KOG3623|consen 568 TSLLKAYYA---LNGLPSEEELSKIAQQVGLPFAVVKAWFEDEEAE 610 (1007)
T ss_pred HHHHHHHHH---hcCCCCHHHHHHHHHHhcccHHHHHHHHHhhhhh
Confidence 778888887 779999999999999999999999999999 543
No 54
>PRK14104 chaperonin GroEL; Provisional
Probab=53.85 E-value=90 Score=34.72 Aligned_cols=81 Identities=20% Similarity=0.240 Sum_probs=57.8
Q ss_pred HHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHH-------
Q 012071 290 HAERQELLNKKTKLL-------------SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTIS------- 349 (471)
Q Consensus 290 ~~er~elq~kk~KLl-------------~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~s------- 349 (471)
..+|..|+.+.++|. ..|+|++|+++--..-+...+.. .-|+|.|++..+++..|+.+.
T Consensus 359 ~~~~~~l~eRi~~l~~~~atI~irG~t~~~l~e~~r~i~Dal~a~~~ai~~-g~VpGGGa~e~~~s~~L~~~~~~~~~~~ 437 (546)
T PRK14104 359 DYDREKLQERLAKLAGGVAVIRVGGATEVEVKERKDRVDDAMHATRAAVEE-GIVPGGGVALLRASEQLKGIKTKNDDQK 437 (546)
T ss_pred HHHHHHHHHHHHHhcCCeEEEEecCCCHHHHHHHHHHHHHHHHHHHHHHHc-CcCcCchHHHHHHHHHHHHhhcCChHHH
Confidence 457888999988875 36888888888888777777777 599999998887777776432
Q ss_pred HhhhHHHHHHHHHHHHHhhhcC
Q 012071 350 RHFRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 350 rhfr~lrd~I~~qi~~~~~~~g 371 (471)
--++.+.+++..-.+.+.+..|
T Consensus 438 ~~i~~~a~Al~~ip~~La~NaG 459 (546)
T PRK14104 438 TGVEIVRKALSAPARQIAINAG 459 (546)
T ss_pred HHHHHHHHHHHhhHHHHHHhCC
Confidence 1124556666666666665544
No 55
>PF04740 LXG: LXG domain of WXG superfamily; InterPro: IPR006829 This group of putative transposases is found in Gram-positive bacteria, mostly Bacillus members and is thought to be a Cytosolic protein. However, we have also found a Bacillus subtilis bacteriophage SPbetac2 homologue (O64023 from SWISSPROT), possibly arising as a result of horizontal transfer. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=46.87 E-value=1.1e+02 Score=28.85 Aligned_cols=76 Identities=14% Similarity=0.170 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCc---------hhhcHHHHHHHHHHhhhHHHHHHHHHHHHHhhhcCc
Q 012071 302 KLLSMLEEVDRGYKQYYHQMQIVASSFDMVAGHGA---------AKSYTVLALQTISRHFRSLRDAISDQIQVTGRSLGE 372 (471)
Q Consensus 302 KLl~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~---------a~~yt~lal~~~srhfr~lrd~I~~qi~~~~~~~ge 372 (471)
.|....+.+..-++++.+++..+..++..++..+. ++.|..=.+.-+-.-+..+-+.+...++.+.....+
T Consensus 7 el~~~~~~~~~~~~~~~~~l~~l~~ai~~~~~~~~~LkGka~dsiK~y~~~vh~pll~~~~~~~~~~~~~l~~~~~~~~~ 86 (204)
T PF04740_consen 7 ELHSQAESTNSSLKELKEQLESLQKAINQFISSESSLKGKAYDSIKNYFSEVHIPLLQGLILLLEEYQEALKFIKDFQSE 86 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 45566666666677777777777777766654433 455555555556666777777777777666665555
Q ss_pred cccCC
Q 012071 373 QETSS 377 (471)
Q Consensus 373 ~~~~~ 377 (471)
.|.+.
T Consensus 87 vd~~~ 91 (204)
T PF04740_consen 87 VDSSS 91 (204)
T ss_pred Hcccc
Confidence 55433
No 56
>TIGR02481 hemeryth_dom hemerythrin-like metal-binding domain. This model describes both members of the hemerythrin (TIGR00058) family of marine invertebrates and a broader collection of bacterial and archaeal homologs. Many of the latter group are multidomain proteins with signal-transducing domains such as the GGDEF diguanylate cyclase domain (TIGR00254, pfam00990) and methyl-accepting chemotaxis protein signaling domain (pfam00015). Most hemerythrins are oxygen-carriers with a bound non-heme iron, but at least one example is a cadmium-binding protein, apparently with a role in sequestering toxic metals rather than in binding oxygen. Patterns of conserved residues suggest that all prokaryotic instances of this domain bind iron or another heavy metal, but the exact function is unknown. Not surprisingly, the prokaryote with the most instances of this domain is Magnetococcus sp. MC-1, a magnetotactic bacterium.
Probab=46.68 E-value=90 Score=27.02 Aligned_cols=18 Identities=33% Similarity=0.783 Sum_probs=15.2
Q ss_pred CCCHHHHHHHHHHHHHhc
Q 012071 414 GLPESSVSILRAWLFEHF 431 (471)
Q Consensus 414 glpk~a~~iLr~Wl~eH~ 431 (471)
.+..+....|..||..|.
T Consensus 98 ~~~~~~~~~l~~Wl~~HI 115 (126)
T TIGR02481 98 SLAEELLDFLKDWLVNHI 115 (126)
T ss_pred hHHHHHHHHHHHHHHHHh
Confidence 467788889999999995
No 57
>PF01527 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transposase proteins are necessary for efficient DNA transposition. This family consists of various Escherichia coli insertion elements and other bacterial transposases some of which are members of the IS3 family. This region includes a helix-turn-helix motif (HTH) at the N terminus followed by a leucine zipper (LZ) motif. The LZ motif has been shown to mediate oligomerisation of the transposase components in IS911 []. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated; PDB: 2JN6_A 2RN7_A.
Probab=45.20 E-value=26 Score=27.61 Aligned_cols=44 Identities=16% Similarity=0.162 Sum_probs=27.7
Q ss_pred CCCCCCCHHHHHH-HHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc
Q 012071 410 RPQRGLPESSVSI-LRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL 461 (471)
Q Consensus 410 r~rRglpk~a~~i-Lr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN 461 (471)
++++.||.+.+.- ++..+.. ......+|++.|++..+|.+|-.-
T Consensus 2 ~~r~~ys~e~K~~~v~~~~~~--------g~sv~~va~~~gi~~~~l~~W~~~ 46 (76)
T PF01527_consen 2 RKRRRYSPEFKLQAVREYLES--------GESVSEVAREYGISPSTLYNWRKQ 46 (76)
T ss_dssp -SS----HHHHHHHHHHHHHH--------HCHHHHHHHHHTS-HHHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHHHHC--------CCceEeeecccccccccccHHHHH
Confidence 3456677666554 4554443 367889999999999999999654
No 58
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=43.58 E-value=16 Score=25.47 Aligned_cols=43 Identities=26% Similarity=0.235 Sum_probs=32.9
Q ss_pred CCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchh
Q 012071 415 LPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLEL 465 (471)
Q Consensus 415 lpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl 465 (471)
||.....++...+.+. -.-..+|..+|++...|..|... +.++
T Consensus 11 l~~~~~~~~~~~~~~~--------~~~~~ia~~~~~s~~~i~~~~~~~~~~l 54 (55)
T cd06171 11 LPEREREVILLRFGEG--------LSYEEIAEILGISRSTVRQRLHRALKKL 54 (55)
T ss_pred CCHHHHHHHHHHHhcC--------CCHHHHHHHHCcCHHHHHHHHHHHHHHc
Confidence 6777888887766543 23567799999999999999887 6554
No 59
>PF07765 KIP1: KIP1-like protein; InterPro: IPR011684 This is a group of sequences found exclusively in plants. They are similar to kinase interacting protein 1 (KIP1), which has been found to interact with the kinase domain of PRK1, a receptor-like kinase []. This particular region contains two coiled-coils, which are described as motifs involved in protein-protein interactions []. It has also been suggested that the coiled-coils of the protein allow it to dimerise in vivo [].
Probab=41.30 E-value=29 Score=29.40 Aligned_cols=28 Identities=36% Similarity=0.637 Sum_probs=21.1
Q ss_pred HHHHHH-HHHHHHHHHHHHHHHHHHHHHH
Q 012071 290 HAERQE-LLNKKTKLLSMLEEVDRGYKQY 317 (471)
Q Consensus 290 ~~er~e-lq~kk~KLl~mLdEVdrRY~qY 317 (471)
-++|.| .-+|+-.|++|++|+.|.|+--
T Consensus 41 fakrAEmyy~kRp~Li~~vee~yr~YrsL 69 (74)
T PF07765_consen 41 FAKRAEMYYKKRPELISLVEEFYRSYRSL 69 (74)
T ss_pred HHHhhHHHhcccHHHHHHHHHHHHHHHHH
Confidence 356777 4455669999999999988743
No 60
>cd00309 chaperonin_type_I_II chaperonin families, type I and type II. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. There are 2 main chaperonin groups. The symmetry of type I is seven-fold and they are found in eubacteria (GroEL) and in organelles of eubacterial descent (hsp60 and RBP). The symmetry of type II is eight- or nine-fold and they are found in archea (thermosome), thermophilic bacteria (TF55) and in the eukaryotic cytosol (CTT). Their common function is to sequester nonnative proteins inside their central cavity and promote folding by using energy derived from ATP hydrolysis.
Probab=38.48 E-value=1.2e+02 Score=32.52 Aligned_cols=67 Identities=19% Similarity=0.273 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHHh--------hhHHHHHHHHHHHHHhhhcC
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRH--------FRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~srh--------fr~lrd~I~~qi~~~~~~~g 371 (471)
.+|+|++|+.+-...=+..++..=..|+|.|+++.+.+-+++..... ++++.+++..-.+.+.+..|
T Consensus 323 ~~l~e~~r~i~dal~~~~~~~~~~~~vpGGGa~E~~ls~~L~~~~~~~~~~~~~~~~~~a~aL~~ip~~L~~NaG 397 (464)
T cd00309 323 VELDEAERSLHDALCAVRAAVEDGGIVPGGGAAEIELSKALEELAKTLPGKEQLGIEAFADALEVIPRTLAENAG 397 (464)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCcccCCcHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 46667666665555444444443236899999888888888765442 34666666666666665544
No 61
>KOG0809 consensus SNARE protein TLG2/Syntaxin 16 [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.24 E-value=91 Score=32.74 Aligned_cols=63 Identities=22% Similarity=0.367 Sum_probs=49.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhcccc-----cCCchhhcHHHHHHHHHHhhhHHHHHHHHHHHHHhh
Q 012071 306 MLEEVDRGYKQYYHQMQIVASSFDMVA-----GHGAAKSYTVLALQTISRHFRSLRDAISDQIQVTGR 368 (471)
Q Consensus 306 mLdEVdrRY~qY~~qmq~v~ssF~~va-----g~g~a~~yt~lal~~~srhfr~lrd~I~~qi~~~~~ 368 (471)
+=+||-+=..+|+..||.+.++-...+ ....+..|.+..||++|+-||-+-......|+..-.
T Consensus 105 ltq~Itqll~~cqk~iq~~~a~~n~~~~~e~~~~~n~~~~la~~LQ~~s~~fR~~Qs~YLK~l~~~ee 172 (305)
T KOG0809|consen 105 LTQEITQLLQKCQKLIQRLSASLNQLSPSERLLRKNAQGYLALQLQTLSREFRGLQSKYLKRLRNREE 172 (305)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchhh
Confidence 334556666799999999999997443 333578899999999999999999998888885544
No 62
>PF00118 Cpn60_TCP1: TCP-1/cpn60 chaperonin family Chaperonins cpn60 signature Chaperonins TCP-1 signatures 60 kd chaperonin signature; InterPro: IPR002423 Partially folded polypeptide chains, either newly made by ribosomes or emerging from mature proteins unfolded by stress, run the risk of aggregating with one another to the detriment of the organism. Folding of newly synthesised polypeptides in the crowded cellular environment requires the assistance of molecular chaperone proteins, such as the large bacterial chaperonins GroEL and GroES. GroEL and GroES prevent aggregation by encapsulating individual chains within the so-called 'Anfinsen cage' provided by the GroEL-GroES complex, where they can fold in isolation from one another []. GroEL consists of two heptameric rings of identical ATPase subunits stacked back to back, containing a cage in each ring. Each subunit consists of three domains. The equatorial domain contains the nucleotide binding site and is connected by a flexible intermediate domain with the apical domain. The latter presents several hydrophobic amino-acid side chains at the top of the ring, orientated towards the cavity of the cage. These side chains are involved in binding either a partially folded polypeptide chain or a single molecule of GroES. The assembly of proteins has been thought to be the sole result of properties inherent in the primary sequence of polypeptides themselves. In some cases, however, structural information from other protein molecules is required for correct folding and subsequent assembly into oligomers []. These 'helper' molecules are referred to as molecular chaperones, a subfamily of which are the chaperonins [], which include 10 kDa and 60 kDa proteins. These are found in abundance in prokaryotes, chloroplasts and mitochondria. They are required for normal cell growth (as demonstrated by the fact that no temperature sensitive mutants for the chaperonin genes can be found in the temperature range 20 to 43 degrees centigrade []), and are stress-induced, acting to stabilise or protect disassembled polypeptides under heat-shock conditions []. The 10 kDa chaperonin (cpn10 - or groES in bacteria) exists as a ring-shaped oligomer of between 6 to 8 identical subunits, whereas the 60 kDa chaperonin (cpn60 - or groEL in bacteria) forms a structure comprising 2 stacked rings, each ring containing 7 identical subunits []. These ring structures assemble by self-stimulation in the presence of Mg2+-ATP. The cpn10 and cpn60 oligomers also require Mg2+-ATP in order to interact to form a functional complex, although the mechanism of this interaction is as yet unknown []. This chaperonin complex is essential for the correct folding and assembly of polypeptides into oligomeric structures, of which the chaperonins themselves are not a part []. The binding of cpn10 to cpn60 inhibits the weak ATPase activity of cpn60. The 60 kDa form of chaperonin is the immunodominant antigen of patients with Legionnaire's disease [], and is thought to play a role in the protection of the Legionella bacteria from oxygen radicals within macrophages. This hypothesis is based on the finding that the cpn60 gene is upregulated in response to hydrogen peroxide, a source of oxygen radicals. Cpn60 has also been found to display strong antigenicity in many bacterial species [], and has the potential for inducing immune protection against unrelated bacterial infections. The RuBisCO subunit binding protein (which has been implicated in the assembly of RuBisCO) and cpn60 have been found to be evolutionary homologues, the RuBisCO subunit binding protein having the C-terminal Gly-Gly-Met repeat found in all bacterial cpn60 sequences. Although the precise function of this repeat is unknown, it is thought to be important as it is also found in 70 kDa heat-shock proteins []. The crystal structure of Escherichia coli GroEL has been resolved to 2.8A []. The TCP-1 family of proteins act as molecular chaperones for tubulin, actin and probably some other proteins. They are weakly, but significantly, related to the cpn60/groEL chaperonin family. ; GO: 0005524 ATP binding, 0044267 cellular protein metabolic process; PDB: 3IZH_B 3IZI_I 3LOS_I 3IYF_H 3KFK_C 3KFE_E 3RUV_C 3IZK_L 3J02_B 3RUQ_A ....
Probab=37.10 E-value=93 Score=32.77 Aligned_cols=67 Identities=19% Similarity=0.245 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHHh--------hhHHHHHHHHHHHHHhhhcC
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRH--------FRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~srh--------fr~lrd~I~~qi~~~~~~~g 371 (471)
.+++|+++++.-...=++.++..=..++|.|+++.+++-+|+..+.. ++++.+++..-.+.+....|
T Consensus 342 ~~l~e~~~~i~dal~~~~~~~~~~~vvpGGG~~e~~l~~~L~~~~~~~~~~~~~~~~~~a~aL~~ip~~L~~NaG 416 (485)
T PF00118_consen 342 FELEERERSIHDALKVLRSALKDGGVVPGGGATELHLSKALRKYAKSLSGKEQLAIEAFADALESIPKTLAQNAG 416 (485)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHSSEEEETTTHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHTTHHHHHHHHHTT
T ss_pred hhHHHHHHHHHHHHHHHHHhccCCceeecCcchhhhhhhhHHHhhhcccCchhhhHHHHHHHHHHhhhhhhhccC
Confidence 46667777766666655666554458999999999999999665553 35777777666666666555
No 63
>PTZ00212 T-complex protein 1 subunit beta; Provisional
Probab=36.63 E-value=1.2e+02 Score=33.36 Aligned_cols=67 Identities=13% Similarity=0.268 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHHhh--------hHHHHHHHHHHHHHhhhcC
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRHF--------RSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~srhf--------r~lrd~I~~qi~~~~~~~g 371 (471)
.+|+|++|+.+--..=++.++..=..|+|.|++..+.+..|+..+... +++.+++..=.+.+.+..|
T Consensus 383 ~~l~E~er~i~DAl~vv~~~i~~~~vVpGGGa~e~~ls~~L~~~~~~~~~~~~~~i~~~a~aL~~ip~~La~NaG 457 (533)
T PTZ00212 383 HILDEAERSLHDALCVLSQTVKDTRVVLGGGCSEMLMANAVEELAKKVEGKKSLAIEAFAKALRQIPTIIADNGG 457 (533)
T ss_pred hHHHHHHHHHHHHHHHHHHHhhCCCEeeCCCHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 578888888776666655555554489999999888888887654432 3555555554555544433
No 64
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=35.93 E-value=23 Score=26.18 Aligned_cols=45 Identities=29% Similarity=0.381 Sum_probs=33.7
Q ss_pred CCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhh
Q 012071 414 GLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELW 466 (471)
Q Consensus 414 glpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~ 466 (471)
.||++...+|..-|++. -.-.++|...|++...|+.+... .++++
T Consensus 4 ~L~~~er~vi~~~y~~~--------~t~~eIa~~lg~s~~~V~~~~~~al~kLR 49 (50)
T PF04545_consen 4 QLPPREREVIRLRYFEG--------LTLEEIAERLGISRSTVRRILKRALKKLR 49 (50)
T ss_dssp TS-HHHHHHHHHHHTST---------SHHHHHHHHTSCHHHHHHHHHHHHHHHH
T ss_pred hCCHHHHHHHHHHhcCC--------CCHHHHHHHHCCcHHHHHHHHHHHHHHhc
Confidence 47888899997766533 33577899999999999999877 66654
No 65
>cd03342 TCP1_zeta TCP-1 (CTT or eukaryotic type II) chaperonin family, zeta subunit. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings. In contrast to bacterial group I chaperonins (GroEL), each ring of the eukaryotic cytosolic chaperonin (CTT) consists of eight different, but homologous subunits. Their common function is to sequester nonnative proteins inside their central cavity and promote folding by using energy derived from ATP hydrolysis. The best studied in vivo substrates of CTT are actin and tubulin.
Probab=35.43 E-value=1.2e+02 Score=32.86 Aligned_cols=67 Identities=12% Similarity=0.161 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHHh--------hhHHHHHHHHHHHHHhhhcC
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRH--------FRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~srh--------fr~lrd~I~~qi~~~~~~~g 371 (471)
.+|+|++|+.+--..=++..+..=..|+|.|++..+++.+|+..+.. ++.+.+++..=.+.+.+..|
T Consensus 340 ~~l~E~er~l~DAl~~vk~~~~~~~~vpGGGa~e~~ls~~L~~~~~~~~~~~~~~i~~~a~Al~~ip~~La~NaG 414 (484)
T cd03342 340 HTITQIKDAIRDGLRAVKNAIEDKCVVPGAGAFEVALYAHLKEFKKSVKGKAKLGVQAFADALLVIPKTLAENSG 414 (484)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCcEEeCCCHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 47888888876665555554443338999999988888888765433 23455555555555555444
No 66
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=35.41 E-value=34 Score=26.07 Aligned_cols=22 Identities=27% Similarity=0.348 Sum_probs=13.7
Q ss_pred HHHHHHHHhCCCchhhcccccc
Q 012071 440 EKIMLAKQTGLSKNQVRKIEIL 461 (471)
Q Consensus 440 eK~~LA~~TGLs~sQVsNWFiN 461 (471)
....||+.+|+++..|+.|+.+
T Consensus 12 t~~~La~~~gis~~tl~~~~~~ 33 (63)
T PF13443_consen 12 TQKDLARKTGISRSTLSRILNG 33 (63)
T ss_dssp -HHHHHHHHT--HHHHHHHHTT
T ss_pred CHHHHHHHHCcCHHHHHHHHhc
Confidence 3456777777777777777766
No 67
>TIGR02345 chap_CCT_eta T-complex protein 1, eta subunit. Members of this family, all eukaryotic, are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT eta chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.
Probab=33.50 E-value=1.5e+02 Score=32.57 Aligned_cols=67 Identities=18% Similarity=0.205 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHHh--------hhHHHHHHHHHHHHHhhhcC
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRH--------FRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~srh--------fr~lrd~I~~qi~~~~~~~g 371 (471)
.+|+|++|+.+--..=+..++..=..|+|.|++..+++.+++.++.. ++.+.+++..=.+.+.+..|
T Consensus 377 ~~l~E~~r~i~DAl~~~~~~~~~~~vvpGGG~~e~~ls~~l~~~~~~~~~~~~~~i~~~a~aL~~ip~~La~NaG 451 (522)
T TIGR02345 377 QFIEEAERSLHDAIMIVRRALKARKIVAGGGAIEMELSKILREHSKKIDGKQQLIIEAFAKALEIIPRSLCENAG 451 (522)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCEEeCCCHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHHHHCC
Confidence 47888888877666555555543336999999988888888765432 34666666666666665544
No 68
>TIGR02346 chap_CCT_theta T-complex protein 1, theta subunit. Members of this family, all eukaryotic, are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT alpha chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.
Probab=31.91 E-value=1.4e+02 Score=32.80 Aligned_cols=64 Identities=14% Similarity=0.348 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhc---ccccCCchhhcHHHHHHHHHHh--------hhHHHHHHHHHHHHHhhhcC
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFD---MVAGHGAAKSYTVLALQTISRH--------FRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~---~vag~g~a~~yt~lal~~~srh--------fr~lrd~I~~qi~~~~~~~g 371 (471)
.+|+|++|+.+ +-+.+|-++++ .|+|.|++..+.+.+++..+.. ++.+.+++..=.+.++...|
T Consensus 375 ~~l~E~er~i~---DAl~~~k~ai~~~~vVpGGG~~e~~ls~~L~~~~~~~~~~~~~~~~~~a~aL~~ip~~L~~NaG 449 (531)
T TIGR02346 375 NLLDDIERAID---DGVNVIKALVKDNRFLPGAGATEIELALRLKKYANKLPGLDQYAIKKFAEAFEIIPRTLAENAG 449 (531)
T ss_pred HHHHHHHHHHH---HHHHHHHHHhcCCCEEECcCHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 46677776655 45555555565 8999999888777777654332 24566666666666655444
No 69
>PF14943 MRP-S26: Mitochondrial ribosome subunit S26
Probab=31.60 E-value=50 Score=31.72 Aligned_cols=21 Identities=38% Similarity=0.676 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhc
Q 012071 309 EVDRGYKQYYHQMQIVASSFD 329 (471)
Q Consensus 309 EVdrRY~qY~~qmq~v~ssF~ 329 (471)
|+.+||++|+.+|.+|..-|-
T Consensus 28 el~~~~~~Yr~~m~alR~~f~ 48 (170)
T PF14943_consen 28 ELKRRYNNYRTQMRALRSEFR 48 (170)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 677999999999999999986
No 70
>TIGR02342 chap_CCT_delta T-complex protein 1, delta subunit. Members of this family, all eukaryotic, are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT delta chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.
Probab=31.31 E-value=1.7e+02 Score=32.11 Aligned_cols=45 Identities=13% Similarity=0.310 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHH
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTIS 349 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~s 349 (471)
.+|||++|+.+--..=+..++..=..|+|.|++..+++.+++..+
T Consensus 374 ~~l~E~er~i~DAl~~v~~~~~~~~~VpGGGa~e~~ls~~l~~~~ 418 (517)
T TIGR02342 374 LVIDEAERSLHDALCVIRSLVKKRGLIPGGGAPEIEIAIKLSKLA 418 (517)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhCCCEEECcCHHHHHHHHHHHHHH
Confidence 578888888776665555555433379999998888888887543
No 71
>cd03341 TCP1_theta TCP-1 (CTT or eukaryotic type II) chaperonin family, theta subunit. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings. In contrast to bacterial group I chaperonins (GroEL), each ring of the eukaryotic cytosolic chaperonin (CTT) consists of eight different, but homologous subunits. Their common function is to sequester nonnative proteins inside their central cavity and promote folding by using energy derived from ATP hydrolysis. The best studied in vivo substrates of CTT are actin and tubulin.
Probab=30.50 E-value=1.6e+02 Score=31.89 Aligned_cols=64 Identities=17% Similarity=0.290 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhc---ccccCCchhhcHHHHHHHHHHhh--------hHHHHHHHHHHHHHhhhcC
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFD---MVAGHGAAKSYTVLALQTISRHF--------RSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~---~vag~g~a~~yt~lal~~~srhf--------r~lrd~I~~qi~~~~~~~g 371 (471)
.+|+|++|+.+ +-+.++-++++ .|+|.|++..+.+.+++..+... ..+.+++..=.+.+.+..|
T Consensus 327 ~~l~E~er~i~---DAl~~~~~ai~~~~vVpGGG~~e~~ls~~l~~~~~~~~~~~~~~~~~~a~al~~ip~~L~~NaG 401 (472)
T cd03341 327 NILDDVERAID---DGVNVFKSLTKDGRFVPGAGATEIELAKKLKEYGEKTPGLEQYAIKKFAEAFEVVPRTLAENAG 401 (472)
T ss_pred HHHHHHHHHHH---HHHHHHHHHhcCCCEEeCcCHHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHHHHCC
Confidence 46667766655 45555566665 88999998888888887654433 2455555555555554444
No 72
>cd07597 BAR_SNX8 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 8. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX8 and the yeast counterpart Mvp1p are involved in sorting and delivery of late-Golgi proteins, such as carboxypeptidase Y, to vacuoles. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=30.15 E-value=3.2e+02 Score=27.17 Aligned_cols=76 Identities=22% Similarity=0.258 Sum_probs=59.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcH-----------HHHHHHHHHhhhHHHHHHHHHH
Q 012071 295 ELLNKKTKLLSMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYT-----------VLALQTISRHFRSLRDAISDQI 363 (471)
Q Consensus 295 elq~kk~KLl~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt-----------~lal~~~srhfr~lrd~I~~qi 363 (471)
++...-.||-.++|.+.+|-++.-..+..+...+...+.... ..|. .=++..|++||..+-+...++-
T Consensus 33 ~l~~~~~~l~~l~er~~kR~~~~A~d~~~f~~~l~~l~~~~~-~~~~~~~~~~~~~~l~~~l~~~s~~~~~~s~~~~~~a 111 (246)
T cd07597 33 RLLESWTKLRVLAERYEKRSQQQAADRAEFARLLNSLGELTA-RLYPWAGDSDTWGDINEGLSSLSKHFQLLSDLSEDEA 111 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCC-CCCCccCCCccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455667788899999999999999999998888887776653 2333 3467789999999888888887
Q ss_pred HHHhhhcC
Q 012071 364 QVTGRSLG 371 (471)
Q Consensus 364 ~~~~~~~g 371 (471)
+.....+.
T Consensus 112 ~~~~~~vl 119 (246)
T cd07597 112 RAEEDGVL 119 (246)
T ss_pred HHHHhhhh
Confidence 77766544
No 73
>PF13945 NST1: Salt tolerance down-regulator
Probab=29.63 E-value=1.5e+02 Score=29.25 Aligned_cols=49 Identities=31% Similarity=0.495 Sum_probs=31.3
Q ss_pred cCCHHHHHH-HHHHHHHHHH---------------------HHHHHHHHHHHHHHHHHHHHhhhcccccCC
Q 012071 287 ELSHAERQE-LLNKKTKLLS---------------------MLEEVDRGYKQYYHQMQIVASSFDMVAGHG 335 (471)
Q Consensus 287 ~ls~~er~e-lq~kk~KLl~---------------------mLdEVdrRY~qY~~qmq~v~ssF~~vag~g 335 (471)
.|+..||.+ ++..|.-||. |=+|+++=|..||+++...+.--..++.++
T Consensus 113 SL~eeERr~LVkIEKe~VLkkmKeqq~h~C~C~vCgr~~~~ie~ele~ly~~~y~~l~~~~~~~~~~~~~~ 183 (190)
T PF13945_consen 113 SLSEEERRSLVKIEKEAVLKKMKEQQKHSCSCSVCGRKRTAIEEELERLYDAYYEELEQYANHQQSVSNGG 183 (190)
T ss_pred ccCHHHHHHHHHhhHHHHHHHHHHHhccCcccHHHhchhhHHHHHHHHHHHHHHHHHHHHHHhhchhhcCC
Confidence 467778877 4555555554 446677778888888776666544554443
No 74
>TIGR02341 chap_CCT_beta T-complex protein 1, beta subunit. Members of this family, all eukaryotic, are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT beta chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.
Probab=29.49 E-value=1.8e+02 Score=32.02 Aligned_cols=67 Identities=13% Similarity=0.219 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHHh--------hhHHHHHHHHHHHHHhhhcC
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRH--------FRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~srh--------fr~lrd~I~~qi~~~~~~~g 371 (471)
.+|+|++|+.+--..=++.++..=..|+|.|++..+++..++...+. |+++.+++..=.+.+.+..|
T Consensus 372 ~~l~E~er~i~Dal~~~~~~~~~~~vvpGGGa~e~~ls~~l~~~~~~~~~~~~~~i~~~a~Ale~ip~~La~NaG 446 (519)
T TIGR02341 372 QILDESERSLHDALCVLSQTVKESRTVLGGGCSEMLMSKAVAVEAQKVPGKEALAVEAFARALRQLPTIIADNAG 446 (519)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCEEeCCCHHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHHHHHHHHHHHCC
Confidence 57888888876555554444433358999999888777777654332 34666666666666666545
No 75
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=28.88 E-value=58 Score=28.82 Aligned_cols=45 Identities=13% Similarity=0.273 Sum_probs=33.6
Q ss_pred CCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc
Q 012071 413 RGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL 461 (471)
Q Consensus 413 Rglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN 461 (471)
++-....+..+.+|+.+|...| + .-+.||+.+|+++..+.-+|..
T Consensus 4 ~~~~~~~i~~~~~~I~~~~~~~-~---sl~~lA~~~g~S~~~l~r~Fk~ 48 (127)
T PRK11511 4 RNTDAITIHSILDWIEDNLESP-L---SLEKVSERSGYSKWHLQRMFKK 48 (127)
T ss_pred ccccHHHHHHHHHHHHHhcCCC-C---CHHHHHHHHCcCHHHHHHHHHH
Confidence 3444556677789999997666 3 4467888899999999888763
No 76
>cd03340 TCP1_eta TCP-1 (CTT or eukaryotic type II) chaperonin family, eta subunit. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings. In contrast to bacterial group I chaperonins (GroEL), each ring of the eukaryotic cytosolic chaperonin (CTT) consists of eight different, but homologous subunits. Their common function is to sequester nonnative proteins inside their central cavity and promote folding by using energy derived from ATP hydrolysis. The best studied in vivo substrates of CTT are actin and tubulin.
Probab=28.28 E-value=2e+02 Score=31.51 Aligned_cols=67 Identities=19% Similarity=0.195 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHHh--------hhHHHHHHHHHHHHHhhhcC
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRH--------FRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~srh--------fr~lrd~I~~qi~~~~~~~g 371 (471)
.+|||++|+.+--..=++.++..=..|+|.|++....+.+++..+.. ++.+.+++..=.+.+.+..|
T Consensus 376 ~~l~E~er~i~Dal~~~~~~i~~~~vvpGGG~~E~~ls~~l~~~~~~~~~~~~~~~~~fa~aL~~ip~~La~NaG 450 (522)
T cd03340 376 QFIEEAERSLHDAIMIVRRAIKNDSVVAGGGAIEMELSKYLRDYSRTIAGKQQLVINAFAKALEIIPRQLCDNAG 450 (522)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCEEECcCHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 46899998887766666666554347899999888888777754332 34556666655555555444
No 77
>cd03335 TCP1_alpha TCP-1 (CTT or eukaryotic type II) chaperonin family, alpha subunit. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings. In contrast to bacterial group I chaperonins (GroEL), each ring of the eukaryotic cytosolic chaperonin (CTT) consists of eight different, but homologous subunits. Their common function is to sequester nonnative proteins inside their central cavity and promote folding by using energy derived from ATP hydrolysis. The best studied in vivo substrates of CTT are actin and tubulin.
Probab=28.22 E-value=1.9e+02 Score=31.73 Aligned_cols=67 Identities=16% Similarity=0.213 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHHh--------hhHHHHHHHHHHHHHhhhcC
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRH--------FRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~srh--------fr~lrd~I~~qi~~~~~~~g 371 (471)
.+|||++|+.+--..=++.++..=..|+|.|++..+++.+++.++.- ++.+.+++..=.+.+.+..|
T Consensus 375 ~~l~e~er~i~Dal~~~~~~~~~~~vvpGGGa~e~~ls~~L~~~~~~~~~~~~~~i~~~a~aL~~ip~~La~NaG 449 (527)
T cd03335 375 FMLDEMERSLHDALCVVKRTLESNSVVPGGGAVETALSIYLENFATTLGSREQLAIAEFAEALLVIPKTLAVNAA 449 (527)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhCCCEeeCCCHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHHHHHHHHCC
Confidence 47788887766544444444333238999999988888888754332 23555555555555555444
No 78
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=27.94 E-value=39 Score=25.12 Aligned_cols=43 Identities=21% Similarity=0.214 Sum_probs=30.5
Q ss_pred CCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cch
Q 012071 414 GLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLE 464 (471)
Q Consensus 414 glpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrR 464 (471)
.||+....++.--+.+. -.-.++|..+|++.+-|.+|... |++
T Consensus 10 ~L~~~~r~i~~l~~~~g--------~s~~eIa~~l~~s~~~v~~~l~ra~~~ 53 (54)
T PF08281_consen 10 QLPERQREIFLLRYFQG--------MSYAEIAEILGISESTVKRRLRRARKK 53 (54)
T ss_dssp CS-HHHHHHHHHHHTS-----------HHHHHHHCTS-HHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHC--------cCHHHHHHHHCcCHHHHHHHHHHHHhh
Confidence 37888888887655544 34578999999999999999887 665
No 79
>PLN00064 photosystem II protein Psb27; Provisional
Probab=27.73 E-value=2e+02 Score=27.86 Aligned_cols=62 Identities=15% Similarity=0.282 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCc-hhhcHHHHHHHHHHhhh----------HHHHHHHH
Q 012071 293 RQELLNKKTKLLSMLEEVDRGYKQYYHQMQIVASSFDMVAGHGA-AKSYTVLALQTISRHFR----------SLRDAISD 361 (471)
Q Consensus 293 r~elq~kk~KLl~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~-a~~yt~lal~~~srhfr----------~lrd~I~~ 361 (471)
+.+.+.+-.+++. ..-.|||. ...|+|+.. ...|| ||.+|+-||. .||++|..
T Consensus 90 ~a~a~aeaR~~iN---dyvSrYRr-----------~~~v~Gl~SFttMyT--ALNaLAGHY~SfgpnrPlPeKlK~RL~q 153 (166)
T PLN00064 90 VADAVAELRETSN---SWVAKYRR-----------EKALLGRPSFRDMYS--ALNAVSGHYISFGPTAPIPAKRKARILE 153 (166)
T ss_pred HHHHHHHHHHHHH---HHHHHhcC-----------CCcccCcccHHHHHH--HHHHHHHHhhccCCCCCCcHHHHHHHHH
Confidence 3444444444443 55667776 567888876 44455 6799999995 68999999
Q ss_pred HHHHHhhhc
Q 012071 362 QIQVTGRSL 370 (471)
Q Consensus 362 qi~~~~~~~ 370 (471)
.+..+-+.+
T Consensus 154 E~~~AEkal 162 (166)
T PLN00064 154 EMDTAEKAL 162 (166)
T ss_pred HHHHHHHHH
Confidence 988877654
No 80
>TIGR02347 chap_CCT_zeta T-complex protein 1, zeta subunit. Members of this family, all eukaryotic, are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT zeta chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.
Probab=27.59 E-value=2e+02 Score=31.78 Aligned_cols=67 Identities=10% Similarity=0.133 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHHh--------hhHHHHHHHHHHHHHhhhcC
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRH--------FRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~srh--------fr~lrd~I~~qi~~~~~~~g 371 (471)
.+|||++|+++--..=++.++..=..|+|.|++..+++.+++..+.. ++.+.+|+..=.+.+.+..|
T Consensus 383 ~~l~E~er~l~DAl~v~~~~~~~~~vvpGGGa~E~~ls~~l~~~~~~~~~~~~~~i~~fa~ALe~ip~~La~NaG 457 (531)
T TIGR02347 383 HTIKQIKDAVRDGLRAVKNAIEDKCVVPGAGAFEIAAYCHLKEEKKSVKGKAKLGVEAFANALLVIPKTLAENSG 457 (531)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhCCcEEeCCCHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 57888888876655555555443338999999888887777654332 23445555544444444433
No 81
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=27.51 E-value=1e+03 Score=27.83 Aligned_cols=17 Identities=24% Similarity=0.235 Sum_probs=15.0
Q ss_pred CCCHHHHHHHHHHHHHh
Q 012071 414 GLPESSVSILRAWLFEH 430 (471)
Q Consensus 414 glpk~a~~iLr~Wl~eH 430 (471)
.|++.+.+.+++-|.++
T Consensus 681 ~L~~~Q~~~I~~iL~~~ 697 (717)
T PF10168_consen 681 VLSESQKRTIKEILKQQ 697 (717)
T ss_pred cCCHHHHHHHHHHHHHH
Confidence 59999999999988865
No 82
>TIGR02344 chap_CCT_gamma T-complex protein 1, gamma subunit. Members of this family, all eukaryotic, are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT gamma chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.
Probab=26.84 E-value=2.6e+02 Score=30.67 Aligned_cols=67 Identities=18% Similarity=0.269 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHH--------hhhHHHHHHHHHHHHHhhhcC
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISR--------HFRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~sr--------hfr~lrd~I~~qi~~~~~~~g 371 (471)
.+|+|++|+.+-...=++.++..=..|+|.|++..+.+.+++..+. -++.+.+|+..=.+.+++..|
T Consensus 378 ~~l~E~er~l~DAl~~vk~~~~~~~vvpGGGa~e~~ls~~l~~~~~~~~~~~~~~~~~~a~al~~ip~~La~NaG 452 (525)
T TIGR02344 378 DVLNEIERNLQDAMAVARNVLLEPKLLPGGGATEMAVSVYLAKKASKLEGVQQWPYRAVADALEIIPRTLAQNCG 452 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCcccCCCHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHCC
Confidence 4677777776555444444443335899999988888877775422 234556666555555555444
No 83
>cd07307 BAR The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions including organelle biogenesis, membrane trafficking or remodeling, and cell division and migration. Mutations in BAR containing proteins have been linked to diseases and their inactivation in cells leads to altered membrane dynamics. A BAR domain with an additional N-terminal amphipathic helix (an N-BAR) can drive membrane curvature. These N-BAR domains are found in amphiphysins and endophilins, among others. BAR domains are also frequently found alongside domains that determine lipid specificity, such as the Pleckstrin Homology (PH) and Phox Homology (PX) domains which are present in beta centaurins (ACAPs and ASAPs) and sorting nexins, respectively. A FES-CIP4 Homology (FCH) domain together with a coiled coil region is called the F-
Probab=26.55 E-value=4.4e+02 Score=23.07 Aligned_cols=71 Identities=10% Similarity=0.082 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccc-------c--CCchhhcHHHHHHHHHHhhhHHHHHHHHHHHHH
Q 012071 296 LLNKKTKLLSMLEEVDRGYKQYYHQMQIVASSFDMVA-------G--HGAAKSYTVLALQTISRHFRSLRDAISDQIQVT 366 (471)
Q Consensus 296 lq~kk~KLl~mLdEVdrRY~qY~~qmq~v~ssF~~va-------g--~g~a~~yt~lal~~~srhfr~lrd~I~~qi~~~ 366 (471)
++..-.||+............+...+...+.+|...+ + ++.+-.+..-+++.|...+..+.+.|...+...
T Consensus 5 ~~~~~~kl~k~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~v~~p 84 (194)
T cd07307 5 LEKLLKKLIKDTKKLLDSLKELPAAAEKLSEALQELGKELPDLSNTDLGEALEKFGKIQKELEEFRDQLEQKLENKVIEP 84 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444556666555555555555555555555555443 2 334455666677778888887776666655433
No 84
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=26.25 E-value=54 Score=23.61 Aligned_cols=28 Identities=32% Similarity=0.390 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHhcCCCCCCHH-HHHHHH
Q 012071 417 ESSVSILRAWLFEHFLHPYPNDS-EKIMLA 445 (471)
Q Consensus 417 k~a~~iLr~Wl~eH~~~PYPs~~-eK~~LA 445 (471)
.....-|+.||..| .-|+|... .|+.|-
T Consensus 3 tWs~~~L~~wL~~~-gi~~~~~~~~rd~Ll 31 (38)
T PF10281_consen 3 TWSDSDLKSWLKSH-GIPVPKSAKTRDELL 31 (38)
T ss_pred CCCHHHHHHHHHHc-CCCCCCCCCCHHHHH
Confidence 34567899999998 44555443 555543
No 85
>TIGR02340 chap_CCT_alpha T-complex protein 1, alpha subunit. Members of this family, all eukaryotic, are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT alpha chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.
Probab=25.91 E-value=2.1e+02 Score=31.52 Aligned_cols=64 Identities=19% Similarity=0.330 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhc---ccccCCchhhcHHHHHHHHHHh--------hhHHHHHHHHHHHHHhhhcC
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFD---MVAGHGAAKSYTVLALQTISRH--------FRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~---~vag~g~a~~yt~lal~~~srh--------fr~lrd~I~~qi~~~~~~~g 371 (471)
.+|+|++|+.+- -+.++-++++ .|+|.|++..+++.+++.+... ++.+.+++..=.+.+++..|
T Consensus 379 ~~l~E~~r~i~D---Al~~~~~~~~~~~vVpGGGa~e~~ls~~l~~~~~~~~~~~~~~~~~fa~AL~~ip~~La~NaG 453 (536)
T TIGR02340 379 FMLDEMERSLHD---ALCVVKRTLESNSVVPGGGAVETALSIYLENFATTLGSREQLAIAEFAEALLIIPKVLAVNAA 453 (536)
T ss_pred HHHHHHHHHHHH---HHHHHHHHhcCCCEEECCCHHHHHHHHHHHHHhhhCCChhHHHHHHHHHHHHHHHHHHHHHCC
Confidence 567787777654 4555556665 8999999888888777754332 23555555555555555544
No 86
>cd03336 TCP1_beta TCP-1 (CTT or eukaryotic type II) chaperonin family, beta subunit. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings. In contrast to bacterial group I chaperonins (GroEL), each ring of the eukaryotic cytosolic chaperonin (CTT) consists of eight different, but homologous subunits. Their common function is to sequester nonnative proteins inside their central cavity and promote folding by using energy derived from ATP hydrolysis. The best studied in vivo substrates of CTT are actin and tubulin.
Probab=25.85 E-value=2.4e+02 Score=30.97 Aligned_cols=67 Identities=13% Similarity=0.294 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHHh--------hhHHHHHHHHHHHHHhhhcC
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRH--------FRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~srh--------fr~lrd~I~~qi~~~~~~~g 371 (471)
.+|+|++|+.+--..=++.++..=..|+|.|++..+.+..++..+.. ++.+.+++..=.+.+++..|
T Consensus 371 ~~l~E~er~i~Dal~~~~~~i~~~~vvpGGGa~e~~ls~~l~~~~~~~~~~~~~~i~~~a~ALe~ip~~La~NaG 445 (517)
T cd03336 371 QILDEAERSLHDALCVLAQTVKDTRVVLGGGCSEMLMAKAVEELAKKTPGKKSLAIEAFAKALRQLPTIIADNAG 445 (517)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCEEeCCCHHHHHHHHHHHHHhhhCCCHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 47888888887666666555554347999999888777777654332 23555555555555555444
No 87
>cd03339 TCP1_epsilon TCP-1 (CTT or eukaryotic type II) chaperonin family, epsilon subunit. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings. In contrast to bacterial group I chaperonins (GroEL), each ring of the eukaryotic cytosolic chaperonin (CTT) consists of eight different, but homologous subunits. Their common function is to sequester nonnative proteins inside their central cavity and promote folding by using energy derived from ATP hydrolysis. The best studied in vivo substrates of CTT are actin and tubulin.
Probab=24.98 E-value=2.4e+02 Score=31.01 Aligned_cols=67 Identities=21% Similarity=0.284 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHHh--------hhHHHHHHHHHHHHHhhhcC
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRH--------FRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~srh--------fr~lrd~I~~qi~~~~~~~g 371 (471)
.+|+|++|+.+--..=++.++..=..|+|.|++..+++..++..+.. ++.+.+++..=.+.+++..|
T Consensus 384 ~~l~E~er~l~DAl~~~~~~~~~~~vvpGGGa~e~~ls~~l~~~~~~~~~~~~~~~~~~a~aL~~ip~~L~~NaG 458 (526)
T cd03339 384 MIIEEAKRSLHDALCVVRNLIRDNRIVYGGGAAEISCSLAVEKAADKCSGIEQYAMRAFADALESIPLALAENSG 458 (526)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhCCCEEeCCCHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHCC
Confidence 47788888776665555555544237999999888888777654332 23555555555555555444
No 88
>TIGR02339 thermosome_arch thermosome, various subunits, archaeal. Thermosome is the name given to the archaeal rather than eukaryotic form of the group II chaperonin (counterpart to the group I chaperonin, GroEL/GroES, in bacterial), a torroidal, ATP-dependent molecular chaperone that assists in the folding or refolding of nascent or denatured proteins. Various homologous subunits, one to five per archaeal genome, may be designated alpha, beta, etc., but phylogenetic analysis does not show distinct alpha subunit and beta subunit lineages traceable to ancient paralogs.
Probab=24.90 E-value=2.5e+02 Score=30.74 Aligned_cols=64 Identities=25% Similarity=0.498 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhc---ccccCCchhhcHHHHHHHHHHh--------hhHHHHHHHHHHHHHhhhcC
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFD---MVAGHGAAKSYTVLALQTISRH--------FRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~---~vag~g~a~~yt~lal~~~srh--------fr~lrd~I~~qi~~~~~~~g 371 (471)
.+|+|++|+.+-- +.++.++++ .|+|.|++..+.+..++..+.. ++.+.+++..=.+.+++..|
T Consensus 377 ~~l~E~~r~i~DA---l~~~~~~~~~~~vvpGGGa~e~~ls~~l~~~~~~~~~~~~~~~~~~a~aL~~ip~~L~~NaG 451 (519)
T TIGR02339 377 HVVDELERSIQDA---LHVVASALEDGKVVAGGGAVEIELALRLRSYARKIGGREQLAIEAFADALEEIPRILAENAG 451 (519)
T ss_pred HHHHHHHHHHHHH---HHHHHHHhcCCCEeeCCCHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 5777887776544 455555555 7899999888888777755332 23445555544444444433
No 89
>TIGR02343 chap_CCT_epsi T-complex protein 1, epsilon subunit. Members of this family, all eukaryotic, are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT epsilon chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.
Probab=24.18 E-value=2.4e+02 Score=31.13 Aligned_cols=67 Identities=21% Similarity=0.279 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHHh--------hhHHHHHHHHHHHHHhhhcC
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRH--------FRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~srh--------fr~lrd~I~~qi~~~~~~~g 371 (471)
.+|||++|+.+--..=++.++..=..|+|.|++....+-+++..+.. ++.+.+++..=.+.+++..|
T Consensus 388 ~~l~E~er~l~DAl~~v~~~i~~~~vvpGGGa~e~~ls~~l~~~~~~~~~~~~~~i~~fa~ALe~ip~~La~NaG 462 (532)
T TIGR02343 388 MIIEEAKRSIHDALCVVRNLIKNSRIVYGGGAAEISCSLAVSQEADKYSGVEQYAIRAFADALEEIPMALAENSG 462 (532)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCEEeCcCHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHCC
Confidence 57899999887777666666664347999999887777777654322 23455555554555544433
No 90
>cd03338 TCP1_delta TCP-1 (CTT or eukaryotic type II) chaperonin family, delta subunit. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings. In contrast to bacterial group I chaperonins (GroEL), each ring of the eukaryotic cytosolic chaperonin (CTT) consists of eight different, but homologous subunits. Their common function is to sequester nonnative proteins inside their central cavity and promote folding by using energy derived from ATP hydrolysis. The best studied in vivo substrates of CTT are actin and tubulin.
Probab=23.94 E-value=2.5e+02 Score=30.67 Aligned_cols=67 Identities=19% Similarity=0.302 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHHhh--------hHHHHHHHHHHHHHhhhcC
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRHF--------RSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~srhf--------r~lrd~I~~qi~~~~~~~g 371 (471)
.+|+|++|+.+--..=++.++..=-.|+|.|++...++..++..+... +.+.+++..=.+.+.+..|
T Consensus 373 ~~l~e~~r~i~Dal~~~~~~~~~~~vvpGGG~~e~~ls~~l~~~~~~~~~~~~~~~~~~a~al~~ip~~L~~NaG 447 (515)
T cd03338 373 LVLDEAERSLHDALCVIRCLVKKRALIPGGGAPEIEIALQLSEWARTLTGVEQYCVRAFADALEVIPYTLAENAG 447 (515)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhCCCEEECCCHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHCC
Confidence 577888877765555544444332389999998887777776554321 2445555544444444433
No 91
>cd03343 cpn60 cpn60 chaperonin family. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings. Archaeal cpn60 (thermosome), together with TF55 from thermophilic bacteria and the eukaryotic cytosol chaperonin (CTT), belong to the type II group of chaperonins. Cpn60 consists of two stacked octameric rings, which are composed of one or two different subunits. Their common function is to sequester nonnative proteins inside their central cavity and promote folding by using energy derived from ATP hydrolysis.
Probab=23.60 E-value=2.9e+02 Score=30.06 Aligned_cols=64 Identities=22% Similarity=0.437 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhc---ccccCCchhhcHHHHHHHHHHh--------hhHHHHHHHHHHHHHhhhcC
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFD---MVAGHGAAKSYTVLALQTISRH--------FRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~---~vag~g~a~~yt~lal~~~srh--------fr~lrd~I~~qi~~~~~~~g 371 (471)
.+|+|++|+.+ +-+.++-++|+ -|+|.|++..+.+..|+..+.. ++.+.+++..=.+.+.+..|
T Consensus 374 ~~l~e~~~~l~---Dal~~~~~~~~~~~vvpGGG~~e~~ls~~L~~~~~~~~~~~~~~~~~~~~aL~~ip~~L~~NaG 448 (517)
T cd03343 374 HVVDELERALE---DALRVVADALEDGKVVAGGGAVEIELAKRLREYARSVGGREQLAVEAFADALEEIPRTLAENAG 448 (517)
T ss_pred HHHHHHHHHHH---HHHHHHHHHHhCCCeeeCCCHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 46677776654 55566666666 7899999988888878754332 23445555544444444333
No 92
>PRK00808 hypothetical protein; Provisional
Probab=23.49 E-value=2.7e+02 Score=25.41 Aligned_cols=17 Identities=29% Similarity=0.786 Sum_probs=14.4
Q ss_pred CCHHHHHHHHHHHHHhc
Q 012071 415 LPESSVSILRAWLFEHF 431 (471)
Q Consensus 415 lpk~a~~iLr~Wl~eH~ 431 (471)
+..+....|..||.+|.
T Consensus 100 ~~~~l~~~L~~WL~~HI 116 (150)
T PRK00808 100 VADELHGMLSRWLFNHI 116 (150)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 56678889999999995
No 93
>PRK00118 putative DNA-binding protein; Validated
Probab=23.47 E-value=54 Score=29.11 Aligned_cols=46 Identities=13% Similarity=0.029 Sum_probs=37.0
Q ss_pred CCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhhh
Q 012071 414 GLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELWI 467 (471)
Q Consensus 414 glpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~K 467 (471)
.||+....++..++.+.. .-..+|+.+|+++.-|.+|... |+++++
T Consensus 17 ~L~ekqRevl~L~y~eg~--------S~~EIAe~lGIS~~TV~r~L~RArkkLr~ 63 (104)
T PRK00118 17 LLTEKQRNYMELYYLDDY--------SLGEIAEEFNVSRQAVYDNIKRTEKLLED 63 (104)
T ss_pred cCCHHHHHHHHHHHHcCC--------CHHHHHHHHCcCHHHHHHHHHHHHHHHHH
Confidence 478899999988887642 3456999999999999999988 776654
No 94
>PRK04053 rps13p 30S ribosomal protein S13P; Reviewed
Probab=23.09 E-value=86 Score=29.56 Aligned_cols=35 Identities=14% Similarity=0.104 Sum_probs=25.8
Q ss_pred HhhccccccCCCCCCCCHHHHHHHHHHHHHhcCCCCC
Q 012071 400 QQLGVMRHAWRPQRGLPESSVSILRAWLFEHFLHPYP 436 (471)
Q Consensus 400 q~~g~~~~~~r~rRglpk~a~~iLr~Wl~eH~~~PYP 436 (471)
.++|+-. ..+-.-|+++.+..|+.|+.+...+++|
T Consensus 43 ~~lgi~~--~~~~~~Lt~~qi~~l~~~i~~~~~~~iP 77 (149)
T PRK04053 43 RKLGLDP--NAKLGYLSDEEIEKIEEALEDPAEEGIP 77 (149)
T ss_pred HHcCcCC--CCccCcCCHHHHHHHHHHHHhhccccCc
Confidence 4455432 2333449999999999999988888888
No 95
>PHA03247 large tegument protein UL36; Provisional
Probab=22.05 E-value=2.5e+02 Score=37.59 Aligned_cols=52 Identities=25% Similarity=0.364 Sum_probs=43.4
Q ss_pred CccCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHhhhcccccCCc
Q 012071 285 SSELSHAERQELLNKKTKLLSMLEEVDRGYKQ-------YYHQMQIVASSFDMVAGHGA 336 (471)
Q Consensus 285 ~~~ls~~er~elq~kk~KLl~mLdEVdrRY~q-------Y~~qmq~v~ssF~~vag~g~ 336 (471)
.++||+..|..+..|+..+-.|+.+..+||.- .|+.||.|.-=.--.+||.+
T Consensus 975 ~~~Ls~e~r~rl~~r~~evEt~~~~aR~r~~~i~~~r~~~y~~L~~lLrPl~~FvGLRa 1033 (3151)
T PHA03247 975 TDELSPEARERLRARARAIEAMLEEARERAEAARAARERFFQKLQGVLRPLPDFGGLRA 1033 (3151)
T ss_pred hcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccc
Confidence 47889999999999999999999999999987 88888888555455567765
No 96
>PF09325 Vps5: Vps5 C terminal like; InterPro: IPR015404 Vps5 is a sorting nexin that functions in membrane trafficking. This is the C-terminal dimerisation domain [].
Probab=21.79 E-value=6.1e+02 Score=24.03 Aligned_cols=75 Identities=20% Similarity=0.275 Sum_probs=57.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHHhhhHHHHHHHHHHHHHhhhcC
Q 012071 296 LLNKKTKLLSMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRHFRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 296 lq~kk~KLl~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~srhfr~lrd~I~~qi~~~~~~~g 371 (471)
|+.+..+|...++.|-++-+.....+.....+|...+....- .-..=++..++..+..+++.+..+...-...++
T Consensus 36 le~~Lk~l~~~~~~l~~~~~~l~~~~~e~~~~~~~la~~E~~-~~l~~~l~~l~~~~~~~~~~~~~~a~~~~~~l~ 110 (236)
T PF09325_consen 36 LEEQLKKLYKSLERLVKRRQELASALAEFGSSFSQLAKSEEE-KSLSEALSQLAEAFEKISELLEEQANQEEETLG 110 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC-chhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence 566667778888888888888888888999999988776643 235667888888888888888887766555554
No 97
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=21.73 E-value=65 Score=27.91 Aligned_cols=47 Identities=28% Similarity=0.177 Sum_probs=36.5
Q ss_pred CCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhhhc
Q 012071 414 GLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELWIM 468 (471)
Q Consensus 414 glpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~Kp 468 (471)
.||.....++...+.+. + .-.++|+.+|+++..|.++... |+++++-
T Consensus 113 ~L~~~~r~il~l~~~~~----~----~~~eIA~~lgis~~tv~~~~~ra~~~Lr~~ 160 (161)
T TIGR02985 113 KLPEQCRKIFILSRFEG----K----SYKEIAEELGISVKTVEYHISKALKELRKE 160 (161)
T ss_pred HCCHHHHHHHHHHHHcC----C----CHHHHHHHHCCCHHHHHHHHHHHHHHHHhh
Confidence 58888888887655532 2 2356889999999999999998 8887764
No 98
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=21.62 E-value=64 Score=29.27 Aligned_cols=47 Identities=21% Similarity=0.180 Sum_probs=38.6
Q ss_pred CCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhhhc
Q 012071 414 GLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELWIM 468 (471)
Q Consensus 414 glpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~Kp 468 (471)
.||++...++...+++.+ .-.++|..+|++...|.+++.. |+++++-
T Consensus 129 ~L~~~~r~i~~l~~~~g~--------s~~eIA~~lgis~~tV~~~l~Rar~~Lr~~ 176 (179)
T PRK12514 129 ELEKDRAAAVRRAYLEGL--------SYKELAERHDVPLNTMRTWLRRSLLKLREC 176 (179)
T ss_pred hCCHHHHHHHHHHHHcCC--------CHHHHHHHHCCChHHHHHHHHHHHHHHHHH
Confidence 489999999988887552 2467899999999999999998 8887763
No 99
>COG0459 GroL Chaperonin GroEL (HSP60 family) [Posttranslational modification, protein turnover, chaperones]
Probab=21.16 E-value=3.5e+02 Score=30.29 Aligned_cols=68 Identities=18% Similarity=0.220 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHH--HH-------hhhHHHHHHHHHHHHHhhhcCc
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTI--SR-------HFRSLRDAISDQIQVTGRSLGE 372 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~--sr-------hfr~lrd~I~~qi~~~~~~~ge 372 (471)
..|||++||.+--..-+...+..=.-|+|.|++..+++.+|... +. -|+.+.+|++...+.+.+..|-
T Consensus 371 ~~ldE~er~i~DAL~~~~~ave~g~iV~GGGa~e~~~a~~L~~~~~~~~g~~e~~~i~~~a~Ale~ip~~La~NaG~ 447 (524)
T COG0459 371 VELDEKERRIEDALNVVRAAVEEGKIVPGGGAAEIEAALRLREYAMTVEGGDEQLGIEAFARALEAPPRQLAENAGL 447 (524)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhcCCeEeCCCHHHHHHHHHHHhhhccCCchHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 35677777776665555555544447899999999999888853 21 2458888999888888887664
No 100
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=21.04 E-value=2e+02 Score=26.98 Aligned_cols=41 Identities=15% Similarity=0.332 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccc
Q 012071 292 ERQELLNKKTKLLSMLEEVDRGYKQYYHQMQIVASSFDMVA 332 (471)
Q Consensus 292 er~elq~kk~KLl~mLdEVdrRY~qY~~qmq~v~ssF~~va 332 (471)
+++||+.+|+.|..=||-+.+.+.+-+.+..+.-.-|++..
T Consensus 75 Qk~eLE~~k~~L~qqv~~L~~e~s~~~~E~da~k~k~e~l~ 115 (135)
T KOG4196|consen 75 QKHELEKEKAELQQQVEKLKEENSRLRRELDAYKSKYEALQ 115 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78889999998888777766666666666655555555444
No 101
>KOG0930 consensus Guanine nucleotide exchange factor Cytohesin, contains PH and Sec7 domains [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.35 E-value=2.7e+02 Score=29.60 Aligned_cols=28 Identities=36% Similarity=0.571 Sum_probs=19.9
Q ss_pred CccCCHHHHHHHHHHHHHHHHHHHHHHH
Q 012071 285 SSELSHAERQELLNKKTKLLSMLEEVDR 312 (471)
Q Consensus 285 ~~~ls~~er~elq~kk~KLl~mLdEVdr 312 (471)
...||..||.||++-+.+=-.||||+++
T Consensus 8 p~~Ls~~E~~eL~~ir~rk~qL~deIq~ 35 (395)
T KOG0930|consen 8 PNDLSEEERMELENIRRRKQELLDEIQR 35 (395)
T ss_pred CCCCCHHHHHhHHHHHHHHHHHHHHHHH
Confidence 3578899999988766655666666653
No 102
>PRK09644 RNA polymerase sigma factor SigM; Provisional
Probab=20.21 E-value=71 Score=28.63 Aligned_cols=47 Identities=13% Similarity=-0.045 Sum_probs=38.7
Q ss_pred CCCCHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc-cchhhh
Q 012071 413 RGLPESSVSILRAWLFEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL-LLELWI 467 (471)
Q Consensus 413 Rglpk~a~~iLr~Wl~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN-RrRl~K 467 (471)
..||.....++.-++.++. .-.++|..+|++...|.+|..- |+++++
T Consensus 107 ~~L~~~~r~v~~l~~~~g~--------s~~eIA~~lgis~~tv~~~l~Rar~~Lr~ 154 (165)
T PRK09644 107 HTLPVIEAQAILLCDVHEL--------TYEEAASVLDLKLNTYKSHLFRGRKRLKA 154 (165)
T ss_pred HhCCHHHHHHHHhHHHhcC--------CHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 3589999999988877763 3468999999999999999988 877754
No 103
>cd03337 TCP1_gamma TCP-1 (CTT or eukaryotic type II) chaperonin family, gamma subunit. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings. In contrast to bacterial group I chaperonins (GroEL), each ring of the eukaryotic cytosolic chaperonin (CTT) consists of eight different, but homologous subunits. Their common function is to sequester nonnative proteins inside their central cavity and promote folding by using energy derived from ATP hydrolysis. The best studied in vivo substrates of CTT are actin and tubulin.
Probab=20.19 E-value=3.4e+02 Score=29.47 Aligned_cols=67 Identities=18% Similarity=0.281 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcccccCCchhhcHHHHHHHHHHh--------hhHHHHHHHHHHHHHhhhcC
Q 012071 305 SMLEEVDRGYKQYYHQMQIVASSFDMVAGHGAAKSYTVLALQTISRH--------FRSLRDAISDQIQVTGRSLG 371 (471)
Q Consensus 305 ~mLdEVdrRY~qY~~qmq~v~ssF~~vag~g~a~~yt~lal~~~srh--------fr~lrd~I~~qi~~~~~~~g 371 (471)
.+|+|++|..+--..=++.++..=..|+|.|+++.+.+.+++..+.. ++.+.+++..=.+.+.+..|
T Consensus 337 ~~l~e~er~l~DAl~v~~~~~~~~~~vpGGGa~E~~ls~~l~~~~~~~~~~~~~~~~~~a~al~~ip~~La~NaG 411 (480)
T cd03337 337 DVLNEVERNLQDAMAVARNIILNPKLVPGGGATEMAVSHALSEKAKSIEGVEQWPYKAVASALEVIPRTLAQNCG 411 (480)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCEEeCCCHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 46777777766555555555444447899999888888777643322 23445555444444444333
No 104
>PRK13188 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed
Probab=20.12 E-value=60 Score=35.78 Aligned_cols=97 Identities=18% Similarity=0.259 Sum_probs=63.9
Q ss_pred HHHHHHHhhhcCccccCCCCCC--CCCccccchhhhHHHHHHHhhcccc--------c--cCCCCCCCCHHHHHHHHHHH
Q 012071 360 SDQIQVTGRSLGEQETSSNGQA--SIPRLRFVDHQSRQQRALQQLGVMR--------H--AWRPQRGLPESSVSILRAWL 427 (471)
Q Consensus 360 ~~qi~~~~~~~ge~~~~~~~~~--~~~rl~~~d~~l~q~ra~q~~g~~~--------~--~~r~rRglpk~a~~iLr~Wl 427 (471)
.+.|+.+.+.+|....+..+.+ .-.-|||.|.+.| ||.|.-+|-+. | +.|+...|.-+-++.|.+|+
T Consensus 224 ~~~~~~~~~~~~~~~~~~~~~~~ln~~~LR~~dE~vR-HKiLD~iGDl~L~G~~~~g~~~a~k~gH~ln~~l~~~l~~~~ 302 (464)
T PRK13188 224 QEELDKLAKKFGKDHISVKENGILNNRPLRFPNEPAR-HKLLDVIGDLALIGKPIKGRIIAARPGHAINVEFAKKLKKYI 302 (464)
T ss_pred hhhhhhhhhhhcccccccCCCeEeCCCCCcCCCcchh-hHHHHHHhhHHhcCCCceEEEEEECCchHHHHHHHHHHHHHH
Confidence 3466667777776433221111 1235899999988 88876665331 2 33555559999999999999
Q ss_pred HHhcCCCCCCHHHHHHHHHHhCCCchhhcccccc
Q 012071 428 FEHFLHPYPNDSEKIMLAKQTGLSKNQVRKIEIL 461 (471)
Q Consensus 428 ~eH~~~PYPs~~eK~~LA~~TGLs~sQVsNWFiN 461 (471)
.+|..+++|...+...-. ++...|..+...
T Consensus 303 ~~~~~~~~~~~~~~~~~~----m~~~~I~~lLPH 332 (464)
T PRK13188 303 KRNKIAQAPVYDPNKEPI----LDINRIMKILPH 332 (464)
T ss_pred HHhhhccCCCcCCCCCCc----cCHHHHHHhCCC
Confidence 999999999765544432 566666666554
Done!