Query 011008
Match_columns 496
No_of_seqs 204 out of 1116
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 07:03:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011008.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011008hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2522 Filamentous baseplate 100.0 1E-102 3E-107 786.6 30.8 447 1-496 109-557 (560)
2 PF01253 SUI1: Translation ini 99.9 1.7E-22 3.6E-27 167.4 8.4 83 402-485 1-83 (83)
3 TIGR01159 DRP1 density-regulat 99.8 5.1E-20 1.1E-24 170.9 9.5 90 399-489 82-172 (173)
4 COG0023 SUI1 Translation initi 99.8 1.8E-19 3.9E-24 152.8 8.4 82 401-489 22-103 (104)
5 cd00474 SUI1_eIF1 The SUI1/eIF 99.8 1.1E-18 2.3E-23 142.0 8.3 75 408-489 2-76 (77)
6 PRK00939 translation initiatio 99.8 1.7E-18 3.6E-23 147.2 7.9 76 406-488 24-99 (99)
7 TIGR01158 SUI1_rel translation 99.7 6.1E-17 1.3E-21 138.5 8.6 78 404-488 22-100 (101)
8 TIGR01160 SUI1_MOF2 translatio 99.7 8.6E-17 1.9E-21 138.6 8.6 84 405-490 25-108 (110)
9 KOG3239 Density-regulated prot 99.6 1.4E-15 3E-20 138.1 8.0 95 400-495 95-192 (193)
10 KOG1770 Translation initiation 99.6 1.3E-14 2.8E-19 121.3 8.3 87 402-490 24-110 (112)
11 COG2016 Predicted RNA-binding 99.5 1.3E-14 2.8E-19 132.3 6.1 64 1-68 96-159 (161)
12 PRK07451 translation initiatio 99.5 5.8E-14 1.3E-18 121.8 7.3 74 405-485 37-111 (115)
13 PRK06824 translation initiatio 99.5 9.7E-14 2.1E-18 121.1 7.2 73 406-485 41-114 (118)
14 PRK09019 translation initiatio 99.4 2.2E-13 4.8E-18 116.9 6.6 74 405-485 30-104 (108)
15 PRK14560 putative RNA-binding 99.4 4E-13 8.6E-18 124.8 7.4 63 1-67 96-158 (160)
16 KOG2523 Predicted RNA-binding 99.4 1.4E-13 3E-18 124.4 3.6 67 1-68 112-179 (181)
17 TIGR03684 arCOG00985 arCOG0415 99.4 6.8E-13 1.5E-17 121.9 7.8 62 1-66 89-150 (150)
18 TIGR00451 unchar_dom_2 unchara 99.0 5.2E-10 1.1E-14 97.0 7.4 58 1-62 50-107 (107)
19 smart00151 SWIB SWI complex, B 98.5 1.7E-07 3.7E-12 76.5 5.2 74 297-386 2-75 (77)
20 PF01472 PUA: PUA domain; Int 98.3 1.2E-06 2.6E-11 70.9 4.7 55 1-60 20-74 (74)
21 PF02201 SWIB: SWIB/MDM2 domai 97.7 2.1E-05 4.6E-10 64.0 2.4 57 298-360 3-59 (76)
22 PF05046 Img2: Mitochondrial l 97.0 0.0041 8.9E-08 52.0 8.3 65 410-482 16-87 (87)
23 smart00359 PUA Putative RNA-bi 96.9 0.003 6.5E-08 50.6 6.6 57 1-61 20-77 (77)
24 PRK13795 hypothetical protein; 96.8 0.002 4.4E-08 72.4 6.4 55 1-60 146-200 (636)
25 PRK13794 hypothetical protein; 96.5 0.0047 1E-07 67.2 6.6 53 1-58 145-197 (479)
26 TIGR00425 CBF5 rRNA pseudourid 96.1 0.014 3E-07 60.3 7.2 47 15-63 268-314 (322)
27 COG5531 SWIB-domain-containing 95.9 0.007 1.5E-07 59.3 3.5 57 297-359 122-178 (237)
28 KOG1946 RNA polymerase I trans 95.5 0.016 3.5E-07 57.2 4.4 43 318-360 116-158 (240)
29 PRK13534 7-cyano-7-deazaguanin 94.4 0.074 1.6E-06 59.9 6.5 48 12-61 591-638 (639)
30 PF10357 Kin17_mid: Domain of 93.2 0.28 6E-06 43.9 6.6 85 171-263 14-98 (127)
31 PRK14724 DNA topoisomerase III 92.8 0.17 3.8E-06 59.7 6.1 54 299-358 915-968 (987)
32 TIGR00311 aIF-2beta translatio 91.0 0.9 1.9E-05 41.1 7.3 81 376-474 3-87 (133)
33 PRK03988 translation initiatio 91.0 0.86 1.9E-05 41.4 7.2 83 374-474 6-92 (138)
34 KOG4034 Uncharacterized conser 90.1 0.34 7.3E-06 44.5 3.7 67 407-482 97-169 (169)
35 PRK05429 gamma-glutamyl kinase 89.9 0.49 1.1E-05 50.0 5.3 41 1-45 301-341 (372)
36 smart00653 eIF2B_5 domain pres 83.9 2.7 5.7E-05 36.8 5.6 61 405-474 6-70 (110)
37 PRK12336 translation initiatio 83.8 5 0.00011 38.8 8.1 82 375-474 3-88 (201)
38 TIGR01027 proB glutamate 5-kin 83.0 1.5 3.2E-05 46.2 4.5 41 1-45 293-333 (363)
39 PRK04270 H/ACA RNA-protein com 81.6 2.7 5.9E-05 43.1 5.7 32 28-60 268-299 (300)
40 KOG2570 SWI/SNF transcription 80.9 1.4 3.1E-05 46.5 3.3 37 322-358 225-261 (420)
41 COG1370 Prefoldin, molecular c 74.0 7.5 0.00016 35.7 5.5 43 12-56 108-150 (155)
42 PF12872 OST-HTH: OST-HTH/LOTU 72.7 6 0.00013 31.1 4.2 71 175-252 3-73 (74)
43 PF01873 eIF-5_eIF-2B: Domain 67.7 4.9 0.00011 35.9 2.9 60 404-472 18-81 (125)
44 PRK06319 DNA topoisomerase I/S 59.4 8.8 0.00019 45.1 3.7 59 294-358 782-840 (860)
45 COG1549 Queuine tRNA-ribosyltr 58.0 13 0.00028 40.5 4.4 32 28-60 487-518 (519)
46 cd08768 Cdc6_C Winged-helix do 54.1 28 0.00061 28.1 5.0 60 195-259 21-83 (87)
47 COG3432 Predicted transcriptio 51.4 15 0.00032 31.3 2.9 34 222-255 43-76 (95)
48 PRK00411 cdc6 cell division co 34.5 62 0.0014 33.8 5.1 74 181-258 300-375 (394)
49 PF13545 HTH_Crp_2: Crp-like h 32.6 42 0.00091 26.2 2.7 30 222-255 40-69 (76)
50 PRK13402 gamma-glutamyl kinase 29.8 63 0.0014 34.2 4.1 32 13-45 306-337 (368)
51 KOG0632 Phytochelatin synthase 29.1 35 0.00077 34.8 2.0 26 209-234 218-244 (388)
52 PF14947 HTH_45: Winged helix- 27.5 74 0.0016 25.5 3.3 30 222-255 31-60 (77)
53 TIGR02928 orc1/cdc6 family rep 25.2 96 0.0021 31.9 4.6 70 181-254 292-363 (365)
54 PF09808 SNAPc_SNAP43: Small n 23.3 98 0.0021 29.4 3.9 88 170-258 42-137 (194)
55 PRK05412 putative nucleotide-b 21.3 1.1E+02 0.0025 28.5 3.6 64 419-490 92-160 (161)
56 PRK14451 acylphosphatase; Prov 20.9 3.6E+02 0.0078 22.4 6.3 61 424-488 9-71 (89)
57 PF13412 HTH_24: Winged helix- 20.0 77 0.0017 22.6 1.9 19 223-241 30-48 (48)
No 1
>KOG2522 consensus Filamentous baseplate protein Ligatin, contains PUA domain [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.5e-102 Score=786.64 Aligned_cols=447 Identities=37% Similarity=0.531 Sum_probs=371.6
Q ss_pred CCCccccCCCCCCCCCCCCeEEEEeCCCCCeEEEEEeecChHHHHhcCCcccEEEEEEeecccccccCCCCCCCCCCCcc
Q 011008 1 MFPGISIPADGLPSFLSGEPWAVKVPGNPAPIAVGSTTMSSTEALKAGLRGKALRITHYYRDLLWGSVEGHSVPNAGFLE 80 (496)
Q Consensus 1 M~PGv~~~~~~~~~~~~g~~vaV~~~~~~~p~AVG~~~~~~~~~~~~~~kGkav~ilH~~gD~LW~~g~~~~~P~~~~~~ 80 (496)
|+||.+.+..++|+|+.|++|||+..||.+|+|||++.||+++|.++|.|||||+|+|||.|+||..|+..-.|+ |..
T Consensus 109 ~l~~~~m~ppg~p~~~~G~lcai~lpgn~ap~AiGc~~Msseem~v~GlkGkav~ilH~frD~Lw~sgp~~laPs--~~~ 186 (560)
T KOG2522|consen 109 NLMISGMIPPGDPRCKIGTLCAIALPGNEAPLAIGCVEMSSEEMKVIGLKGKAVKILHHFRDGLWKSGPMKLAPS--FVL 186 (560)
T ss_pred cccccccCCCCCcccccCceeeEecCCCcCceeeeeeecchHHHHHhccccceEEEEeehhhhhhhcCCCCCCCc--ccc
Confidence 667776666667999999999999999999999999999999999999999999999999999999997544442 211
Q ss_pred cccccCccccccccccCccccccCCCCcccCCCcccccccCCCCCCCCCCCCCCCCCCcchhhhcccccccccccccC-C
Q 011008 81 DVVVEDPAFLSTSQVSDSCEGAADSSNDQKNGEEGIIDADNANSEPNSTSATQDDFDGNIVEQVAADVGDLKLTENVD-A 159 (496)
Q Consensus 81 ~~~~~~p~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~ 159 (496)
...-.+..++ ..+.+.+++ ++++. . ...++.++.. .
T Consensus 187 gs~eddn~i~-------------~~s~e~see-d~evh------------------------~-----~~~el~ed~st~ 223 (560)
T KOG2522|consen 187 GSQEDDNNIS-------------SKSIESSEE-DKEVH------------------------K-----EQEELKEDSSTV 223 (560)
T ss_pred cchhcccccc-------------hhhhccchh-hhhHH------------------------H-----Hhhhccchhccc
Confidence 1100000000 000000000 00000 0 0001111111 1
Q ss_pred CCCcccccCCChhhHHHHHHHHHHHHhhhcCCCCCCCCChhhhhhhcccCCCCCCCceeeeccccccHHHHHHHHhhCCc
Q 011008 160 GETNEEHHVLTTEDVDAYLDKCLLQALHTTVKDKDLPMPGSTLWSNHILPCRPSGITLDIKKSSHKKLTKWLQAKSSAGL 239 (496)
Q Consensus 160 ~~~~~~~~~~~~e~mD~ll~~all~al~~~~~~~~LPi~~S~F~s~~ilp~~P~~~~ldiKKSS~KK~skFLk~m~K~gl 239 (496)
+..++.++.+++|+||.||.+||||||+++++..+|||++|+||++|||.|+|+|.++|||||||||++||||+|+++|+
T Consensus 224 e~n~ekqd~~t~e~vD~lLtrcll~aLk~r~k~~dLPi~~stf~~~hi~sc~P~gr~ldiKKts~KKlakfLQ~~~~egi 303 (560)
T KOG2522|consen 224 EENAEKQDHFTVEDVDYLLTRCLLYALKQRDKGLDLPISASTFISNHIMSCLPPGRHLDIKKTSWKKLAKFLQHFEKEGI 303 (560)
T ss_pred ccchhhhcccCHhhHHHHHHHHHHHHhhhhcccccCCccHHHHHHhhhhccCCCcceeccchhhHHHHHHHHHHHhhccc
Confidence 22233556789999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEeeccCCCeeEEEEeeCCCCcccccCcccCccchhhhhhcccccCCCCCCcccEEEEEeccCCCchhhhhccCCCCCC
Q 011008 240 ISVKEDKYKKESMLFSVNRGHPDYLSFKPEKRPAEKASQAVDHAASDNIQPAKILEVTEVYKPSVHVNPIFASVGADTGR 319 (496)
Q Consensus 240 l~~Ke~~~~g~~~I~~vn~~h~~~~~f~p~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~lY~p~~~~~~~f~~~~~~~~~ 319 (496)
|++| +++.+++|+++||+||++++|+|++......... ...+.+.......+.|.+||+|+.....+|.++|.++++
T Consensus 304 i~vK--~kg~e~~iv~vn~~hpe~ksFvppk~~~~~s~~i-~E~st~q~~~p~~~~i~~lYk~~~~~~~Lf~evg~~kg~ 380 (560)
T KOG2522|consen 304 IKVK--GKGDELTIVGVNTDHPELKSFVPPKLGCKSSTEI-RESSTSQEKTPGMMYILTLYKPFNLAKDLFKEVGLAKGT 380 (560)
T ss_pred eeec--ccCceeEEEEccCCCchhhccCCCcCCCcccccc-cccccccccCCCcceeeeeeccchHHHHHHHhcCccccc
Confidence 9999 7888899999999999999999998744221111 111111123456689999999999999999999999999
Q ss_pred CcCHHHHHHHHHHHHHhCCCCCCCCCCceecCHHHHHHHhccccccCCCCCcccchhhHHHHHHHcccccEEEecCCcc-
Q 011008 320 LYTFSEACDVVFNYIEKENLVKPTAKSIVVLDPTLSDALFKGAIKKGTTYPTEIHKKDLGSTFVNRMQAHHVVSRGSQS- 398 (496)
Q Consensus 320 ~yt~~eiR~~l~~YI~~~~L~~~~~k~~V~LD~~L~~~l~kk~~~~g~~~~~~i~r~~l~~~~l~~~~~~~~i~~~~~~- 398 (496)
|||.+|||+++.+||+.|||++++||++|+|||+|||+++++ .+.+..++..++|+.|..+|+++|+++|+|.++|..
T Consensus 381 lyt~seir~~V~kYi~knnLad~~nKg~VrLDpILfd~~~k~-~K~~~a~~~~~pw~~l~~~~~~rmtp~yqi~~pdgep 459 (560)
T KOG2522|consen 381 LYTSSEIRSAVSKYISKNNLADTKNKGKVRLDPILFDMVNKK-KKVLNASRIIAPWEILHPLLTNRMTPFYQIFKPDGEP 459 (560)
T ss_pred eeeHHHHHHHHHHHhhhhhccccccCCcEEeccHHHHHHHhh-hhccccccccccHHHHHHHHHhcCCcceEEEcCCCce
Confidence 999999999999999999999999999999999999999975 344456778899999999999999999999988755
Q ss_pred ccccCCcceEEEEEEEecCCCcceEEeCcCCCCCCHHHHHHHHhhhcccceEEecCCCCCCcEEEEcCCcHHHHHHHHHH
Q 011008 399 VVRKGALKTIQIVTERRQGNKKMTKLSGLETFLMDPEALASELQKKFACSTTVAELPGKKGQEVLIQGGVIADVAKHLVE 478 (496)
Q Consensus 399 ~~~kG~~~~I~I~~e~R~g~K~VT~V~gle~f~id~~~lak~l~k~~a~s~sv~~~~~~k~~eV~vQG~~~~~v~~~L~~ 478 (496)
++|||.+|+|.|.+++|.|||+||+|+|||.|||||+.||.+||++|+||+||.+.||.||.||+|||+|++.|.++|.+
T Consensus 460 ivkKgs~ppi~i~te~RagnKkVT~V~nle~fgiDp~S~aa~Lqk~c~aSTtv~e~pg~kg~eVqvQGnqih~iadlL~k 539 (560)
T KOG2522|consen 460 IVKKGSLPPIKIITEMRAGNKKVTRVSNLEVFGIDPESLAADLQKICSASTTVSESPGFKGAEVQVQGNQIHSIADLLNK 539 (560)
T ss_pred eeecCCCCceEEeehhhccCceEEEEccceeeccCHHHHHHHHHHHeeeeeecccCCCCCCceEEEecchhhHHHHHHHH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCCCccEEEcccccCC
Q 011008 479 QFGIPKRYIEVLDKTARK 496 (496)
Q Consensus 479 ~~gip~~~I~~~~k~kkk 496 (496)
.||||++||++++|++||
T Consensus 540 ~ygipkK~I~gleka~Kk 557 (560)
T KOG2522|consen 540 SYGIPKKWIDGLEKAKKK 557 (560)
T ss_pred hhCCCHHHHhHHHHhhcc
Confidence 999999999999998775
No 2
>PF01253 SUI1: Translation initiation factor SUI1; InterPro: IPR001950 In Saccharomyces cerevisiae (Baker's yeast), SUI1 is a translation initiation factor that functions in concert with eIF-2 and the initiator tRNA-Met in directing the ribosome to the proper start site of translation []. SUI1 is a protein of 108 residues. Close homologs of SUI1 have been found [] in mammals, insects and plants. SUI1 is also evolutionary related to hypothetical proteins from Escherichia coli (yciH), Haemophilus influenzae (HI1225) and Methanococcus vannielii.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2OGH_A 1D1R_A 2IF1_A 2XZN_F 2XZM_F.
Probab=99.87 E-value=1.7e-22 Score=167.37 Aligned_cols=83 Identities=47% Similarity=0.696 Sum_probs=71.4
Q ss_pred cCCcceEEEEEEEecCCCcceEEeCcCCCCCCHHHHHHHHhhhcccceEEecCCCCCCcEEEEcCCcHHHHHHHHHHhcC
Q 011008 402 KGALKTIQIVTERRQGNKKMTKLSGLETFLMDPEALASELQKKFACSTTVAELPGKKGQEVLIQGGVIADVAKHLVEQFG 481 (496)
Q Consensus 402 kG~~~~I~I~~e~R~g~K~VT~V~gle~f~id~~~lak~l~k~~a~s~sv~~~~~~k~~eV~vQG~~~~~v~~~L~~~~g 481 (496)
||+.++|+|++++|+|||.||+|.||+.|++|+++||++|+++||||+||.+.+++ +.+|+|||||++.|.++|.++|+
T Consensus 1 k~~~~~I~I~~e~r~~~K~vT~V~gl~~~~~d~~~lak~lkk~~ac~~sv~~~~~k-~~~I~iQGd~~~~i~~~L~~~~~ 79 (83)
T PF01253_consen 1 KKEPPKIHIRVEKRRGRKFVTIVSGLELFGIDLKELAKELKKKFACGGSVTKDPGK-GEEIQIQGDHRDEIKDLLVEKGG 79 (83)
T ss_dssp -S-TTCEEEEEEESSSSEEEEEEES--STTSHHHHHHHHHHHHHTS-EEEEE-TTT-SSEEEEESS-HHHHHHHHHHHCS
T ss_pred CCCCCEEEEEEEeCcCCeEEEEEECCcccccCHHHHHHHHHHhccCceEEeecCCC-CCEEEECCcHHHHHHHHHHHhCC
Confidence 57889999999999999999999999999999999999999999999999998854 78999999999999999999998
Q ss_pred CCCc
Q 011008 482 IPKR 485 (496)
Q Consensus 482 ip~~ 485 (496)
+|++
T Consensus 80 ~~k~ 83 (83)
T PF01253_consen 80 IPKK 83 (83)
T ss_dssp SE-S
T ss_pred CCCC
Confidence 8864
No 3
>TIGR01159 DRP1 density-regulated protein DRP1. This protein family shows weak but suggestive similarity to translation initiation factor SUI1 and its prokaryotic homologs.
Probab=99.81 E-value=5.1e-20 Score=170.89 Aligned_cols=90 Identities=27% Similarity=0.391 Sum_probs=84.5
Q ss_pred ccccCCcceEEEEEEEecCCCcceEEeCcCCCCCCHHHHHHHHhhhcccceEEecCCCCCCcEEEEcCCcHHHHHHHHHH
Q 011008 399 VVRKGALKTIQIVTERRQGNKKMTKLSGLETFLMDPEALASELQKKFACSTTVAELPGKKGQEVLIQGGVIADVAKHLVE 478 (496)
Q Consensus 399 ~~~kG~~~~I~I~~e~R~g~K~VT~V~gle~f~id~~~lak~l~k~~a~s~sv~~~~~~k~~eV~vQG~~~~~v~~~L~~ 478 (496)
..+||.+++|+|++++|+|||.||+|+||+.|+||++++|+.|+++||||+||++.+++ +.+|+|||||++.|.++|.+
T Consensus 82 ~~kK~~~~~V~I~~~~R~krK~VT~V~GLe~f~idlk~laK~lkkkfacG~SV~k~~~~-~~eI~IQGD~~~~v~e~L~~ 160 (173)
T TIGR01159 82 KKKKKLPQKVTIKREPRTKRKFVTVIKGLETFDIDLKKASKTFAQKFATGCSVSKSVTG-KEEIVIQGDVMDDIEDYIHE 160 (173)
T ss_pred hhccCCCCeEEEEEEecCCCceEEEEeCCcCCCcCHHHHHHHHHHHhCCCCccccCCCC-CCEEEecCCHHHHHHHHHHH
Confidence 46789999999999999999999999999999999999999999999999999987764 58999999999999999999
Q ss_pred hc-CCCCccEEE
Q 011008 479 QF-GIPKRYIEV 489 (496)
Q Consensus 479 ~~-gip~~~I~~ 489 (496)
+| +||...|++
T Consensus 161 ~~~~v~e~~I~~ 172 (173)
T TIGR01159 161 KWPEVGDKDIKD 172 (173)
T ss_pred HcCCCCHHHeee
Confidence 99 999988875
No 4
>COG0023 SUI1 Translation initiation factor 1 (eIF-1/SUI1) and related proteins [Translation, ribosomal structure and biogenesis]
Probab=99.79 E-value=1.8e-19 Score=152.84 Aligned_cols=82 Identities=34% Similarity=0.445 Sum_probs=75.6
Q ss_pred ccCCcceEEEEEEEecCCCcceEEeCcCCCCCCHHHHHHHHhhhcccceEEecCCCCCCcEEEEcCCcHHHHHHHHHHhc
Q 011008 401 RKGALKTIQIVTERRQGNKKMTKLSGLETFLMDPEALASELQKKFACSTTVAELPGKKGQEVLIQGGVIADVAKHLVEQF 480 (496)
Q Consensus 401 ~kG~~~~I~I~~e~R~g~K~VT~V~gle~f~id~~~lak~l~k~~a~s~sv~~~~~~k~~eV~vQG~~~~~v~~~L~~~~ 480 (496)
.+...+.|+|++++|+++|.||+|+||+.|.+|+++||++|+++||||+|| +..+|+|||||++.|.+||.+ .
T Consensus 22 ~k~~~~~V~I~~e~rr~gK~VTiI~Gld~~~~dlk~Lak~LKk~cacGGtv------k~~~IeiQGdhr~~v~~~L~~-~ 94 (104)
T COG0023 22 AKEGDQIVRIRRETRRKGKTVTIIEGLDLKDIDLKKLAKELKKKCACGGTV------KDGEIEIQGDHRDKVKELLIK-K 94 (104)
T ss_pred ccccCCeEEEEEEeecCCcEEEEEeCcccchhhHHHHHHHHHHHcCCCcee------cCCEEEEeChHHHHHHHHHHH-c
Confidence 344467999999999999999999999999999999999999999999999 456999999999999999977 7
Q ss_pred CCCCccEEE
Q 011008 481 GIPKRYIEV 489 (496)
Q Consensus 481 gip~~~I~~ 489 (496)
|++.++|.+
T Consensus 95 G~k~k~i~~ 103 (104)
T COG0023 95 GFKVKNIGI 103 (104)
T ss_pred CCchhhccc
Confidence 999999975
No 5
>cd00474 SUI1_eIF1 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two antiparallel alpha helices packed against the same side of a five-strand beta sheet, is structurally similar to other RNA-binding domains suggesting that SUI1/eIF1 may bind RNA. Point mutations in the yeast eIF1 implicate the protein in maintaining accurate start-site selection but its mechanism of action is unknown.
Probab=99.77 E-value=1.1e-18 Score=142.04 Aligned_cols=75 Identities=32% Similarity=0.541 Sum_probs=70.1
Q ss_pred EEEEEEEecCCCcceEEeCcCCCCCCHHHHHHHHhhhcccceEEecCCCCCCcEEEEcCCcHHHHHHHHHHhcCCCCccE
Q 011008 408 IQIVTERRQGNKKMTKLSGLETFLMDPEALASELQKKFACSTTVAELPGKKGQEVLIQGGVIADVAKHLVEQFGIPKRYI 487 (496)
Q Consensus 408 I~I~~e~R~g~K~VT~V~gle~f~id~~~lak~l~k~~a~s~sv~~~~~~k~~eV~vQG~~~~~v~~~L~~~~gip~~~I 487 (496)
|+|++++|+|||.||+|+||+.|.+|+++||+.|+++||||+||. ..+|+|||||++.|.++|.+ .|++...|
T Consensus 2 V~I~~e~R~~~K~VT~I~Gl~~~~~dlk~l~k~lKk~~~cggtv~------~~~I~lQGD~r~~v~~~L~~-~g~~~~~i 74 (77)
T cd00474 2 VRIRIQQRNGGKTVTTVQGLDLEYADLKKLAKELKKKCACGGTVK------DEVIELQGDQRKKIKEFLIK-MGFAKDNI 74 (77)
T ss_pred EEEEEEECCCCccEEEEECCCCchHhHHHHHHHHHHHcCCCcEEe------cCEEEEeCcHHHHHHHHHHH-cCCCHHHe
Confidence 799999999999999999999999999999999999999999995 36999999999999999976 69999877
Q ss_pred EE
Q 011008 488 EV 489 (496)
Q Consensus 488 ~~ 489 (496)
.+
T Consensus 75 ~i 76 (77)
T cd00474 75 KI 76 (77)
T ss_pred Ee
Confidence 65
No 6
>PRK00939 translation initiation factor Sui1; Reviewed
Probab=99.76 E-value=1.7e-18 Score=147.24 Aligned_cols=76 Identities=30% Similarity=0.499 Sum_probs=71.7
Q ss_pred ceEEEEEEEecCCCcceEEeCcCCCCCCHHHHHHHHhhhcccceEEecCCCCCCcEEEEcCCcHHHHHHHHHHhcCCCCc
Q 011008 406 KTIQIVTERRQGNKKMTKLSGLETFLMDPEALASELQKKFACSTTVAELPGKKGQEVLIQGGVIADVAKHLVEQFGIPKR 485 (496)
Q Consensus 406 ~~I~I~~e~R~g~K~VT~V~gle~f~id~~~lak~l~k~~a~s~sv~~~~~~k~~eV~vQG~~~~~v~~~L~~~~gip~~ 485 (496)
.+|+|++++|+|||.||+|.||+.|++|+++||+.|+++|+||+|| ++.+|+|||||++.|.++|.+ +|||.+
T Consensus 24 ~~i~I~~ekr~~gK~VTiI~Gl~~~~~~lk~l~k~lKk~~gcGgsv------k~~~I~iQGD~r~~v~~~L~~-~G~~~~ 96 (99)
T PRK00939 24 QRIKIKVDKRRYGKEVTIIEGIDPKDIDLKELAKKLKSKLACGGTV------KDGRIELQGDHRERVKELLIK-MGFSEE 96 (99)
T ss_pred ceEEEEEEecCCCceEEEEeCCCCcchhHHHHHHHHHHHhCCCceE------ECCEEEEeCcHHHHHHHHHHH-cCCChh
Confidence 7999999999999999999999999999999999999999999999 346899999999999999976 899999
Q ss_pred cEE
Q 011008 486 YIE 488 (496)
Q Consensus 486 ~I~ 488 (496)
+|+
T Consensus 97 ~i~ 99 (99)
T PRK00939 97 NIE 99 (99)
T ss_pred hcC
Confidence 984
No 7
>TIGR01158 SUI1_rel translation initation factor SUI1, putative, prokaryotic. This family of archaeal and bacterial proteins is homologous to the eukaryotic translation intiation factor SUI1 involved in directing the ribosome to the proper start site of translation by functioning in concert with eIF-2 and the initiator tRNA-Met.
Probab=99.69 E-value=6.1e-17 Score=138.47 Aligned_cols=78 Identities=31% Similarity=0.381 Sum_probs=72.3
Q ss_pred CcceEEEEEEEe-cCCCcceEEeCcCCCCCCHHHHHHHHhhhcccceEEecCCCCCCcEEEEcCCcHHHHHHHHHHhcCC
Q 011008 404 ALKTIQIVTERR-QGNKKMTKLSGLETFLMDPEALASELQKKFACSTTVAELPGKKGQEVLIQGGVIADVAKHLVEQFGI 482 (496)
Q Consensus 404 ~~~~I~I~~e~R-~g~K~VT~V~gle~f~id~~~lak~l~k~~a~s~sv~~~~~~k~~eV~vQG~~~~~v~~~L~~~~gi 482 (496)
....|+|++++| +|+|.||+|.||+.|.+++++||+.|+++||||+|| ++.+|+|||||++.|.++|.+ +|+
T Consensus 22 ~~~~i~i~~e~rgr~gK~VTvV~Gl~~~~~~l~~l~k~LKk~~gcGgtv------k~~~IeiQGD~~~~v~~~L~~-~G~ 94 (101)
T TIGR01158 22 EDQVVRIQRETRGRKGKGVTIIEGLDLSDIDLKELAKELKSKCGCGGTV------KDGVIEIQGDHRDRVKDLLEK-KGF 94 (101)
T ss_pred CCceEEEEEEEecCCCCEEEEEeCCcCchhhHHHHHHHHHHHhcCCeeE------eCCEEEEeCcHHHHHHHHHHH-cCC
Confidence 357899999999 899999999999999999999999999999999999 457999999999999999976 799
Q ss_pred CCccEE
Q 011008 483 PKRYIE 488 (496)
Q Consensus 483 p~~~I~ 488 (496)
|.++|.
T Consensus 95 ~~k~~~ 100 (101)
T TIGR01158 95 KVKLIG 100 (101)
T ss_pred CeeecC
Confidence 999874
No 8
>TIGR01160 SUI1_MOF2 translation initiation factor SUI1, eukaryotic. Alternate name: MOF2. A similar protein family (see TIGRFAMs model TIGR01158) is found in prokaryotes. The human proteins complements a yeast SUI1 mutatation.
Probab=99.68 E-value=8.6e-17 Score=138.63 Aligned_cols=84 Identities=31% Similarity=0.451 Sum_probs=73.8
Q ss_pred cceEEEEEEEecCCCcceEEeCcCCCCCCHHHHHHHHhhhcccceEEecCCCCCCcEEEEcCCcHHHHHHHHHHhcCCCC
Q 011008 405 LKTIQIVTERRQGNKKMTKLSGLETFLMDPEALASELQKKFACSTTVAELPGKKGQEVLIQGGVIADVAKHLVEQFGIPK 484 (496)
Q Consensus 405 ~~~I~I~~e~R~g~K~VT~V~gle~f~id~~~lak~l~k~~a~s~sv~~~~~~k~~eV~vQG~~~~~v~~~L~~~~gip~ 484 (496)
-..|+|++++|+|||.||+|.||+ ..+|+++||+.|+++|||++||.+.++. +.+|+|||||++.|.++|.++.-+++
T Consensus 25 ~~~I~Iri~qR~grK~VTiI~Gl~-~~~dlk~l~K~lKkk~~cGGsVk~~~~~-~~~IelQGD~re~v~~~L~~~g~~~~ 102 (110)
T TIGR01160 25 SNYIHIRIQQRNGRKTLTTVQGLP-KEYDLKKIVKALKKEFACNGTVIEDPEM-GEVIQLQGDQRKNVCEFLISQGLLKK 102 (110)
T ss_pred cceEEEEEEEccCCccEEEEeccC-ChHHHHHHHHHHHHHhCCCceEEeCCCC-CCEEEEeCcHHHHHHHHHHHcCCCCH
Confidence 457999999999999999999999 5899999999999999999999877654 57999999999999999977533577
Q ss_pred ccEEEc
Q 011008 485 RYIEVL 490 (496)
Q Consensus 485 ~~I~~~ 490 (496)
..|.+.
T Consensus 103 ~~i~vh 108 (110)
T TIGR01160 103 DQIKIH 108 (110)
T ss_pred HHeeec
Confidence 778653
No 9
>KOG3239 consensus Density-regulated protein related to translation initiation factor 1 (eIF-1/SUI1) [General function prediction only]
Probab=99.61 E-value=1.4e-15 Score=138.12 Aligned_cols=95 Identities=31% Similarity=0.434 Sum_probs=84.0
Q ss_pred cccCCcceEEEEEEEecCCCcceEEeCcCCCCCCHHHHHHHHhhhcccceEEecCCCCCCcEEEEcCCcHHHHHHHHHHh
Q 011008 400 VRKGALKTIQIVTERRQGNKKMTKLSGLETFLMDPEALASELQKKFACSTTVAELPGKKGQEVLIQGGVIADVAKHLVEQ 479 (496)
Q Consensus 400 ~~kG~~~~I~I~~e~R~g~K~VT~V~gle~f~id~~~lak~l~k~~a~s~sv~~~~~~k~~eV~vQG~~~~~v~~~L~~~ 479 (496)
.+|+-+++|.|..+-|..||.||+|+||+.|+||++.+|+.|.++|||++||+.++.+ ..||.||||..+.|.+|+.++
T Consensus 95 ~~k~~pqkV~I~r~~R~KrK~VT~V~GL~~FdIdlk~aaK~fa~KFAtGaSVtk~a~k-kdEIvIQGDv~dDi~d~I~ek 173 (193)
T KOG3239|consen 95 KKKRLPQKVIIKREARTKRKSVTVVKGLETFDIDLKKAAKFFAQKFATGASVTKNAEK-KDEIVIQGDVKDDIFDFIPEK 173 (193)
T ss_pred HhccCCceeEeeecccCCceeEEEEechhhccccHHHHHHHHHHhhccCccccCCCCc-cceEEEeccchHHHHHHHHHh
Confidence 4455678999999999999999999999999999999999999999999999988775 489999999999999999987
Q ss_pred c-CCCCc--cEEEcccccC
Q 011008 480 F-GIPKR--YIEVLDKTAR 495 (496)
Q Consensus 480 ~-gip~~--~I~~~~k~kk 495 (496)
| .+|.+ .|+-...+||
T Consensus 174 w~ev~ed~~~IED~~~kKk 192 (193)
T KOG3239|consen 174 WPEVPEDDVKIEDLGDKKK 192 (193)
T ss_pred cccCCcccceeecchhhhc
Confidence 7 88988 6665555554
No 10
>KOG1770 consensus Translation initiation factor 1 (eIF-1/SUI1) [Translation, ribosomal structure and biogenesis]
Probab=99.55 E-value=1.3e-14 Score=121.30 Aligned_cols=87 Identities=31% Similarity=0.465 Sum_probs=76.8
Q ss_pred cCCcceEEEEEEEecCCCcceEEeCcCCCCCCHHHHHHHHhhhcccceEEecCCCCCCcEEEEcCCcHHHHHHHHHHhcC
Q 011008 402 KGALKTIQIVTERRQGNKKMTKLSGLETFLMDPEALASELQKKFACSTTVAELPGKKGQEVLIQGGVIADVAKHLVEQFG 481 (496)
Q Consensus 402 kG~~~~I~I~~e~R~g~K~VT~V~gle~f~id~~~lak~l~k~~a~s~sv~~~~~~k~~eV~vQG~~~~~v~~~L~~~~g 481 (496)
.|....|+|++++|+|||.+|+|.|+.. ..|++.+.+.|+|.|||+++|.+.|.. |..||+||||+..|.+||...-.
T Consensus 24 ~g~~~~ihIRIQQRnGrKtlTtVQgi~~-Eyd~kril~~lKKef~CnGtvved~e~-gevIQLqGDqR~nv~~fl~~~g~ 101 (112)
T KOG1770|consen 24 AGTEKYIHIRIQQRNGRKTLTTVQGIPM-EYDLKKILKSLKKEFACNGTVVEDPEY-GEVIQLQGDQRKNVCQFLVQVGL 101 (112)
T ss_pred cCccceEEEEEEeeCCceEEEEecCChh-hhhHHHHHHHHHHhccCCCeEecCccc-CceEEeccchhhhHHHHHHHhcc
Confidence 4566699999999999999999999954 459999999999999999999999876 78999999999999999988766
Q ss_pred CCCccEEEc
Q 011008 482 IPKRYIEVL 490 (496)
Q Consensus 482 ip~~~I~~~ 490 (496)
+.+..|.+.
T Consensus 102 ~k~~~ikih 110 (112)
T KOG1770|consen 102 VKKDNIKIH 110 (112)
T ss_pred ccccceeec
Confidence 676677653
No 11
>COG2016 Predicted RNA-binding protein (contains PUA domain) [Translation, ribosomal structure and biogenesis]
Probab=99.52 E-value=1.3e-14 Score=132.28 Aligned_cols=64 Identities=31% Similarity=0.424 Sum_probs=59.4
Q ss_pred CCCccccCCCCCCCCCCCCeEEEEeCCCCCeEEEEEeecChHHHHhcCCcccEEEEEEeecccccccC
Q 011008 1 MFPGISIPADGLPSFLSGEPWAVKVPGNPAPIAVGSTTMSSTEALKAGLRGKALRITHYYRDLLWGSV 68 (496)
Q Consensus 1 M~PGv~~~~~~~~~~~~g~~vaV~~~~~~~p~AVG~~~~~~~~~~~~~~kGkav~ilH~~gD~LW~~g 68 (496)
|+|||+... ++|++|++|.|...+++.|+|||+++||..+| ....|||||+++||.||.||++.
T Consensus 96 M~PGIv~~~---~~ik~Gd~VvV~~e~~~~plAVG~alm~~~em-~~~~kGkav~~iHhvGD~lw~~~ 159 (161)
T COG2016 96 MAPGIVSAD---GEIKEGDIVVVVDEKKGRPLAVGIALMSGKEM-EEKKKGKAVKNIHHVGDKLWEAS 159 (161)
T ss_pred eccceeecC---CCccCCCEEEEEEcCCCCeeEEEeeccCHHHH-hhhcCCeEEEEEeccChHHHhhh
Confidence 999999754 58999999999999999999999999999999 46899999999999999999873
No 12
>PRK07451 translation initiation factor Sui1; Validated
Probab=99.49 E-value=5.8e-14 Score=121.84 Aligned_cols=74 Identities=19% Similarity=0.317 Sum_probs=64.2
Q ss_pred cceEEEEEEE-ecCCCcceEEeCcCCCCCCHHHHHHHHhhhcccceEEecCCCCCCcEEEEcCCcHHHHHHHHHHhcCCC
Q 011008 405 LKTIQIVTER-RQGNKKMTKLSGLETFLMDPEALASELQKKFACSTTVAELPGKKGQEVLIQGGVIADVAKHLVEQFGIP 483 (496)
Q Consensus 405 ~~~I~I~~e~-R~g~K~VT~V~gle~f~id~~~lak~l~k~~a~s~sv~~~~~~k~~eV~vQG~~~~~v~~~L~~~~gip 483 (496)
-..|.|++++ ++++|.||+|.||..+..|+++||+.|+++|+|++|| ++.+|+|||||++.|.++|.+ .|+.
T Consensus 37 ~~~irI~~~r~gR~GK~VTvV~Gl~~~~~dlk~LaK~LK~k~gcGGtv------kd~~IelQGD~r~~v~~~L~~-~Gf~ 109 (115)
T PRK07451 37 QQNLRVQATRSGRKGKTVTVITGFQHKPETLAKLLKQLKTQCGSGGTV------KDNTIEIQGDHRQKILEILIK-LGYK 109 (115)
T ss_pred ceeEEEEEEecCCCCCeEEEEeCCCCCHHHHHHHHHHHHHHhcCCceE------cCCEEEEcCcHHHHHHHHHHH-CCCe
Confidence 4567777654 3467999999999999999999999999999999999 567999999999999999966 5987
Q ss_pred Cc
Q 011008 484 KR 485 (496)
Q Consensus 484 ~~ 485 (496)
.+
T Consensus 110 ~k 111 (115)
T PRK07451 110 AK 111 (115)
T ss_pred Ee
Confidence 65
No 13
>PRK06824 translation initiation factor Sui1; Validated
Probab=99.46 E-value=9.7e-14 Score=121.08 Aligned_cols=73 Identities=22% Similarity=0.340 Sum_probs=65.8
Q ss_pred ceEEEEEEEe-cCCCcceEEeCcCCCCCCHHHHHHHHhhhcccceEEecCCCCCCcEEEEcCCcHHHHHHHHHHhcCCCC
Q 011008 406 KTIQIVTERR-QGNKKMTKLSGLETFLMDPEALASELQKKFACSTTVAELPGKKGQEVLIQGGVIADVAKHLVEQFGIPK 484 (496)
Q Consensus 406 ~~I~I~~e~R-~g~K~VT~V~gle~f~id~~~lak~l~k~~a~s~sv~~~~~~k~~eV~vQG~~~~~v~~~L~~~~gip~ 484 (496)
..|+|+.++| +++|.||+|.||.....|+++||+.|+++|+|++|| ++.+|+|||||++.|.++|.+ .|+..
T Consensus 41 ~~vri~~~~kgr~gK~VTvI~Gl~~~~~dlk~l~K~LKkk~gcGGtv------kd~~IeiQGD~r~~v~~~L~~-~G~~~ 113 (118)
T PRK06824 41 GIVRVRRETKGRGGKTVTVITGVPLAEDALKELAKELKRRCGTGGTL------KDGVIEIQGDHVELLLAELLK-RGFKA 113 (118)
T ss_pred ceEEEEEEEccCCCceEEEEeCCcCCHHHHHHHHHHHHHHhcCCceE------ecCEEEEcCcHHHHHHHHHHH-CCCeE
Confidence 3788877765 689999999999999999999999999999999999 457999999999999999966 69877
Q ss_pred c
Q 011008 485 R 485 (496)
Q Consensus 485 ~ 485 (496)
+
T Consensus 114 k 114 (118)
T PRK06824 114 K 114 (118)
T ss_pred e
Confidence 6
No 14
>PRK09019 translation initiation factor Sui1; Validated
Probab=99.43 E-value=2.2e-13 Score=116.95 Aligned_cols=74 Identities=24% Similarity=0.289 Sum_probs=64.0
Q ss_pred cceEEEEEEEe-cCCCcceEEeCcCCCCCCHHHHHHHHhhhcccceEEecCCCCCCcEEEEcCCcHHHHHHHHHHhcCCC
Q 011008 405 LKTIQIVTERR-QGNKKMTKLSGLETFLMDPEALASELQKKFACSTTVAELPGKKGQEVLIQGGVIADVAKHLVEQFGIP 483 (496)
Q Consensus 405 ~~~I~I~~e~R-~g~K~VT~V~gle~f~id~~~lak~l~k~~a~s~sv~~~~~~k~~eV~vQG~~~~~v~~~L~~~~gip 483 (496)
...|.|..+++ +++|.||+|.||.....|+++||+.|+++|+|++|| ++.+|+|||||++.|.++|.+ .|+.
T Consensus 30 ~~~vri~~~r~gRkGK~VTiI~Gl~~~~~dlk~l~K~lKkk~gcGGtv------k~~~IelQGD~r~~v~~~L~~-~Gf~ 102 (108)
T PRK09019 30 DGIVRIQRQTSGRKGKGVCLITGLDLDDAELKKLAAELKKKCGCGGAV------KDGVIEIQGDKRDLLKSLLEA-KGMK 102 (108)
T ss_pred CceEEEEEecCCCCCCeEEEEeCCcCCHHHHHHHHHHHHHHhcCCCeE------EcCEEEEcCcHHHHHHHHHHH-CCCe
Confidence 34677776543 466899999999988999999999999999999999 457999999999999999966 5887
Q ss_pred Cc
Q 011008 484 KR 485 (496)
Q Consensus 484 ~~ 485 (496)
.+
T Consensus 103 ~k 104 (108)
T PRK09019 103 VK 104 (108)
T ss_pred EE
Confidence 65
No 15
>PRK14560 putative RNA-binding protein; Provisional
Probab=99.41 E-value=4e-13 Score=124.76 Aligned_cols=63 Identities=29% Similarity=0.407 Sum_probs=57.7
Q ss_pred CCCccccCCCCCCCCCCCCeEEEEeCCCCCeEEEEEeecChHHHHhcCCcccEEEEEEeeccccccc
Q 011008 1 MFPGISIPADGLPSFLSGEPWAVKVPGNPAPIAVGSTTMSSTEALKAGLRGKALRITHYYRDLLWGS 67 (496)
Q Consensus 1 M~PGv~~~~~~~~~~~~g~~vaV~~~~~~~p~AVG~~~~~~~~~~~~~~kGkav~ilH~~gD~LW~~ 67 (496)
|+|||+... ++|++|++|+|...+++.|+|||++.||+++|. .+.+|+||+++||+||+||++
T Consensus 96 m~pGV~~~~---~~~~~Gd~V~I~~~~~~~~vavG~~~~s~~ei~-~~~kG~~v~~~h~~~D~lw~~ 158 (160)
T PRK14560 96 MAPGIVEAD---EDIKEGDIVFVVEETHGKPLAVGRALMDGDEMV-EEKKGKAVKNIHHVGDEIWEF 158 (160)
T ss_pred ecCeeeeCC---CCCCCCCEEEEEECCCCeEEEEEEEeeCHHHHh-hcCCceEEEEEEEcCchhhcc
Confidence 899998542 589999999999988789999999999999995 689999999999999999987
No 16
>KOG2523 consensus Predicted RNA-binding protein with PUA domain [Translation, ribosomal structure and biogenesis]
Probab=99.40 E-value=1.4e-13 Score=124.35 Aligned_cols=67 Identities=30% Similarity=0.471 Sum_probs=62.2
Q ss_pred CCCccccCCCCC-CCCCCCCeEEEEeCCCCCeEEEEEeecChHHHHhcCCcccEEEEEEeecccccccC
Q 011008 1 MFPGISIPADGL-PSFLSGEPWAVKVPGNPAPIAVGSTTMSSTEALKAGLRGKALRITHYYRDLLWGSV 68 (496)
Q Consensus 1 M~PGv~~~~~~~-~~~~~g~~vaV~~~~~~~p~AVG~~~~~~~~~~~~~~kGkav~ilH~~gD~LW~~g 68 (496)
|+||++.|.+.+ |.+++|++|+|...|+..++|||.+.|++.||. ...||.+++++||+||.||.+.
T Consensus 112 McPGlts~g~~l~~~~ekd~~V~i~aeGK~~alAiG~~~ms~kei~-s~nKGiGIE~~H~l~DgLw~~~ 179 (181)
T KOG2523|consen 112 MCPGLTSPGAKLPPGVEKDTIVAIMAEGKEHALAIGLTKMSAKEIK-SVNKGIGIENYHYLNDGLWKMK 179 (181)
T ss_pred EcccCCCCcccCCCCccCCCEEEEEecCchhhhhhhhhhhcHHHHH-hhccCCceEEEEecCCchhhee
Confidence 999999998766 668899999999999999999999999999994 6889999999999999999873
No 17
>TIGR03684 arCOG00985 arCOG04150 universal archaeal PUA-domain protein. This universal archaeal protein contains a domain possibly associated with RNA binding (pfam01472, TIGR00451).
Probab=99.39 E-value=6.8e-13 Score=121.92 Aligned_cols=62 Identities=34% Similarity=0.485 Sum_probs=56.7
Q ss_pred CCCccccCCCCCCCCCCCCeEEEEeCCCCCeEEEEEeecChHHHHhcCCcccEEEEEEeecccccc
Q 011008 1 MFPGISIPADGLPSFLSGEPWAVKVPGNPAPIAVGSTTMSSTEALKAGLRGKALRITHYYRDLLWG 66 (496)
Q Consensus 1 M~PGv~~~~~~~~~~~~g~~vaV~~~~~~~p~AVG~~~~~~~~~~~~~~kGkav~ilH~~gD~LW~ 66 (496)
|+|||+.. + ++|++|++|+|...+++.|+|||++.||+++|. ...+|+||+++|++||+||+
T Consensus 89 m~pGV~~~-~--~~~~~Gd~V~I~~~~~~~~vavG~a~~ss~ei~-~~~kG~av~~~h~~~D~lw~ 150 (150)
T TIGR03684 89 MAPGIVSA-D--PSIKEGDIVFVVDETHRKPLAVGIALMDAEEME-EEKKGKAVKNIHHVGDKIWE 150 (150)
T ss_pred ccCceecC-C--CCCCCCCEEEEEECCCCeEEEEEEEeeCHHHHh-hcCCCeEEEEEEEcCccccC
Confidence 89999853 2 589999999999998889999999999999995 68899999999999999995
No 18
>TIGR00451 unchar_dom_2 uncharacterized domain 2. This uncharacterized domain is found a number of enzymes and uncharacterized proteins, often at the C-terminus. It is found in some but not all members of a family of related tRNA-guanine transglycosylases (tgt), which exchange a guanine base for some modified base without breaking the phosphodiester backbone of the tRNA. It is also found in rRNA pseudouridine synthase, another enzyme of RNA base modification not otherwise homologous to tgt. It is found, again at the C-terminus, in two putative glutamate 5-kinases. It is also found in a family of small, uncharacterized archaeal proteins consisting mostly of this domain.
Probab=99.04 E-value=5.2e-10 Score=97.00 Aligned_cols=58 Identities=31% Similarity=0.359 Sum_probs=52.4
Q ss_pred CCCccccCCCCCCCCCCCCeEEEEeCCCCCeEEEEEeecChHHHHhcCCcccEEEEEEeecc
Q 011008 1 MFPGISIPADGLPSFLSGEPWAVKVPGNPAPIAVGSTTMSSTEALKAGLRGKALRITHYYRD 62 (496)
Q Consensus 1 M~PGv~~~~~~~~~~~~g~~vaV~~~~~~~p~AVG~~~~~~~~~~~~~~kGkav~ilH~~gD 62 (496)
|+|||+... ++|++|++|+|...+++.++|||++.||+++|.. ..||+||+++|++||
T Consensus 50 ~~pGV~~~~---~~~~~gd~V~I~~~~~~~~iavG~a~~~s~e~~~-~~~G~~v~~~h~~~D 107 (107)
T TIGR00451 50 MRPGIVDAD---EDIKEGDDVVVVDENKDRPLAVGIALMSGEEMKE-MDKGKAVKNIHHIGD 107 (107)
T ss_pred cCCeeEeCC---CCcCCCCEEEEEECCCCeEEEEEEEecCHHHHHh-cCCCeEEEEEEecCC
Confidence 899998643 4899999999998887899999999999999954 689999999999998
No 19
>smart00151 SWIB SWI complex, BAF60b domains.
Probab=98.49 E-value=1.7e-07 Score=76.51 Aligned_cols=74 Identities=18% Similarity=0.273 Sum_probs=58.9
Q ss_pred EEEeccCCCchhhhhccCCCCCCCcCHHHHHHHHHHHHHhCCCCCCCCCCceecCHHHHHHHhccccccCCCCCcccchh
Q 011008 297 TEVYKPSVHVNPIFASVGADTGRLYTFSEACDVVFNYIEKENLVKPTAKSIVVLDPTLSDALFKGAIKKGTTYPTEIHKK 376 (496)
Q Consensus 297 ~~lY~p~~~~~~~f~~~~~~~~~~yt~~eiR~~l~~YI~~~~L~~~~~k~~V~LD~~L~~~l~kk~~~~g~~~~~~i~r~ 376 (496)
++.|+++..+..||.. ..+|.+||+.+|++||+.|||+|++|++.|..|+.|.+++.+. .+...
T Consensus 2 ~~~~~ls~~L~~~lg~------~~~tr~ev~~~lw~YIk~n~L~d~~~k~~i~~D~~L~~l~~~~----------~v~~~ 65 (77)
T smart00151 2 TKKVTLSPELAKVLGA------PEMTRTEIIKRLWEYIKEHNLQDPQNKREILCDSKLEQIFGKD----------RMDMF 65 (77)
T ss_pred CCcccCCHHHHHHhCC------CcCcHHHHHHHHHHHHHHhcccCCccCCEEecCHHHHHHHCcC----------eecHH
Confidence 4568888888888853 6899999999999999999999999999999999999877321 34455
Q ss_pred hHHHHHHHcc
Q 011008 377 DLGSTFVNRM 386 (496)
Q Consensus 377 ~l~~~~l~~~ 386 (496)
++.+.+..++
T Consensus 66 ~~~~ll~~Hl 75 (77)
T smart00151 66 EMNKLLTPHL 75 (77)
T ss_pred HHHHHHHHHc
Confidence 5555554444
No 20
>PF01472 PUA: PUA domain; InterPro: IPR002478 The PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was named after the proteins in which it was first found []. PUA is a highly conserved RNA-binding motif found in a wide range of archaeal, bacterial and eukaryotic proteins, including enzymes that catalyse tRNA and rRNA post-transcriptional modifications, proteins involved in ribosome biogenesis and translation, as well as in enzymes involved in proline biosynthesis [, ]. The structures of several PUA-RNA complexes reveal a common RNA recognition surface, but also some versatility in the way in which the motif binds to RNA []. PUA motifs are involved in dyskeratosis congenita and cancer, pointing to links between RNA metabolism and human diseases [].; GO: 0003723 RNA binding; PDB: 1ZE2_A 1ZE1_A 1R3E_A 2AB4_A 3R90_D 2J5T_A 2J5V_B 1Q7H_A 2APO_A 2RFK_A ....
Probab=98.25 E-value=1.2e-06 Score=70.92 Aligned_cols=55 Identities=35% Similarity=0.427 Sum_probs=46.1
Q ss_pred CCCccccCCCCCCCCCCCCeEEEEeCCCCCeEEEEEeecChHHHHhcCCcccEEEEEEee
Q 011008 1 MFPGISIPADGLPSFLSGEPWAVKVPGNPAPIAVGSTTMSSTEALKAGLRGKALRITHYY 60 (496)
Q Consensus 1 M~PGv~~~~~~~~~~~~g~~vaV~~~~~~~p~AVG~~~~~~~~~~~~~~kGkav~ilH~~ 60 (496)
|+|||+... +.|++|++|.|...+ ..++|+|++.||+++|.. ..+|+++++.|++
T Consensus 20 ~~~GV~~~~---~~f~~gd~V~i~~~~-g~~ia~G~a~~ss~ei~~-~~~g~~~~~~~~l 74 (74)
T PF01472_consen 20 FAPGVVEVD---GDFRKGDEVAIVDED-GEVIAVGRANMSSEEIKK-MKKGKAVKIRHVL 74 (74)
T ss_dssp EGGGEEEEE---TT--TTSEEEEEETT-SSEEEEEEESSTHHHHHH-HSSSEEEEEEEEC
T ss_pred chHHhEECC---CCcCCCCEEEEEcCC-CeEEEEEEEecCHHHHHH-HcCCcEehhhhhC
Confidence 689998643 479999999999885 789999999999999964 5599999999985
No 21
>PF02201 SWIB: SWIB/MDM2 domain; InterPro: IPR003121 The SWI/SNF family of complexes, which are conserved from yeast to humans, are ATP-dependent chromatin-remodelling proteins that facilitate transcription activation []. The mammalian complexes are made up of 9-12 proteins called BAFs (BRG1-associated factors). The BAF60 family have at least three members: BAF60a, which is ubiquitous, BAF60b and BAF60c, which are expressed in muscle and pancreatic tissues, respectively. BAF60b is present in alternative forms of the SWI/SNF complex, including complex B (SWIB), which lacks BAF60a. The SWIB domain is a conserved region found within the BAF60b proteins [], and can be found fused to the C terminus of DNA topoisomerase in Chlamydia. MDM2 is an oncoprotein that acts as a cellular inhibitor of the p53 tumour suppressor by binding to the transactivation domain of p53 and suppressing its ability to activate transcription []. p53 acts in response to DNA damage, inducing cell cycle arrest and apoptosis. Inactivation of p53 is a common occurrence in neoplastic transformations. The core of MDM2 folds into an open bundle of four helices, which is capped by two small 3-stranded beta-sheets. It consists of a duplication of two structural repeats. MDM2 has a deep hydrophobic cleft on which the p53 alpha-helix binds; p53 residues involved in transactivation are buried deep within the cleft of MDM2, thereby concealing the p53 transactivation domain. The SWIB and MDM2 domains are homologous and share a common fold.; GO: 0005515 protein binding; PDB: 1V31_A 3FE7_A 3JZQ_B 3EQY_B 2VYR_A 3JZO_A 3DAB_E 3LBJ_E 3FEA_A 3FDO_A ....
Probab=97.70 E-value=2.1e-05 Score=64.01 Aligned_cols=57 Identities=28% Similarity=0.461 Sum_probs=44.3
Q ss_pred EEeccCCCchhhhhccCCCCCCCcCHHHHHHHHHHHHHhCCCCCCCCCCceecCHHHHHHHhc
Q 011008 298 EVYKPSVHVNPIFASVGADTGRLYTFSEACDVVFNYIEKENLVKPTAKSIVVLDPTLSDALFK 360 (496)
Q Consensus 298 ~lY~p~~~~~~~f~~~~~~~~~~yt~~eiR~~l~~YI~~~~L~~~~~k~~V~LD~~L~~~l~k 360 (496)
+.|+++..+..++ |.+. +|++||...|++||+.|||.+++|++.|..|+.|.+++..
T Consensus 3 k~~~ls~~L~~~l---g~~~---~sr~~v~~~lw~YIk~~~L~dp~~k~~I~cD~~L~~lf~~ 59 (76)
T PF02201_consen 3 KRFKLSPELAEFL---GEDE---LSRSEVVKRLWQYIKENNLQDPKDKRIIICDEKLKKLFGK 59 (76)
T ss_dssp EEEHHHHHHHHHT---T-SC---EEHHHHHHHHHHHHHHTTSBESSSTTEEE-TTSHHHHHHT
T ss_pred CCccCCHHHHHHh---CCCC---CCHHHHHHHHHHHHHHhcCCCcccCceEecCHHHHHHhCC
Confidence 4455555444443 4333 8999999999999999999999999999999999987653
No 22
>PF05046 Img2: Mitochondrial large subunit ribosomal protein (Img2); InterPro: IPR007740 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family of proteins has been identified as part of the mitochondrial large ribosomal subunit in Saccharomyces cerevisiae [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome
Probab=96.99 E-value=0.0041 Score=52.01 Aligned_cols=65 Identities=31% Similarity=0.437 Sum_probs=50.9
Q ss_pred EEEEEe-cCCCcceEEeCcCCCCCCHHHHHHHHhhhcccc------eEEecCCCCCCcEEEEcCCcHHHHHHHHHHhcCC
Q 011008 410 IVTERR-QGNKKMTKLSGLETFLMDPEALASELQKKFACS------TTVAELPGKKGQEVLIQGGVIADVAKHLVEQFGI 482 (496)
Q Consensus 410 I~~e~R-~g~K~VT~V~gle~f~id~~~lak~l~k~~a~s------~sv~~~~~~k~~eV~vQG~~~~~v~~~L~~~~gi 482 (496)
|....| .|++.+|+|..++. |...|.++|++.|.-. +.|.+. ...|.|+|||...|.++|.+ .|+
T Consensus 16 VY~~~k~~g~~~~T~IrkI~G---D~~aL~~dL~~~l~~~~~~~~~~~V~~~----~g~i~IkG~~~~~Vk~wL~~-~GF 87 (87)
T PF05046_consen 16 VYLDIKNGGNRKITVIRKIEG---DIWALKKDLRKFLGEKPKKKIDVRVNEL----TGHIEIKGDHVEEVKKWLLE-KGF 87 (87)
T ss_pred EEEEEeCCCcEeEEEEEeecC---CHHHHHHHHHHHhhhhcCCCcceEEeec----CCEEEEcCccHHHHHHHHHH-CcC
Confidence 444444 47899999999986 8999999999999633 345443 36899999999999999966 464
No 23
>smart00359 PUA Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase.
Probab=96.91 E-value=0.003 Score=50.64 Aligned_cols=57 Identities=19% Similarity=0.311 Sum_probs=46.0
Q ss_pred CCCccccCCCCCCCCCCCCeEEEEeCCCCCeEEEEEeecChHHHHhcC-CcccEEEEEEeec
Q 011008 1 MFPGISIPADGLPSFLSGEPWAVKVPGNPAPIAVGSTTMSSTEALKAG-LRGKALRITHYYR 61 (496)
Q Consensus 1 M~PGv~~~~~~~~~~~~g~~vaV~~~~~~~p~AVG~~~~~~~~~~~~~-~kGkav~ilH~~g 61 (496)
|.||++... +.|.+|++|.|... +..++|+|.+.+++..+.... .+|.++++.|++.
T Consensus 20 ~~~~v~~~~---~~~~~g~~V~v~~~-~g~~vg~G~~~~~s~~~~~~~~~~g~~v~~~~~~~ 77 (77)
T smart00359 20 LAPGVVRVD---GGIKEGDVVVIVDE-KGEPLGIGLANMSSEEMARIKGEKGLAVKVRRAVM 77 (77)
T ss_pred ccceeEEEe---CCcCCCCEEEEEcC-CCCEEEEEEEeCCHHHHHHHhccCceEEEEEEecC
Confidence 567776543 36889999999966 568999999999999986433 7999999999863
No 24
>PRK13795 hypothetical protein; Provisional
Probab=96.80 E-value=0.002 Score=72.44 Aligned_cols=55 Identities=18% Similarity=0.357 Sum_probs=47.7
Q ss_pred CCCccccCCCCCCCCCCCCeEEEEeCCCCCeEEEEEeecChHHHHhcCCcccEEEEEEee
Q 011008 1 MFPGISIPADGLPSFLSGEPWAVKVPGNPAPIAVGSTTMSSTEALKAGLRGKALRITHYY 60 (496)
Q Consensus 1 M~PGv~~~~~~~~~~~~g~~vaV~~~~~~~p~AVG~~~~~~~~~~~~~~kGkav~ilH~~ 60 (496)
|.|||+... ++|++|+.|+|.... ..++|||++.||+++|. ...+|+||++.|..
T Consensus 146 ~~~GI~~~~---~~i~~gd~V~I~~e~-g~~vavG~a~~s~~e~~-~~~kG~~Vkvr~~~ 200 (636)
T PRK13795 146 LAPGVVEAD---LDIKKGDEVVVVTED-GEVVGVGRAKMDGDDMI-KRFRGRAVKVRKSG 200 (636)
T ss_pred cCCceEEEe---CCCCCCCEEEEEeCC-CCEEEEEEeccCHHHHh-hccCCeEEEEEEcc
Confidence 789998643 579999999999763 67899999999999994 58999999999986
No 25
>PRK13794 hypothetical protein; Provisional
Probab=96.51 E-value=0.0047 Score=67.20 Aligned_cols=53 Identities=17% Similarity=0.297 Sum_probs=45.9
Q ss_pred CCCccccCCCCCCCCCCCCeEEEEeCCCCCeEEEEEeecChHHHHhcCCcccEEEEEE
Q 011008 1 MFPGISIPADGLPSFLSGEPWAVKVPGNPAPIAVGSTTMSSTEALKAGLRGKALRITH 58 (496)
Q Consensus 1 M~PGv~~~~~~~~~~~~g~~vaV~~~~~~~p~AVG~~~~~~~~~~~~~~kGkav~ilH 58 (496)
|+|||+... ++|.+|+.|+|...+ ..++|||++.||+++|. ...+|+||++-|
T Consensus 145 ~~~GV~~~~---~~i~~gd~V~Iv~~~-g~~iavG~a~~s~~ei~-~~~~G~~Vkvr~ 197 (479)
T PRK13794 145 LRPGVAEAS---EDIEEGDDVIILDEN-GDVVGVGRARMSYEEIV-NMEKGMVVKVRK 197 (479)
T ss_pred cCCceEEec---CCcCCCCEEEEEcCC-CcEEEEEEeecCHHHHH-hccCceEEEEEe
Confidence 789988643 589999999999764 46999999999999994 588999999988
No 26
>TIGR00425 CBF5 rRNA pseudouridine synthase, putative. This family, found in archaea and eukaryotes, includes the only archaeal proteins markedly similar to bacterial TruB, the tRNA pseudouridine 55 synthase. However, among two related yeast proteins, the archaeal set matches yeast YLR175w far better than YNL292w. The first, termed centromere/microtubule binding protein 5 (CBF5), is an apparent rRNA pseudouridine synthase, while the second is the exclusive tRNA pseudouridine 55 synthase for both cytosolic and mitochondrial compartments. It is unclear whether archaeal proteins found by this model modify tRNA, rRNA, or both.
Probab=96.11 E-value=0.014 Score=60.32 Aligned_cols=47 Identities=19% Similarity=0.222 Sum_probs=39.6
Q ss_pred CCCCCeEEEEeCCCCCeEEEEEeecChHHHHhcCCcccEEEEEEeeccc
Q 011008 15 FLSGEPWAVKVPGNPAPIAVGSTTMSSTEALKAGLRGKALRITHYYRDL 63 (496)
Q Consensus 15 ~~~g~~vaV~~~~~~~p~AVG~~~~~~~~~~~~~~kGkav~ilH~~gD~ 63 (496)
+..|+.|.|... +..++|||.+.+|+++|. ...+|+||++.|.|+|-
T Consensus 268 i~~gd~V~V~~~-~G~~LAIGea~~s~~ei~-~~~kG~vV~~~~~~~~~ 314 (322)
T TIGR00425 268 IEKGDTVAVITL-KGEAVAVGIALMSTKDIA-NADKGVVADVKRVIMER 314 (322)
T ss_pred cCCCCEEEEEEC-CCEEEEEEEEecCHHHHh-hcCCcEEEEEEEEeeCC
Confidence 567888877755 357899999999999995 46799999999999984
No 27
>COG5531 SWIB-domain-containing proteins implicated in chromatin remodeling [Chromatin structure and dynamics]
Probab=95.86 E-value=0.007 Score=59.33 Aligned_cols=57 Identities=30% Similarity=0.362 Sum_probs=48.7
Q ss_pred EEEeccCCCchhhhhccCCCCCCCcCHHHHHHHHHHHHHhCCCCCCCCCCceecCHHHHHHHh
Q 011008 297 TEVYKPSVHVNPIFASVGADTGRLYTFSEACDVVFNYIEKENLVKPTAKSIVVLDPTLSDALF 359 (496)
Q Consensus 297 ~~lY~p~~~~~~~f~~~~~~~~~~yt~~eiR~~l~~YI~~~~L~~~~~k~~V~LD~~L~~~l~ 359 (496)
.+.|+++..+..|+.. .-.|+.|+-.-|++||+.|||.+++|++.|.+|+.|..++.
T Consensus 122 ~~~~~lS~~La~ilG~------~~~tr~~~v~~lw~YIk~h~lq~~~nkr~I~~D~~L~~v~g 178 (237)
T COG5531 122 GEKVKLSPKLAAILGL------EPGTRPEAVKKLWKYIKKHNLQDPNNKRLILCDSKLKKVLG 178 (237)
T ss_pred CCceecCHHHHHHhCC------CCCCccHHHHHHHHHHHHhcCCCccccceecccHHHHHHhC
Confidence 5567888877777643 34689999999999999999999999999999999998773
No 28
>KOG1946 consensus RNA polymerase I transcription factor UAF [Transcription]
Probab=95.47 E-value=0.016 Score=57.22 Aligned_cols=43 Identities=21% Similarity=0.345 Sum_probs=39.0
Q ss_pred CCCcCHHHHHHHHHHHHHhCCCCCCCCCCceecCHHHHHHHhc
Q 011008 318 GRLYTFSEACDVVFNYIEKENLVKPTAKSIVVLDPTLSDALFK 360 (496)
Q Consensus 318 ~~~yt~~eiR~~l~~YI~~~~L~~~~~k~~V~LD~~L~~~l~k 360 (496)
...+++.|+-..|++||+.|||.||.|++.|.=|+.|..++.+
T Consensus 116 ~~~lsR~~vvk~iw~YIke~nLqDP~nkr~IlCDekL~~iF~~ 158 (240)
T KOG1946|consen 116 TSELSRTDVVKKIWAYIKEHNLQDPKNKREILCDEKLKSIFGK 158 (240)
T ss_pred cccccHHHHHHHHHHHHHHhccCCccccCeeeeHHHHHHHhcc
Confidence 4678999999999999999999999999999999999975543
No 29
>PRK13534 7-cyano-7-deazaguanine tRNA-ribosyltransferase; Provisional
Probab=94.42 E-value=0.074 Score=59.85 Aligned_cols=48 Identities=13% Similarity=0.038 Sum_probs=41.3
Q ss_pred CCCCCCCCeEEEEeCCCCCeEEEEEeecChHHHHhcCCcccEEEEEEeec
Q 011008 12 LPSFLSGEPWAVKVPGNPAPIAVGSTTMSSTEALKAGLRGKALRITHYYR 61 (496)
Q Consensus 12 ~~~~~~g~~vaV~~~~~~~p~AVG~~~~~~~~~~~~~~kGkav~ilH~~g 61 (496)
-+++++|+.|.|...+ +.++|||++.||..+|. ...+|+||++=|...
T Consensus 591 d~~ir~gDeV~Vv~e~-~~~lavG~A~~~~~em~-~~~~G~avkvR~~~~ 638 (639)
T PRK13534 591 DEEIRPYDEVLVVNED-DELLAYGKALLNGRELM-EFNYGLAVKVRGGVK 638 (639)
T ss_pred CCCCCCCCEEEEEecC-CcEEEEEEEecCHHHHh-hcCCceEEEEeecCC
Confidence 3568899999999764 68999999999999994 579999999988754
No 30
>PF10357 Kin17_mid: Domain of Kin17 curved DNA-binding protein; InterPro: IPR019447 This entry represents the conserved central 169 residue region of the Kin17 DNA/RNA-binding proteins. The N-terminal region of Kin17 contains a zinc-finger domain, while in the human and mouse proteins there is a RecA-like domain found in the C-terminal region. In humans, Kin17 protein forms intra-nuclear foci during cell proliferation and is re-distributed in the nucleoplasm during the cell cycle []. ; PDB: 2V1N_A.
Probab=93.20 E-value=0.28 Score=43.86 Aligned_cols=85 Identities=13% Similarity=0.226 Sum_probs=62.5
Q ss_pred hhhHHHHHHHHHHHHhhhcCCCCCCCCChhhhhhhcccCCCCCCCceeeeccccccHHHHHHHHhhCCceEEeeccCCCe
Q 011008 171 TEDVDAYLDKCLLQALHTTVKDKDLPMPGSTLWSNHILPCRPSGITLDIKKSSHKKLTKWLQAKSSAGLISVKEDKYKKE 250 (496)
Q Consensus 171 ~e~mD~ll~~all~al~~~~~~~~LPi~~S~F~s~~ilp~~P~~~~ldiKKSS~KK~skFLk~m~K~gll~~Ke~~~~g~ 250 (496)
.++...-|+..||.-|+.. ...=.+.|..||..||-- + .-+=|--|.|..|+.|+|+|.+.|++++-+. ..-
T Consensus 14 i~~yS~eFe~~Fl~lLr~~--hg~krV~AN~vYnEyI~D-k---~HvHMNaT~W~sLT~FvkyLgr~G~~~Vdet--ekg 85 (127)
T PF10357_consen 14 IDEYSEEFEKDFLRLLRRR--HGTKRVNANKVYNEYIQD-K---DHVHMNATRWTSLTEFVKYLGREGKCKVDET--EKG 85 (127)
T ss_dssp HHHHHHHHHHHHHHHHHHH--TSS-EEEHHHHHHHHTTS-S-------GGGSS-SSHHHHHHHHTTTTSEEEEEE--TTE
T ss_pred HHHHHHHHHHHHHHHHHHh--cCCCeechhHHHHHHhcC-c---cceeecccccchHHHHHHHHhhCCeeEeecC--CCc
Confidence 4666777999999999853 455678999999999921 2 2567779999999999999999999999963 557
Q ss_pred eEEEEeeCCCCcc
Q 011008 251 SMLFSVNRGHPDY 263 (496)
Q Consensus 251 ~~I~~vn~~h~~~ 263 (496)
..|.=|+++...+
T Consensus 86 ~~I~yID~~pe~l 98 (127)
T PF10357_consen 86 WFISYIDRSPETL 98 (127)
T ss_dssp EEEEE--SSHHHH
T ss_pred eEEEeeCCCHHHH
Confidence 8888888865443
No 31
>PRK14724 DNA topoisomerase III; Provisional
Probab=92.77 E-value=0.17 Score=59.74 Aligned_cols=54 Identities=26% Similarity=0.421 Sum_probs=44.4
Q ss_pred EeccCCCchhhhhccCCCCCCCcCHHHHHHHHHHHHHhCCCCCCCCCCceecCHHHHHHH
Q 011008 299 VYKPSVHVNPIFASVGADTGRLYTFSEACDVVFNYIEKENLVKPTAKSIVVLDPTLSDAL 358 (496)
Q Consensus 299 lY~p~~~~~~~f~~~~~~~~~~yt~~eiR~~l~~YI~~~~L~~~~~k~~V~LD~~L~~~l 358 (496)
-|+++..+..|+ |. .-.|++||-..|++||+.|||+|+.|+++|..|+.|..++
T Consensus 915 ~~~ls~~La~~l---g~---~~~~r~~v~~~lW~YIK~~~Lqdp~~k~~i~cD~~L~~vf 968 (987)
T PRK14724 915 GLKPSAALAAVI---GA---EPVARPEVIKKLWDYIKANNLQDPADKRAINADAKLRPVF 968 (987)
T ss_pred ccCCCHHHHHHh---CC---CcCCHHHHHHHHHHHHHHccCCCcccCCeeccchHHHHHh
Confidence 455555555554 32 2489999999999999999999999999999999999865
No 32
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=91.02 E-value=0.9 Score=41.06 Aligned_cols=81 Identities=17% Similarity=0.267 Sum_probs=56.0
Q ss_pred hhHHHHHHHcccccEEEecCCccccccCCcceEEEEEEEecCCCcceEEeCcCCC----CCCHHHHHHHHhhhcccceEE
Q 011008 376 KDLGSTFVNRMQAHHVVSRGSQSVVRKGALKTIQIVTERRQGNKKMTKLSGLETF----LMDPEALASELQKKFACSTTV 451 (496)
Q Consensus 376 ~~l~~~~l~~~~~~~~i~~~~~~~~~kG~~~~I~I~~e~R~g~K~VT~V~gle~f----~id~~~lak~l~k~~a~s~sv 451 (496)
++|++|+.+.+...- +.. .+=..|+.++.++ |+| |+|.||... +-+++-+.+.|.+-+++.+++
T Consensus 3 ~~lL~R~~~~l~~~~-----~~~--~R~~mP~~~v~~e---G~k--Tvi~Nf~~Ia~~L~R~~~~v~ky~~~ELgt~g~i 70 (133)
T TIGR00311 3 EKLLERAIDQLPDEV-----FET--KRFEVPKAYIVIE---GNR--TIIQNFREVAKALNRDEQHLLKYLLKELGTAGNL 70 (133)
T ss_pred HHHHHHHHHHCcccc-----CCC--ccccCCCceEEEE---cCc--EEEecHHHHHHHHCCCHHHHHHHHHHHhCCCcee
Confidence 467778777664311 111 1123566666655 655 999998544 557999999999999999998
Q ss_pred ecCCCCCCcEEEEcCCcHHHHHH
Q 011008 452 AELPGKKGQEVLIQGGVIADVAK 474 (496)
Q Consensus 452 ~~~~~~k~~eV~vQG~~~~~v~~ 474 (496)
. +....|+|.+.....+
T Consensus 71 ~------~~rlii~G~~~~~~i~ 87 (133)
T TIGR00311 71 E------GGRLILQGKFTHFLLN 87 (133)
T ss_pred c------CCEEEEEeecCHHHHH
Confidence 3 3589999997765554
No 33
>PRK03988 translation initiation factor IF-2 subunit beta; Validated
Probab=91.01 E-value=0.86 Score=41.44 Aligned_cols=83 Identities=18% Similarity=0.290 Sum_probs=57.0
Q ss_pred chhhHHHHHHHcccccEEEecCCccccccCCcceEEEEEEEecCCCcceEEeCcCCC----CCCHHHHHHHHhhhcccce
Q 011008 374 HKKDLGSTFVNRMQAHHVVSRGSQSVVRKGALKTIQIVTERRQGNKKMTKLSGLETF----LMDPEALASELQKKFACST 449 (496)
Q Consensus 374 ~r~~l~~~~l~~~~~~~~i~~~~~~~~~kG~~~~I~I~~e~R~g~K~VT~V~gle~f----~id~~~lak~l~k~~a~s~ 449 (496)
.-++|++|+.+.+...- +.. .+=..|+.++.++ |+| |+|.||... +-+++-+.+.|.+-+++.+
T Consensus 6 ~Y~~lL~R~~~~lp~~~-----~~~--~R~~~p~~~v~~e---G~k--Tvi~Nf~~I~~~L~R~~~hv~ky~~~ELgt~g 73 (138)
T PRK03988 6 DYEELLDRAYEKLPEKV-----FKE--SRFEVPKPDVRIE---GNR--TIIRNFKEIADRLNRDPKHVAKFLLKELGTAG 73 (138)
T ss_pred CHHHHHHHHHHHCcccc-----CCC--cceeCCCCeEEEE---cCc--EEEecHHHHHHHHCCCHHHHHHHHHHHhCCce
Confidence 35678888877663321 111 1123556666554 655 999999644 5579999999999999999
Q ss_pred EEecCCCCCCcEEEEcCCcHHHHHH
Q 011008 450 TVAELPGKKGQEVLIQGGVIADVAK 474 (496)
Q Consensus 450 sv~~~~~~k~~eV~vQG~~~~~v~~ 474 (496)
++ + +....|+|.+.....+
T Consensus 74 ~i-~-----~~~lii~G~~~~~~i~ 92 (138)
T PRK03988 74 NI-E-----GGRLILQGKFSPRVIN 92 (138)
T ss_pred ee-c-----CCEEEEEEeeCHHHHH
Confidence 99 2 3689999997665554
No 34
>KOG4034 consensus Uncharacterized conserved protein NOF (Neighbor of FAU) [Function unknown]
Probab=90.11 E-value=0.34 Score=44.47 Aligned_cols=67 Identities=30% Similarity=0.469 Sum_probs=44.3
Q ss_pred eEEEEEEEecCCCcceEEeCcCCCCCCHHHHHHHHhhhccc----c--eEEecCCCCCCcEEEEcCCcHHHHHHHHHHhc
Q 011008 407 TIQIVTERRQGNKKMTKLSGLETFLMDPEALASELQKKFAC----S--TTVAELPGKKGQEVLIQGGVIADVAKHLVEQF 480 (496)
Q Consensus 407 ~I~I~~e~R~g~K~VT~V~gle~f~id~~~lak~l~k~~a~----s--~sv~~~~~~k~~eV~vQG~~~~~v~~~L~~~~ 480 (496)
+|......| |+|.+|+|..++. |.-.|-++|+..+.- | +-|.+. ..+|.+-|||.+.|.++|.++
T Consensus 97 PVYl~~k~~-G~k~lT~IRkVeG---Di~aLe~DL~s~L~~~~~~s~~t~Vnel----sgqI~~~g~~v~~vr~~L~eK- 167 (169)
T KOG4034|consen 97 PVYLDYKQR-GNKILTVIRKVEG---DIWALENDLRSTLEMSPKKSYATHVNEL----SGQIVLKGNHVDTVREWLQEK- 167 (169)
T ss_pred ceEEeeecC-CcEEEEEEEeecc---cHHHHHHHHHHHHhhccCCChhhhhhhh----cceEEEeCChHHHHHHHHHHc-
Confidence 455555444 9999999999986 455555555443321 1 224332 258999999999999999774
Q ss_pred CC
Q 011008 481 GI 482 (496)
Q Consensus 481 gi 482 (496)
|+
T Consensus 168 GF 169 (169)
T KOG4034|consen 168 GF 169 (169)
T ss_pred cC
Confidence 64
No 35
>PRK05429 gamma-glutamyl kinase; Provisional
Probab=89.89 E-value=0.49 Score=50.01 Aligned_cols=41 Identities=24% Similarity=0.288 Sum_probs=34.8
Q ss_pred CCCccccCCCCCCCCCCCCeEEEEeCCCCCeEEEEEeecChHHHH
Q 011008 1 MFPGISIPADGLPSFLSGEPWAVKVPGNPAPIAVGSTTMSSTEAL 45 (496)
Q Consensus 1 M~PGv~~~~~~~~~~~~g~~vaV~~~~~~~p~AVG~~~~~~~~~~ 45 (496)
|.|||+.-. ..|.+|++|.|... +..++|+|++.+|++++.
T Consensus 301 l~~Gi~~v~---g~f~~gd~V~i~~~-~g~~va~G~~~~~s~e~~ 341 (372)
T PRK05429 301 LPAGVTAVE---GDFSRGDVVRIVDP-DGREIARGLVNYSSDELR 341 (372)
T ss_pred CccchhheE---CcccCCCEEEEECC-CCCEEEEEEecCCHHHHH
Confidence 578988543 48999999999965 477899999999999985
No 36
>smart00653 eIF2B_5 domain present in translation initiation factor eIF2B and eIF5.
Probab=83.86 E-value=2.7 Score=36.79 Aligned_cols=61 Identities=13% Similarity=0.252 Sum_probs=45.7
Q ss_pred cceEEEEEEEecCCCcceEEeCcCCC----CCCHHHHHHHHhhhcccceEEecCCCCCCcEEEEcCCcHHHHHH
Q 011008 405 LKTIQIVTERRQGNKKMTKLSGLETF----LMDPEALASELQKKFACSTTVAELPGKKGQEVLIQGGVIADVAK 474 (496)
Q Consensus 405 ~~~I~I~~e~R~g~K~VT~V~gle~f----~id~~~lak~l~k~~a~s~sv~~~~~~k~~eV~vQG~~~~~v~~ 474 (496)
.|+.++.++ |+| -|++.||... +-+++-+.+.|.+-+++.+++.. + ....|+|.+...-.+
T Consensus 6 ~p~~~v~~e---G~~-kTvi~Nf~~I~~~L~R~p~hv~kyl~~ELgt~g~id~----~-~rlii~G~~~~~~i~ 70 (110)
T smart00653 6 MPPPQVLRE---GKG-KTVIVNFADIAKALNRPPDHVLKFLLAELGTQGSIDG----K-GRLIVNGRFTPKKLQ 70 (110)
T ss_pred cCCCeEEEE---cCC-eEEEEcHHHHHHHHCCCHHHHHHHHHHHhCCceeECC----C-CeEEEEEeeCHHHHH
Confidence 455555554 555 7999998544 56899999999999999999942 1 689999997665544
No 37
>PRK12336 translation initiation factor IF-2 subunit beta; Provisional
Probab=83.83 E-value=5 Score=38.77 Aligned_cols=82 Identities=16% Similarity=0.263 Sum_probs=55.6
Q ss_pred hhhHHHHHHHcccccEEEecCCccccccCCcceEEEEEEEecCCCcceEEeCcCCC----CCCHHHHHHHHhhhcccceE
Q 011008 375 KKDLGSTFVNRMQAHHVVSRGSQSVVRKGALKTIQIVTERRQGNKKMTKLSGLETF----LMDPEALASELQKKFACSTT 450 (496)
Q Consensus 375 r~~l~~~~l~~~~~~~~i~~~~~~~~~kG~~~~I~I~~e~R~g~K~VT~V~gle~f----~id~~~lak~l~k~~a~s~s 450 (496)
-++|++|+.+.+... . +.. .+=..|+.++.++ |+| |+|.||... +-+++-+.+.|..-++++++
T Consensus 3 Y~~lL~r~~~~l~~~---~--~~~--~R~~~p~~~v~~e---G~k--T~i~N~~~i~~~l~R~~~~~~ky~~~ELgt~~~ 70 (201)
T PRK12336 3 YESLLDRAMEVLPEP---T--KSG--ERFSIPEPKIFIE---GKT--TILTNFGEIADALNRDPDHLMKFLQRELGTAGK 70 (201)
T ss_pred HHHHHHHHHHHCCcc---c--CCc--cceecCCceEEEE---cCc--EEEecHHHHHHHHCCCHHHHHHHHHHHhCCcce
Confidence 367888887766431 1 110 1113556666554 543 999998544 55799999999999999999
Q ss_pred EecCCCCCCcEEEEcCCcHHHHHH
Q 011008 451 VAELPGKKGQEVLIQGGVIADVAK 474 (496)
Q Consensus 451 v~~~~~~k~~eV~vQG~~~~~v~~ 474 (496)
+. +....|+|.+...-.+
T Consensus 71 ~~------~~~~ii~G~~~~~~i~ 88 (201)
T PRK12336 71 IE------GGRAVFNGKFTEEDIQ 88 (201)
T ss_pred ec------CCEEEEEeeeCHHHHH
Confidence 83 3588999997665554
No 38
>TIGR01027 proB glutamate 5-kinase. Bacterial ProB proteins hit the full length of this model, but the ProB-like domain of delta 1-pyrroline-5-carboxylate synthetase does not hit the C-terminal 100 residues of this model. The noise cutoff is set low enough to hit delta 1-pyrroline-5-carboxylate synthetase and other partial matches to this family.
Probab=83.01 E-value=1.5 Score=46.20 Aligned_cols=41 Identities=27% Similarity=0.220 Sum_probs=34.4
Q ss_pred CCCccccCCCCCCCCCCCCeEEEEeCCCCCeEEEEEeecChHHHH
Q 011008 1 MFPGISIPADGLPSFLSGEPWAVKVPGNPAPIAVGSTTMSSTEAL 45 (496)
Q Consensus 1 M~PGv~~~~~~~~~~~~g~~vaV~~~~~~~p~AVG~~~~~~~~~~ 45 (496)
|.|||+.-. ..|.+|++|.|.... ..++|+|.+.+|++++.
T Consensus 293 l~~Gi~~v~---g~F~~gd~v~i~~~~-~~~ia~g~~~y~s~~~~ 333 (363)
T TIGR01027 293 LPAGIVGVE---GNFSRGEVVEILNPE-GQDIGRGLVNYSSDELE 333 (363)
T ss_pred CCccceeeE---CcccCCCEEEEECCC-CCEEEEEEecCCHHHHH
Confidence 578887543 489999999999754 67999999999999985
No 39
>PRK04270 H/ACA RNA-protein complex component Cbf5p; Reviewed
Probab=81.59 E-value=2.7 Score=43.09 Aligned_cols=32 Identities=25% Similarity=0.428 Sum_probs=28.6
Q ss_pred CCCeEEEEEeecChHHHHhcCCcccEEEEEEee
Q 011008 28 NPAPIAVGSTTMSSTEALKAGLRGKALRITHYY 60 (496)
Q Consensus 28 ~~~p~AVG~~~~~~~~~~~~~~kGkav~ilH~~ 60 (496)
+..++|||.+.++++++.. ..+|+||++.|.+
T Consensus 268 ~G~~LAIG~~~~ss~el~~-~~kG~~vk~~~~~ 299 (300)
T PRK04270 268 KGELVALGKALMDSDEILK-AEKGIVVDLERVF 299 (300)
T ss_pred CCcEEEEEEEccCHHHHHh-cCCceEEEEEEee
Confidence 4578999999999999964 5999999999986
No 40
>KOG2570 consensus SWI/SNF transcription activation complex subunit [Chromatin structure and dynamics; Transcription]
Probab=80.95 E-value=1.4 Score=46.51 Aligned_cols=37 Identities=19% Similarity=0.405 Sum_probs=35.2
Q ss_pred CHHHHHHHHHHHHHhCCCCCCCCCCceecCHHHHHHH
Q 011008 322 TFSEACDVVFNYIEKENLVKPTAKSIVVLDPTLSDAL 358 (496)
Q Consensus 322 t~~eiR~~l~~YI~~~~L~~~~~k~~V~LD~~L~~~l 358 (496)
|.+.|-.+|+.||+.|+|.++.++.+|..|..|.+++
T Consensus 225 Trp~iI~alWqYIk~n~Lqd~~e~~~incD~~l~qif 261 (420)
T KOG2570|consen 225 TRPDIVTALWQYIKTNKLQDPEDSDFINCDKALEQIF 261 (420)
T ss_pred cchHHHHHHHHHHHHhccCCcccchhhcchHHHHHhh
Confidence 7899999999999999999999999999999999974
No 41
>COG1370 Prefoldin, molecular chaperone implicated in de novo protein folding, alpha subunit [Posttranslational modification, protein turnover, chaperones]
Probab=74.00 E-value=7.5 Score=35.70 Aligned_cols=43 Identities=23% Similarity=0.247 Sum_probs=36.4
Q ss_pred CCCCCCCCeEEEEeCCCCCeEEEEEeecChHHHHhcCCcccEEEE
Q 011008 12 LPSFLSGEPWAVKVPGNPAPIAVGSTTMSSTEALKAGLRGKALRI 56 (496)
Q Consensus 12 ~~~~~~g~~vaV~~~~~~~p~AVG~~~~~~~~~~~~~~kGkav~i 56 (496)
-|++.+|+=|.|... +..-+|||.+.+|..+|. .-..|.||++
T Consensus 108 D~~iR~~dEvlVVne-~d~LlAvGra~ls~~E~~-~~~~G~AVkV 150 (155)
T COG1370 108 DEEIRAGDEVLVVNE-DDELLAVGRALLSGAEMR-EFERGMAVKV 150 (155)
T ss_pred CcccCCCCeEEEECC-CCcEEEeeeEeecHHHHh-hccccEEEEE
Confidence 378999999999855 455799999999999994 5789999987
No 42
>PF12872 OST-HTH: OST-HTH/LOTUS domain; PDB: 2KPM_A 3S93_B 3RCO_A 2KZV_A.
Probab=72.71 E-value=6 Score=31.13 Aligned_cols=71 Identities=15% Similarity=0.150 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHhhhcCCCCCCCCChhhhhhhcccCCCCCCCceeeeccccccHHHHHHHHhhCCceEEeeccCCCeeE
Q 011008 175 DAYLDKCLLQALHTTVKDKDLPMPGSTLWSNHILPCRPSGITLDIKKSSHKKLTKWLQAKSSAGLISVKEDKYKKESM 252 (496)
Q Consensus 175 D~ll~~all~al~~~~~~~~LPi~~S~F~s~~ilp~~P~~~~ldiKKSS~KK~skFLk~m~K~gll~~Ke~~~~g~~~ 252 (496)
+..+...+..+|...-.... ++..|.|-..|..-+ | .+|.+.==|++++.||+.| .+++.+++...++...
T Consensus 3 ~~~~~~~l~~ll~~~~~~~g-~v~ls~l~~~~~~~~-~---~f~~~~yG~~~l~~ll~~~--~~~~~i~~~~~g~~~~ 73 (74)
T PF12872_consen 3 LEELKKLLRELLESQKGEDG-WVSLSQLGQEYKKKY-P---DFDPRDYGFSSLSELLESL--PDVVEIEERQHGGQVY 73 (74)
T ss_dssp -HHHHHHHHHHHHHTCTTTS-SEEHHHHHHHHHHHH-T---T--TCCTTSSSHHHHHHT---TTTEEEEEEECCCC--
T ss_pred HHHHHHHHHHHHHhCcCCCc-eEEHHHHHHHHHHHC-C---CCCccccCCCcHHHHHHhC--CCeEEEeeeCCCCcCC
Confidence 34556666777743222122 888888888777655 5 3788888999999999876 7888886544455443
No 43
>PF01873 eIF-5_eIF-2B: Domain found in IF2B/IF5; InterPro: IPR002735 The beta subunit of archaeal and eukaryotic translation initiation factor 2 (IF2beta) and the N-terminal domain of translation initiation factor 5 (IF5) show significant sequence homology []. Archaeal IF2beta contains two independent structural domains: an N-terminal mixed alpha/beta core domain (topological similarity to the common core of ribosomal proteins L23 and L15e), and a C-terminal domain consisting of a zinc-binding C4 finger []. Archaeal IF2beta is a ribosome-dependent GTPase that stimulates the binding of initiator Met-tRNA(i)(Met) to the ribosomes, even in the absence of other factors []. The C-terminal domain of eukaryotic IF5 is involved in the formation of the multi-factor complex (MFC), an important intermediate for the 43S pre-initiation complex assembly []. IF5 interacts directly with IF1, IF2beta and IF3c, which together with IF2-bound Met-tRNA(i)(Met) form the MFC. This entry represents both the N-terminal and zinc-binding domains of IF2, as well as a domain in IF5.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2DCU_B 2D74_B 2E9H_A 2G2K_A 1NEE_A 3CW2_L 2QMU_C 3V11_C 2NXU_A 2QN6_C ....
Probab=67.67 E-value=4.9 Score=35.95 Aligned_cols=60 Identities=18% Similarity=0.272 Sum_probs=44.3
Q ss_pred CcceEEEEEEEecCCCcceEEeCcCCC----CCCHHHHHHHHhhhcccceEEecCCCCCCcEEEEcCCcHHHH
Q 011008 404 ALKTIQIVTERRQGNKKMTKLSGLETF----LMDPEALASELQKKFACSTTVAELPGKKGQEVLIQGGVIADV 472 (496)
Q Consensus 404 ~~~~I~I~~e~R~g~K~VT~V~gle~f----~id~~~lak~l~k~~a~s~sv~~~~~~k~~eV~vQG~~~~~v 472 (496)
+.|++.+..+ |+ .=|+|.||... +-+++-+++.|..-+++++++... ....|+|.|...-
T Consensus 18 kmP~~~v~~e---G~-~KTvi~Nf~dI~~~L~R~p~~~~ky~~~ELgt~~~id~~-----~~lii~G~~~~~~ 81 (125)
T PF01873_consen 18 KMPPPQVKIE---GK-KKTVIVNFVDICKALNRDPEHVLKYFGKELGTQGSIDGK-----GRLIINGRFSSKQ 81 (125)
T ss_dssp CCCT--EEEE---TS-TEEEETTHHHHHHHHTSSHHHHHHHHHHHSSSEEEEETT-----TEEEEESSSSCCH
T ss_pred ecCCCeEEEE---cc-ceeeeecHHHHHHHHCCCHHHHHHHHHHHHCCceEECCC-----CEEEEEEecCHHH
Confidence 4666776654 54 66889998644 458999999999999999999531 6899999965433
No 44
>PRK06319 DNA topoisomerase I/SWI domain fusion protein; Validated
Probab=59.41 E-value=8.8 Score=45.11 Aligned_cols=59 Identities=22% Similarity=0.421 Sum_probs=46.3
Q ss_pred cEEEEEeccCCCchhhhhccCCCCCCCcCHHHHHHHHHHHHHhCCCCCCCCCCceecCHHHHHHH
Q 011008 294 LEVTEVYKPSVHVNPIFASVGADTGRLYTFSEACDVVFNYIEKENLVKPTAKSIVVLDPTLSDAL 358 (496)
Q Consensus 294 ~~i~~lY~p~~~~~~~f~~~~~~~~~~yt~~eiR~~l~~YI~~~~L~~~~~k~~V~LD~~L~~~l 358 (496)
..+...|.|+..+..+... .-.+..++...|++||+.++|.++.|++.|.-|+-|..++
T Consensus 782 ~~~~~~~~~S~~La~~~g~------~~~sr~~~~~~lw~yIk~~~lqdp~~Kr~i~~d~kl~kvf 840 (860)
T PRK06319 782 KRAGPLYTPSPALAAMIGA------EPVGRGEATKKVWDYIKEHGLQSPENKKLIIPDSKLQGVI 840 (860)
T ss_pred cccccccccccccccccCc------CccCchHHHHHHHHHHHHhcccCccccccCCCchhhhhhh
Confidence 3445557787766666422 2468899999999999999999999999999999996544
No 45
>COG1549 Queuine tRNA-ribosyltransferases, contain PUA domain [Translation, ribosomal structure and biogenesis]
Probab=58.05 E-value=13 Score=40.49 Aligned_cols=32 Identities=25% Similarity=0.288 Sum_probs=27.9
Q ss_pred CCCeEEEEEeecChHHHHhcCCcccEEEEEEee
Q 011008 28 NPAPIAVGSTTMSSTEALKAGLRGKALRITHYY 60 (496)
Q Consensus 28 ~~~p~AVG~~~~~~~~~~~~~~kGkav~ilH~~ 60 (496)
.+..++||++.||..+| +...||.||++=|..
T Consensus 487 ~~~v~gVGrA~msg~eM-~~akkGiaV~VR~~~ 518 (519)
T COG1549 487 GGEVRGVGRAVMSGREM-VEAKKGIAVRVRRRK 518 (519)
T ss_pred CCeEEEEeeeecChHHh-cccCCceEEEEEecc
Confidence 45678999999999999 568899999998875
No 46
>cd08768 Cdc6_C Winged-helix domain of essential DNA replication protein Cell division control protein (Cdc6), which mediates DNA binding. This model characterizes the winged-helix, C-terminal domain of the Cell division control protein (Cdc6_C). Cdc6 (also known as Cell division cycle 6 or Cdc18) functions as a regulator at the early stages of DNA replication, by helping to recruit and load the Minichromosome Maintenance Complex (MCM) onto DNA and may have additional roles in the control of mitotic entry. Precise duplication of chromosomal DNA is required for genomic stability during replication. Cdc6 has an essential role in DNA replication and irregular expression of Cdc6 may lead to genomic instability. Cdc6 over-expression is observed in many cancerous lesions. DNA replication begins when an origin recognition complex (ORC) binds to a replication origin site on the chromatin. Studies indicate that Cdc6 interacts with ORC through the Orc1 subunit, and that this association increases
Probab=54.11 E-value=28 Score=28.14 Aligned_cols=60 Identities=12% Similarity=0.198 Sum_probs=44.7
Q ss_pred CCCChhhhhhhcccCCCCCCCceeeeccccccHHHHHHHHhhCCceEEeeccCCCe---eEEEEeeCC
Q 011008 195 LPMPGSTLWSNHILPCRPSGITLDIKKSSHKKLTKWLQAKSSAGLISVKEDKYKKE---SMLFSVNRG 259 (496)
Q Consensus 195 LPi~~S~F~s~~ilp~~P~~~~ldiKKSS~KK~skFLk~m~K~gll~~Ke~~~~g~---~~I~~vn~~ 259 (496)
=+.....+|..|--=|. ..+++.=+|..+..+|..++-.|||.++.. .+|- .....++.+
T Consensus 21 ~~~~~~~vy~~Y~~~c~----~~~~~~l~~~~~~~~l~~L~~~gli~~~~~-~~g~~g~~~~~~l~~~ 83 (87)
T cd08768 21 EEATTGEVYEVYEELCE----EIGVDPLTQRRISDLLSELEMLGLLETEVS-SKGRRGRTRKISLNVD 83 (87)
T ss_pred CCccHHHHHHHHHHHHH----HcCCCCCcHHHHHHHHHHHHHcCCeEEEEe-cCCCCceEEEEEecCC
Confidence 45788999998886554 246777899999999999999999998853 3333 555555543
No 47
>COG3432 Predicted transcriptional regulator [Transcription]
Probab=51.41 E-value=15 Score=31.32 Aligned_cols=34 Identities=21% Similarity=0.255 Sum_probs=27.5
Q ss_pred cccccHHHHHHHHhhCCceEEeeccCCCeeEEEE
Q 011008 222 SSHKKLTKWLQAKSSAGLISVKEDKYKKESMLFS 255 (496)
Q Consensus 222 SS~KK~skFLk~m~K~gll~~Ke~~~~g~~~I~~ 255 (496)
.+|+.+.++++.|.+.|++..++.+.++...||.
T Consensus 43 lny~~~~~yi~~L~~~Gli~~~~~~~~~~y~lT~ 76 (95)
T COG3432 43 LNYKRAQKYIEMLVEKGLIIKQDNGRRKVYELTE 76 (95)
T ss_pred cCHHHHHHHHHHHHhCCCEEeccCCccceEEECh
Confidence 4799999999999999988777544455777775
No 48
>PRK00411 cdc6 cell division control protein 6; Reviewed
Probab=34.53 E-value=62 Score=33.79 Aligned_cols=74 Identities=15% Similarity=0.261 Sum_probs=48.4
Q ss_pred HHHHHhhhcCCCCCCCCChhhhhhhcccCCCCCCCceeeeccccccHHHHHHHHhhCCceEEeec--cCCCeeEEEEeeC
Q 011008 181 CLLQALHTTVKDKDLPMPGSTLWSNHILPCRPSGITLDIKKSSHKKLTKWLQAKSSAGLISVKED--KYKKESMLFSVNR 258 (496)
Q Consensus 181 all~al~~~~~~~~LPi~~S~F~s~~ilp~~P~~~~ldiKKSS~KK~skFLk~m~K~gll~~Ke~--~~~g~~~I~~vn~ 258 (496)
.||.||........=++..+.+|..|-.=|.. ++++.-+|..+..+|..|+..|||..+.. ++.|-....+++.
T Consensus 300 ~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~----~~~~~~~~~~~~~~l~~L~~~glI~~~~~~~g~~g~~~~~~~~~ 375 (394)
T PRK00411 300 LLLRAIVRLLKKGGDEVTTGEVYEEYKELCEE----LGYEPRTHTRFYEYINKLDMLGIINTRYSGKGGRGRTRLISLSY 375 (394)
T ss_pred HHHHHHHHHHhcCCCcccHHHHHHHHHHHHHH----cCCCcCcHHHHHHHHHHHHhcCCeEEEEecCCCCCCeEEEEecC
Confidence 46666653221122367888888877655532 35555588899999999999999998743 2345566666553
No 49
>PF13545 HTH_Crp_2: Crp-like helix-turn-helix domain; PDB: 3LA2_A 3LA3_B 3LA7_A 3B02_A 3E97_A 2H6C_B 1OMI_A 2BGC_H 2BEO_A 2GAU_A ....
Probab=32.65 E-value=42 Score=26.20 Aligned_cols=30 Identities=20% Similarity=0.442 Sum_probs=23.7
Q ss_pred cccccHHHHHHHHhhCCceEEeeccCCCeeEEEE
Q 011008 222 SSHKKLTKWLQAKSSAGLISVKEDKYKKESMLFS 255 (496)
Q Consensus 222 SS~KK~skFLk~m~K~gll~~Ke~~~~g~~~I~~ 255 (496)
+|..-+++.|+.|+++|+|.++ ++...|.+
T Consensus 40 ~sr~tv~r~l~~l~~~g~I~~~----~~~i~I~d 69 (76)
T PF13545_consen 40 VSRETVSRILKRLKDEGIIEVK----RGKIIILD 69 (76)
T ss_dssp SCHHHHHHHHHHHHHTTSEEEE----TTEEEESS
T ss_pred CCHHHHHHHHHHHHHCCCEEEc----CCEEEECC
Confidence 4556799999999999999986 45666654
No 50
>PRK13402 gamma-glutamyl kinase; Provisional
Probab=29.78 E-value=63 Score=34.21 Aligned_cols=32 Identities=22% Similarity=0.226 Sum_probs=27.9
Q ss_pred CCCCCCCeEEEEeCCCCCeEEEEEeecChHHHH
Q 011008 13 PSFLSGEPWAVKVPGNPAPIAVGSTTMSSTEAL 45 (496)
Q Consensus 13 ~~~~~g~~vaV~~~~~~~p~AVG~~~~~~~~~~ 45 (496)
..|.+|++|.|... ....+|.|.+.+|++++.
T Consensus 306 g~F~~gd~v~i~~~-~g~~~~rg~~~y~s~~~~ 337 (368)
T PRK13402 306 GDFSVGDTILVRKG-DGTKLAKGKSNYSSCLLN 337 (368)
T ss_pred CEecCCCEEEEECC-CCCEEEEEEccCCHHHHH
Confidence 47999999999954 457899999999999985
No 51
>KOG0632 consensus Phytochelatin synthase [Inorganic ion transport and metabolism]
Probab=29.06 E-value=35 Score=34.80 Aligned_cols=26 Identities=38% Similarity=0.686 Sum_probs=23.1
Q ss_pred CCCCCCC-ceeeeccccccHHHHHHHH
Q 011008 209 PCRPSGI-TLDIKKSSHKKLTKWLQAK 234 (496)
Q Consensus 209 p~~P~~~-~ldiKKSS~KK~skFLk~m 234 (496)
|.||+|. ++..||-||-.++|+||+-
T Consensus 218 ~h~~~gl~tl~lkk~sw~~i~k~lk~~ 244 (388)
T KOG0632|consen 218 PHREPGLYTLSLKKESWINIAKYLKED 244 (388)
T ss_pred CCCCCceEEEEeccccHHHHHHHHHHh
Confidence 6677787 9999999999999999986
No 52
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=27.46 E-value=74 Score=25.54 Aligned_cols=30 Identities=23% Similarity=0.241 Sum_probs=21.8
Q ss_pred cccccHHHHHHHHhhCCceEEeeccCCCeeEEEE
Q 011008 222 SSHKKLTKWLQAKSSAGLISVKEDKYKKESMLFS 255 (496)
Q Consensus 222 SS~KK~skFLk~m~K~gll~~Ke~~~~g~~~I~~ 255 (496)
-+|+.+.++|+.+.+.|||+- .++...||.
T Consensus 31 L~~~~~~~yL~~L~~~gLI~~----~~~~Y~lTe 60 (77)
T PF14947_consen 31 LNYSTLKKYLKELEEKGLIKK----KDGKYRLTE 60 (77)
T ss_dssp --HHHHHHHHHHHHHTTSEEE----ETTEEEE-H
T ss_pred cCHHHHHHHHHHHHHCcCeeC----CCCEEEECc
Confidence 478899999999999999933 356666663
No 53
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=25.23 E-value=96 Score=31.94 Aligned_cols=70 Identities=11% Similarity=0.260 Sum_probs=46.2
Q ss_pred HHHHHhhhcCCCCCCCCChhhhhhhcccCCCCCCCceeeeccccccHHHHHHHHhhCCceEEeec--cCCCeeEEE
Q 011008 181 CLLQALHTTVKDKDLPMPGSTLWSNHILPCRPSGITLDIKKSSHKKLTKWLQAKSSAGLISVKED--KYKKESMLF 254 (496)
Q Consensus 181 all~al~~~~~~~~LPi~~S~F~s~~ilp~~P~~~~ldiKKSS~KK~skFLk~m~K~gll~~Ke~--~~~g~~~I~ 254 (496)
.+|.||........=++..+.+|..|-.-|. .++++.-++..+..+|..|+..|||.++.. +++|...+.
T Consensus 292 ~~l~ai~~~~~~~~~~~~~~~~~~~y~~~~~----~~~~~~~~~~~~~~~l~~l~~~gli~~~~~~~g~~g~~~~~ 363 (365)
T TIGR02928 292 LVLLAIANLAANDEDPFRTGEVYEVYKEVCE----DIGVDPLTQRRISDLLNELDMLGLVEAEERNKGRGGRTREY 363 (365)
T ss_pred HHHHHHHHHHhcCCCCccHHHHHHHHHHHHH----hcCCCCCcHHHHHHHHHHHHhcCCeEEEEEcCCCCCcEEEE
Confidence 3455554211113345777888887765554 345777889999999999999999998753 234554443
No 54
>PF09808 SNAPc_SNAP43: Small nuclear RNA activating complex (SNAPc), subunit SNAP43; InterPro: IPR019188 Members of this family are part of the SNAPc complex required for the transcription of both RNA polymerase II and III small-nuclear RNA genes. They bind to the proximal sequence element (PSE), a non-TATA-box basal promoter element common to these 2 types of genes. Furthermore, they also recruit TBP and BRF2 to the U6 snRNA TATA box. SNAPc consists of at least four stably associated subunits, SNAP43, SNAP45, SNAP50, and SNAP190. None of the three small subunits can bind to the PSE on their own [].
Probab=23.32 E-value=98 Score=29.45 Aligned_cols=88 Identities=16% Similarity=0.254 Sum_probs=61.8
Q ss_pred ChhhHHHHHHHHHHHHhhhcCCCCCCCCChhhhhhhccc----CCCCCCCceeeeccccccHHHHHHHHhhCCceEEe--
Q 011008 170 TTEDVDAYLDKCLLQALHTTVKDKDLPMPGSTLWSNHIL----PCRPSGITLDIKKSSHKKLTKWLQAKSSAGLISVK-- 243 (496)
Q Consensus 170 ~~e~mD~ll~~all~al~~~~~~~~LPi~~S~F~s~~il----p~~P~~~~ldiKKSS~KK~skFLk~m~K~gll~~K-- 243 (496)
+..+..++.+.+|..|+..-.....|-..+..+|.-|-| |+-|. ..|.|--++|+.+.+|.+.+...|...+-
T Consensus 42 ~~~e~~~f~~~~l~~~~~y~~~~~s~~~Rvg~lYlLY~LY~tQp~~~~-~kIrisl~~~~~l~~~~~~~~~~~~~d~~~i 120 (194)
T PF09808_consen 42 NQSELIEFMEELLQIALKYFLPPRSLQERVGGLYLLYALYNTQPCKPK-VKIRISLSDWEELLDFVQELKEEQHLDAYYI 120 (194)
T ss_pred ChHHHHHHHHHHHHHHHHHHccCccHHHHHHHHHHHHHHHhcCCCCCc-cceEECHHHHHHHHHHHHHHHHccchHHHHH
Confidence 445677888888888887656677888888999988874 55454 47888889999999999999877744311
Q ss_pred --eccCCCeeEEEEeeC
Q 011008 244 --EDKYKKESMLFSVNR 258 (496)
Q Consensus 244 --e~~~~g~~~I~~vn~ 258 (496)
.=...+...++.++.
T Consensus 121 ~~kL~~~~AF~f~a~~~ 137 (194)
T PF09808_consen 121 FRKLLQDKAFHFTAMDS 137 (194)
T ss_pred HHHHHHcCCEEEEeecc
Confidence 002245555555554
No 55
>PRK05412 putative nucleotide-binding protein; Reviewed
Probab=21.27 E-value=1.1e+02 Score=28.49 Aligned_cols=64 Identities=14% Similarity=0.285 Sum_probs=39.9
Q ss_pred CcceEEeCcCCCCCCHHHHHHHHhh-hcccceEEecCCCCCCcEEEEcCCcHH---HHHHHHHH-hcCCCCccEEEc
Q 011008 419 KKMTKLSGLETFLMDPEALASELQK-KFACSTTVAELPGKKGQEVLIQGGVIA---DVAKHLVE-QFGIPKRYIEVL 490 (496)
Q Consensus 419 K~VT~V~gle~f~id~~~lak~l~k-~~a~s~sv~~~~~~k~~eV~vQG~~~~---~v~~~L~~-~~gip~~~I~~~ 490 (496)
..|++..|++.- ..+++.+.++- ++-.-++| .|.+|-|.|..++ .|+.+|.+ .+++|-.|..+.
T Consensus 92 q~i~lk~GI~~e--~AKkIvK~IKd~klKVqa~I------QGd~vRVtgKkrDDLQ~viallk~~d~~~pLQF~NfR 160 (161)
T PRK05412 92 QEVKLKQGIDQE--LAKKIVKLIKDSKLKVQAQI------QGDQVRVTGKKRDDLQAVIALLRKADLGQPLQFNNFR 160 (161)
T ss_pred EEEehhhccCHH--HHHHHHHHHHhcCCceeEEe------cCcEEEEecCCHhHHHHHHHHHHhccCCCCceeccCC
Confidence 456777777642 23444444432 22344555 4789999996666 66677765 579998887653
No 56
>PRK14451 acylphosphatase; Provisional
Probab=20.91 E-value=3.6e+02 Score=22.36 Aligned_cols=61 Identities=20% Similarity=0.113 Sum_probs=40.0
Q ss_pred EeCcCCCCCCHHHHHHHHhhhcccceEEecCCCCCCcEEEEcCCc--HHHHHHHHHHhcCCCCccEE
Q 011008 424 LSGLETFLMDPEALASELQKKFACSTTVAELPGKKGQEVLIQGGV--IADVAKHLVEQFGIPKRYIE 488 (496)
Q Consensus 424 V~gle~f~id~~~lak~l~k~~a~s~sv~~~~~~k~~eV~vQG~~--~~~v~~~L~~~~gip~~~I~ 488 (496)
|+|.= -|+-..-++..+.++++-++.|.-.+.+ ..+|.+||+- .+...+.|. .|-|..-|+
T Consensus 9 V~G~V-QGVGFR~~~~~~A~~~gl~G~V~N~~dG-~Vei~~qG~~~~i~~f~~~l~--~gp~~a~V~ 71 (89)
T PRK14451 9 ISGRV-QGVWFRASAKKLAEQLMISGWARNLADG-RVEVFACGKEDKLEEFYTWLQ--KGPLNARVD 71 (89)
T ss_pred EEEee-CCcCchHHHHHHHHHhCCEEEEEECCCC-CEEEEEEECHHHHHHHHHHHh--hCCCceEEE
Confidence 44443 2666778899999999999999766543 2899999985 334444442 254444443
No 57
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=20.03 E-value=77 Score=22.60 Aligned_cols=19 Identities=26% Similarity=0.525 Sum_probs=16.0
Q ss_pred ccccHHHHHHHHhhCCceE
Q 011008 223 SHKKLTKWLQAKSSAGLIS 241 (496)
Q Consensus 223 S~KK~skFLk~m~K~gll~ 241 (496)
|+..+...|+.|.+.|+|+
T Consensus 30 s~~tv~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 30 SRSTVNRYLKKLEEKGLIE 48 (48)
T ss_dssp -HHHHHHHHHHHHHTTSEE
T ss_pred CHHHHHHHHHHHHHCcCcC
Confidence 5668999999999999985
Done!