Query 018714
Match_columns 351
No_of_seqs 133 out of 305
Neff 7.2
Searched_HMMs 46136
Date Fri Mar 29 03:25:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018714.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018714hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05633 DUF793: Protein of un 100.0 3.6E-66 7.7E-71 498.9 35.8 322 10-331 5-389 (389)
2 PF03087 DUF241: Arabidopsis p 100.0 9.2E-34 2E-38 261.3 22.5 224 67-330 2-231 (231)
3 PF05055 DUF677: Protein of un 99.9 1.6E-25 3.4E-30 215.4 21.1 294 36-331 1-336 (336)
4 TIGR02894 DNA_bind_RsfA transc 85.2 19 0.00041 31.4 11.3 99 229-327 48-155 (161)
5 PHA01750 hypothetical protein 73.6 24 0.00052 26.0 6.9 27 292-318 44-70 (75)
6 PF15546 DUF4653: Domain of un 65.6 68 0.0015 29.0 9.5 44 294-337 190-233 (239)
7 PF10018 Med4: Vitamin-D-recep 65.4 58 0.0013 29.0 9.4 41 292-332 24-64 (188)
8 PF10805 DUF2730: Protein of u 64.8 45 0.00097 26.9 7.8 54 263-316 45-98 (106)
9 PRK11637 AmiB activator; Provi 62.2 1.8E+02 0.0039 29.3 14.6 25 290-314 103-127 (428)
10 PF07956 DUF1690: Protein of U 55.5 69 0.0015 27.4 7.7 88 239-337 36-126 (142)
11 PHA02047 phage lambda Rz1-like 55.4 69 0.0015 25.5 6.9 47 290-336 34-80 (101)
12 KOG0994 Extracellular matrix g 54.2 89 0.0019 35.6 9.8 96 232-327 1169-1269(1758)
13 PF01601 Corona_S2: Coronaviru 52.6 81 0.0018 33.3 8.9 67 262-333 268-339 (610)
14 PF10393 Matrilin_ccoil: Trime 52.3 37 0.00079 23.5 4.4 24 290-313 23-46 (47)
15 PRK04654 sec-independent trans 49.4 44 0.00095 30.5 5.7 16 204-219 9-24 (214)
16 PF10157 DUF2365: Uncharacteri 48.3 1.8E+02 0.0039 25.1 11.0 75 37-125 58-132 (149)
17 PF04508 Pox_A_type_inc: Viral 47.5 21 0.00046 20.8 2.2 19 300-318 4-22 (23)
18 PRK11637 AmiB activator; Provi 46.7 3.2E+02 0.0069 27.5 13.5 34 287-320 93-126 (428)
19 PF07889 DUF1664: Protein of u 46.4 1.8E+02 0.0038 24.4 10.8 62 259-320 49-112 (126)
20 PF02403 Seryl_tRNA_N: Seryl-t 42.8 1.1E+02 0.0023 24.3 6.7 33 285-317 69-101 (108)
21 PF06825 HSBP1: Heat shock fac 41.8 95 0.0021 22.1 5.3 23 289-311 27-49 (54)
22 KOG4191 Histone acetyltransfer 40.6 1.8E+02 0.004 29.6 8.9 28 299-326 441-468 (516)
23 KOG0971 Microtubule-associated 40.6 1.3E+02 0.0029 33.3 8.5 30 294-324 459-488 (1243)
24 PF03670 UPF0184: Uncharacteri 38.1 1.9E+02 0.0041 22.5 7.7 45 289-333 32-76 (83)
25 PF03087 DUF241: Arabidopsis p 37.7 48 0.001 30.6 4.3 24 290-313 198-221 (231)
26 TIGR03185 DNA_S_dndD DNA sulfu 37.5 3.9E+02 0.0084 28.5 11.7 58 258-315 396-453 (650)
27 KOG3684 Ca2+-activated K+ chan 37.3 1.6E+02 0.0034 30.2 7.9 64 257-320 400-464 (489)
28 PF04380 BMFP: Membrane fusoge 37.0 1.2E+02 0.0026 23.1 5.7 30 282-311 49-78 (79)
29 PLN02320 seryl-tRNA synthetase 36.8 1.2E+02 0.0026 31.5 7.4 18 259-276 92-109 (502)
30 COG1382 GimC Prefoldin, chaper 36.4 1.6E+02 0.0034 24.5 6.6 45 289-333 69-113 (119)
31 KOG3335 Predicted coiled-coil 36.1 1.9E+02 0.0041 25.7 7.4 57 284-340 100-156 (181)
32 PLN02372 violaxanthin de-epoxi 35.4 2.2E+02 0.0048 28.8 8.5 35 298-332 402-438 (455)
33 TIGR02132 phaR_Bmeg polyhydrox 34.4 74 0.0016 28.3 4.6 32 289-320 71-102 (189)
34 PRK09343 prefoldin subunit bet 34.4 1.7E+02 0.0037 24.1 6.7 47 288-334 69-115 (121)
35 PRK00708 sec-independent trans 34.3 1.4E+02 0.003 27.3 6.5 16 204-219 9-24 (209)
36 PF11932 DUF3450: Protein of u 33.7 3.9E+02 0.0084 24.7 10.4 18 258-275 54-71 (251)
37 PHA01750 hypothetical protein 32.2 1.2E+02 0.0026 22.5 4.6 13 288-300 61-73 (75)
38 PF13887 MRF_C1: Myelin gene r 31.2 42 0.0009 21.8 1.9 22 290-311 14-35 (36)
39 PF11172 DUF2959: Protein of u 30.4 2.9E+02 0.0062 25.1 7.8 57 263-319 42-100 (201)
40 TIGR02338 gimC_beta prefoldin, 30.2 1.8E+02 0.0039 23.3 6.1 44 288-331 65-108 (110)
41 COG1730 GIM5 Predicted prefold 29.6 1.6E+02 0.0034 25.3 5.8 28 292-319 96-123 (145)
42 PRK05431 seryl-tRNA synthetase 29.2 1.9E+02 0.0042 29.2 7.3 28 287-314 70-97 (425)
43 smart00338 BRLZ basic region l 29.0 2.1E+02 0.0045 20.5 5.7 34 291-324 27-60 (65)
44 COG1579 Zn-ribbon protein, pos 28.8 4.5E+02 0.0097 24.6 9.1 65 258-324 8-72 (239)
45 COG3352 FlaC Putative archaeal 28.8 2.6E+02 0.0057 24.2 6.9 45 287-331 69-113 (157)
46 PF09177 Syntaxin-6_N: Syntaxi 28.5 2.9E+02 0.0062 21.6 6.9 42 288-329 37-87 (97)
47 PLN02678 seryl-tRNA synthetase 28.0 2.1E+02 0.0046 29.2 7.4 29 286-314 74-102 (448)
48 PF00509 Hemagglutinin: Haemag 26.8 3.7 8.1E-05 42.3 -5.3 29 303-331 402-430 (550)
49 PF05377 FlaC_arch: Flagella a 26.6 1.1E+02 0.0024 21.9 3.6 21 292-312 16-36 (55)
50 PF05531 NPV_P10: Nucleopolyhe 26.3 2.6E+02 0.0057 21.3 5.8 28 291-318 36-63 (75)
51 PF05377 FlaC_arch: Flagella a 26.3 1.9E+02 0.0042 20.6 4.8 15 260-274 7-21 (55)
52 PF05531 NPV_P10: Nucleopolyhe 26.1 3E+02 0.0065 21.0 6.4 31 288-318 23-56 (75)
53 PF07106 TBPIP: Tat binding pr 25.8 1.8E+02 0.004 25.1 5.8 24 288-311 114-137 (169)
54 PF10392 COG5: Golgi transport 25.6 3.9E+02 0.0084 22.1 9.3 43 287-329 69-111 (132)
55 KOG2264 Exostosin EXT1L [Signa 25.4 4.2E+02 0.0091 28.1 8.8 52 260-313 93-144 (907)
56 PF09006 Surfac_D-trimer: Lung 24.2 2E+02 0.0044 19.7 4.3 28 301-328 3-30 (46)
57 TIGR00414 serS seryl-tRNA synt 24.0 3E+02 0.0064 27.8 7.6 30 286-315 72-101 (418)
58 smart00502 BBC B-Box C-termina 23.5 3.6E+02 0.0079 21.1 7.3 46 286-331 75-121 (127)
59 COG2900 SlyX Uncharacterized p 23.4 2.3E+02 0.0049 21.4 4.9 31 292-322 24-54 (72)
60 PF00429 TLV_coat: ENV polypro 22.8 2.2E+02 0.0048 30.0 6.6 43 288-331 426-468 (561)
61 PRK01919 tatB sec-independent 22.5 3.4E+02 0.0073 24.0 6.6 16 204-219 9-24 (169)
62 smart00340 HALZ homeobox assoc 22.2 1.5E+02 0.0033 20.0 3.3 25 292-316 7-31 (44)
63 PF14723 SSFA2_C: Sperm-specif 22.1 4.4E+02 0.0095 23.4 7.2 32 289-320 144-175 (179)
64 PF05529 Bap31: B-cell recepto 21.8 4.8E+02 0.01 22.9 7.8 29 289-317 160-188 (192)
65 PF06419 COG6: Conserved oligo 21.5 7.8E+02 0.017 26.2 10.5 69 257-334 35-105 (618)
66 PF15449 Retinal: Retinal prot 21.3 5.5E+02 0.012 29.4 9.2 92 62-153 219-337 (1287)
67 PHA03386 P10 fibrous body prot 21.2 4.2E+02 0.0092 21.0 6.6 8 325-332 53-60 (94)
68 PF15136 UPF0449: Uncharacteri 21.1 1.4E+02 0.0031 23.8 3.7 28 288-315 69-96 (97)
69 COG3883 Uncharacterized protei 21.1 6.3E+02 0.014 24.0 8.5 59 260-320 52-110 (265)
70 cd00632 Prefoldin_beta Prefold 20.9 3.5E+02 0.0075 21.4 6.1 34 287-320 67-100 (105)
71 COG4026 Uncharacterized protei 20.4 4.9E+02 0.011 24.2 7.3 10 295-304 161-170 (290)
72 TIGR02976 phageshock_pspB phag 20.4 1.7E+02 0.0037 22.2 3.8 22 292-313 44-65 (75)
73 PF14389 Lzipper-MIP1: Leucine 20.2 2E+02 0.0042 22.4 4.3 36 288-323 52-87 (88)
74 COG3937 Uncharacterized conser 20.2 4.3E+02 0.0094 21.5 6.3 16 301-316 87-102 (108)
No 1
>PF05633 DUF793: Protein of unknown function (DUF793); InterPro: IPR008511 This entry includes Protein BYPASS 1 which is required for normal root and shoot development. Prevents constitutive production of a root mobile carotenoid-derived signaling compound that is capable of arresting shoot and leaf development [, ].
Probab=100.00 E-value=3.6e-66 Score=498.92 Aligned_cols=322 Identities=38% Similarity=0.609 Sum_probs=288.5
Q ss_pred CCCCCCCcccccC------CCCCC--CCCcchhhHHHHHHHHHHHHhhhCCCC--CCCcccHHHHHHHHHHHHHHHHHHH
Q 018714 10 PFFPFGNPFRMMS------PKGSR--LSPKLVSLLADFEETLAERLRKLMPKD--KDDILNLSWMRLAMESLCETHNVIK 79 (351)
Q Consensus 10 ~~~~~~~~~~~~~------~~~~~--~~~~~~p~l~~F~~~L~~rl~~L~~~~--~~~~lSl~wl~~~l~~L~~~h~~~~ 79 (351)
-|.+||+++.+++ |..+| .++.+++.++.|++++++||.+|.++. +++++|++||+++|+.++.||++|.
T Consensus 5 ~~~~~~~s~ls~rr~~~~~~~~~~~~~~~~~~~~L~~Fq~~va~rl~~L~~~~~~~~~~LSL~W~~~~ld~~l~~~~efr 84 (389)
T PF05633_consen 5 DYQGFGRSLLSLRRDQVHSMSHNHEQEAESLEAELEAFQRHVAERLSDLSPSSKDSDDFLSLSWMRKALDSFLCCHEEFR 84 (389)
T ss_pred ccccccchhhhccccCCCCCCCCcccccccchhhHHHHHHHHHHHHHHhccCcCcccccccHHHHHHHHHHHHHHHHHHH
Confidence 3455888887765 33333 345567799999999999999999885 3689999999999999999999999
Q ss_pred HHHhhcCC-CCC-chhhhHHHHHHhhhhhHHhHHHHHHHHHhhhhhhHHHHHHHHHhcCCC---ChhHHHHHHHhHhHHH
Q 018714 80 DLITELEL-PVS-DWDEKWIDVYLDISVNLLDICIAFSSVLTKVSQGHLLLQCVLHTLDSS---SPTQFGRACSSLDNWR 154 (351)
Q Consensus 80 ~Li~~~~l-p~~-~~~~k~vdeyLD~SlkLLDvCna~k~~l~~~k~~~~~lq~al~~l~~~---~~~~~~ra~~~l~~~~ 154 (351)
.+|++++. |++ +|++|||+||||+|+|+|||||+++++|+++++|++.+++|+|.+++. ++++++||+++|.+|.
T Consensus 85 ~li~~~~~~~~s~~~~dk~v~eylD~sVKlLDvCNA~~~gi~~lr~~~~ll~~al~~L~~~~~~~~~~~rRAr~aL~dl~ 164 (389)
T PF05633_consen 85 ALITNLRDLPLSKPPDDKWVDEYLDRSVKLLDVCNAIRDGISQLRQWQLLLQIALHALDSSRPLGEGQLRRARKALSDLK 164 (389)
T ss_pred HHHhcccccccCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHHH
Confidence 99999987 988 799999999999999999999999999999999999999999999986 7899999999999998
Q ss_pred Hhh-----------hccCccch--------------------------------HHHHHHHHHhhccCCCccccchhhHH
Q 018714 155 EHI-----------SSKNPRVE--------------------------------SCRSILDNLVASLDLPKVKNSAKGKV 191 (351)
Q Consensus 155 ~~~-----------~~~~~~i~--------------------------------~~~~~L~~~~~~l~~~k~~~~~~~~~ 191 (351)
..| .++|+.++ .|.++|+.|.++|..||.+++.++++
T Consensus 165 ~~~~~~~~~~~~~~~~rnrs~~r~~~~~~~~~~s~~~~~~~~~rsls~~vsr~wsa~~~Lq~m~~nL~~Pk~~esak~~g 244 (389)
T PF05633_consen 165 IAMLDDKDSGSSGGSHRNRSFGRSNSSGRRSSSSSGSRSAGHFRSLSWSVSRNWSAARQLQAMGENLVLPKGKESAKGRG 244 (389)
T ss_pred HHHhcccccCcccccccccccccccCCCCCCCCccccCCcccchhhhhhhhhhhhhHHHHHHHHhcCCCCCCccccccch
Confidence 765 12333221 36789999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCcccc-cccc-cCCCCCchHHHHHHHHHHHHHHHhhhhcCcchhHhHHHHHHHHH
Q 018714 192 LMRAMYGVKVLTVFVCSIFAAAFSGSAKNL-LELN-VSDTLPWAPAFSALQANVNAEVRNILSSGRATVLNELEAVDGSV 269 (351)
Q Consensus 192 l~~~l~~~~~vt~~v~~~Ll~als~~~~~~-~~~~-vp~~~~Ws~~~~~Lq~rv~~e~~~~~~~g~~~~l~El~~vd~av 269 (351)
++.++|+|++||+||||+|++|++|+++.+ .++. +|++++|+.+|..||++|++|+++++++|+++.++||++|++++
T Consensus 245 L~~A~Y~m~~vtvFV~~vlVAA~pc~~rgL~~~l~~vP~~~~WA~s~~~LQ~rI~eEikkk~~kgs~gLLkEl~~ve~~v 324 (389)
T PF05633_consen 245 LLRAMYGMKSVTVFVCWVLVAAFPCQDRGLQVHLSAVPRQFSWAPSFISLQERINEEIKKKERKGSCGLLKELQQVEASV 324 (389)
T ss_pred HHHHHHHHHHHHHHHHHHHHHeeecCCccccCCCCCCccccccchHHHHHHHHHHHHHhhccccCcchHHHHHHHHHHHH
Confidence 999999999999999999999999998755 5888 89999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhh---ccchHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHhHHHHHHHHhHHHHHhhh
Q 018714 270 KKLYEVIQN---EVDTVEEELLQKSVLDLGKRADNLSQGLDHLTKAVDGFFKIVLSGRDALLCNL 331 (351)
Q Consensus 270 ~~L~~~i~~---~~~~e~~~~~~~~veel~~~~e~Le~gle~Le~~vd~lFr~li~~R~~LL~~l 331 (351)
++|+..++. +..+|+++++++.|+||++.++.|++|||+|++|||++||+||++|+++|+.|
T Consensus 325 r~L~el~d~~~~p~~~e~~~ev~~~V~EL~~~~~~L~~GLdpLerqVre~Fh~IV~sR~elLd~l 389 (389)
T PF05633_consen 325 RELHELIDSFQFPLEEEKEEEVREAVEELARVCEALSQGLDPLERQVREVFHRIVRSRTELLDSL 389 (389)
T ss_pred HHHHHHHHhccCCcchhHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHhhHHHHhcC
Confidence 999987765 44567788999999999999999999999999999999999999999999975
No 2
>PF03087 DUF241: Arabidopsis protein of unknown function; InterPro: IPR004320 This family represents plant proteins of unknown function.
Probab=100.00 E-value=9.2e-34 Score=261.26 Aligned_cols=224 Identities=21% Similarity=0.339 Sum_probs=179.5
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCCC------chhhhHHHHHHhhhhhHHhHHHHHHHHHhhhhhhHHHHHHHHHhcCCCCh
Q 018714 67 AMESLCETHNVIKDLITELELPVS------DWDEKWIDVYLDISVNLLDICIAFSSVLTKVSQGHLLLQCVLHTLDSSSP 140 (351)
Q Consensus 67 ~l~~L~~~h~~~~~Li~~~~lp~~------~~~~k~vdeyLD~SlkLLDvCna~k~~l~~~k~~~~~lq~al~~l~~~~~ 140 (351)
.|..|.++|+|+++|+ ++|.+ .+ +||||++||+|++|||+|++++|.+.++|++++++|+|+||.++ ++
T Consensus 2 gL~~L~~Ly~~~~ell---~lp~tq~al~~~~-~k~ve~lLd~sL~LLD~c~~~rd~ll~lKe~v~eLqsalRRr~~-~~ 76 (231)
T PF03087_consen 2 GLSGLKDLYECLEELL---QLPSTQQALSHHQ-EKWVEELLDGSLRLLDACGTFRDALLQLKEHVQELQSALRRRDD-GS 76 (231)
T ss_pred chhHHHHHHHHHHHHH---cCCHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc-hh
Confidence 5788999999999999 99987 34 79999999999999999999999999999999999999999983 22
Q ss_pred hHHHHHHHhHhHHHHhhhccCccchHHHHHHHHHhhccCCCccccchhhHHHHHHHHHHHHHHHHHHHHHHHhhcCCccc
Q 018714 141 TQFGRACSSLDNWREHISSKNPRVESCRSILDNLVASLDLPKVKNSAKGKVLMRAMYGVKVLTVFVCSIFAAAFSGSAKN 220 (351)
Q Consensus 141 ~~~~ra~~~l~~~~~~~~~~~~~i~~~~~~L~~~~~~l~~~k~~~~~~~~~l~~~l~~~~~vt~~v~~~Ll~als~~~~~ 220 (351)
+.-.+++|..+++.+ +|.+.|+...|+.+.++ ..+...+...+..++.+++++..+|+.+|.+++.+|+.|...
T Consensus 77 --~~~~i~sy~~~rKk~---kK~i~K~~~~lk~~~~~-~~~~~~~~~~~~~vv~~l~ea~~~t~si~~sll~~ls~~~~~ 150 (231)
T PF03087_consen 77 --IESEIASYIRSRKKA---KKEIAKLLRSLKRMSNK-SSSSNDDDEHLSAVVRVLREAREITVSIFESLLSFLSSPSKK 150 (231)
T ss_pred --HHHHHHHHHHHHHHH---HHHHHHHHHHHHhhhcc-cCCCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccc
Confidence 344455566666777 66788888889998876 222111111245589999999999999999999999986554
Q ss_pred ccccccCCCCCchHHHHHHHHHHHHHHHhhhhcCcchhHhHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHH
Q 018714 221 LLELNVSDTLPWAPAFSALQANVNAEVRNILSSGRATVLNELEAVDGSVKKLYEVIQNEVDTVEEELLQKSVLDLGKRAD 300 (351)
Q Consensus 221 ~~~~~vp~~~~Ws~~~~~Lq~rv~~e~~~~~~~g~~~~l~El~~vd~av~~L~~~i~~~~~~e~~~~~~~~veel~~~~e 300 (351)
|+..+|+......+++..++.. ....+|++.++.+... +. +.++..++.+|
T Consensus 151 ------~~~~~wslvsk~~~~~~~~~~~-------~~~~~e~~~~d~~~~~---------~~-------e~~~~~~~~Le 201 (231)
T PF03087_consen 151 ------SKSSKWSLVSKLMQKKRSCDSS-------EENRNEFEKVDAALKS---------DE-------EEVQNAQKRLE 201 (231)
T ss_pred ------ccccchhHHHHHHhcccccchh-------HHHHHHHHHHHHHhhh---------hh-------HHHHHHHHHHH
Confidence 5678898776666665432211 1256899999987643 11 33778899999
Q ss_pred HHhhchHHHHHHHhHHHHHHHHhHHHHHhh
Q 018714 301 NLSQGLDHLTKAVDGFFKIVLSGRDALLCN 330 (351)
Q Consensus 301 ~Le~gle~Le~~vd~lFr~li~~R~~LL~~ 330 (351)
+||.+|++||.++|++||+||++||+||||
T Consensus 202 ~LE~~Ie~lE~glE~vFR~LIktRVSLLNI 231 (231)
T PF03087_consen 202 ELEECIEELEEGLECVFRRLIKTRVSLLNI 231 (231)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 999999999999999999999999999997
No 3
>PF05055 DUF677: Protein of unknown function (DUF677); InterPro: IPR007749 This entry contains proteins belonging to the UPF0496 family, found in plants. This family includes AT14A like proteins from Arabidopsis thaliana. At14a contains a small domain that has sequence similarities to integrins from fungi, insects and humans. Transcripts of At14a are found in all Arabidopsis tissues and the protein localises partly to the plasma membrane [].
Probab=99.94 E-value=1.6e-25 Score=215.43 Aligned_cols=294 Identities=19% Similarity=0.298 Sum_probs=221.8
Q ss_pred HHHHHHHHHHHHhhhCCCCC--C--CcccHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCchhh----hHHHHHHhhhhhH
Q 018714 36 LADFEETLAERLRKLMPKDK--D--DILNLSWMRLAMESLCETHNVIKDLITELELPVSDWDE----KWIDVYLDISVNL 107 (351)
Q Consensus 36 l~~F~~~L~~rl~~L~~~~~--~--~~lSl~wl~~~l~~L~~~h~~~~~Li~~~~lp~~~~~~----k~vdeyLD~SlkL 107 (351)
+++||+.|++|+++++.+.+ . .++|++++.+..++|+++++++.+.|++++.. .|++ .+|.+|||.|.+.
T Consensus 1 l~~fd~~l~~~t~~~i~sl~~~~~~~s~s~~s~~~~t~~Lle~~Qevv~~ile~~~d--i~~~~~L~~Lv~~YFd~S~~a 78 (336)
T PF05055_consen 1 LQSFDSSLQERTNRVISSLATGVETRSLSFDSLKEVTECLLEMNQEVVKVILECKKD--IWKNPELFRLVSDYFDSSLEA 78 (336)
T ss_pred CCCccHHHHHHHHHHHHHhhhccccCCCChHHHHHHHHHHhCCChHHHHHHHHHHHH--hhcChhHHHHHHHHHHhhHHH
Confidence 46899999999999998742 2 45789999999999999999999999998876 4554 5999999999999
Q ss_pred HhHHHHHHHHHhhhhhhHHHHHHHHHhcCCCChh-----HHHHHHHhHhHHHHhhhccCccchH-HHHHHHH-------H
Q 018714 108 LDICIAFSSVLTKVSQGHLLLQCVLHTLDSSSPT-----QFGRACSSLDNWREHISSKNPRVES-CRSILDN-------L 174 (351)
Q Consensus 108 LDvCna~k~~l~~~k~~~~~lq~al~~l~~~~~~-----~~~ra~~~l~~~~~~~~~~~~~i~~-~~~~L~~-------~ 174 (351)
+|+|+++..||.+++.+++.++.|+..++..+.. .-.++.+++.++.++...+||+... ...+++. |
T Consensus 79 ~~~C~~L~k~I~~aR~~~~~I~~al~~~~~e~~~~d~g~~~~~~~~tl~eL~~F~~~~NPFs~~~~~~~F~~i~~~~~~L 158 (336)
T PF05055_consen 79 SDFCEALLKCIHRARDNYLPIRRALKQFEKESLDTDVGVSQKKYDKTLEELKKFKAAGNPFSDEEFFHQFQSIHDQQSSL 158 (336)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHhhhhccccccccccchhHHHHHHHHHhhhhcCCCCCchhHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999654321 1245566789999999999996544 3333332 2
Q ss_pred hhccCCC-----ccccchhh-HHHHHHHHHHHHHHHHHHHHHHHhhcCCcc-ccc-ccccCCC--CCchH-HHHHHHHHH
Q 018714 175 VASLDLP-----KVKNSAKG-KVLMRAMYGVKVLTVFVCSIFAAAFSGSAK-NLL-ELNVSDT--LPWAP-AFSALQANV 243 (351)
Q Consensus 175 ~~~l~~~-----k~~~~~~~-~~l~~~l~~~~~vt~~v~~~Ll~als~~~~-~~~-~~~vp~~--~~Ws~-~~~~Lq~rv 243 (351)
.++|... |+....++ +.+.++++.+.++++.|+++++++++.|+. .++ ...+|-. ++|.. .+.++...+
T Consensus 159 l~kL~~~k~Kl~kklk~~r~~~kvs~v~fvaa~~aV~i~svv~aa~a~~~vv~~aa~~a~P~~~~gkw~~~~~~k~~~al 238 (336)
T PF05055_consen 159 LEKLDSRKKKLRKKLKLVRTWRKVSNVCFVAAFVAVAIASVVAAAHAVPAVVALAAALAAPIGSVGKWCGSLWKKYEEAL 238 (336)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHccchHHHhHHHHHHHHHHHHHH
Confidence 2233211 22123333 568899999999999999999999976653 222 2334543 45743 344443222
Q ss_pred HH--HHHhhhhcCcchhHhHHHHHHHHHHHHHHHHhhcc-------c-hHHHHHHHHHHHHHHHHHHHHhhchHHHHHHH
Q 018714 244 NA--EVRNILSSGRATVLNELEAVDGSVKKLYEVIQNEV-------D-TVEEELLQKSVLDLGKRADNLSQGLDHLTKAV 313 (351)
Q Consensus 244 ~~--e~~~~~~~g~~~~l~El~~vd~av~~L~~~i~~~~-------~-~e~~~~~~~~veel~~~~e~Le~gle~Le~~v 313 (351)
.. +.-....+|++++.++|+.|...|.+|...|+... . .++...++..|++++++.+.|.+-||+||+++
T Consensus 239 ~~~~~~l~~aakGtyI~~~DldTIsrLV~RL~deIE~~~~~v~fave~~~d~~~vk~vv~el~k~~~~f~~qleELeehv 318 (336)
T PF05055_consen 239 KKQKEQLDAAAKGTYILIKDLDTISRLVDRLEDEIEHMKALVDFAVERGEDEEAVKEVVKELKKNVESFTEQLEELEEHV 318 (336)
T ss_pred HHHHHHHHHHHhccchHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence 21 11112236999999999999999999999887521 1 12234689999999999999999999999999
Q ss_pred hHHHHHHHHhHHHHHhhh
Q 018714 314 DGFFKIVLSGRDALLCNL 331 (351)
Q Consensus 314 d~lFr~li~~R~~LL~~l 331 (351)
.-+|+.|-++|..+|+-|
T Consensus 319 ~lC~~tInrAR~lVlq~I 336 (336)
T PF05055_consen 319 YLCFKTINRARTLVLQEI 336 (336)
T ss_pred HHHHHHHHHHHHHHHhhC
Confidence 999999999999998753
No 4
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=85.15 E-value=19 Score=31.42 Aligned_cols=99 Identities=16% Similarity=0.180 Sum_probs=58.5
Q ss_pred CCCchHHH-HHHHHHHHHHHHhhhhcCcchhHhHHHHHHHHHHHHHHHHhhc--c------chHHHHHHHHHHHHHHHHH
Q 018714 229 TLPWAPAF-SALQANVNAEVRNILSSGRATVLNELEAVDGSVKKLYEVIQNE--V------DTVEEELLQKSVLDLGKRA 299 (351)
Q Consensus 229 ~~~Ws~~~-~~Lq~rv~~e~~~~~~~g~~~~l~El~~vd~av~~L~~~i~~~--~------~~e~~~~~~~~veel~~~~ 299 (351)
||.|++.+ +.|++.|..--+.+.........-.++.|=.-++.+....... . -.++.+.++..++.|++..
T Consensus 48 GFRWNs~VRkqY~~~i~~AKkqRk~~~~~~~~ltl~~vI~fLq~l~~~~~~~~~~~~e~~~l~~e~~~l~~~~e~Le~e~ 127 (161)
T TIGR02894 48 GFRWNAYVRKQYEEAIELAKKQRKELKREAGSLTLQDVISFLQNLKTTNPSDQALQKENERLKNQNESLQKRNEELEKEL 127 (161)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHhccccCcccCCHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 58997655 4577776422111111111111223555555666655421100 0 0123345777888888888
Q ss_pred HHHhhchHHHHHHHhHHHHHHHHhHHHH
Q 018714 300 DNLSQGLDHLTKAVDGFFKIVLSGRDAL 327 (351)
Q Consensus 300 e~Le~gle~Le~~vd~lFr~li~~R~~L 327 (351)
+.|...+..+++.-..|+..+=++|...
T Consensus 128 ~~L~~~~~~~~eDY~~L~~Im~RARkl~ 155 (161)
T TIGR02894 128 EKLRQRLSTIEEDYQTLIDIMDRARKLA 155 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 8888888888999999999999999855
No 5
>PHA01750 hypothetical protein
Probab=73.57 E-value=24 Score=26.05 Aligned_cols=27 Identities=19% Similarity=0.304 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHhhchHHHHHHHhHHHH
Q 018714 292 VLDLGKRADNLSQGLDHLTKAVDGFFK 318 (351)
Q Consensus 292 veel~~~~e~Le~gle~Le~~vd~lFr 318 (351)
..+|+..++++....|.++++|.++-+
T Consensus 44 LdNL~~ei~~~kikqDnl~~qv~eik~ 70 (75)
T PHA01750 44 LDNLKTEIEELKIKQDELSRQVEEIKR 70 (75)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 344444444444444444444444433
No 6
>PF15546 DUF4653: Domain of unknown function (DUF4653)
Probab=65.57 E-value=68 Score=29.02 Aligned_cols=44 Identities=18% Similarity=0.249 Sum_probs=36.6
Q ss_pred HHHHHHHHHhhchHHHHHHHhHHHHHHHHhHHHHHhhhhcCCCC
Q 018714 294 DLGKRADNLSQGLDHLTKAVDGFFKIVLSGRDALLCNLRATGTA 337 (351)
Q Consensus 294 el~~~~e~Le~gle~Le~~vd~lFr~li~~R~~LL~~l~~~~~~ 337 (351)
.|-+++..|...+-+-...+.+-|+.|+..|++|+..+-+....
T Consensus 190 ALl~Wir~LQ~~~~dQQ~RLQeSFDtILdnRKELiRclqq~~~p 233 (239)
T PF15546_consen 190 ALLRWIRGLQHQLVDQQNRLQESFDTILDNRKELIRCLQQRAAP 233 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHcccCC
Confidence 45677888888888888888999999999999999999875443
No 7
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=65.38 E-value=58 Score=28.98 Aligned_cols=41 Identities=15% Similarity=0.184 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHhhchHHHHHHHhHHHHHHHHhHHHHHhhhh
Q 018714 292 VLDLGKRADNLSQGLDHLTKAVDGFFKIVLSGRDALLCNLR 332 (351)
Q Consensus 292 veel~~~~e~Le~gle~Le~~vd~lFr~li~~R~~LL~~l~ 332 (351)
-+++...+..|+..++.++.++.++=+.|..+|..|-..+.
T Consensus 24 hq~~~~~I~~L~~e~~~ld~~i~~~~~~L~~~~~~L~~~~~ 64 (188)
T PF10018_consen 24 HQENQARIQQLRAEIEELDEQIRDILKQLKEARKELRTLPD 64 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667778888888888888899999999999999988883
No 8
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=64.80 E-value=45 Score=26.93 Aligned_cols=54 Identities=17% Similarity=0.179 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHhHH
Q 018714 263 EAVDGSVKKLYEVIQNEVDTVEEELLQKSVLDLGKRADNLSQGLDHLTKAVDGF 316 (351)
Q Consensus 263 ~~vd~av~~L~~~i~~~~~~e~~~~~~~~veel~~~~e~Le~gle~Le~~vd~l 316 (351)
...+.-+..+...++.--+.++...++..+.++...+..++..+++++.+++-+
T Consensus 45 ~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~l~~v~~~~~lL 98 (106)
T PF10805_consen 45 DEHDRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELSARLQGVSHQLDLL 98 (106)
T ss_pred HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 334445555544444321234555677788888888888888888876666544
No 9
>PRK11637 AmiB activator; Provisional
Probab=62.16 E-value=1.8e+02 Score=29.26 Aligned_cols=25 Identities=16% Similarity=0.178 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHhhchHHHHHHHh
Q 018714 290 KSVLDLGKRADNLSQGLDHLTKAVD 314 (351)
Q Consensus 290 ~~veel~~~~e~Le~gle~Le~~vd 314 (351)
..++.++..+..++.-|+...+.+.
T Consensus 103 ~ei~~l~~eI~~~q~~l~~~~~~l~ 127 (428)
T PRK11637 103 KQIDELNASIAKLEQQQAAQERLLA 127 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444444444444333333333
No 10
>PF07956 DUF1690: Protein of Unknown function (DUF1690) ; InterPro: IPR012471 Family of uncharacterised fungal proteins.
Probab=55.50 E-value=69 Score=27.38 Aligned_cols=88 Identities=17% Similarity=0.237 Sum_probs=44.3
Q ss_pred HHHHHHHHHHhhhhcCcchhHhHHHHHHHHHHH-HHHHHhhcc--chHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHhH
Q 018714 239 LQANVNAEVRNILSSGRATVLNELEAVDGSVKK-LYEVIQNEV--DTVEEELLQKSVLDLGKRADNLSQGLDHLTKAVDG 315 (351)
Q Consensus 239 Lq~rv~~e~~~~~~~g~~~~l~El~~vd~av~~-L~~~i~~~~--~~e~~~~~~~~veel~~~~e~Le~gle~Le~~vd~ 315 (351)
+|.||++|+.+.. -.|...++.++.. +... +... .......+...|+.|...++... .++.+....
T Consensus 36 iq~Rva~eL~~L~-------~~~~~~~~~~l~~~~~~e-d~~~~~~~lSs~~v~~~i~~L~~kLe~~~-kl~~~~~~~-- 104 (142)
T PF07956_consen 36 IQERVAEELKRLE-------EEELKKFEEALEKSLLSE-DEKDQDPGLSSKSVNEEIEKLREKLEERK-KLRELKEEK-- 104 (142)
T ss_pred HHHHHHHHHHHHH-------HHHHHHHHHHHHHhhccc-ccccccccccHHHHHHHHHHHHHHHHHHH-HHHhccccc--
Confidence 4999999987643 2344555544432 1110 0000 01112234455555555555442 222222221
Q ss_pred HHHHHHHhHHHHHhhhhcCCCC
Q 018714 316 FFKIVLSGRDALLCNLRATGTA 337 (351)
Q Consensus 316 lFr~li~~R~~LL~~l~~~~~~ 337 (351)
-+..+-.+|..|..+|+..+..
T Consensus 105 ~~~~v~~aR~~vv~CL~~N~~r 126 (142)
T PF07956_consen 105 NSEEVEKARSAVVRCLRENDGR 126 (142)
T ss_pred cchhhHHHHHHHHHHHHHCCCC
Confidence 2345678899999999876653
No 11
>PHA02047 phage lambda Rz1-like protein
Probab=55.39 E-value=69 Score=25.53 Aligned_cols=47 Identities=13% Similarity=0.063 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHHhhchHHHHHHHhHHHHHHHHhHHHHHhhhhcCCC
Q 018714 290 KSVLDLGKRADNLSQGLDHLTKAVDGFFKIVLSGRDALLCNLRATGT 336 (351)
Q Consensus 290 ~~veel~~~~e~Le~gle~Le~~vd~lFr~li~~R~~LL~~l~~~~~ 336 (351)
..++++...+|.++..+..+.++|+.+-.+--+.|.++++-|...+.
T Consensus 34 ~~a~~la~qLE~a~~r~~~~Q~~V~~l~~kae~~t~Ei~~aL~~n~~ 80 (101)
T PHA02047 34 EEAKRQTARLEALEVRYATLQRHVQAVEARTNTQRQEVDRALDQNRP 80 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 44778888888889999999999999999999999999999975443
No 12
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=54.24 E-value=89 Score=35.61 Aligned_cols=96 Identities=10% Similarity=0.210 Sum_probs=0.0
Q ss_pred chHHHHHHHHHHHHHHHhhhhcCcchhH----hHHHHHHHHHHHHHHHHhh-ccchHHHHHHHHHHHHHHHHHHHHhhch
Q 018714 232 WAPAFSALQANVNAEVRNILSSGRATVL----NELEAVDGSVKKLYEVIQN-EVDTVEEELLQKSVLDLGKRADNLSQGL 306 (351)
Q Consensus 232 Ws~~~~~Lq~rv~~e~~~~~~~g~~~~l----~El~~vd~av~~L~~~i~~-~~~~e~~~~~~~~veel~~~~e~Le~gl 306 (351)
|-..+..|+.|...=+.+...-...+++ .+|..++..++..+..+.. .+..+..+.+....++|++.+.++.+.|
T Consensus 1169 WD~il~~L~~rt~rl~~~A~~l~~tGv~gay~s~f~~me~kl~~ir~il~~~svs~~~i~~l~~~~~~lr~~l~~~~e~L 1248 (1758)
T KOG0994|consen 1169 WDAILQELALRTHRLINRAKELKQTGVLGAYASRFLDMEEKLEEIRAILSAPSVSAEDIAQLASATESLRRQLQALTEDL 1248 (1758)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhccCchhhHhHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHHHHHHhhh
Q ss_pred HHHHHHHhHHHHHHHHhHHHH
Q 018714 307 DHLTKAVDGFFKIVLSGRDAL 327 (351)
Q Consensus 307 e~Le~~vd~lFr~li~~R~~L 327 (351)
-.+|..+.++...+--+-+.|
T Consensus 1249 ~~~E~~Lsdi~~~~~~a~~~L 1269 (1758)
T KOG0994|consen 1249 PQEEETLSDITNSLPLAGKDL 1269 (1758)
T ss_pred hhhhhhhhhhhhccchhhhhH
No 13
>PF01601 Corona_S2: Coronavirus S2 glycoprotein; InterPro: IPR002552 The type I glycoprotein S of Coronavirus, trimers of which constitute the typical viral spikes, is assembled into virions through noncovalent interactions with the M protein. The spike glycoprotein is translated as a large polypeptide that is subsequently cleaved to S1 IPR002551 from INTERPRO and S2 []. Both chimeric S proteins appeared to cause cell fusion when expressed individually, suggesting that they were biologically fully active []. The spike is a type I membrane glycoprotein that possesses a conserved transmembrane anchor and an unusual cysteine-rich (cys) domain that bridges the putative junction of the anchor and the cytoplasmic tail [].; GO: 0006944 cellular membrane fusion, 0046813 virion attachment, binding of host cell surface receptor, 0016021 integral to membrane, 0019031 viral envelope; PDB: 2BEQ_B 2FXP_A 1ZVB_A 1WNC_D 1ZV8_H 1ZV7_B 1WYY_B 1ZVA_A 2BEZ_F 1WDG_A ....
Probab=52.57 E-value=81 Score=33.27 Aligned_cols=67 Identities=16% Similarity=0.280 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHhHHH-----HHHHHhHHHHHhhhhc
Q 018714 262 LEAVDGSVKKLYEVIQNEVDTVEEELLQKSVLDLGKRADNLSQGLDHLTKAVDGFF-----KIVLSGRDALLCNLRA 333 (351)
Q Consensus 262 l~~vd~av~~L~~~i~~~~~~e~~~~~~~~veel~~~~e~Le~gle~Le~~vd~lF-----r~li~~R~~LL~~l~~ 333 (351)
|..+..|+.++... + ..+.+.+...+..|...+++....|++|-..+|.+- +|||.||.+-||.+-.
T Consensus 268 ~~t~~~Al~KiQ~V----V-N~q~~aL~~L~~qL~nnF~AISssI~dIy~RLd~leAdaQVDRLItGRL~aLnafVt 339 (610)
T PF01601_consen 268 FTTTASALNKIQDV----V-NQQGQALNQLTSQLSNNFGAISSSIQDIYNRLDQLEADAQVDRLITGRLAALNAFVT 339 (610)
T ss_dssp HHHHHHHHHHHHHH----H-HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHH-------------------
T ss_pred HHHHHHHHHHHHHH----H-HHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHhhcccccccccchHHHHHHHHH
Confidence 45555555554433 2 245566788889999999999999999888888874 7899999999997744
No 14
>PF10393 Matrilin_ccoil: Trimeric coiled-coil oligomerisation domain of matrilin; InterPro: IPR019466 This entry represents a short domain found the matrilin (cartilage matrix) proteins. It forms a coiled coil structure and contains a single cysteine residue at its start which is likely to form a di-sulphide bridge with a corresponding cysteine in an upstream EGF domain (IPR006209 from INTERPRO), thereby spanning the VWA domain of the protein (IPR002035 from INTERPRO).This domain is likely to be responsible for protein trimerisation []. ; PDB: 1AQ5_C.
Probab=52.35 E-value=37 Score=23.47 Aligned_cols=24 Identities=21% Similarity=0.397 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHhhchHHHHHHH
Q 018714 290 KSVLDLGKRADNLSQGLDHLTKAV 313 (351)
Q Consensus 290 ~~veel~~~~e~Le~gle~Le~~v 313 (351)
..++.|..+++.+...|+.||.++
T Consensus 23 ~~lq~Lt~kL~~vs~RLe~LEn~~ 46 (47)
T PF10393_consen 23 SALQSLTQKLDAVSKRLEALENRL 46 (47)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcc
Confidence 445666666777777777776653
No 15
>PRK04654 sec-independent translocase; Provisional
Probab=49.38 E-value=44 Score=30.52 Aligned_cols=16 Identities=13% Similarity=0.285 Sum_probs=8.6
Q ss_pred HHHHHHHHHhhcCCcc
Q 018714 204 VFVCSIFAAAFSGSAK 219 (351)
Q Consensus 204 ~~v~~~Ll~als~~~~ 219 (351)
++|..+++..+-||.+
T Consensus 9 LLlI~VVALlV~GPer 24 (214)
T PRK04654 9 LTLIAVVALVVLGPER 24 (214)
T ss_pred HHHHHHHHHHhcCchH
Confidence 4444445555558765
No 16
>PF10157 DUF2365: Uncharacterized conserved protein (DUF2365); InterPro: IPR019314 This entry is found in a highly conserved family of proteins which have no known function.
Probab=48.34 E-value=1.8e+02 Score=25.10 Aligned_cols=75 Identities=16% Similarity=0.102 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHhhhCCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCchhhhHHHHHHhhhhhHHhHHHHHHH
Q 018714 37 ADFEETLAERLRKLMPKDKDDILNLSWMRLAMESLCETHNVIKDLITELELPVSDWDEKWIDVYLDISVNLLDICIAFSS 116 (351)
Q Consensus 37 ~~F~~~L~~rl~~L~~~~~~~~lSl~wl~~~l~~L~~~h~~~~~Li~~~~lp~~~~~~k~vdeyLD~SlkLLDvCna~k~ 116 (351)
+.=-..+++.++.|..+. ..++.+|....--...+|+....-+ -.-||....+.-.|+.-|..+.+
T Consensus 58 E~~a~~ia~svd~ll~~L---~~~L~~mS~~Tv~~~~~y~~sv~~~-----------cdsvD~sik~~y~liakceELn~ 123 (149)
T PF10157_consen 58 ERDAQAIAESVDSLLRSL---RSSLHSMSAITVEHMETYKDSVDKL-----------CDSVDASIKSMYTLIAKCEELNE 123 (149)
T ss_pred HHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHH
Confidence 333345666666665443 2346666666655666666664444 12367777777778888888777
Q ss_pred HHhhhhhhH
Q 018714 117 VLTKVSQGH 125 (351)
Q Consensus 117 ~l~~~k~~~ 125 (351)
.+..+..-.
T Consensus 124 ~M~~v~~La 132 (149)
T PF10157_consen 124 SMKPVYKLA 132 (149)
T ss_pred HHHHHHHHH
Confidence 776664433
No 17
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=47.53 E-value=21 Score=20.83 Aligned_cols=19 Identities=11% Similarity=0.288 Sum_probs=11.7
Q ss_pred HHHhhchHHHHHHHhHHHH
Q 018714 300 DNLSQGLDHLTKAVDGFFK 318 (351)
Q Consensus 300 e~Le~gle~Le~~vd~lFr 318 (351)
+.+...|.+||.+++.+++
T Consensus 4 ~rlr~rI~dLer~L~~C~~ 22 (23)
T PF04508_consen 4 NRLRNRISDLERQLSECRR 22 (23)
T ss_pred HHHHHHHHHHHHHHHHHhc
Confidence 4455556677777776654
No 18
>PRK11637 AmiB activator; Provisional
Probab=46.66 E-value=3.2e+02 Score=27.45 Aligned_cols=34 Identities=18% Similarity=0.270 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHhhchHHHHHHHhHHHHHH
Q 018714 287 LLQKSVLDLGKRADNLSQGLDHLTKAVDGFFKIV 320 (351)
Q Consensus 287 ~~~~~veel~~~~e~Le~gle~Le~~vd~lFr~l 320 (351)
.....++.++..++.++..|+.+++.++.....+
T Consensus 93 ~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l 126 (428)
T PRK11637 93 ETQNTLNQLNKQIDELNASIAKLEQQQAAQERLL 126 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566666666666666666666666654433
No 19
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=46.39 E-value=1.8e+02 Score=24.44 Aligned_cols=62 Identities=13% Similarity=0.223 Sum_probs=34.4
Q ss_pred HhHHHHHHHHHHHHHHHHhhccc--hHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHhHHHHHH
Q 018714 259 LNELEAVDGSVKKLYEVIQNEVD--TVEEELLQKSVLDLGKRADNLSQGLDHLTKAVDGFFKIV 320 (351)
Q Consensus 259 l~El~~vd~av~~L~~~i~~~~~--~e~~~~~~~~veel~~~~e~Le~gle~Le~~vd~lFr~l 320 (351)
-+.+++|-.++..-+.++..-++ ..+.++..+..+.++..+.++...++.+...++.+++.+
T Consensus 49 ~kql~~vs~~l~~tKkhLsqRId~vd~klDe~~ei~~~i~~eV~~v~~dv~~i~~dv~~v~~~V 112 (126)
T PF07889_consen 49 SKQLEQVSESLSSTKKHLSQRIDRVDDKLDEQKEISKQIKDEVTEVREDVSQIGDDVDSVQQMV 112 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 36677777777666655432110 123344445555666666666666666666666665544
No 20
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=42.78 E-value=1.1e+02 Score=24.32 Aligned_cols=33 Identities=21% Similarity=0.378 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhchHHHHHHHhHHH
Q 018714 285 EELLQKSVLDLGKRADNLSQGLDHLTKAVDGFF 317 (351)
Q Consensus 285 ~~~~~~~veel~~~~e~Le~gle~Le~~vd~lF 317 (351)
.+.+...+.+++..+..++.-+..++.+++.+.
T Consensus 69 ~~~l~~e~~~lk~~i~~le~~~~~~e~~l~~~l 101 (108)
T PF02403_consen 69 AEELKAEVKELKEEIKELEEQLKELEEELNELL 101 (108)
T ss_dssp THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667788888888888888888877776653
No 21
>PF06825 HSBP1: Heat shock factor binding protein 1; InterPro: IPR009643 Heat shock factor binding protein 1 (HSBP1) appears to be a negative regulator of the heat shock response [].; PDB: 3CI9_A.
Probab=41.81 E-value=95 Score=22.08 Aligned_cols=23 Identities=17% Similarity=0.371 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHhhchHHHHH
Q 018714 289 QKSVLDLGKRADNLSQGLDHLTK 311 (351)
Q Consensus 289 ~~~veel~~~~e~Le~gle~Le~ 311 (351)
-.+++++.++++.||..|.+|-.
T Consensus 27 ~~riDeM~~RIDdLE~si~dl~~ 49 (54)
T PF06825_consen 27 LGRIDEMSSRIDDLEKSIADLMT 49 (54)
T ss_dssp HHHHHHHHHHHHCCHHHH-----
T ss_pred HHHHHHHHhhHHHHHHHHHHHHH
Confidence 34455555555555555555433
No 22
>KOG4191 consensus Histone acetyltransferases PCAF/SAGA/ADA, subunit TADA3L/NGG1 [Chromatin structure and dynamics]
Probab=40.64 E-value=1.8e+02 Score=29.62 Aligned_cols=28 Identities=21% Similarity=0.272 Sum_probs=24.6
Q ss_pred HHHHhhchHHHHHHHhHHHHHHHHhHHH
Q 018714 299 ADNLSQGLDHLTKAVDGFFKIVLSGRDA 326 (351)
Q Consensus 299 ~e~Le~gle~Le~~vd~lFr~li~~R~~ 326 (351)
..++..-+|++.+|+++.|.+.++.|+.
T Consensus 441 ~qe~~q~lddlDkqI~qaYvKr~r~~kk 468 (516)
T KOG4191|consen 441 RQEFQQVLDDLDKQIEQAYVKRNRSRKK 468 (516)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4567888899999999999999999974
No 23
>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=40.62 E-value=1.3e+02 Score=33.33 Aligned_cols=30 Identities=10% Similarity=0.225 Sum_probs=18.6
Q ss_pred HHHHHHHHHhhchHHHHHHHhHHHHHHHHhH
Q 018714 294 DLGKRADNLSQGLDHLTKAVDGFFKIVLSGR 324 (351)
Q Consensus 294 el~~~~e~Le~gle~Le~~vd~lFr~li~~R 324 (351)
+|..++..||+.|.++|. ++++-..|+..-
T Consensus 459 nlEekVklLeetv~dlEa-lee~~EQL~Esn 488 (1243)
T KOG0971|consen 459 NLEEKVKLLEETVGDLEA-LEEMNEQLQESN 488 (1243)
T ss_pred CHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Confidence 566666667777777664 455666665543
No 24
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=38.08 E-value=1.9e+02 Score=22.45 Aligned_cols=45 Identities=20% Similarity=0.155 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHHHhhchHHHHHHHhHHHHHHHHhHHHHHhhhhc
Q 018714 289 QKSVLDLGKRADNLSQGLDHLTKAVDGFFKIVLSGRDALLCNLRA 333 (351)
Q Consensus 289 ~~~veel~~~~e~Le~gle~Le~~vd~lFr~li~~R~~LL~~l~~ 333 (351)
-..++.|-.+++.||..-+.|..++..|-.-=..+|..+=.-+..
T Consensus 32 ns~LD~Lns~LD~LE~rnD~l~~~L~~LLesnrq~R~e~~~~~~~ 76 (83)
T PF03670_consen 32 NSMLDQLNSCLDHLEQRNDHLHAQLQELLESNRQIRLEFQEQLSK 76 (83)
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 344667788888888888888888888887777788777554443
No 25
>PF03087 DUF241: Arabidopsis protein of unknown function; InterPro: IPR004320 This family represents plant proteins of unknown function.
Probab=37.66 E-value=48 Score=30.61 Aligned_cols=24 Identities=21% Similarity=0.433 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHhhchHHHHHHH
Q 018714 290 KSVLDLGKRADNLSQGLDHLTKAV 313 (351)
Q Consensus 290 ~~veel~~~~e~Le~gle~Le~~v 313 (351)
+.+++|+.+++.||.|+|.+.+.+
T Consensus 198 ~~Le~LE~~Ie~lE~glE~vFR~L 221 (231)
T PF03087_consen 198 KRLEELEECIEELEEGLECVFRRL 221 (231)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 447789999999999999988764
No 26
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=37.54 E-value=3.9e+02 Score=28.53 Aligned_cols=58 Identities=10% Similarity=0.145 Sum_probs=25.3
Q ss_pred hHhHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHhH
Q 018714 258 VLNELEAVDGSVKKLYEVIQNEVDTVEEELLQKSVLDLGKRADNLSQGLDHLTKAVDG 315 (351)
Q Consensus 258 ~l~El~~vd~av~~L~~~i~~~~~~e~~~~~~~~veel~~~~e~Le~gle~Le~~vd~ 315 (351)
..++++.++..+..+...+.....++....+.+..+++++.+..++.-++.+..+++.
T Consensus 396 ~~~~~~~~e~el~~l~~~l~~~~~~e~i~~l~e~l~~l~~~l~~~~~~~~~~~~~~~~ 453 (650)
T TIGR03185 396 LLKELRELEEELAEVDKKISTIPSEEQIAQLLEELGEAQNELFRSEAEIEELLRQLET 453 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456666666666665555432222333333333333333333333333333333333
No 27
>KOG3684 consensus Ca2+-activated K+ channel proteins (intermediate/small conductance classes) [Inorganic ion transport and metabolism]
Probab=37.26 E-value=1.6e+02 Score=30.20 Aligned_cols=64 Identities=17% Similarity=0.276 Sum_probs=46.3
Q ss_pred hhHhHHHHHHHHHHHHHHHHhhccch-HHHHHHHHHHHHHHHHHHHHhhchHHHHHHHhHHHHHH
Q 018714 257 TVLNELEAVDGSVKKLYEVIQNEVDT-VEEELLQKSVLDLGKRADNLSQGLDHLTKAVDGFFKIV 320 (351)
Q Consensus 257 ~~l~El~~vd~av~~L~~~i~~~~~~-e~~~~~~~~veel~~~~e~Le~gle~Le~~vd~lFr~l 320 (351)
-.+++|++|+-..++|.+....-.+- --...+.+.++++...-+.||..|+.||.+++.+-..+
T Consensus 400 ~AI~~fR~Vk~~qRkl~e~~nsl~d~aK~~~~myd~~~~l~~~q~~le~qI~~Le~kl~~l~~~l 464 (489)
T KOG3684|consen 400 QAIHQFRSVKWEQRKLSEQANSLVDLAKTQNDMYDLLQELHSRQEELEKQIDTLESKLEALTASL 464 (489)
T ss_pred HHHHHHHHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45689999999888888753221110 12235678889999999999999999999988876544
No 28
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=37.00 E-value=1.2e+02 Score=23.09 Aligned_cols=30 Identities=13% Similarity=0.114 Sum_probs=20.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhchHHHHH
Q 018714 282 TVEEELLQKSVLDLGKRADNLSQGLDHLTK 311 (351)
Q Consensus 282 ~e~~~~~~~~veel~~~~e~Le~gle~Le~ 311 (351)
.|+-+..+..+..++.+++.||..|..||.
T Consensus 49 REEFd~q~~~L~~~r~kl~~LEarl~~LE~ 78 (79)
T PF04380_consen 49 REEFDAQKAVLARTREKLEALEARLAALEA 78 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 355555666677777777777777777664
No 29
>PLN02320 seryl-tRNA synthetase
Probab=36.84 E-value=1.2e+02 Score=31.47 Aligned_cols=18 Identities=11% Similarity=0.076 Sum_probs=9.4
Q ss_pred HhHHHHHHHHHHHHHHHH
Q 018714 259 LNELEAVDGSVKKLYEVI 276 (351)
Q Consensus 259 l~El~~vd~av~~L~~~i 276 (351)
+.++-..|...+++...+
T Consensus 92 vd~l~~ld~~~r~~~~~~ 109 (502)
T PLN02320 92 LELVLELYENMLALQKEV 109 (502)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 555555555555554443
No 30
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=36.41 E-value=1.6e+02 Score=24.50 Aligned_cols=45 Identities=16% Similarity=0.187 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHhhchHHHHHHHhHHHHHHHHhHHHHHhhhhc
Q 018714 289 QKSVLDLGKRADNLSQGLDHLTKAVDGFFKIVLSGRDALLCNLRA 333 (351)
Q Consensus 289 ~~~veel~~~~e~Le~gle~Le~~vd~lFr~li~~R~~LL~~l~~ 333 (351)
.+.+++|..+.|.|+..|..|+++-+.+=.++=+-+..|-+.+..
T Consensus 69 ~~~~~eL~er~E~Le~ri~tLekQe~~l~e~l~eLq~~i~~~l~~ 113 (119)
T COG1382 69 EEAVDELEERKETLELRIKTLEKQEEKLQERLEELQSEIQKALGD 113 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 356888888888888888888888888888887777777776644
No 31
>KOG3335 consensus Predicted coiled-coil protein [General function prediction only]
Probab=36.09 E-value=1.9e+02 Score=25.74 Aligned_cols=57 Identities=16% Similarity=0.174 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhchHHHHHHHhHHHHHHHHhHHHHHhhhhcCCCCCCc
Q 018714 284 EEELLQKSVLDLGKRADNLSQGLDHLTKAVDGFFKIVLSGRDALLCNLRATGTAPDI 340 (351)
Q Consensus 284 ~~~~~~~~veel~~~~e~Le~gle~Le~~vd~lFr~li~~R~~LL~~l~~~~~~~~~ 340 (351)
.++.-+..+++|+..++.|+..++++.+.+++|-..+-+-|..+-.+--..++.++.
T Consensus 100 kee~~~~e~~elr~~~~~l~~~i~~~~~~~~~L~~~l~~~~~el~~~~q~~p~~~~s 156 (181)
T KOG3335|consen 100 KEEKRKQEIMELRLKVEKLENAIAELTKFFSQLHSKLNKPESELKPIRQAPPNPGPS 156 (181)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCccccccccccCCCCCCch
Confidence 344556788999999999999999999999888866666665554443334444433
No 32
>PLN02372 violaxanthin de-epoxidase
Probab=35.40 E-value=2.2e+02 Score=28.80 Aligned_cols=35 Identities=26% Similarity=0.400 Sum_probs=29.9
Q ss_pred HHHH--HhhchHHHHHHHhHHHHHHHHhHHHHHhhhh
Q 018714 298 RADN--LSQGLDHLTKAVDGFFKIVLSGRDALLCNLR 332 (351)
Q Consensus 298 ~~e~--Le~gle~Le~~vd~lFr~li~~R~~LL~~l~ 332 (351)
-++. |++|+..|+.....+.+.+-+--+.+|+-+.
T Consensus 402 ~~~~~~~~~~~~~l~~~~~~f~~~lskee~~~l~~~~ 438 (455)
T PLN02372 402 LFKRVALEEGLKELEQDEENFLKELSKEEKELLEKLK 438 (455)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence 4444 9999999999999999999999998888764
No 33
>TIGR02132 phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR subunit. This model describes a protein, PhaR, localized to polyhydroxyalkanoic acid (PHA) inclusion granules in Bacillus cereus and related species. PhaR is required for PHA biosynthesis along with PhaC and may be a regulatory subunit.
Probab=34.43 E-value=74 Score=28.27 Aligned_cols=32 Identities=16% Similarity=0.281 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHhhchHHHHHHHhHHHHHH
Q 018714 289 QKSVLDLGKRADNLSQGLDHLTKAVDGFFKIV 320 (351)
Q Consensus 289 ~~~veel~~~~e~Le~gle~Le~~vd~lFr~l 320 (351)
+..|.++...+=.+|..||.+|++.++.|+.+
T Consensus 71 r~DiarvA~lvinlE~kvD~lee~fdd~~d~l 102 (189)
T TIGR02132 71 KEDIANVASLVINLEEKVDLIEEFFDDKFDEL 102 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 34
>PRK09343 prefoldin subunit beta; Provisional
Probab=34.38 E-value=1.7e+02 Score=24.07 Aligned_cols=47 Identities=15% Similarity=0.006 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHHHhhchHHHHHHHhHHHHHHHHhHHHHHhhhhcC
Q 018714 288 LQKSVLDLGKRADNLSQGLDHLTKAVDGFFKIVLSGRDALLCNLRAT 334 (351)
Q Consensus 288 ~~~~veel~~~~e~Le~gle~Le~~vd~lFr~li~~R~~LL~~l~~~ 334 (351)
..+...++.++++.++..|+.++++.+.+=..+.+.+..|-..+..+
T Consensus 69 ~~e~~~~l~~r~E~ie~~ik~lekq~~~l~~~l~e~q~~l~~ll~~~ 115 (121)
T PRK09343 69 KTKVEKELKERKELLELRSRTLEKQEKKLREKLKELQAKINEMLSKY 115 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34667888888888888888888888888888888888887777553
No 35
>PRK00708 sec-independent translocase; Provisional
Probab=34.35 E-value=1.4e+02 Score=27.31 Aligned_cols=16 Identities=19% Similarity=0.326 Sum_probs=9.2
Q ss_pred HHHHHHHHHhhcCCcc
Q 018714 204 VFVCSIFAAAFSGSAK 219 (351)
Q Consensus 204 ~~v~~~Ll~als~~~~ 219 (351)
++|+.+++..+-||.+
T Consensus 9 LlvI~vVaLvV~GPkr 24 (209)
T PRK00708 9 LLVIAIVLIVVVGPKD 24 (209)
T ss_pred HHHHHHHHHhhcCchH
Confidence 4455555555568765
No 36
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=33.67 E-value=3.9e+02 Score=24.69 Aligned_cols=18 Identities=17% Similarity=0.305 Sum_probs=11.5
Q ss_pred hHhHHHHHHHHHHHHHHH
Q 018714 258 VLNELEAVDGSVKKLYEV 275 (351)
Q Consensus 258 ~l~El~~vd~av~~L~~~ 275 (351)
...|++.+...++.|...
T Consensus 54 L~~e~~~l~~e~e~L~~~ 71 (251)
T PF11932_consen 54 LLAEYRQLEREIENLEVY 71 (251)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 456777777666666543
No 37
>PHA01750 hypothetical protein
Probab=32.22 E-value=1.2e+02 Score=22.49 Aligned_cols=13 Identities=23% Similarity=0.539 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHH
Q 018714 288 LQKSVLDLGKRAD 300 (351)
Q Consensus 288 ~~~~veel~~~~e 300 (351)
+.+.|++++++++
T Consensus 61 l~~qv~eik~k~d 73 (75)
T PHA01750 61 LSRQVEEIKRKLD 73 (75)
T ss_pred HHHHHHHHHHhhc
Confidence 4455555555543
No 38
>PF13887 MRF_C1: Myelin gene regulatory factor -C-terminal domain 1
Probab=31.15 E-value=42 Score=21.76 Aligned_cols=22 Identities=36% Similarity=0.521 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHhhchHHHHH
Q 018714 290 KSVLDLGKRADNLSQGLDHLTK 311 (351)
Q Consensus 290 ~~veel~~~~e~Le~gle~Le~ 311 (351)
.+|++|-+.-+.|+..|+++|+
T Consensus 14 ~AvqeLck~t~~Le~rI~ele~ 35 (36)
T PF13887_consen 14 GAVQELCKLTDNLETRIDELER 35 (36)
T ss_pred HHHHHHHHHhccHHHHHHHHhh
Confidence 3477777777777888777664
No 39
>PF11172 DUF2959: Protein of unknown function (DUF2959); InterPro: IPR021342 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=30.37 E-value=2.9e+02 Score=25.13 Aligned_cols=57 Identities=14% Similarity=0.225 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHHhh-ccchH-HHHHHHHHHHHHHHHHHHHhhchHHHHHHHhHHHHH
Q 018714 263 EAVDGSVKKLYEVIQN-EVDTV-EEELLQKSVLDLGKRADNLSQGLDHLTKAVDGFFKI 319 (351)
Q Consensus 263 ~~vd~av~~L~~~i~~-~~~~e-~~~~~~~~veel~~~~e~Le~gle~Le~~vd~lFr~ 319 (351)
++.+.++..+...+.- |.+.+ .=+.+....+......+.+...|+.+|...+.+|++
T Consensus 42 eQF~sALe~f~sl~~~~ggdLe~~Y~~ln~~ye~s~~~A~~V~~RI~~vE~Va~ALF~E 100 (201)
T PF11172_consen 42 EQFKSALEQFKSLVNFDGGDLEDKYNALNDEYESSEDAAEEVSDRIDAVEDVADALFDE 100 (201)
T ss_pred HHHHHHHHHHHHhhCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5566677777766542 22222 223567778888888888999999999999999875
No 40
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=30.20 E-value=1.8e+02 Score=23.33 Aligned_cols=44 Identities=9% Similarity=0.191 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHhhchHHHHHHHhHHHHHHHHhHHHHHhhh
Q 018714 288 LQKSVLDLGKRADNLSQGLDHLTKAVDGFFKIVLSGRDALLCNL 331 (351)
Q Consensus 288 ~~~~veel~~~~e~Le~gle~Le~~vd~lFr~li~~R~~LL~~l 331 (351)
+.+.+.+|+++++.++..++.++++.+.+-..+...+..|=..+
T Consensus 65 ~~e~~~~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l~~~~ 108 (110)
T TIGR02338 65 KEEAIQELKEKKETLELRVKTLQRQEERLREQLKELQEKIQEAL 108 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34556666777777777777777777766666666666554433
No 41
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=29.63 E-value=1.6e+02 Score=25.35 Aligned_cols=28 Identities=21% Similarity=0.348 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHhhchHHHHHHHhHHHHH
Q 018714 292 VLDLGKRADNLSQGLDHLTKAVDGFFKI 319 (351)
Q Consensus 292 veel~~~~e~Le~gle~Le~~vd~lFr~ 319 (351)
++-|++++++|+..++.+...++++..+
T Consensus 96 ie~l~k~~~~l~~~~~~l~~~l~~l~~~ 123 (145)
T COG1730 96 IEFLKKRIEELEKAIEKLQQALAELAQR 123 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333333333333
No 42
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=29.23 E-value=1.9e+02 Score=29.22 Aligned_cols=28 Identities=25% Similarity=0.345 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHhhchHHHHHHHh
Q 018714 287 LLQKSVLDLGKRADNLSQGLDHLTKAVD 314 (351)
Q Consensus 287 ~~~~~veel~~~~e~Le~gle~Le~~vd 314 (351)
.+.+.+.+++..+..++.-++.++++++
T Consensus 70 ~l~~~~~~l~~~~~~~~~~~~~~~~~~~ 97 (425)
T PRK05431 70 ALIAEVKELKEEIKALEAELDELEAELE 97 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555565555555555555555533
No 43
>smart00338 BRLZ basic region leucin zipper.
Probab=29.04 E-value=2.1e+02 Score=20.49 Aligned_cols=34 Identities=12% Similarity=0.267 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHhhchHHHHHHHhHHHHHHHHhH
Q 018714 291 SVLDLGKRADNLSQGLDHLTKAVDGFFKIVLSGR 324 (351)
Q Consensus 291 ~veel~~~~e~Le~gle~Le~~vd~lFr~li~~R 324 (351)
.+++|+..+..|+.-.+.|..+++.+-..+..-+
T Consensus 27 ~~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk 60 (65)
T smart00338 27 EIEELERKVEQLEAENERLKKEIERLRRELEKLK 60 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555555555555444444433
No 44
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=28.83 E-value=4.5e+02 Score=24.56 Aligned_cols=65 Identities=17% Similarity=0.131 Sum_probs=0.0
Q ss_pred hHhHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHhHHHHHHHHhH
Q 018714 258 VLNELEAVDGSVKKLYEVIQNEVDTVEEELLQKSVLDLGKRADNLSQGLDHLTKAVDGFFKIVLSGR 324 (351)
Q Consensus 258 ~l~El~~vd~av~~L~~~i~~~~~~e~~~~~~~~veel~~~~e~Le~gle~Le~~vd~lFr~li~~R 324 (351)
.+..++.+|.-..++...+..- +..-..++.-.+.+.+.+++++..+++++.++-.+--+|=+.|
T Consensus 8 ~L~~iq~lD~e~~rl~~~~~~~--~~~l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r 72 (239)
T COG1579 8 SLLAIQKLDLEKDRLEPRIKEI--RKALKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIR 72 (239)
T ss_pred HHHHHHHHHHHHHHHHHhhhhh--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 45
>COG3352 FlaC Putative archaeal flagellar protein C [Cell motility and secretion]
Probab=28.80 E-value=2.6e+02 Score=24.22 Aligned_cols=45 Identities=9% Similarity=-0.007 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHHhhchHHHHHHHhHHHHHHHHhHHHHHhhh
Q 018714 287 LLQKSVLDLGKRADNLSQGLDHLTKAVDGFFKIVLSGRDALLCNL 331 (351)
Q Consensus 287 ~~~~~veel~~~~e~Le~gle~Le~~vd~lFr~li~~R~~LL~~l 331 (351)
..++.++.++..++.|+..+.+|...++.+.+.+.--|-..+..+
T Consensus 69 g~kk~~~~~~eelerLe~~iKdl~~lye~Vs~d~Npf~s~~~qes 113 (157)
T COG3352 69 GQKKQLQDIKEELERLEENIKDLVSLYELVSRDFNPFMSKTPQES 113 (157)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhhhHHHH
Confidence 455677777788888888888888888888777776666555544
No 46
>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle. Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.
Probab=28.49 E-value=2.9e+02 Score=21.57 Aligned_cols=42 Identities=19% Similarity=0.192 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHhhchHHHHHHHhH---------HHHHHHHhHHHHHh
Q 018714 288 LQKSVLDLGKRADNLSQGLDHLTKAVDG---------FFKIVLSGRDALLC 329 (351)
Q Consensus 288 ~~~~veel~~~~e~Le~gle~Le~~vd~---------lFr~li~~R~~LL~ 329 (351)
+...-.+|+..++.++.-|++|++-|.- +-..=|..|...+.
T Consensus 37 ~~~~~~eL~~~l~~ie~~L~DL~~aV~ive~np~kF~l~~~Ei~~Rr~fv~ 87 (97)
T PF09177_consen 37 LKWLKRELRNALQSIEWDLEDLEEAVRIVEKNPSKFNLSEEEISRRRQFVS 87 (97)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCccccCCCHHHHHHHHHHHH
Confidence 4455556666666666666666655543 33444555555544
No 47
>PLN02678 seryl-tRNA synthetase
Probab=27.98 E-value=2.1e+02 Score=29.22 Aligned_cols=29 Identities=17% Similarity=0.161 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHhhchHHHHHHHh
Q 018714 286 ELLQKSVLDLGKRADNLSQGLDHLTKAVD 314 (351)
Q Consensus 286 ~~~~~~veel~~~~e~Le~gle~Le~~vd 314 (351)
+++.+.+.+|+..+..|+.-++.++.+++
T Consensus 74 ~~l~~~~~~Lk~ei~~le~~~~~~~~~l~ 102 (448)
T PLN02678 74 TELIAETKELKKEITEKEAEVQEAKAALD 102 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555566666666666666666666544
No 48
>PF00509 Hemagglutinin: Haemagglutinin; InterPro: IPR001364 Haemagglutinin (HA) is one of two main surface fusion glycoproteins embedded in the envelope of influenza viruses, the other being neuraminidase (NA). There are sixteen known HA subtypes (H1-H16) and nine NA subtypes (N1-N9), which together are used to classify influenza viruses (e.g. H5N1). The antigenic variations in HA and NA enable the virus to evade host antibodies made to previous influenza strains, accounting for recurrent influenza epidemics []. The HA glycoprotein is present in the viral membrane as a single polypeptide (HA0), which must be cleaved by the host's trypsin-like proteases to produce two peptides (HA1 and HA2) in order for the virus to be infectious. Once HA0 is cleaved, the newly exposed N-terminal of the HA2 peptide then acts to fuse the viral envelope to the cellular membrane of the host cell, which allows the viral negative-stranded RNA to infect the host cell. The type of host protease can influence the infectivity and pathogenicity of the virus. The haemagglutinin glycoprotein is a trimer containing three structurally distinct regions: a globular head consisting of anti-parallel beta-sheets that form a beta-sandwich with a jelly-roll fold (contains the receptor binding site and the HA1/HA2 cleavage site); a triple-stranded, coiled-coil, alpha-helical stalk; and a globular foot composed of anti-parallel beta-sheets [, ]. Each monomer consists of an intact HA0 polypeptide with the HA1 and HA2 regions linked by disulphide bonds. The N terminus of HA1 provides the central strand in the 5-stranded globular foot, while the rest of the HA1 chain makes its way to the 8-stranded globular head. HA2 provides two alpha helices, which form part of the triple-stranded coiled-coil that stabilises the trimer, its C terminus providing the remaining strands of the 5-stranded globular foot. This entry represents the entire haemagglutinin protein (HA0) consisting of both the HA1 and HA2 regions, as found in influenza A and B viruses.; GO: 0046789 host cell surface receptor binding, 0019064 viral envelope fusion with host membrane, 0019031 viral envelope; PDB: 2WR5_A 2IBX_A 2WR0_B 2WR1_C 2XN9_F 2WRF_I 3S11_E 3BT6_A 3SM5_E 2FK0_H ....
Probab=26.78 E-value=3.7 Score=42.30 Aligned_cols=29 Identities=34% Similarity=0.320 Sum_probs=12.6
Q ss_pred hhchHHHHHHHhHHHHHHHHhHHHHHhhh
Q 018714 303 SQGLDHLTKAVDGFFKIVLSGRDALLCNL 331 (351)
Q Consensus 303 e~gle~Le~~vd~lFr~li~~R~~LL~~l 331 (351)
|..|+.|+++||+-+-++...-.+||-.|
T Consensus 402 e~Ri~~l~~~v~d~~~d~wsynaELlVll 430 (550)
T PF00509_consen 402 EKRIDNLEKKVDDKIADVWSYNAELLVLL 430 (550)
T ss_dssp GHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhhhccchhhhcccHHHHHHh
Confidence 33344444444444444444444444443
No 49
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=26.61 E-value=1.1e+02 Score=21.86 Aligned_cols=21 Identities=10% Similarity=0.374 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHhhchHHHHHH
Q 018714 292 VLDLGKRADNLSQGLDHLTKA 312 (351)
Q Consensus 292 veel~~~~e~Le~gle~Le~~ 312 (351)
+..+++..+.+.+.+|.+++-
T Consensus 16 i~tvk~en~~i~~~ve~i~en 36 (55)
T PF05377_consen 16 INTVKKENEEISESVEKIEEN 36 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333334444444444443333
No 50
>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra [].; GO: 0019028 viral capsid
Probab=26.32 E-value=2.6e+02 Score=21.26 Aligned_cols=28 Identities=29% Similarity=0.356 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHhhchHHHHHHHhHHHH
Q 018714 291 SVLDLGKRADNLSQGLDHLTKAVDGFFK 318 (351)
Q Consensus 291 ~veel~~~~e~Le~gle~Le~~vd~lFr 318 (351)
.|.++..+++++...++.|+.+|+..-+
T Consensus 36 ~v~~l~~klDa~~~~l~~l~~~V~~I~~ 63 (75)
T PF05531_consen 36 DVTELNKKLDAQSAQLTTLNTKVNEIQD 63 (75)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3667777788888888887777666543
No 51
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=26.31 E-value=1.9e+02 Score=20.62 Aligned_cols=15 Identities=27% Similarity=0.525 Sum_probs=8.6
Q ss_pred hHHHHHHHHHHHHHH
Q 018714 260 NELEAVDGSVKKLYE 274 (351)
Q Consensus 260 ~El~~vd~av~~L~~ 274 (351)
+|+.+++..+..++.
T Consensus 7 n~~~~~~~~i~tvk~ 21 (55)
T PF05377_consen 7 NELPRIESSINTVKK 21 (55)
T ss_pred HHHHHHHHHHHHHHH
Confidence 556666666555544
No 52
>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra [].; GO: 0019028 viral capsid
Probab=26.10 E-value=3e+02 Score=20.97 Aligned_cols=31 Identities=26% Similarity=0.294 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHH---HhhchHHHHHHHhHHHH
Q 018714 288 LQKSVLDLGKRADN---LSQGLDHLTKAVDGFFK 318 (351)
Q Consensus 288 ~~~~veel~~~~e~---Le~gle~Le~~vd~lFr 318 (351)
++..|+.++..+.. |...+|.+..+++.+-.
T Consensus 23 Lq~~V~~l~~~~~~v~~l~~klDa~~~~l~~l~~ 56 (75)
T PF05531_consen 23 LQTQVDDLESNLPDVTELNKKLDAQSAQLTTLNT 56 (75)
T ss_pred HHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHH
Confidence 33444444443333 55555556666555544
No 53
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=25.80 E-value=1.8e+02 Score=25.11 Aligned_cols=24 Identities=21% Similarity=0.466 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHhhchHHHHH
Q 018714 288 LQKSVLDLGKRADNLSQGLDHLTK 311 (351)
Q Consensus 288 ~~~~veel~~~~e~Le~gle~Le~ 311 (351)
+...+.+++..++.++..|+.|..
T Consensus 114 l~~~i~~l~~e~~~l~~kL~~l~~ 137 (169)
T PF07106_consen 114 LREEIEELEEEIEELEEKLEKLRS 137 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 455566666666666666665554
No 54
>PF10392 COG5: Golgi transport complex subunit 5; InterPro: IPR019465 The conserved oligomeric Golgi (COG) complex is a peripheral membrane complex involved in intra-Golgi protein trafficking. Subunit 5 is located in the smaller, B lobe, together with subunits 6-8, and has been shown to bind subunits 1 and 7 [].
Probab=25.64 E-value=3.9e+02 Score=22.15 Aligned_cols=43 Identities=12% Similarity=0.109 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHHhhchHHHHHHHhHHHHHHHHhHHHHHh
Q 018714 287 LLQKSVLDLGKRADNLSQGLDHLTKAVDGFFKIVLSGRDALLC 329 (351)
Q Consensus 287 ~~~~~veel~~~~e~Le~gle~Le~~vd~lFr~li~~R~~LL~ 329 (351)
.+...++.++..++.|..+++.|..+|-+=|..+-+....|=+
T Consensus 69 ~~~~~l~~v~~~v~~L~~s~~RL~~eV~~Py~~~~~~~~~L~r 111 (132)
T PF10392_consen 69 ELESVLQAVRSSVESLQSSYERLRSEVIEPYEKIQKLTSQLER 111 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence 4456788888888888888888888888888888777666533
No 55
>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]
Probab=25.43 E-value=4.2e+02 Score=28.11 Aligned_cols=52 Identities=13% Similarity=0.164 Sum_probs=24.8
Q ss_pred hHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHhhchHHHHHHH
Q 018714 260 NELEAVDGSVKKLYEVIQNEVDTVEEELLQKSVLDLGKRADNLSQGLDHLTKAV 313 (351)
Q Consensus 260 ~El~~vd~av~~L~~~i~~~~~~e~~~~~~~~veel~~~~e~Le~gle~Le~~v 313 (351)
.|+.+.++.-++|.++|+.- .-++|+++..+..-|..++.|+..|+.-+.+.
T Consensus 93 ~EL~ele~krqel~seI~~~--n~kiEelk~~i~~~q~eL~~Lk~~ieqaq~~~ 144 (907)
T KOG2264|consen 93 LELTELEVKRQELNSEIEEI--NTKIEELKRLIPQKQLELSALKGEIEQAQRQL 144 (907)
T ss_pred HHHHHHHHHHHHHHhHHHHH--HHHHHHHHHHHHHhHHHHHHHHhHHHHHHHHH
Confidence 45555555555555544321 12334444555555555555555555444443
No 56
>PF09006 Surfac_D-trimer: Lung surfactant protein D coiled-coil trimerisation; InterPro: IPR015097 This domain is found in the SFTPD family, which includes lung surfactant protein D (SFTPD), conglutinin, collectin-43 and collectin-46. It forms a triple-helical parallel coiled coil, and mediates trimerisation of the protein []. ; PDB: 4DN8_A 3G84_A 2RIE_C 3IKR_B 1B08_A 2GGX_B 2OS9_C 2ORK_B 1PWB_A 2RIA_C ....
Probab=24.24 E-value=2e+02 Score=19.74 Aligned_cols=28 Identities=21% Similarity=0.170 Sum_probs=14.0
Q ss_pred HHhhchHHHHHHHhHHHHHHHHhHHHHH
Q 018714 301 NLSQGLDHLTKAVDGFFKIVLSGRDALL 328 (351)
Q Consensus 301 ~Le~gle~Le~~vd~lFr~li~~R~~LL 328 (351)
+|..-++.|+.+|..|=...-+.+++.|
T Consensus 3 aLrqQv~aL~~qv~~Lq~~fs~yKKa~l 30 (46)
T PF09006_consen 3 ALRQQVEALQGQVQRLQAAFSQYKKAEL 30 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444455555555555555555543
No 57
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=23.99 E-value=3e+02 Score=27.80 Aligned_cols=30 Identities=23% Similarity=0.353 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHhhchHHHHHHHhH
Q 018714 286 ELLQKSVLDLGKRADNLSQGLDHLTKAVDG 315 (351)
Q Consensus 286 ~~~~~~veel~~~~e~Le~gle~Le~~vd~ 315 (351)
+++++.+.+++..+..|+..++.++++++.
T Consensus 72 ~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~ 101 (418)
T TIGR00414 72 EEIKKELKELKEELTELSAALKALEAELQD 101 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445556666666666666666666665443
No 58
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=23.50 E-value=3.6e+02 Score=21.08 Aligned_cols=46 Identities=15% Similarity=0.289 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHhhchHHHHHHHhHHHH-HHHHhHHHHHhhh
Q 018714 286 ELLQKSVLDLGKRADNLSQGLDHLTKAVDGFFK-IVLSGRDALLCNL 331 (351)
Q Consensus 286 ~~~~~~veel~~~~e~Le~gle~Le~~vd~lFr-~li~~R~~LL~~l 331 (351)
..+....+.+...+..+..+++.++.-++.-.. .++..+..+.+.+
T Consensus 75 ~~l~~q~~~l~~~l~~l~~~~~~~e~~l~~~~~~e~L~~~~~i~~rl 121 (127)
T smart00502 75 KVLEQQLESLTQKQEKLSHAINFTEEALNSGDPTELLLSKKLIIERL 121 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHH
Confidence 346666777777777777777777777664222 4555555555444
No 59
>COG2900 SlyX Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.44 E-value=2.3e+02 Score=21.41 Aligned_cols=31 Identities=10% Similarity=0.089 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHhhchHHHHHHHhHHHHHHHH
Q 018714 292 VLDLGKRADNLSQGLDHLTKAVDGFFKIVLS 322 (351)
Q Consensus 292 veel~~~~e~Le~gle~Le~~vd~lFr~li~ 322 (351)
+++|-..+-.-...++.+..+++-|..++-.
T Consensus 24 ieeLn~~laEq~~~i~k~q~qlr~L~~kl~~ 54 (72)
T COG2900 24 IEELNDALAEQQLVIDKLQAQLRLLTEKLKD 54 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3344444444444444444444444444433
No 60
>PF00429 TLV_coat: ENV polyprotein (coat polyprotein); InterPro: IPR018154 Enveloped viruses such as Human immunodeficiency virus 1, influenza virus, and Ebola virus sp. express a surface glycoprotein that mediates both cell attachment and fusion of viral and cellular membranes. The ENV polyprotein (coat polyprotein) usually contains two coat proteins which differ depending on the source. The structure of a number of the ENV polyprotein domains have been determined: The crystal structure of an extraviral segment of the Moloney murine leukemia virus (MoMuLV) transmembrane (TM) subunit has been determined to 1.7-A resolution. This segment contains a trimeric coiled coil, with a hydrophobic cluster at its base and a strand that packs in an antiparallel orientation against the coiled coil. This structure serves as a model for a wide range of viral fusion proteins; key residues in this structure are conserved among C- and D-type retroviruses and the filovirus ebola []. An essential step in retrovirus infection is the binding of the virus to its receptor on a target cell. The structure of the receptor-binding domain of the envelope glycoprotein from Friend murine leukemia virus (F-MuLV) has been determined determined to 2.0-A resolution. The core of the domain is an antiparallel beta sandwich, with two interstrand loops forming a helical subdomain atop the sandwich. The residues in the helical region, but not in the beta sandwich, are highly variable among mammalian C-type retroviruses with distinct tropisms, indicating that the helical subdomain determines the receptor specificity of the virus []. ; PDB: 1LCS_B 1MOF_A 1XNL_A 2XZ3_A 1AOL_A 1Y4M_C.
Probab=22.80 E-value=2.2e+02 Score=29.96 Aligned_cols=43 Identities=21% Similarity=0.280 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHHHHhhchHHHHHHHhHHHHHHHHhHHHHHhhh
Q 018714 288 LQKSVLDLGKRADNLSQGLDHLTKAVDGFFKIVLSGRDALLCNL 331 (351)
Q Consensus 288 ~~~~veel~~~~e~Le~gle~Le~~vd~lFr~li~~R~~LL~~l 331 (351)
+.+....+..-+++++++|..|+++|+.+...+++.|.+| |+|
T Consensus 426 ~~~L~~~~~~d~~~~~~~i~~l~~~~~sl~~~v~qnr~~l-D~l 468 (561)
T PF00429_consen 426 YRQLSNALEEDLQALEDSISALQEQLTSLAEVVLQNRRAL-DLL 468 (561)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhh-hhh
Confidence 4455566777777888999999999999999999999874 444
No 61
>PRK01919 tatB sec-independent translocase; Provisional
Probab=22.50 E-value=3.4e+02 Score=24.00 Aligned_cols=16 Identities=13% Similarity=0.275 Sum_probs=8.4
Q ss_pred HHHHHHHHHhhcCCcc
Q 018714 204 VFVCSIFAAAFSGSAK 219 (351)
Q Consensus 204 ~~v~~~Ll~als~~~~ 219 (351)
++|..+++..+-||.+
T Consensus 9 lliI~VVALiV~GPek 24 (169)
T PRK01919 9 LALIGVVALVVIGPER 24 (169)
T ss_pred HHHHHHHHHheeCchH
Confidence 3344444445558765
No 62
>smart00340 HALZ homeobox associated leucin zipper.
Probab=22.17 E-value=1.5e+02 Score=19.97 Aligned_cols=25 Identities=20% Similarity=0.230 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHhhchHHHHHHHhHH
Q 018714 292 VLDLGKRADNLSQGLDHLTKAVDGF 316 (351)
Q Consensus 292 veel~~~~e~Le~gle~Le~~vd~l 316 (351)
-+-|++||+.|.+--..|.++|.++
T Consensus 7 Ce~LKrcce~LteeNrRL~ke~~eL 31 (44)
T smart00340 7 CELLKRCCESLTEENRRLQKEVQEL 31 (44)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4578888888888777777777665
No 63
>PF14723 SSFA2_C: Sperm-specific antigen 2 C-terminus
Probab=22.06 E-value=4.4e+02 Score=23.38 Aligned_cols=32 Identities=13% Similarity=0.127 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHhhchHHHHHHHhHHHHHH
Q 018714 289 QKSVLDLGKRADNLSQGLDHLTKAVDGFFKIV 320 (351)
Q Consensus 289 ~~~veel~~~~e~Le~gle~Le~~vd~lFr~l 320 (351)
+.-|+.|+.-=+++..-+++||-|+++--..|
T Consensus 144 R~EaeQLQsLR~avRqElqELE~QL~DRl~~l 175 (179)
T PF14723_consen 144 REEAEQLQSLRSAVRQELQELEFQLEDRLLQL 175 (179)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45577788878888888888888877654443
No 64
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=21.81 E-value=4.8e+02 Score=22.90 Aligned_cols=29 Identities=17% Similarity=0.341 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHhhchHHHHHHHhHHH
Q 018714 289 QKSVLDLGKRADNLSQGLDHLTKAVDGFF 317 (351)
Q Consensus 289 ~~~veel~~~~e~Le~gle~Le~~vd~lF 317 (351)
.+.++++++.+++-+..++.+-+|.+.+-
T Consensus 160 ~~ei~~lk~el~~~~~~~~~LkkQ~~~l~ 188 (192)
T PF05529_consen 160 SEEIEKLKKELEKKEKEIEALKKQSEGLQ 188 (192)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566777777777777777777766653
No 65
>PF06419 COG6: Conserved oligomeric complex COG6; InterPro: IPR010490 COG6 is a component of the conserved oligomeric golgi complex, which is composed of eight different subunits and is required for normal golgi morphology and localisation.
Probab=21.46 E-value=7.8e+02 Score=26.19 Aligned_cols=69 Identities=19% Similarity=0.211 Sum_probs=43.7
Q ss_pred hhHhHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHhHHH--HHHHHhHHHHHhhhhcC
Q 018714 257 TVLNELEAVDGSVKKLYEVIQNEVDTVEEELLQKSVLDLGKRADNLSQGLDHLTKAVDGFF--KIVLSGRDALLCNLRAT 334 (351)
Q Consensus 257 ~~l~El~~vd~av~~L~~~i~~~~~~e~~~~~~~~veel~~~~e~Le~gle~Le~~vd~lF--r~li~~R~~LL~~l~~~ 334 (351)
..++||..|...++.+...++. +...-+++...+..-.....++-.+++.|. +..++.|..+|+.+...
T Consensus 35 ~~L~~f~~v~~~l~~~~~~v~~---------l~~~~~~~~~~l~~~~~~t~~ll~~~~~L~~~~~~~~~k~~ll~~f~~~ 105 (618)
T PF06419_consen 35 EFLKEFSPVNRQLKRLQSDVDK---------LNSSCDQMQDRLSAAKSETSDLLEEASELREQKEELELKKKLLDAFLER 105 (618)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4678999988888777654332 334444555555555555555666666663 45678888888877653
No 66
>PF15449 Retinal: Retinal protein
Probab=21.32 E-value=5.5e+02 Score=29.36 Aligned_cols=92 Identities=17% Similarity=0.213 Sum_probs=60.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCC---------------CCC----chhhhHHHHHHhhhhhHHhHHHHHHHHHh--h
Q 018714 62 SWMRLAMESLCETHNVIKDLITELEL---------------PVS----DWDEKWIDVYLDISVNLLDICIAFSSVLT--K 120 (351)
Q Consensus 62 ~wl~~~l~~L~~~h~~~~~Li~~~~l---------------p~~----~~~~k~vdeyLD~SlkLLDvCna~k~~l~--~ 120 (351)
..|+..+.+|.-+.++|..|+.++-. |.. .++-.++..+|.++|.=|-+-|.+...|. -
T Consensus 219 ~~lq~mv~fl~l~feEinqll~ei~~dGe~ll~ev~~~lawP~~k~~~~~qPdLLqQLLqytv~kmq~l~~tva~lt~~~ 298 (1287)
T PF15449_consen 219 ELLQPMVSFLLLRFEEINQLLGEIAKDGEVLLKEVGGDLAWPSGKGEPQEQPDLLQQLLQYTVNKMQVLNGTVASLTSSA 298 (1287)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccCCCCCCCchHHHHHHHHHHHHHHHhhhhHHhhhhhh
Confidence 35677777777777777777654322 222 22345899999999987877777766664 4
Q ss_pred hhhhHHHHHHHHHhcCCC------ChhHHHHHHHhHhHH
Q 018714 121 VSQGHLLLQCVLHTLDSS------SPTQFGRACSSLDNW 153 (351)
Q Consensus 121 ~k~~~~~lq~al~~l~~~------~~~~~~ra~~~l~~~ 153 (351)
+++....++++...|+++ -+..+.|+...|..+
T Consensus 299 Le~s~~y~~s~a~~L~~kl~~kr~~de~llr~l~~le~~ 337 (1287)
T PF15449_consen 299 LEGSSSYLQSAASHLEEKLSAKRGVDERLLRALGQLESL 337 (1287)
T ss_pred hhhhHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHH
Confidence 677788888888888764 234445555444443
No 67
>PHA03386 P10 fibrous body protein; Provisional
Probab=21.20 E-value=4.2e+02 Score=20.99 Aligned_cols=8 Identities=13% Similarity=0.106 Sum_probs=3.9
Q ss_pred HHHHhhhh
Q 018714 325 DALLCNLR 332 (351)
Q Consensus 325 ~~LL~~l~ 332 (351)
..+-++|+
T Consensus 53 ~~Iq~iLn 60 (94)
T PHA03386 53 SDIQSILT 60 (94)
T ss_pred HHHHHhcC
Confidence 34455554
No 68
>PF15136 UPF0449: Uncharacterised protein family UPF0449
Probab=21.14 E-value=1.4e+02 Score=23.83 Aligned_cols=28 Identities=25% Similarity=0.405 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHhhchHHHHHHHhH
Q 018714 288 LQKSVLDLGKRADNLSQGLDHLTKAVDG 315 (351)
Q Consensus 288 ~~~~veel~~~~e~Le~gle~Le~~vd~ 315 (351)
++.+-..|+++++.|...-+.|++.|++
T Consensus 69 Lqqa~~~Lkkk~e~L~~age~Le~~i~~ 96 (97)
T PF15136_consen 69 LQQARDQLKKKCEELRQAGEELERDIEQ 96 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4555678888888888888888887765
No 69
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.06 E-value=6.3e+02 Score=24.00 Aligned_cols=59 Identities=15% Similarity=0.233 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHhHHHHHH
Q 018714 260 NELEAVDGSVKKLYEVIQNEVDTVEEELLQKSVLDLGKRADNLSQGLDHLTKAVDGFFKIV 320 (351)
Q Consensus 260 ~El~~vd~av~~L~~~i~~~~~~e~~~~~~~~veel~~~~e~Le~gle~Le~~vd~lFr~l 320 (351)
+|++.++.-+..+...++.. .++.+..+..+..++..++.+++.|..-.+-+++=-|-+
T Consensus 52 ~ei~~L~~qi~~~~~k~~~~--~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~l~~raRAm 110 (265)
T COG3883 52 NEIESLDNQIEEIQSKIDEL--QKEIDQSKAEIKKLQKEIAELKENIVERQELLKKRARAM 110 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 70
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=20.94 E-value=3.5e+02 Score=21.40 Aligned_cols=34 Identities=12% Similarity=0.200 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHhhchHHHHHHHhHHHHHH
Q 018714 287 LLQKSVLDLGKRADNLSQGLDHLTKAVDGFFKIV 320 (351)
Q Consensus 287 ~~~~~veel~~~~e~Le~gle~Le~~vd~lFr~l 320 (351)
.+...++.+...+..++..++.+++++.++=..|
T Consensus 67 ~Le~~~e~le~~i~~l~~~~~~l~~~~~elk~~l 100 (105)
T cd00632 67 ELKERLETIELRIKRLERQEEDLQEKLKELQEKI 100 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455555555555555555555555444433
No 71
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=20.37 E-value=4.9e+02 Score=24.20 Aligned_cols=10 Identities=10% Similarity=0.278 Sum_probs=3.5
Q ss_pred HHHHHHHHhh
Q 018714 295 LGKRADNLSQ 304 (351)
Q Consensus 295 l~~~~e~Le~ 304 (351)
++...+.+.+
T Consensus 161 le~e~ee~~e 170 (290)
T COG4026 161 LEAEYEEVQE 170 (290)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 72
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=20.37 E-value=1.7e+02 Score=22.21 Aligned_cols=22 Identities=27% Similarity=0.490 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHhhchHHHHHHH
Q 018714 292 VLDLGKRADNLSQGLDHLTKAV 313 (351)
Q Consensus 292 veel~~~~e~Le~gle~Le~~v 313 (351)
+++|-...+.|++.|+.||+=+
T Consensus 44 L~~L~~~a~rm~eRI~tLE~IL 65 (75)
T TIGR02976 44 LQELYAKADRLEERIDTLERIL 65 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444455555555555443
No 73
>PF14389 Lzipper-MIP1: Leucine-zipper of ternary complex factor MIP1
Probab=20.24 E-value=2e+02 Score=22.41 Aligned_cols=36 Identities=17% Similarity=0.242 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHhhchHHHHHHHhHHHHHHHHh
Q 018714 288 LQKSVLDLGKRADNLSQGLDHLTKAVDGFFKIVLSG 323 (351)
Q Consensus 288 ~~~~veel~~~~e~Le~gle~Le~~vd~lFr~li~~ 323 (351)
+-..++++-..+..+|.-|-.||.+|..|++.+..-
T Consensus 52 lp~~~keLL~EIA~lE~eV~~LE~~v~~L~~~l~~q 87 (88)
T PF14389_consen 52 LPKKAKELLEEIALLEAEVAKLEQKVLSLYRQLFQQ 87 (88)
T ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 335688888899999999999999999999988654
No 74
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=20.20 E-value=4.3e+02 Score=21.51 Aligned_cols=16 Identities=25% Similarity=0.509 Sum_probs=8.0
Q ss_pred HHhhchHHHHHHHhHH
Q 018714 301 NLSQGLDHLTKAVDGF 316 (351)
Q Consensus 301 ~Le~gle~Le~~vd~l 316 (351)
.++..|+.|+++|.++
T Consensus 87 ~l~~rvd~Lerqv~~L 102 (108)
T COG3937 87 ELTERVDALERQVADL 102 (108)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4445555555555444
Done!