Query 016422
Match_columns 390
No_of_seqs 161 out of 271
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 06:43:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016422.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016422hhsearch_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 5E-103 1E-107 775.5 38.7 376 1-383 1-389 (389)
2 PF05055 DUF677: Protein of un 100.0 3.6E-32 7.9E-37 268.3 20.6 311 45-383 1-336 (336)
3 PF03087 DUF241: Arabidopsis p 99.8 2.4E-17 5.2E-22 156.2 21.8 208 93-382 22-231 (231)
4 PF01601 Corona_S2: Coronaviru 74.4 14 0.0003 39.9 8.4 127 242-383 204-337 (610)
5 KOG4191 Histone acetyltransfer 70.0 37 0.0008 35.4 9.9 104 259-378 356-468 (516)
6 PF07956 DUF1690: Protein of U 59.0 58 0.0013 28.7 8.0 87 287-386 35-123 (142)
7 PF10805 DUF2730: Protein of u 58.1 44 0.00096 27.8 6.8 55 311-368 44-98 (106)
8 PRK11637 AmiB activator; Provi 54.5 1.5E+02 0.0033 30.6 11.5 28 339-366 100-127 (428)
9 PF05531 NPV_P10: Nucleopolyhe 53.6 55 0.0012 25.8 6.1 54 309-371 11-64 (75)
10 PRK11637 AmiB activator; Provi 53.2 2.5E+02 0.0054 29.0 12.9 34 338-371 92-125 (428)
11 KOG0994 Extracellular matrix g 51.0 1.1E+02 0.0025 35.8 10.2 92 279-372 1167-1262(1758)
12 TIGR02894 DNA_bind_RsfA transc 48.6 2.1E+02 0.0045 25.9 10.2 44 337-380 113-156 (161)
13 PF02403 Seryl_tRNA_N: Seryl-t 42.2 1.2E+02 0.0025 24.9 6.9 35 335-369 67-101 (108)
14 PHA01750 hypothetical protein 41.4 69 0.0015 24.6 4.8 25 344-368 44-68 (75)
15 PF03670 UPF0184: Uncharacteri 39.8 1.7E+02 0.0037 23.6 7.0 49 337-385 28-76 (83)
16 TIGR01834 PHA_synth_III_E poly 39.6 1.6E+02 0.0035 29.6 8.5 81 280-365 236-319 (320)
17 KOG3335 Predicted coiled-coil 39.2 94 0.002 28.5 6.2 75 308-382 60-146 (181)
18 PHA02047 phage lambda Rz1-like 38.4 1.1E+02 0.0023 25.4 5.7 45 340-384 32-76 (101)
19 PF12761 End3: Actin cytoskele 36.4 2.6E+02 0.0056 26.1 8.8 33 351-384 162-194 (195)
20 KOG1760 Molecular chaperone Pr 35.9 2.8E+02 0.006 24.1 8.1 77 283-368 23-114 (131)
21 PF15546 DUF4653: Domain of un 35.4 63 0.0014 30.2 4.5 37 350-386 194-230 (239)
22 PF09177 Syntaxin-6_N: Syntaxi 35.1 1.4E+02 0.0029 24.2 6.1 29 339-367 36-64 (97)
23 PF04380 BMFP: Membrane fusoge 34.4 1.2E+02 0.0027 23.8 5.5 32 332-363 47-78 (79)
24 KOG0995 Centromere-associated 34.0 4.5E+02 0.0097 28.6 11.1 50 309-360 308-357 (581)
25 PF11932 DUF3450: Protein of u 33.7 3.6E+02 0.0078 25.6 9.8 14 280-293 32-45 (251)
26 PF08654 DASH_Dad2: DASH compl 33.6 2.8E+02 0.0061 23.1 8.9 44 339-382 25-71 (103)
27 PRK00708 sec-independent trans 33.1 1.7E+02 0.0036 27.6 7.1 46 246-295 3-49 (209)
28 PRK04654 sec-independent trans 33.1 1.9E+02 0.0042 27.3 7.4 48 246-297 3-51 (214)
29 TIGR02132 phaR_Bmeg polyhydrox 33.0 2.2E+02 0.0048 26.2 7.5 26 346-371 111-136 (189)
30 PF10303 DUF2408: Protein of u 31.9 3.5E+02 0.0075 23.6 10.7 72 308-379 40-121 (134)
31 PHA02675 ORF104 fusion protein 30.6 1.7E+02 0.0038 23.5 5.7 33 342-374 44-76 (90)
32 PF07889 DUF1664: Protein of u 29.8 3.7E+02 0.008 23.3 9.3 7 242-248 32-38 (126)
33 PF10018 Med4: Vitamin-D-recep 29.3 3E+02 0.0065 25.1 8.1 40 344-383 24-63 (188)
34 PF10157 DUF2365: Uncharacteri 28.9 1.6E+02 0.0034 26.3 5.8 46 312-363 102-147 (149)
35 PF07889 DUF1664: Protein of u 28.5 3E+02 0.0065 23.8 7.4 28 344-371 84-111 (126)
36 PF10198 Ada3: Histone acetylt 28.5 3.4E+02 0.0074 23.6 7.8 26 352-377 74-99 (131)
37 PRK09039 hypothetical protein; 28.2 5.2E+02 0.011 26.0 10.3 28 235-262 14-41 (343)
38 PF10392 COG5: Golgi transport 27.8 2.4E+02 0.0053 24.1 6.8 42 338-379 68-109 (132)
39 COG4420 Predicted membrane pro 26.9 4.6E+02 0.0099 24.4 8.6 21 242-262 57-77 (191)
40 PLN02372 violaxanthin de-epoxi 25.9 2.8E+02 0.006 29.0 7.6 35 350-384 402-438 (455)
41 PHA03386 P10 fibrous body prot 25.9 2.5E+02 0.0053 23.1 5.9 31 337-367 21-54 (94)
42 PF13747 DUF4164: Domain of un 25.3 3.6E+02 0.0079 21.7 7.0 13 360-372 64-76 (89)
43 PRK05431 seryl-tRNA synthetase 25.1 2.1E+02 0.0046 29.7 7.0 60 308-369 41-100 (425)
44 PF10393 Matrilin_ccoil: Trime 24.7 1.3E+02 0.0027 21.6 3.6 26 340-365 21-46 (47)
45 PF04508 Pox_A_type_inc: Viral 24.6 61 0.0013 19.8 1.7 17 354-370 6-22 (23)
46 PF03980 Nnf1: Nnf1 ; InterPr 23.8 4.1E+02 0.0088 21.8 9.7 96 281-377 8-108 (109)
47 smart00188 IL10 Interleukin-10 23.6 39 0.00085 29.7 1.0 11 100-110 126-136 (137)
48 PRK02119 hypothetical protein; 23.5 3.5E+02 0.0077 20.9 6.4 32 343-374 24-55 (73)
49 PF03511 Fanconi_A: Fanconi an 23.4 77 0.0017 24.1 2.4 19 112-130 28-46 (64)
50 PF10458 Val_tRNA-synt_C: Valy 23.3 3.2E+02 0.007 20.4 6.3 54 308-361 10-65 (66)
51 PF06419 COG6: Conserved oligo 23.2 4.8E+02 0.01 28.5 9.6 67 306-384 35-103 (618)
52 COG3352 FlaC Putative archaeal 23.1 3.7E+02 0.0081 24.1 7.0 43 339-381 69-111 (157)
53 cd00632 Prefoldin_beta Prefold 23.1 2E+02 0.0042 23.6 5.1 36 338-373 66-101 (105)
54 PLN02678 seryl-tRNA synthetase 23.0 2.5E+02 0.0054 29.6 7.0 34 336-369 72-105 (448)
55 PF12652 CotJB: CotJB protein; 22.8 3.3E+02 0.0072 21.5 6.1 53 307-361 4-56 (78)
56 PF15290 Syntaphilin: Golgi-lo 22.7 6.6E+02 0.014 24.9 9.2 36 339-374 121-156 (305)
57 PF06825 HSBP1: Heat shock fac 22.6 3E+02 0.0066 20.3 5.4 24 345-368 24-47 (54)
58 KOG2264 Exostosin EXT1L [Signa 22.3 7.2E+02 0.016 27.2 10.1 25 340-364 112-136 (907)
59 PF04156 IncA: IncA protein; 21.9 5.8E+02 0.013 22.8 14.0 6 310-315 96-101 (191)
60 TIGR03185 DNA_S_dndD DNA sulfu 21.4 8.2E+02 0.018 26.7 11.0 66 307-375 396-461 (650)
61 TIGR00414 serS seryl-tRNA synt 21.3 3E+02 0.0064 28.6 7.2 34 337-370 71-104 (418)
62 PLN02320 seryl-tRNA synthetase 20.2 3.2E+02 0.007 29.2 7.2 33 337-369 132-164 (502)
63 PF03962 Mnd1: Mnd1 family; I 20.2 6.5E+02 0.014 23.1 8.5 54 307-361 108-161 (188)
64 PF06103 DUF948: Bacterial pro 20.1 2.1E+02 0.0045 22.6 4.6 33 340-372 45-77 (90)
65 PF07106 TBPIP: Tat binding pr 20.1 3.5E+02 0.0076 24.0 6.6 52 309-363 86-137 (169)
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=5.3e-103 Score=775.46 Aligned_cols=376 Identities=57% Similarity=0.918 Sum_probs=355.6
Q ss_pred CCCCCCCCCCCCCCCcCchhhhhhhcccccCCCCcCCCCC-cchHHHHHHHHHHHHHhhcccCC---CCccCHHHHHHHH
Q 016422 1 MPATTDSSAAASFTNIGRSILSLRRDQVHSIEGMNMQHHD-ADTELESFQKRVTDRFLDLSSSS---DELLTLSWVQKLL 76 (390)
Q Consensus 1 ~~~~~~~~~~~~~~~~g~~~~~~r~~~~~~~~~~~~~~~~-~~~~l~~F~~~L~~rl~~L~~~~---~~~LSl~wl~~al 76 (390)
|||||||| ||+++||+||+|||+|+++|++.+. ++++|++||++|++||.+|.+++ +++|||+||+++|
T Consensus 1 mpat~~~~-------~~~s~ls~rr~~~~~~~~~~~~~~~~~~~~L~~Fq~~va~rl~~L~~~~~~~~~~LSL~W~~~~l 73 (389)
T PF05633_consen 1 MPATDYQG-------FGRSLLSLRRDQVHSMSHNHEQEAESLEAELEAFQRHVAERLSDLSPSSKDSDDFLSLSWMRKAL 73 (389)
T ss_pred CCCccccc-------ccchhhhccccCCCCCCCCcccccccchhhHHHHHHHHHHHHHHhccCcCcccccccHHHHHHHH
Confidence 99999998 7889999999999999999877554 67899999999999999999886 4899999999999
Q ss_pred HHHHHHHHHHHHHHhhhcc-cCCCChhhhHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCchHH
Q 016422 77 QSFLISQDEFRQILFRNKS-QLHKPPMDRLIADYFERSVKALDVCNAIRDGIEQIRQWQKLIEIVLIALDNKKLIGEGHF 155 (390)
Q Consensus 77 ~~ll~~~~e~~~li~~~~~-~l~~~~~~~~vdeYld~SvKlLD~Cnal~~~i~~lr~~~~~l~~al~~l~~~~~~~~~~~ 155 (390)
++|++||.||+++|++++. |+++||+||||+||||+|||+||||||+++||+++|||++++++|+|+|++.++++++|+
T Consensus 74 d~~l~~~~efr~li~~~~~~~~s~~~~dk~v~eylD~sVKlLDvCNA~~~gi~~lr~~~~ll~~al~~L~~~~~~~~~~~ 153 (389)
T PF05633_consen 74 DSFLCCHEEFRALITNLRDLPLSKPPDDKWVDEYLDRSVKLLDVCNAIRDGISQLRQWQLLLQIALHALDSSRPLGEGQL 153 (389)
T ss_pred HHHHHHHHHHHHHHhcccccccCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCcHHHH
Confidence 9999999999999999987 999999999999999999999999999999999999999999999999998888999999
Q ss_pred HHHHHHHHHHHHhhhhhhhhccc-ccccccccccc-cccccc-----ccccccccchhhhhhhhchHHHHHHHHhhcCCC
Q 016422 156 RRAKKAMVDLAISMLDEKESGSA-LANRNRSFGRN-NVRDNL-----HKSLGHFRSLSWSVSRSWSAARQLQAIGNNLNA 228 (390)
Q Consensus 156 ~RA~~aL~~~~~~m~~~k~~~~~-~~~~n~~f~~~-~~~~~~-----~~~~~~~~sl~~sv~~~ws~~~~l~~~~~~l~~ 228 (390)
+||+++|.+|..+|+|++++++. .+++||+|||. .++..+ ++..||||||||+|+++|||++|||+|++||..
T Consensus 154 rRAr~aL~dl~~~~~~~~~~~~~~~~~rnrs~~r~~~~~~~~~~s~~~~~~~~~rsls~~vsr~wsa~~~Lq~m~~nL~~ 233 (389)
T PF05633_consen 154 RRARKALSDLKIAMLDDKDSGSSGGSHRNRSFGRSNSSGRRSSSSSGSRSAGHFRSLSWSVSRNWSAARQLQAMGENLVL 233 (389)
T ss_pred HHHHHHHHHHHHHHhcccccCcccccccccccccccCCCCCCCCccccCCcccchhhhhhhhhhhhhHHHHHHHHhcCCC
Confidence 99999999999999988888764 46999999998 322211 245789999999999999999999999999999
Q ss_pred CCccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhcCCCcccccccc-cccCCcchHHHHHHHHHHHHHHhhhhhccccch
Q 016422 229 PRSHEIMATNGLANLVFTMSFVLLFVMWALVAAIPCQDRGLQVHFS-MSRQFSWAAPMLMLHERIMEESKRRDRRNASGL 307 (390)
Q Consensus 229 pk~k~~~~~~~l~~aly~~~~v~v~v~~vlvaAl~~~~~~~~~~~~-vp~~~~Ws~s~~~Lq~rv~eE~~~~~~~gs~~~ 307 (390)
||+++.++++|++.|||+|++||+||||+||||+||+++++.++++ +|++++|+.+|..||++|++|+++++++|++|+
T Consensus 234 Pk~~esak~~gL~~A~Y~m~~vtvFV~~vlVAA~pc~~rgL~~~l~~vP~~~~WA~s~~~LQ~rI~eEikkk~~kgs~gL 313 (389)
T PF05633_consen 234 PKGKESAKGRGLLRAMYGMKSVTVFVCWVLVAAFPCQDRGLQVHLSAVPRQFSWAPSFISLQERINEEIKKKERKGSCGL 313 (389)
T ss_pred CCCccccccchHHHHHHHHHHHHHHHHHHHHHeeecCCccccCCCCCCccccccchHHHHHHHHHHHHHhhccccCcchH
Confidence 9999999999999999999999999999999999999988889999 899999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHHHHHHHHHHhcchhhhhhHHhHHHHHHHHhHHHHhhhc
Q 016422 308 LREIYQIEKSTRLMNELLDSAQFPITEEKEGEVRQRVQELSMVFESIKRGLNPLEGQVREVFHKIVRSRTEGLDSL 383 (390)
Q Consensus 308 l~El~~vdaav~~L~~~i~~~~~~~~~e~~~~v~~~veeL~~~~e~Le~GLe~Le~qVd~lFr~Iv~~R~~LL~~l 383 (390)
|+||++||+++++|++++++++|+.++|+++++++.|+||++.|+.|++|||+|++|||+|||+||++|+++||.|
T Consensus 314 LkEl~~ve~~vr~L~el~d~~~~p~~~e~~~ev~~~V~EL~~~~~~L~~GLdpLerqVre~Fh~IV~sR~elLd~l 389 (389)
T PF05633_consen 314 LKELQQVEASVRELHELIDSFQFPLEEEKEEEVREAVEELARVCEALSQGLDPLERQVREVFHRIVRSRTELLDSL 389 (389)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCCcchhHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHhhHHHHhcC
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999975
No 2
>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=100.00 E-value=3.6e-32 Score=268.34 Aligned_cols=311 Identities=21% Similarity=0.324 Sum_probs=244.7
Q ss_pred HHHHHHHHHHHHhhcccCC-----CCccCHHHHHHHHHHHHHHHHHHHHHHhhhcccCCC-ChhhhHHHHHHHhhHHHHH
Q 016422 45 LESFQKRVTDRFLDLSSSS-----DELLTLSWVQKLLQSFLISQDEFRQILFRNKSQLHK-PPMDRLIADYFERSVKALD 118 (390)
Q Consensus 45 l~~F~~~L~~rl~~L~~~~-----~~~LSl~wl~~al~~ll~~~~e~~~li~~~~~~l~~-~~~~~~vdeYld~SvKlLD 118 (390)
|++||+.|++|++.++++. .+.+|++.+.++.++|+++++|+..+|++++..+|+ +....+|.+|||.|.+++|
T Consensus 1 l~~fd~~l~~~t~~~i~sl~~~~~~~s~s~~s~~~~t~~Lle~~Qevv~~ile~~~di~~~~~L~~Lv~~YFd~S~~a~~ 80 (336)
T PF05055_consen 1 LQSFDSSLQERTNRVISSLATGVETRSLSFDSLKEVTECLLEMNQEVVKVILECKKDIWKNPELFRLVSDYFDSSLEASD 80 (336)
T ss_pred CCCccHHHHHHHHHHHHHhhhccccCCCChHHHHHHHHHHhCCChHHHHHHHHHHHHhhcChhHHHHHHHHHHhhHHHHH
Confidence 4789999999999999886 279999999999999999999999999999999999 7899999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCc--hHHHHHHHHHHHHHHhhhhhhhhccccccccccccccccccccc
Q 016422 119 VCNAIRDGIEQIRQWQKLIEIVLIALDNKKLIGE--GHFRRAKKAMVDLAISMLDEKESGSALANRNRSFGRNNVRDNLH 196 (390)
Q Consensus 119 ~Cnal~~~i~~lr~~~~~l~~al~~l~~~~~~~~--~~~~RA~~aL~~~~~~m~~~k~~~~~~~~~n~~f~~~~~~~~~~ 196 (390)
+|++|..+|.++|..++.++.|++.++......+ ..-.++.++++++.. |+..+|||+...
T Consensus 81 ~C~~L~k~I~~aR~~~~~I~~al~~~~~e~~~~d~g~~~~~~~~tl~eL~~----F~~~~NPFs~~~------------- 143 (336)
T PF05055_consen 81 FCEALLKCIHRARDNYLPIRRALKQFEKESLDTDVGVSQKKYDKTLEELKK----FKAAGNPFSDEE------------- 143 (336)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHhhhhccccccccccchhHHHHHHHHHh----hhhcCCCCCchh-------------
Confidence 9999999999999999999999999975432110 122445556666643 677887876621
Q ss_pred cccccccchhhhhhhhchHHHHHHHHhhcCCCCCcc---c---hhhhhhHHHHHHHHHHHHHHHHHHHHHhhcCCCc-cc
Q 016422 197 KSLGHFRSLSWSVSRSWSAARQLQAIGNNLNAPRSH---E---IMATNGLANLVFTMSFVLLFVMWALVAAIPCQDR-GL 269 (390)
Q Consensus 197 ~~~~~~~sl~~sv~~~ws~~~~l~~~~~~l~~pk~k---~---~~~~~~l~~aly~~~~v~v~v~~vlvaAl~~~~~-~~ 269 (390)
+...+.+| ..+...|.++|...|.| + ...++.+++++|++.+++++|+++++||++.++. ++
T Consensus 144 -----~~~~F~~i------~~~~~~Ll~kL~~~k~Kl~kklk~~r~~~kvs~v~fvaa~~aV~i~svv~aa~a~~~vv~~ 212 (336)
T PF05055_consen 144 -----FFHQFQSI------HDQQSSLLEKLDSRKKKLRKKLKLVRTWRKVSNVCFVAAFVAVAIASVVAAAHAVPAVVAL 212 (336)
T ss_pred -----HHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence 33344555 22233355555444433 2 2345788999999999999999999999977764 43
Q ss_pred ccccccccC--CcchHHHHHHHHH-HHHHHh--hhhhccccchHHHHHHHHHHHHHHHHHHhh----cCCCCChh-hHHH
Q 016422 270 QVHFSMSRQ--FSWAAPMLMLHER-IMEESK--RRDRRNASGLLREIYQIEKSTRLMNELLDS----AQFPITEE-KEGE 339 (390)
Q Consensus 270 ~~~~~vp~~--~~Ws~s~~~Lq~r-v~eE~~--~~~~~gs~~~l~El~~vdaav~~L~~~i~~----~~~~~~~e-~~~~ 339 (390)
++.+.+|.. ++|..++++.+++ ++.... ....+|...+.++|+.|...|++|+..|++ ++|+++.+ +...
T Consensus 213 aa~~a~P~~~~gkw~~~~~~k~~~al~~~~~~l~~aakGtyI~~~DldTIsrLV~RL~deIE~~~~~v~fave~~~d~~~ 292 (336)
T PF05055_consen 213 AAALAAPIGSVGKWCGSLWKKYEEALKKQKEQLDAAAKGTYILIKDLDTISRLVDRLEDEIEHMKALVDFAVERGEDEEA 292 (336)
T ss_pred HHHHccchHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHhcCccchh
Confidence 334445654 5699998888775 332211 123688888999999999999999999988 35554432 3457
Q ss_pred HHHHHHHHHHHHHHHhcchhhhhhHHhHHHHHHHHhHHHHhhhc
Q 016422 340 VRQRVQELSMVFESIKRGLNPLEGQVREVFHKIVRSRTEGLDSL 383 (390)
Q Consensus 340 v~~~veeL~~~~e~Le~GLe~Le~qVd~lFr~Iv~~R~~LL~~l 383 (390)
++..+++|+++.+.|.+-||+||++|.-||+.|-++|+.+|+.|
T Consensus 293 vk~vv~el~k~~~~f~~qleELeehv~lC~~tInrAR~lVlq~I 336 (336)
T PF05055_consen 293 VKEVVKELKKNVESFTEQLEELEEHVYLCFKTINRARTLVLQEI 336 (336)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 99999999999999999999999999999999999999999754
No 3
>PF03087 DUF241: Arabidopsis protein of unknown function; InterPro: IPR004320 This family represents plant proteins of unknown function.
Probab=99.78 E-value=2.4e-17 Score=156.22 Aligned_cols=208 Identities=16% Similarity=0.317 Sum_probs=138.1
Q ss_pred hcccCCCChhhhHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCC--CchHHHHHHHHHHHHHHhhh
Q 016422 93 NKSQLHKPPMDRLIADYFERSVKALDVCNAIRDGIEQIRQWQKLIEIVLIALDNKKLI--GEGHFRRAKKAMVDLAISML 170 (390)
Q Consensus 93 ~~~~l~~~~~~~~vdeYld~SvKlLD~Cnal~~~i~~lr~~~~~l~~al~~l~~~~~~--~~~~~~RA~~aL~~~~~~m~ 170 (390)
.++++.... ++|||++||.|++|||+|+++++.+.++++...-+|.|+..=+++ .. .-..|.|+++....-..
T Consensus 22 tq~al~~~~-~k~ve~lLd~sL~LLD~c~~~rd~ll~lKe~v~eLqsalRRr~~~-~~~~~i~sy~~~rKk~kK~i~--- 96 (231)
T PF03087_consen 22 TQQALSHHQ-EKWVEELLDGSLRLLDACGTFRDALLQLKEHVQELQSALRRRDDG-SIESEIASYIRSRKKAKKEIA--- 96 (231)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccch-hHHHHHHHHHHHHHHHHHHHH---
Confidence 344455455 899999999999999999999999999999999999998443311 00 00112222211111000
Q ss_pred hhhhhccccccccccccccccccccccccccccchhhhhhhhchHHHHHHHHhhcCCCCCccchhhhhhHHHHHHHHHHH
Q 016422 171 DEKESGSALANRNRSFGRNNVRDNLHKSLGHFRSLSWSVSRSWSAARQLQAIGNNLNAPRSHEIMATNGLANLVFTMSFV 250 (390)
Q Consensus 171 ~~k~~~~~~~~~n~~f~~~~~~~~~~~~~~~~~sl~~sv~~~ws~~~~l~~~~~~l~~pk~k~~~~~~~l~~aly~~~~v 250 (390)
.+.+.+..|.++ ..|...+......+..++..+..+
T Consensus 97 -------------------------------------------K~~~~lk~~~~~-~~~~~~~~~~~~~vv~~l~ea~~~ 132 (231)
T PF03087_consen 97 -------------------------------------------KLLRSLKRMSNK-SSSSNDDDEHLSAVVRVLREAREI 132 (231)
T ss_pred -------------------------------------------HHHHHHHhhhcc-cCCCccchhHHHHHHHHHHHHHHH
Confidence 012223334433 112211111246678899999999
Q ss_pred HHHHHHHHHHhhcCCCcccccccccccCCcchHHHHHHHHHHHHHHhhhhhccccchHHHHHHHHHHHHHHHHHHhhcCC
Q 016422 251 LLFVMWALVAAIPCQDRGLQVHFSMSRQFSWAAPMLMLHERIMEESKRRDRRNASGLLREIYQIEKSTRLMNELLDSAQF 330 (390)
Q Consensus 251 ~v~v~~vlvaAl~~~~~~~~~~~~vp~~~~Ws~s~~~Lq~rv~eE~~~~~~~gs~~~l~El~~vdaav~~L~~~i~~~~~ 330 (390)
|+.++..++..++.+. +-|+..+|+.....++.+..+.... ...+|++.++.+ +..
T Consensus 133 t~si~~sll~~ls~~~-------~~~~~~~wslvsk~~~~~~~~~~~~-------~~~~e~~~~d~~---~~~------- 188 (231)
T PF03087_consen 133 TVSIFESLLSFLSSPS-------KKSKSSKWSLVSKLMQKKRSCDSSE-------ENRNEFEKVDAA---LKS------- 188 (231)
T ss_pred HHHHHHHHHHHHHccc-------ccccccchhHHHHHHhcccccchhH-------HHHHHHHHHHHH---hhh-------
Confidence 9999999999998753 2256678999888888764322111 136899998888 432
Q ss_pred CCChhhHHHHHHHHHHHHHHHHHHhcchhhhhhHHhHHHHHHHHhHHHHhhh
Q 016422 331 PITEEKEGEVRQRVQELSMVFESIKRGLNPLEGQVREVFHKIVRSRTEGLDS 382 (390)
Q Consensus 331 ~~~~e~~~~v~~~veeL~~~~e~Le~GLe~Le~qVd~lFr~Iv~~R~~LL~~ 382 (390)
+.+++..++..+++|+.+++.||+|+|. +||++|++|++||||
T Consensus 189 --~~e~~~~~~~~Le~LE~~Ie~lE~glE~-------vFR~LIktRVSLLNI 231 (231)
T PF03087_consen 189 --DEEEVQNAQKRLEELEECIEELEEGLEC-------VFRRLIKTRVSLLNI 231 (231)
T ss_pred --hhHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHhcC
Confidence 1344556777888887777777777775 799999999999997
No 4
>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=74.35 E-value=14 Score=39.87 Aligned_cols=127 Identities=11% Similarity=0.182 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHHHHHHHh--hcCCCcccccccccccCCcchHHHHHHHHHHHHHHhhhhhccccchHHHHHHHHHHHH
Q 016422 242 NLVFTMSFVLLFVMWALVAA--IPCQDRGLQVHFSMSRQFSWAAPMLMLHERIMEESKRRDRRNASGLLREIYQIEKSTR 319 (390)
Q Consensus 242 ~aly~~~~v~v~v~~vlvaA--l~~~~~~~~~~~~vp~~~~Ws~s~~~Lq~rv~eE~~~~~~~gs~~~l~El~~vdaav~ 319 (390)
.++|+...+.-++++++.+| ||... ..+.-+ ---+-=-..+.+-|+.++..-.+.. | ..-.-|..+..|..
T Consensus 204 ~a~YT~sL~g~m~~ggitsaaaIPFs~-~vQ~Rl--N~val~t~VL~~NQk~iA~sFN~Ai--~--~I~~g~~t~~~Al~ 276 (610)
T PF01601_consen 204 MAMYTASLTGGMAFGGITSAAAIPFST-AVQARL--NYVALQTDVLQENQKIIANSFNKAI--G--NIQLGFTTTASALN 276 (610)
T ss_dssp ---------------------------------------SHHHHHHHHHHHHHHHHHHHHH--H--HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhhcccccceecchHH-HHHHHh--cceeeeHHHHHHHHHHHHHHHHHHH--H--HHHHHHHHHHHHHH
Confidence 58999999998888887444 44432 111111 0001112445555666654322111 0 01234566666666
Q ss_pred HHHHHHhhcCCCCChhhHHHHHHHHHHHHHHHHHHhcchhhhhhHHhHH-----HHHHHHhHHHHhhhc
Q 016422 320 LMNELLDSAQFPITEEKEGEVRQRVQELSMVFESIKRGLNPLEGQVREV-----FHKIVRSRTEGLDSL 383 (390)
Q Consensus 320 ~L~~~i~~~~~~~~~e~~~~v~~~veeL~~~~e~Le~GLe~Le~qVd~l-----Fr~Iv~~R~~LL~~l 383 (390)
+++..+.. ..+++..-+..|...+++....++++=..+|.+ =+|+|.||..-|+.+
T Consensus 277 KiQ~VVN~--------q~~aL~~L~~qL~nnF~AISssI~dIy~RLd~leAdaQVDRLItGRL~aLnaf 337 (610)
T PF01601_consen 277 KIQDVVNQ--------QGQALNQLTSQLSNNFGAISSSIQDIYNRLDQLEADAQVDRLITGRLAALNAF 337 (610)
T ss_dssp HHHHHHHH--------HHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHH-----------------
T ss_pred HHHHHHHH--------HHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHhhcccccccccchHHHHHHH
Confidence 66665532 334566666666666555555555554444444 478999999999876
No 5
>KOG4191 consensus Histone acetyltransferases PCAF/SAGA/ADA, subunit TADA3L/NGG1 [Chromatin structure and dynamics]
Probab=69.98 E-value=37 Score=35.44 Aligned_cols=104 Identities=19% Similarity=0.296 Sum_probs=57.3
Q ss_pred HHhhcCCCcccccccccccCCcchHHHHHHHHHHHHHHhhhh--hcccc-------chHHHHHHHHHHHHHHHHHHhhcC
Q 016422 259 VAAIPCQDRGLQVHFSMSRQFSWAAPMLMLHERIMEESKRRD--RRNAS-------GLLREIYQIEKSTRLMNELLDSAQ 329 (390)
Q Consensus 259 vaAl~~~~~~~~~~~~vp~~~~Ws~s~~~Lq~rv~eE~~~~~--~~gs~-------~~l~El~~vdaav~~L~~~i~~~~ 329 (390)
+.+-+.+++-....+.+|-+-+ +-+|+++|..... -.+.+ .++.|++.+.+- |..+-+
T Consensus 356 a~~as~~~rn~~~~~~~ph~~s-------~E~RLK~eL~~~Gll~ded~pasdddDEvlaeLR~lqae---Lk~vS~--- 422 (516)
T KOG4191|consen 356 ADGASTSPRNQNKPFSVPHTKS-------LESRLKEELIAQGLLEDEDRPASDDDDEVLAELRKLQAE---LKAVSA--- 422 (516)
T ss_pred hhhhccCCcccCCcccCccccC-------HHHHHHHHHHHhccccccCCCcccchHHHHHHHHHHHHH---HHHHHh---
Confidence 3344555654445667776544 5567776655432 01111 144555555554 332221
Q ss_pred CCCChhhHHHHHHHHHHHHHHHHHHhcchhhhhhHHhHHHHHHHHhHHH
Q 016422 330 FPITEEKEGEVRQRVQELSMVFESIKRGLNPLEGQVREVFHKIVRSRTE 378 (390)
Q Consensus 330 ~~~~~e~~~~v~~~veeL~~~~e~Le~GLe~Le~qVd~lFr~Iv~~R~~ 378 (390)
+ +..+-..+...+.| +-..+.+.+-+|.|.+||+++|...++.|+.
T Consensus 423 ~--N~k~k~~Ll~la~e-E~a~qe~~q~lddlDkqI~qaYvKr~r~~kk 468 (516)
T KOG4191|consen 423 H--NRKKKHDLLRLAPE-EMARQEFQQVLDDLDKQIEQAYVKRNRSRKK 468 (516)
T ss_pred h--hHHHHHHHHHhhHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 1 11122223222222 2355778999999999999999999999974
No 6
>PF07956 DUF1690: Protein of Unknown function (DUF1690) ; InterPro: IPR012471 Family of uncharacterised fungal proteins.
Probab=58.99 E-value=58 Score=28.75 Aligned_cols=87 Identities=21% Similarity=0.260 Sum_probs=44.4
Q ss_pred HHHHHHHHHHhhhhhccccchHHHHHHHHHHHHHHHHHHhh--cCCCCChhhHHHHHHHHHHHHHHHHHHhcchhhhhhH
Q 016422 287 MLHERIMEESKRRDRRNASGLLREIYQIEKSTRLMNELLDS--AQFPITEEKEGEVRQRVQELSMVFESIKRGLNPLEGQ 364 (390)
Q Consensus 287 ~Lq~rv~eE~~~~~~~gs~~~l~El~~vdaav~~L~~~i~~--~~~~~~~e~~~~v~~~veeL~~~~e~Le~GLe~Le~q 364 (390)
-+|+||++|.++.. -.|...++.+ +...+.. -+.....-....+...++.|...++... -+..+...
T Consensus 35 ~iq~Rva~eL~~L~-------~~~~~~~~~~---l~~~~~~ed~~~~~~~lSs~~v~~~i~~L~~kLe~~~-kl~~~~~~ 103 (142)
T PF07956_consen 35 HIQERVAEELKRLE-------EEELKKFEEA---LEKSLLSEDEKDQDPGLSSKSVNEEIEKLREKLEERK-KLRELKEE 103 (142)
T ss_pred HHHHHHHHHHHHHH-------HHHHHHHHHH---HHHhhcccccccccccccHHHHHHHHHHHHHHHHHHH-HHHhcccc
Confidence 34889999988755 2445555554 3322211 0011111123356666677766666442 22222221
Q ss_pred HhHHHHHHHHhHHHHhhhccCC
Q 016422 365 VREVFHKIVRSRTEGLDSLGKG 386 (390)
Q Consensus 365 Vd~lFr~Iv~~R~~LL~~l~~~ 386 (390)
. -+..+-.+|..|..+|+.-
T Consensus 104 ~--~~~~v~~aR~~vv~CL~~N 123 (142)
T PF07956_consen 104 K--NSEEVEKARSAVVRCLREN 123 (142)
T ss_pred c--cchhhHHHHHHHHHHHHHC
Confidence 1 2345678888888888643
No 7
>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=58.07 E-value=44 Score=27.83 Aligned_cols=55 Identities=13% Similarity=0.250 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHHHHHHHHHHhcchhhhhhHHhHH
Q 016422 311 IYQIEKSTRLMNELLDSAQFPITEEKEGEVRQRVQELSMVFESIKRGLNPLEGQVREV 368 (390)
Q Consensus 311 l~~vdaav~~L~~~i~~~~~~~~~e~~~~v~~~veeL~~~~e~Le~GLe~Le~qVd~l 368 (390)
+...+.-+..++..++.. | +.++...++..+.+++..+..++..++++..+++=+
T Consensus 44 ~~~~~~Rl~~lE~~l~~L--P-t~~dv~~L~l~l~el~G~~~~l~~~l~~v~~~~~lL 98 (106)
T PF10805_consen 44 LDEHDRRLQALETKLEHL--P-TRDDVHDLQLELAELRGELKELSARLQGVSHQLDLL 98 (106)
T ss_pred HHHHHHHHHHHHHHHHhC--C-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 334455555555555432 2 345667888999999999999999998887776644
No 8
>PRK11637 AmiB activator; Provisional
Probab=54.48 E-value=1.5e+02 Score=30.57 Aligned_cols=28 Identities=11% Similarity=0.266 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHhcchhhhhhHHh
Q 016422 339 EVRQRVQELSMVFESIKRGLNPLEGQVR 366 (390)
Q Consensus 339 ~v~~~veeL~~~~e~Le~GLe~Le~qVd 366 (390)
.+...+++++..+..++.-++...+.+.
T Consensus 100 ~~~~ei~~l~~eI~~~q~~l~~~~~~l~ 127 (428)
T PRK11637 100 QLNKQIDELNASIAKLEQQQAAQERLLA 127 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444444444333333
No 9
>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=53.63 E-value=55 Score=25.82 Aligned_cols=54 Identities=17% Similarity=0.246 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHHHHHHHHHHhcchhhhhhHHhHHHHH
Q 016422 309 REIYQIEKSTRLMNELLDSAQFPITEEKEGEVRQRVQELSMVFESIKRGLNPLEGQVREVFHK 371 (390)
Q Consensus 309 ~El~~vdaav~~L~~~i~~~~~~~~~e~~~~v~~~veeL~~~~e~Le~GLe~Le~qVd~lFr~ 371 (390)
.++..++.-|..|...++..+. --..+.+|.++++++...|+.|+.+|.+.-+.
T Consensus 11 ~dIk~vd~KVdaLq~~V~~l~~---------~~~~v~~l~~klDa~~~~l~~l~~~V~~I~~i 64 (75)
T PF05531_consen 11 QDIKAVDDKVDALQTQVDDLES---------NLPDVTELNKKLDAQSAQLTTLNTKVNEIQDI 64 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh---------cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555665556655543221 11357777777888888888888877766443
No 10
>PRK11637 AmiB activator; Provisional
Probab=53.16 E-value=2.5e+02 Score=28.99 Aligned_cols=34 Identities=15% Similarity=0.201 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHhcchhhhhhHHhHHHHH
Q 016422 338 GEVRQRVQELSMVFESIKRGLNPLEGQVREVFHK 371 (390)
Q Consensus 338 ~~v~~~veeL~~~~e~Le~GLe~Le~qVd~lFr~ 371 (390)
......+++++..++.++..|+.++++++.....
T Consensus 92 ~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~ 125 (428)
T PRK11637 92 RETQNTLNQLNKQIDELNASIAKLEQQQAAQERL 125 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566666666666666666666665555433
No 11
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=51.02 E-value=1.1e+02 Score=35.78 Aligned_cols=92 Identities=13% Similarity=0.242 Sum_probs=59.1
Q ss_pred CcchHHHHHHHHHHHHH---Hhhhhhccccc-hHHHHHHHHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHHHHHHHHHH
Q 016422 279 FSWAAPMLMLHERIMEE---SKRRDRRNASG-LLREIYQIEKSTRLMNELLDSAQFPITEEKEGEVRQRVQELSMVFESI 354 (390)
Q Consensus 279 ~~Ws~s~~~Lq~rv~eE---~~~~~~~gs~~-~l~El~~vdaav~~L~~~i~~~~~~~~~e~~~~v~~~veeL~~~~e~L 354 (390)
..|-..+..|..|...- .+.+...|-.+ .-.+|..++.-+.+++.++.. -.+..++.+++....++|++.+.++
T Consensus 1167 ~~WD~il~~L~~rt~rl~~~A~~l~~tGv~gay~s~f~~me~kl~~ir~il~~--~svs~~~i~~l~~~~~~lr~~l~~~ 1244 (1758)
T KOG0994|consen 1167 QTWDAILQELALRTHRLINRAKELKQTGVLGAYASRFLDMEEKLEEIRAILSA--PSVSAEDIAQLASATESLRRQLQAL 1244 (1758)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhccCchhhHhHHHHHHHHHHHHHHHhcC--CCccHHHHHHHHHHHHHHHHHHHHH
Confidence 36999999998775321 12222333333 457888888887777777743 1234566777777888888888777
Q ss_pred hcchhhhhhHHhHHHHHH
Q 016422 355 KRGLNPLEGQVREVFHKI 372 (390)
Q Consensus 355 e~GLe~Le~qVd~lFr~I 372 (390)
.+-|-.+|..+.++...+
T Consensus 1245 ~e~L~~~E~~Lsdi~~~~ 1262 (1758)
T KOG0994|consen 1245 TEDLPQEEETLSDITNSL 1262 (1758)
T ss_pred Hhhhhhhhhhhhhhhhcc
Confidence 777766666666554443
No 12
>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=48.56 E-value=2.1e+02 Score=25.91 Aligned_cols=44 Identities=18% Similarity=0.366 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHHHHHHHhcchhhhhhHHhHHHHHHHHhHHHHh
Q 016422 337 EGEVRQRVQELSMVFESIKRGLNPLEGQVREVFHKIVRSRTEGL 380 (390)
Q Consensus 337 ~~~v~~~veeL~~~~e~Le~GLe~Le~qVd~lFr~Iv~~R~~LL 380 (390)
...++..++.|++..+.|.+.+..+++.-..++..+=++|...+
T Consensus 113 ~~~l~~~~e~Le~e~~~L~~~~~~~~eDY~~L~~Im~RARkl~~ 156 (161)
T TIGR02894 113 NESLQKRNEELEKELEKLRQRLSTIEEDYQTLIDIMDRARKLAV 156 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34677788888888888888888889999999999999998653
No 13
>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=42.22 E-value=1.2e+02 Score=24.87 Aligned_cols=35 Identities=26% Similarity=0.462 Sum_probs=27.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHhcchhhhhhHHhHHH
Q 016422 335 EKEGEVRQRVQELSMVFESIKRGLNPLEGQVREVF 369 (390)
Q Consensus 335 e~~~~v~~~veeL~~~~e~Le~GLe~Le~qVd~lF 369 (390)
++.+++...+.+++..+..++.-++.++.+++.+.
T Consensus 67 ~~~~~l~~e~~~lk~~i~~le~~~~~~e~~l~~~l 101 (108)
T PF02403_consen 67 EDAEELKAEVKELKEEIKELEEQLKELEEELNELL 101 (108)
T ss_dssp CCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567888888888888888888888888877654
No 14
>PHA01750 hypothetical protein
Probab=41.39 E-value=69 Score=24.63 Aligned_cols=25 Identities=28% Similarity=0.388 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHhcchhhhhhHHhHH
Q 016422 344 VQELSMVFESIKRGLNPLEGQVREV 368 (390)
Q Consensus 344 veeL~~~~e~Le~GLe~Le~qVd~l 368 (390)
+++|+..++++....|.|++||.++
T Consensus 44 LdNL~~ei~~~kikqDnl~~qv~ei 68 (75)
T PHA01750 44 LDNLKTEIEELKIKQDELSRQVEEI 68 (75)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 3333333333334444444444443
No 15
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=39.82 E-value=1.7e+02 Score=23.56 Aligned_cols=49 Identities=16% Similarity=0.268 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHHHHHHhcchhhhhhHHhHHHHHHHHhHHHHhhhccC
Q 016422 337 EGEVRQRVQELSMVFESIKRGLNPLEGQVREVFHKIVRSRTEGLDSLGK 385 (390)
Q Consensus 337 ~~~v~~~veeL~~~~e~Le~GLe~Le~qVd~lFr~Iv~~R~~LL~~l~~ 385 (390)
...+-..++.|..+++.|++..|.|..++.++-.-=..+|.++=.-..+
T Consensus 28 ~~~ins~LD~Lns~LD~LE~rnD~l~~~L~~LLesnrq~R~e~~~~~~~ 76 (83)
T PF03670_consen 28 YAAINSMLDQLNSCLDHLEQRNDHLHAQLQELLESNRQIRLEFQEQLSK 76 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3456667788888888888888888888888877777777766544443
No 16
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=39.59 E-value=1.6e+02 Score=29.56 Aligned_cols=81 Identities=20% Similarity=0.325 Sum_probs=48.2
Q ss_pred cchHHHHHHHHHHH--HHHhhhhhccccchHHHHHHHHHHHHHHHHH-HhhcCCCCChhhHHHHHHHHHHHHHHHHHHhc
Q 016422 280 SWAAPMLMLHERIM--EESKRRDRRNASGLLREIYQIEKSTRLMNEL-LDSAQFPITEEKEGEVRQRVQELSMVFESIKR 356 (390)
Q Consensus 280 ~Ws~s~~~Lq~rv~--eE~~~~~~~gs~~~l~El~~vdaav~~L~~~-i~~~~~~~~~e~~~~v~~~veeL~~~~e~Le~ 356 (390)
-|.......++.+. +|..+... .+++-.-.+.....++.+. +.....|. ..+++++.+++.||++.+..|+.
T Consensus 236 ~W~~~ae~~~~e~~~S~efak~~G----~lvna~m~lr~~~qe~~e~~L~~LnlPT-RsElDe~~krL~ELrR~vr~L~k 310 (320)
T TIGR01834 236 LWVIAAEEAYAEVFASEENAKVHG----KFINALMRLRIQQQEIVEALLKMLNLPT-RSELDEAHQRIQQLRREVKSLKK 310 (320)
T ss_pred HHHHHHHHHHHHHHcCHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHhCCCCC-HHHHHHHHHHHHHHHHHHHHHHH
Confidence 57777777777653 34333221 1333333344442222222 22234443 34677899999999999999999
Q ss_pred chhhhhhHH
Q 016422 357 GLNPLEGQV 365 (390)
Q Consensus 357 GLe~Le~qV 365 (390)
+|..+++++
T Consensus 311 ~l~~l~~~~ 319 (320)
T TIGR01834 311 RLGDLEANP 319 (320)
T ss_pred HHHHhhhcC
Confidence 999887764
No 17
>KOG3335 consensus Predicted coiled-coil protein [General function prediction only]
Probab=39.24 E-value=94 Score=28.52 Aligned_cols=75 Identities=21% Similarity=0.277 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHHHHHHHH-hhcCCCC-----------ChhhHHHHHHHHHHHHHHHHHHhcchhhhhhHHhHHHHHHHHh
Q 016422 308 LREIYQIEKSTRLMNELL-DSAQFPI-----------TEEKEGEVRQRVQELSMVFESIKRGLNPLEGQVREVFHKIVRS 375 (390)
Q Consensus 308 l~El~~vdaav~~L~~~i-~~~~~~~-----------~~e~~~~v~~~veeL~~~~e~Le~GLe~Le~qVd~lFr~Iv~~ 375 (390)
|+|=..|+++++-|-+++ .++..++ +..+.+.-+..++||...++.|+.-++.+.+.++++-..+-+-
T Consensus 60 LnEa~Ave~gadlLgE~~iF~vggg~lv~Ey~R~~~~e~~kee~~~~e~~elr~~~~~l~~~i~~~~~~~~~L~~~l~~~ 139 (181)
T KOG3335|consen 60 LNEAAAVEAGADLLGELFIFSVGGGVLVFEYWRQARKERKKEEKRKQEIMELRLKVEKLENAIAELTKFFSQLHSKLNKP 139 (181)
T ss_pred CCHHHHHHHHHHHHhhHHheeecceeeeehhHHhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCc
Confidence 678888888877776663 3322111 2234556677899999999999999999888888887666666
Q ss_pred HHHHhhh
Q 016422 376 RTEGLDS 382 (390)
Q Consensus 376 R~~LL~~ 382 (390)
|.++-.+
T Consensus 140 ~~el~~~ 146 (181)
T KOG3335|consen 140 ESELKPI 146 (181)
T ss_pred ccccccc
Confidence 5554433
No 18
>PHA02047 phage lambda Rz1-like protein
Probab=38.40 E-value=1.1e+02 Score=25.43 Aligned_cols=45 Identities=16% Similarity=0.186 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHHHhcchhhhhhHHhHHHHHHHHhHHHHhhhcc
Q 016422 340 VRQRVQELSMVFESIKRGLNPLEGQVREVFHKIVRSRTEGLDSLG 384 (390)
Q Consensus 340 v~~~veeL~~~~e~Le~GLe~Le~qVd~lFr~Iv~~R~~LL~~l~ 384 (390)
.++.++.++..+|.++.-+..+.++|+.+-.+--+.|.++.+-|.
T Consensus 32 ~h~~a~~la~qLE~a~~r~~~~Q~~V~~l~~kae~~t~Ei~~aL~ 76 (101)
T PHA02047 32 AHEEAKRQTARLEALEVRYATLQRHVQAVEARTNTQRQEVDRALD 76 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455677777777777888888888888888888888888888775
No 19
>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3
Probab=36.41 E-value=2.6e+02 Score=26.11 Aligned_cols=33 Identities=24% Similarity=0.440 Sum_probs=21.7
Q ss_pred HHHHhcchhhhhhHHhHHHHHHHHhHHHHhhhcc
Q 016422 351 FESIKRGLNPLEGQVREVFHKIVRSRTEGLDSLG 384 (390)
Q Consensus 351 ~e~Le~GLe~Le~qVd~lFr~Iv~~R~~LL~~l~ 384 (390)
+..+++-|+.++.||+.|=..+ +.|...|+-|+
T Consensus 162 l~~v~~Dl~~ie~QV~~Le~~L-~~k~~eL~~L~ 194 (195)
T PF12761_consen 162 LKSVREDLDTIEEQVDGLESHL-SSKKQELQQLR 194 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhc
Confidence 4445666677777777665554 77777777664
No 20
>KOG1760 consensus Molecular chaperone Prefoldin, subunit 4 [Posttranslational modification, protein turnover, chaperones]
Probab=35.86 E-value=2.8e+02 Score=24.10 Aligned_cols=77 Identities=18% Similarity=0.326 Sum_probs=41.2
Q ss_pred HHHHHHHHHH---HHHHhhhhhccccchHHHHHHHHHHHHHHHHHHhh----cCCCCC-------hh-hHHHHHHHHHHH
Q 016422 283 APMLMLHERI---MEESKRRDRRNASGLLREIYQIEKSTRLMNELLDS----AQFPIT-------EE-KEGEVRQRVQEL 347 (390)
Q Consensus 283 ~s~~~Lq~rv---~eE~~~~~~~gs~~~l~El~~vdaav~~L~~~i~~----~~~~~~-------~e-~~~~v~~~veeL 347 (390)
+-|.+++.|+ +.+++.. -+++++++.+..++. ++|. +.+.+. .+ -.+.+.+.-+.+
T Consensus 23 N~Fsrl~~R~~~lk~dik~~--------k~~~enledA~~Eie-L~Dedd~~Ip~~vGdvF~~~~~~~~~~~LEe~ke~l 93 (131)
T KOG1760|consen 23 NEFSRLNSRKDDLKADIKEA--------KTEIENLEDASNEIE-LLDEDDEDIPFKVGDVFIHVKLDKLQDQLEEKKETL 93 (131)
T ss_pred HHHHHHHhhHHHHHHHHHHH--------HHHHHHHHHHHhhHh-hcCccccccceehhhhheeccHHHHHHHHHHHHHHH
Confidence 4577787775 3444432 378888888866653 3333 111111 11 112344445556
Q ss_pred HHHHHHHhcchhhhhhHHhHH
Q 016422 348 SMVFESIKRGLNPLEGQVREV 368 (390)
Q Consensus 348 ~~~~e~Le~GLe~Le~qVd~l 368 (390)
.+.++.|+..++.+..+++++
T Consensus 94 ~k~i~~les~~e~I~~~m~~L 114 (131)
T KOG1760|consen 94 EKEIEELESELESISARMDEL 114 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 666666666666666665554
No 21
>PF15546 DUF4653: Domain of unknown function (DUF4653)
Probab=35.43 E-value=63 Score=30.21 Aligned_cols=37 Identities=19% Similarity=0.327 Sum_probs=25.5
Q ss_pred HHHHHhcchhhhhhHHhHHHHHHHHhHHHHhhhccCC
Q 016422 350 VFESIKRGLNPLEGQVREVFHKIVRSRTEGLDSLGKG 386 (390)
Q Consensus 350 ~~e~Le~GLe~Le~qVd~lFr~Iv~~R~~LL~~l~~~ 386 (390)
++..|...+-+=...+-+-|+.|+..|++|+.++.+.
T Consensus 194 Wir~LQ~~~~dQQ~RLQeSFDtILdnRKELiRclqq~ 230 (239)
T PF15546_consen 194 WIRGLQHQLVDQQNRLQESFDTILDNRKELIRCLQQR 230 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHcc
Confidence 3334444444444445567999999999999999874
No 22
>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=35.15 E-value=1.4e+02 Score=24.22 Aligned_cols=29 Identities=34% Similarity=0.393 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHhcchhhhhhHHhH
Q 016422 339 EVRQRVQELSMVFESIKRGLNPLEGQVRE 367 (390)
Q Consensus 339 ~v~~~veeL~~~~e~Le~GLe~Le~qVd~ 367 (390)
++...-.+|+..|+.++.-|++|++-|.-
T Consensus 36 e~~~~~~eL~~~l~~ie~~L~DL~~aV~i 64 (97)
T PF09177_consen 36 ELKWLKRELRNALQSIEWDLEDLEEAVRI 64 (97)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45556666666666666666666665543
No 23
>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=34.42 E-value=1.2e+02 Score=23.83 Aligned_cols=32 Identities=19% Similarity=0.252 Sum_probs=20.9
Q ss_pred CChhhHHHHHHHHHHHHHHHHHHhcchhhhhh
Q 016422 332 ITEEKEGEVRQRVQELSMVFESIKRGLNPLEG 363 (390)
Q Consensus 332 ~~~e~~~~v~~~veeL~~~~e~Le~GLe~Le~ 363 (390)
++.|+-+..+..+..+...++.|+.-|..||.
T Consensus 47 VtREEFd~q~~~L~~~r~kl~~LEarl~~LE~ 78 (79)
T PF04380_consen 47 VTREEFDAQKAVLARTREKLEALEARLAALEA 78 (79)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34455566667777777777777776666654
No 24
>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]
Probab=34.00 E-value=4.5e+02 Score=28.56 Aligned_cols=50 Identities=18% Similarity=0.270 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHHHHHHHHHHhcchhh
Q 016422 309 REIYQIEKSTRLMNELLDSAQFPITEEKEGEVRQRVQELSMVFESIKRGLNP 360 (390)
Q Consensus 309 ~El~~vdaav~~L~~~i~~~~~~~~~e~~~~v~~~veeL~~~~e~Le~GLe~ 360 (390)
.|++.+..-...|+-.|+- | ++..++++.+...-++|++.+..+..-+|.
T Consensus 308 eE~e~lq~~~d~Lk~~Ie~-Q-~iS~~dve~mn~Er~~l~r~l~~i~~~~d~ 357 (581)
T KOG0995|consen 308 EEIEKLQKENDELKKQIEL-Q-GISGEDVERMNLERNKLKRELNKIQSELDR 357 (581)
T ss_pred HHHHHHHHHHHHHHHHHHh-c-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677777777777777764 2 344444443333333333333333333333
No 25
>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=33.72 E-value=3.6e+02 Score=25.60 Aligned_cols=14 Identities=21% Similarity=0.413 Sum_probs=7.4
Q ss_pred cchHHHHHHHHHHH
Q 016422 280 SWAAPMLMLHERIM 293 (390)
Q Consensus 280 ~Ws~s~~~Lq~rv~ 293 (390)
.|...-...|+++.
T Consensus 32 ~~~~~~~~sQ~~id 45 (251)
T PF11932_consen 32 QWVQAAQQSQKRID 45 (251)
T ss_pred HHHHHHHHHHHHHH
Confidence 45555555565553
No 26
>PF08654 DASH_Dad2: DASH complex subunit Dad2; InterPro: IPR013963 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ].
Probab=33.61 E-value=2.8e+02 Score=23.09 Aligned_cols=44 Identities=16% Similarity=0.264 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHHhcchhhhhhHHh---HHHHHHHHhHHHHhhh
Q 016422 339 EVRQRVQELSMVFESIKRGLNPLEGQVR---EVFHKIVRSRTEGLDS 382 (390)
Q Consensus 339 ~v~~~veeL~~~~e~Le~GLe~Le~qVd---~lFr~Iv~~R~~LL~~ 382 (390)
.+..++++|...++.|.+|-+.+..-+. .+|+-|=.....++..
T Consensus 25 ~L~~qle~L~~kl~~m~dg~e~Va~Vl~NW~nV~r~Is~AS~~l~~~ 71 (103)
T PF08654_consen 25 DLASQLEALSEKLETMADGAEAVASVLANWQNVFRAISMASLSLAKY 71 (103)
T ss_pred HHHHHHHHHHHHHHHHHhccHHHHHHHHhHHHHHHHHHHHHhhhhhc
Confidence 5677899999999999999988776654 5777776666655543
No 27
>PRK00708 sec-independent translocase; Provisional
Probab=33.13 E-value=1.7e+02 Score=27.65 Aligned_cols=46 Identities=15% Similarity=0.153 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHhhcCCCcccccccccccC-CcchHHHHHHHHHHHHH
Q 016422 246 TMSFVLLFVMWALVAAIPCQDRGLQVHFSMSRQ-FSWAAPMLMLHERIMEE 295 (390)
Q Consensus 246 ~~~~v~v~v~~vlvaAl~~~~~~~~~~~~vp~~-~~Ws~s~~~Lq~rv~eE 295 (390)
++.+-=++|+.+++--+-|+.+ +.. +-+. +.|..-+..+-.-+..+
T Consensus 3 dIG~~ELlvI~vVaLvV~GPkr-LP~---~~R~lGk~v~k~R~~a~e~r~~ 49 (209)
T PRK00708 3 DIGWSELLVIAIVLIVVVGPKD-LPP---MLRAFGKMTARMRKMAGEFRRQ 49 (209)
T ss_pred CccHHHHHHHHHHHHhhcCchH-HHH---HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444345555556556666652 110 1122 45666565554444443
No 28
>PRK04654 sec-independent translocase; Provisional
Probab=33.13 E-value=1.9e+02 Score=27.27 Aligned_cols=48 Identities=15% Similarity=0.169 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHHhhcCCCcccccccccccC-CcchHHHHHHHHHHHHHHh
Q 016422 246 TMSFVLLFVMWALVAAIPCQDRGLQVHFSMSRQ-FSWAAPMLMLHERIMEESK 297 (390)
Q Consensus 246 ~~~~v~v~v~~vlvaAl~~~~~~~~~~~~vp~~-~~Ws~s~~~Lq~rv~eE~~ 297 (390)
++.+.=++|+.+++--+-|+.+ +.. +.+. ++|..-+.+.-..+..|+.
T Consensus 3 gIG~~ELLlI~VVALlV~GPer-LPe---~aRtlGk~irk~R~~~~~vk~El~ 51 (214)
T PRK04654 3 DIGVGELTLIAVVALVVLGPER-LPK---AARFAGLWVRRARMQWDSVKQELE 51 (214)
T ss_pred CccHHHHHHHHHHHHHhcCchH-HHH---HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444555555555666652 110 1111 4576666665555555543
No 29
>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=33.02 E-value=2.2e+02 Score=26.21 Aligned_cols=26 Identities=12% Similarity=0.318 Sum_probs=14.6
Q ss_pred HHHHHHHHHhcchhhhhhHHhHHHHH
Q 016422 346 ELSMVFESIKRGLNPLEGQVREVFHK 371 (390)
Q Consensus 346 eL~~~~e~Le~GLe~Le~qVd~lFr~ 371 (390)
.++..+-++++.|..|+..||.+.+-
T Consensus 111 ~~~~~v~~~~q~~~~l~~K~D~~L~l 136 (189)
T TIGR02132 111 ALKKDVTKLKQDIKSLDKKLDKILEL 136 (189)
T ss_pred hHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555566666666666665543
No 30
>PF10303 DUF2408: Protein of unknown function (DUF2408); InterPro: IPR018810 This entry represents a family of proteins conserved in fungi whose function is unknown.
Probab=31.88 E-value=3.5e+02 Score=23.57 Aligned_cols=72 Identities=4% Similarity=0.165 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHHHHHHHH-hhcCCCCCh-----hh-HHHHHHHHHHHHHHHHHHhcchh---hhhhHHhHHHHHHHHhHH
Q 016422 308 LREIYQIEKSTRLMNELL-DSAQFPITE-----EK-EGEVRQRVQELSMVFESIKRGLN---PLEGQVREVFHKIVRSRT 377 (390)
Q Consensus 308 l~El~~vdaav~~L~~~i-~~~~~~~~~-----e~-~~~v~~~veeL~~~~e~Le~GLe---~Le~qVd~lFr~Iv~~R~ 377 (390)
-.|++....-.+++...- ...+|-..+ +. .+.+..-+++.-..++.+...-+ .+......+|++++..|+
T Consensus 40 ~~el~~lq~qL~eIe~~R~~DGKF~~~~~g~~~~~gQ~~l~~LLd~C~~li~dl~~~~~~~~~~~~~l~~iY~~L~~ik~ 119 (134)
T PF10303_consen 40 SSELKPLQEQLKEIESMRDVDGKFVSPDTGEVPPGGQAVLNGLLDDCFDLIEDLLERKGEEIEVDPSLQPIYDQLIDIKN 119 (134)
T ss_pred HHHHHHHHHHHHHHHHhccCCCCeeCCCCCCCCcchHHHHHHHHHHHHHHHHHHHHhccccccccHHHHHHHHHHHHHHH
Confidence 456666666655555544 122442211 22 34567777788888888877777 899999999999999999
Q ss_pred HH
Q 016422 378 EG 379 (390)
Q Consensus 378 ~L 379 (390)
.|
T Consensus 120 ~L 121 (134)
T PF10303_consen 120 TL 121 (134)
T ss_pred HH
Confidence 84
No 31
>PHA02675 ORF104 fusion protein; Provisional
Probab=30.59 E-value=1.7e+02 Score=23.54 Aligned_cols=33 Identities=9% Similarity=0.203 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHhcchhhhhhHHhHHHHHHHH
Q 016422 342 QRVQELSMVFESIKRGLNPLEGQVREVFHKIVR 374 (390)
Q Consensus 342 ~~veeL~~~~e~Le~GLe~Le~qVd~lFr~Iv~ 374 (390)
+.-+.+.++|..+.+.|+.||++++-+-+.+|.
T Consensus 44 k~~~~i~~cC~~~~~~L~RLE~H~ETLRk~Ml~ 76 (90)
T PHA02675 44 DSYKTITDCCRETGARLDRLERHLETLREALLK 76 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556667777777777777777766665554
No 32
>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=29.75 E-value=3.7e+02 Score=23.27 Aligned_cols=7 Identities=29% Similarity=0.667 Sum_probs=2.7
Q ss_pred HHHHHHH
Q 016422 242 NLVFTMS 248 (390)
Q Consensus 242 ~aly~~~ 248 (390)
-.+|++|
T Consensus 32 D~M~vTr 38 (126)
T PF07889_consen 32 DLMFVTR 38 (126)
T ss_pred HHHHHHH
Confidence 3334333
No 33
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=29.32 E-value=3e+02 Score=25.12 Aligned_cols=40 Identities=18% Similarity=0.296 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHhcchhhhhhHHhHHHHHHHHhHHHHhhhc
Q 016422 344 VQELSMVFESIKRGLNPLEGQVREVFHKIVRSRTEGLDSL 383 (390)
Q Consensus 344 veeL~~~~e~Le~GLe~Le~qVd~lFr~Iv~~R~~LL~~l 383 (390)
-+++...+..|+.-++.++.++.++=+.|..+|.+|-..+
T Consensus 24 hq~~~~~I~~L~~e~~~ld~~i~~~~~~L~~~~~~L~~~~ 63 (188)
T PF10018_consen 24 HQENQARIQQLRAEIEELDEQIRDILKQLKEARKELRTLP 63 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666666677778888888888999999999887776
No 34
>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=28.87 E-value=1.6e+02 Score=26.34 Aligned_cols=46 Identities=26% Similarity=0.298 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHHHHHHHHHHhcchhhhhh
Q 016422 312 YQIEKSTRLMNELLDSAQFPITEEKEGEVRQRVQELSMVFESIKRGLNPLEG 363 (390)
Q Consensus 312 ~~vdaav~~L~~~i~~~~~~~~~e~~~~v~~~veeL~~~~e~Le~GLe~Le~ 363 (390)
+.||++|+.+|.+|.. -|+...-=..+.+|.+.+..++.-||-||.
T Consensus 102 dsvD~sik~~y~liak------ceELn~~M~~v~~La~qIK~Ik~~lD~lE~ 147 (149)
T PF10157_consen 102 DSVDASIKSMYTLIAK------CEELNESMKPVYKLAQQIKDIKKLLDLLES 147 (149)
T ss_pred HHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
No 35
>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=28.50 E-value=3e+02 Score=23.84 Aligned_cols=28 Identities=7% Similarity=0.194 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHhcchhhhhhHHhHHHHH
Q 016422 344 VQELSMVFESIKRGLNPLEGQVREVFHK 371 (390)
Q Consensus 344 veeL~~~~e~Le~GLe~Le~qVd~lFr~ 371 (390)
.+.++..+..+.+.++.+...|+.+++.
T Consensus 84 ~~~i~~eV~~v~~dv~~i~~dv~~v~~~ 111 (126)
T PF07889_consen 84 SKQIKDEVTEVREDVSQIGDDVDSVQQM 111 (126)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence 3333333344444444444444444433
No 36
>PF10198 Ada3: Histone acetyltransferases subunit 3; InterPro: IPR019340 This entry is found in Ada3 and homologous proteins which function as part of histone acetyltransferase complexes []. Ada3 is an essential component of the Ada transcriptional coactivator (alteration/deficiency in activation) complex. It plays a key role in linking histone acetyltransferase-containing complexes to p53 (tumour suppressor protein) thereby regulating p53 acetylation, stability and transcriptional activation following DNA damage [].
Probab=28.46 E-value=3.4e+02 Score=23.56 Aligned_cols=26 Identities=35% Similarity=0.548 Sum_probs=21.5
Q ss_pred HHHhcchhhhhhHHhHHHHHHHHhHH
Q 016422 352 ESIKRGLNPLEGQVREVFHKIVRSRT 377 (390)
Q Consensus 352 e~Le~GLe~Le~qVd~lFr~Iv~~R~ 377 (390)
+.+..-++.+..+|...|...+++|.
T Consensus 74 QE~~~~l~~lD~~V~~aY~Kr~~~~~ 99 (131)
T PF10198_consen 74 QEYKRILDDLDKQVEQAYKKRMRARK 99 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34455689999999999999999886
No 37
>PRK09039 hypothetical protein; Validated
Probab=28.22 E-value=5.2e+02 Score=26.03 Aligned_cols=28 Identities=21% Similarity=0.329 Sum_probs=23.6
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHhh
Q 016422 235 MATNGLANLVFTMSFVLLFVMWALVAAI 262 (390)
Q Consensus 235 ~~~~~l~~aly~~~~v~v~v~~vlvaAl 262 (390)
.-|.||+-+|-+.=.|.+||+.+++.+=
T Consensus 14 ~~wpg~vd~~~~ll~~~~f~l~~f~~~q 41 (343)
T PRK09039 14 DYWPGFVDALSTLLLVIMFLLTVFVVAQ 41 (343)
T ss_pred CCCchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3478999999999999999999988763
No 38
>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=27.79 E-value=2.4e+02 Score=24.14 Aligned_cols=42 Identities=21% Similarity=0.295 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHHHHhcchhhhhhHHhHHHHHHHHhHHHH
Q 016422 338 GEVRQRVQELSMVFESIKRGLNPLEGQVREVFHKIVRSRTEG 379 (390)
Q Consensus 338 ~~v~~~veeL~~~~e~Le~GLe~Le~qVd~lFr~Iv~~R~~L 379 (390)
..++..++.++..++.|..+.+.|..+|-+=|..+.+....|
T Consensus 68 ~~~~~~l~~v~~~v~~L~~s~~RL~~eV~~Py~~~~~~~~~L 109 (132)
T PF10392_consen 68 EELESVLQAVRSSVESLQSSYERLRSEVIEPYEKIQKLTSQL 109 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 345556777777777778888888888888888777666554
No 39
>COG4420 Predicted membrane protein [Function unknown]
Probab=26.93 E-value=4.6e+02 Score=24.41 Aligned_cols=21 Identities=24% Similarity=0.779 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 016422 242 NLVFTMSFVLLFVMWALVAAI 262 (390)
Q Consensus 242 ~aly~~~~v~v~v~~vlvaAl 262 (390)
..-|...++++|+.|.++--.
T Consensus 57 sw~fil~~~~~ll~Wi~lNl~ 77 (191)
T COG4420 57 SWAFILTFTLLLLLWIVLNLF 77 (191)
T ss_pred ChHHHHHHHHHHHHHHHHHHh
Confidence 355677788888888886543
No 40
>PLN02372 violaxanthin de-epoxidase
Probab=25.91 E-value=2.8e+02 Score=28.98 Aligned_cols=35 Identities=23% Similarity=0.477 Sum_probs=28.9
Q ss_pred HHHH--HhcchhhhhhHHhHHHHHHHHhHHHHhhhcc
Q 016422 350 VFES--IKRGLNPLEGQVREVFHKIVRSRTEGLDSLG 384 (390)
Q Consensus 350 ~~e~--Le~GLe~Le~qVd~lFr~Iv~~R~~LL~~l~ 384 (390)
-++. |++|+..|+.....+.+.+-+--+.+|+-+.
T Consensus 402 ~~~~~~~~~~~~~l~~~~~~f~~~lskee~~~l~~~~ 438 (455)
T PLN02372 402 LFKRVALEEGLKELEQDEENFLKELSKEEKELLEKLK 438 (455)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence 4455 8999999999999999999888888887653
No 41
>PHA03386 P10 fibrous body protein; Provisional
Probab=25.88 E-value=2.5e+02 Score=23.12 Aligned_cols=31 Identities=13% Similarity=0.289 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHH---HHHHhcchhhhhhHHhH
Q 016422 337 EGEVRQRVQELSMV---FESIKRGLNPLEGQVRE 367 (390)
Q Consensus 337 ~~~v~~~veeL~~~---~e~Le~GLe~Le~qVd~ 367 (390)
+..++.+|+.++.. ++++...|+.|..+|++
T Consensus 21 VdaLQ~qV~dv~~n~~~LDa~~~qL~~l~tkV~~ 54 (94)
T PHA03386 21 VDALQTQLNGLEEDSQPLDGLPAQLTELDTKVSD 54 (94)
T ss_pred HHHHHHHHHHHHhcchhhhhHHHHHHHHHHHHHH
Confidence 34555566666543 33333344444444433
No 42
>PF13747 DUF4164: Domain of unknown function (DUF4164)
Probab=25.32 E-value=3.6e+02 Score=21.70 Aligned_cols=13 Identities=38% Similarity=0.475 Sum_probs=4.8
Q ss_pred hhhhHHhHHHHHH
Q 016422 360 PLEGQVREVFHKI 372 (390)
Q Consensus 360 ~Le~qVd~lFr~I 372 (390)
.|+..-.++.++|
T Consensus 64 ~Le~~~~Evs~rL 76 (89)
T PF13747_consen 64 RLEEANREVSRRL 76 (89)
T ss_pred HHHHHHHHHHHHH
Confidence 3333333333333
No 43
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=25.06 E-value=2.1e+02 Score=29.70 Aligned_cols=60 Identities=17% Similarity=0.305 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHHHHHHHHHHhcchhhhhhHHhHHH
Q 016422 308 LREIYQIEKSTRLMNELLDSAQFPITEEKEGEVRQRVQELSMVFESIKRGLNPLEGQVREVF 369 (390)
Q Consensus 308 l~El~~vdaav~~L~~~i~~~~~~~~~e~~~~v~~~veeL~~~~e~Le~GLe~Le~qVd~lF 369 (390)
..|++++++--+++...|..... ..++.+++...+.+|++.+..+++-++.+++++++..
T Consensus 41 ~~~~~~lr~~rn~~sk~i~~~~~--~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 100 (425)
T PRK05431 41 QTELEELQAERNALSKEIGQAKR--KGEDAEALIAEVKELKEEIKALEAELDELEAELEELL 100 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh--cCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555554444444432111 1123445666777777777777777777666666544
No 44
>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=24.71 E-value=1.3e+02 Score=21.64 Aligned_cols=26 Identities=23% Similarity=0.482 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHhcchhhhhhHH
Q 016422 340 VRQRVQELSMVFESIKRGLNPLEGQV 365 (390)
Q Consensus 340 v~~~veeL~~~~e~Le~GLe~Le~qV 365 (390)
+...++.|...++.+...|+.||.++
T Consensus 21 v~~~lq~Lt~kL~~vs~RLe~LEn~~ 46 (47)
T PF10393_consen 21 VTSALQSLTQKLDAVSKRLEALENRL 46 (47)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 44456666666666666666666553
No 45
>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=24.65 E-value=61 Score=19.77 Aligned_cols=17 Identities=24% Similarity=0.388 Sum_probs=8.9
Q ss_pred HhcchhhhhhHHhHHHH
Q 016422 354 IKRGLNPLEGQVREVFH 370 (390)
Q Consensus 354 Le~GLe~Le~qVd~lFr 370 (390)
+...+.+|+.|+++|++
T Consensus 6 lr~rI~dLer~L~~C~~ 22 (23)
T PF04508_consen 6 LRNRISDLERQLSECRR 22 (23)
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 34444555556555653
No 46
>PF03980 Nnf1: Nnf1 ; InterPro: IPR007128 NNF1 is an essential yeast gene required for proper spindle orientation, nucleolar and nuclear envelope structure and mRNA export [].
Probab=23.81 E-value=4.1e+02 Score=21.75 Aligned_cols=96 Identities=14% Similarity=0.074 Sum_probs=51.5
Q ss_pred chHHHHHHHHHHHHHHhhhhhccccc-hHHHHHHHHHHHHHHHHHHhh---cC-CCCChhhHHHHHHHHHHHHHHHHHHh
Q 016422 281 WAAPMLMLHERIMEESKRRDRRNASG-LLREIYQIEKSTRLMNELLDS---AQ-FPITEEKEGEVRQRVQELSMVFESIK 355 (390)
Q Consensus 281 Ws~s~~~Lq~rv~eE~~~~~~~gs~~-~l~El~~vdaav~~L~~~i~~---~~-~~~~~e~~~~v~~~veeL~~~~e~Le 355 (390)
|...+..+++.+..|...+...+... .|+||+.+-.-.+....--.. +. ..++++.. --...+...+...+.|.
T Consensus 8 ~~Q~~~~l~~~~~~Ef~~I~~Er~v~~kLneLd~Li~eA~~r~~~~~~~~~~~~~~l~P~~~-i~a~l~~~~~~~~~~L~ 86 (109)
T PF03980_consen 8 HQQMIEFLEENCKKEFEEILEERDVVEKLNELDKLIEEAKERKNSGEREKPVWRHSLTPEED-IRAHLAPYKKKEREQLN 86 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhHhccccCCCCCCCCCChHHH-HHHHhHHHHHHHHHHHH
Confidence 34455566666766666655443332 466666655444433321100 00 01122111 12234555666677777
Q ss_pred cchhhhhhHHhHHHHHHHHhHH
Q 016422 356 RGLNPLEGQVREVFHKIVRSRT 377 (390)
Q Consensus 356 ~GLe~Le~qVd~lFr~Iv~~R~ 377 (390)
.-++.++.+-+.++..|-..|.
T Consensus 87 ~~l~~l~~eN~~L~~~i~~~r~ 108 (109)
T PF03980_consen 87 ARLQELEEENEALAEEIQEQRK 108 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHhhc
Confidence 7778888888888888877764
No 47
>smart00188 IL10 Interleukin-10 family. Interleukin-10 inhibits the synthesis of a number of cytokines, including IFN-gamma, IL-2, IL-3, TNF and GM-CSF produced by activated macrophages and by helper T cells.
Probab=23.57 E-value=39 Score=29.73 Aligned_cols=11 Identities=18% Similarity=0.241 Sum_probs=8.0
Q ss_pred ChhhhHHHHHH
Q 016422 100 PPMDRLIADYF 110 (390)
Q Consensus 100 ~~~~~~vdeYl 110 (390)
+-.-.|+++||
T Consensus 126 Dill~yiE~y~ 136 (137)
T smart00188 126 DIFINYIEAYM 136 (137)
T ss_pred HHHHHHHHHhc
Confidence 45667888886
No 48
>PRK02119 hypothetical protein; Provisional
Probab=23.50 E-value=3.5e+02 Score=20.94 Aligned_cols=32 Identities=16% Similarity=0.190 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHhcchhhhhhHHhHHHHHHHH
Q 016422 343 RVQELSMVFESIKRGLNPLEGQVREVFHKIVR 374 (390)
Q Consensus 343 ~veeL~~~~e~Le~GLe~Le~qVd~lFr~Iv~ 374 (390)
.+++|-..+-.-..-|+.|.+++..+..++-.
T Consensus 24 tie~LN~~v~~Qq~~id~L~~ql~~L~~rl~~ 55 (73)
T PRK02119 24 LLEELNQALIEQQFVIDKMQVQLRYMANKLKD 55 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44444444444455555555555555555533
No 49
>PF03511 Fanconi_A: Fanconi anaemia group A protein; InterPro: IPR003516 Fanconi anaemia (FA) [, , ] is a recessive inherited disease characterised by defective DNA repair. FA cells are sensitive to DNA cross-linking agents that cause chromosomal instability and cell death. The disease is manifested clinically by progressive pancytopenia, variable physical anomalies, and predisposition to malignancy []. Four complementation groups have been identified, designated A to D. The FA group A gene (FAA) has been cloned [], but its function remains to be elucidated.
Probab=23.44 E-value=77 Score=24.10 Aligned_cols=19 Identities=42% Similarity=0.662 Sum_probs=15.5
Q ss_pred hhHHHHHHHHHHHHHHHHH
Q 016422 112 RSVKALDVCNAIRDGIEQI 130 (390)
Q Consensus 112 ~SvKlLD~Cnal~~~i~~l 130 (390)
++.|.||+|..+-.|+++=
T Consensus 28 d~~kaldiCaeIL~cLE~R 46 (64)
T PF03511_consen 28 DSLKALDICAEILGCLEKR 46 (64)
T ss_pred ccHHHHHHHHHHHHHHHhC
Confidence 5678999999998887763
No 50
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 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 C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=23.28 E-value=3.2e+02 Score=20.42 Aligned_cols=54 Identities=24% Similarity=0.395 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCC--CChhhHHHHHHHHHHHHHHHHHHhcchhhh
Q 016422 308 LREIYQIEKSTRLMNELLDSAQFP--ITEEKEGEVRQRVQELSMVFESIKRGLNPL 361 (390)
Q Consensus 308 l~El~~vdaav~~L~~~i~~~~~~--~~~e~~~~v~~~veeL~~~~e~Le~GLe~L 361 (390)
-+|++.+..-+..+...+..-.|- ...+-++.-+..++++...++.|.+.|+.|
T Consensus 10 ~Kel~kl~~~i~~~~~kL~n~~F~~kAP~eVve~er~kl~~~~~~~~~l~~~l~~L 65 (66)
T PF10458_consen 10 EKELEKLEKEIERLEKKLSNENFVEKAPEEVVEKEREKLEELEEELEKLEEALEQL 65 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHCSTTHHHHS-CCHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHcCccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 366777777766666666432221 123445566677777777777777776654
No 51
>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=23.24 E-value=4.8e+02 Score=28.50 Aligned_cols=67 Identities=12% Similarity=0.204 Sum_probs=45.1
Q ss_pred chHHHHHHHHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHHHHHHHHHHhcchhhhhhHHhHHH--HHHHHhHHHHhhhc
Q 016422 306 GLLREIYQIEKSTRLMNELLDSAQFPITEEKEGEVRQRVQELSMVFESIKRGLNPLEGQVREVF--HKIVRSRTEGLDSL 383 (390)
Q Consensus 306 ~~l~El~~vdaav~~L~~~i~~~~~~~~~e~~~~v~~~veeL~~~~e~Le~GLe~Le~qVd~lF--r~Iv~~R~~LL~~l 383 (390)
..++||..|...++++...++ .+....+++...+..-...-..+-+++..+. +..++.|..+|+.+
T Consensus 35 ~~L~~f~~v~~~l~~~~~~v~------------~l~~~~~~~~~~l~~~~~~t~~ll~~~~~L~~~~~~~~~k~~ll~~f 102 (618)
T PF06419_consen 35 EFLKEFSPVNRQLKRLQSDVD------------KLNSSCDQMQDRLSAAKSETSDLLEEASELREQKEELELKKKLLDAF 102 (618)
T ss_pred HHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 368999998888777766553 4555666666666666666666666666664 45677777777765
Q ss_pred c
Q 016422 384 G 384 (390)
Q Consensus 384 ~ 384 (390)
.
T Consensus 103 ~ 103 (618)
T PF06419_consen 103 L 103 (618)
T ss_pred H
Confidence 3
No 52
>COG3352 FlaC Putative archaeal flagellar protein C [Cell motility and secretion]
Probab=23.14 E-value=3.7e+02 Score=24.14 Aligned_cols=43 Identities=9% Similarity=0.122 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHHHhcchhhhhhHHhHHHHHHHHhHHHHhh
Q 016422 339 EVRQRVQELSMVFESIKRGLNPLEGQVREVFHKIVRSRTEGLD 381 (390)
Q Consensus 339 ~v~~~veeL~~~~e~Le~GLe~Le~qVd~lFr~Iv~~R~~LL~ 381 (390)
..+..+.+.+..++.|++.+.+|...+..+.+.+.--|...++
T Consensus 69 g~kk~~~~~~eelerLe~~iKdl~~lye~Vs~d~Npf~s~~~q 111 (157)
T COG3352 69 GQKKQLQDIKEELERLEENIKDLVSLYELVSRDFNPFMSKTPQ 111 (157)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHhhhHH
Confidence 3455555666666666666666666666666666555544443
No 53
>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=23.07 E-value=2e+02 Score=23.61 Aligned_cols=36 Identities=19% Similarity=0.441 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHHHhcchhhhhhHHhHHHHHHH
Q 016422 338 GEVRQRVQELSMVFESIKRGLNPLEGQVREVFHKIV 373 (390)
Q Consensus 338 ~~v~~~veeL~~~~e~Le~GLe~Le~qVd~lFr~Iv 373 (390)
..+...++.+...+..++..++.+++++.++=..|.
T Consensus 66 ~~Le~~~e~le~~i~~l~~~~~~l~~~~~elk~~l~ 101 (105)
T cd00632 66 TELKERLETIELRIKRLERQEEDLQEKLKELQEKIQ 101 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356667777777777777777777777766655554
No 54
>PLN02678 seryl-tRNA synthetase
Probab=22.98 E-value=2.5e+02 Score=29.56 Aligned_cols=34 Identities=9% Similarity=0.114 Sum_probs=23.5
Q ss_pred hHHHHHHHHHHHHHHHHHHhcchhhhhhHHhHHH
Q 016422 336 KEGEVRQRVQELSMVFESIKRGLNPLEGQVREVF 369 (390)
Q Consensus 336 ~~~~v~~~veeL~~~~e~Le~GLe~Le~qVd~lF 369 (390)
+.+++...+.+|+..+..++.-++.++.+++++.
T Consensus 72 ~~~~l~~~~~~Lk~ei~~le~~~~~~~~~l~~~~ 105 (448)
T PLN02678 72 DATELIAETKELKKEITEKEAEVQEAKAALDAKL 105 (448)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456667777777777777777777777666544
No 55
>PF12652 CotJB: CotJB protein; InterPro: IPR024207 The cotJ operon proteins affect spore coat composition, and is controlled by sigma E. The genes, which include CotJB, are either required for the normal formation of the inner layers of the coat or are themselves structural components of the coat []. CotJB has been identified as a spore coat protein [].
Probab=22.83 E-value=3.3e+02 Score=21.53 Aligned_cols=53 Identities=23% Similarity=0.278 Sum_probs=37.1
Q ss_pred hHHHHHHHHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHHHHHHHHHHhcchhhh
Q 016422 307 LLREIYQIEKSTRLMNELLDSAQFPITEEKEGEVRQRVQELSMVFESIKRGLNPL 361 (390)
Q Consensus 307 ~l~El~~vdaav~~L~~~i~~~~~~~~~e~~~~v~~~veeL~~~~e~Le~GLe~L 361 (390)
+|++|++++-++-.|.-.+|. -|.+.+-.+..+...+.+++..+..++--.||
T Consensus 4 LL~~I~~~~Fa~~dl~LyLDT--HP~d~~Al~~y~~~~~~~~~l~~~Ye~~yGPL 56 (78)
T PF12652_consen 4 LLREIQEVSFAVVDLNLYLDT--HPDDQEALEYYNEYSKQRKQLKKEYEKRYGPL 56 (78)
T ss_pred HHHHHHHHhhHHHHHHHHhcC--CCCcHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 689999999999999888875 24444444456666666766666666655554
No 56
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=22.74 E-value=6.6e+02 Score=24.90 Aligned_cols=36 Identities=22% Similarity=0.426 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHHhcchhhhhhHHhHHHHHHHH
Q 016422 339 EVRQRVQELSMVFESIKRGLNPLEGQVREVFHKIVR 374 (390)
Q Consensus 339 ~v~~~veeL~~~~e~Le~GLe~Le~qVd~lFr~Iv~ 374 (390)
+.+..++.|+..+|.++..|-+=.++|-+.|-+|--
T Consensus 121 EARkEIkQLkQvieTmrssL~ekDkGiQKYFvDINi 156 (305)
T PF15290_consen 121 EARKEIKQLKQVIETMRSSLAEKDKGIQKYFVDINI 156 (305)
T ss_pred HHHHHHHHHHHHHHHHHhhhchhhhhHHHHHhhhhh
Confidence 466788999999999999999999999999988743
No 57
>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=22.58 E-value=3e+02 Score=20.28 Aligned_cols=24 Identities=8% Similarity=0.295 Sum_probs=10.2
Q ss_pred HHHHHHHHHHhcchhhhhhHHhHH
Q 016422 345 QELSMVFESIKRGLNPLEGQVREV 368 (390)
Q Consensus 345 eeL~~~~e~Le~GLe~Le~qVd~l 368 (390)
+++-.+++.+...||.||+.+.++
T Consensus 24 ~~I~~riDeM~~RIDdLE~si~dl 47 (54)
T PF06825_consen 24 DQILGRIDEMSSRIDDLEKSIADL 47 (54)
T ss_dssp HHHHHHHHHHHHHHHCCHHHH---
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHH
Confidence 334444444455555555554443
No 58
>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]
Probab=22.32 E-value=7.2e+02 Score=27.24 Aligned_cols=25 Identities=20% Similarity=0.461 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHhcchhhhhhH
Q 016422 340 VRQRVQELSMVFESIKRGLNPLEGQ 364 (390)
Q Consensus 340 v~~~veeL~~~~e~Le~GLe~Le~q 364 (390)
+...+|||++.+..=...|..|...
T Consensus 112 ~n~kiEelk~~i~~~q~eL~~Lk~~ 136 (907)
T KOG2264|consen 112 INTKIEELKRLIPQKQLELSALKGE 136 (907)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHhH
Confidence 4444444444444444444444333
No 59
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=21.86 E-value=5.8e+02 Score=22.81 Aligned_cols=6 Identities=33% Similarity=0.601 Sum_probs=2.1
Q ss_pred HHHHHH
Q 016422 310 EIYQIE 315 (390)
Q Consensus 310 El~~vd 315 (390)
|+++.+
T Consensus 96 el~~l~ 101 (191)
T PF04156_consen 96 ELDQLQ 101 (191)
T ss_pred HHHHHH
Confidence 333333
No 60
>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=21.38 E-value=8.2e+02 Score=26.72 Aligned_cols=66 Identities=15% Similarity=0.189 Sum_probs=31.8
Q ss_pred hHHHHHHHHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHHHHHHHHHHhcchhhhhhHHhHHHHHHHHh
Q 016422 307 LLREIYQIEKSTRLMNELLDSAQFPITEEKEGEVRQRVQELSMVFESIKRGLNPLEGQVREVFHKIVRS 375 (390)
Q Consensus 307 ~l~El~~vdaav~~L~~~i~~~~~~~~~e~~~~v~~~veeL~~~~e~Le~GLe~Le~qVd~lFr~Iv~~ 375 (390)
+.++++.++.-...+..-+... .+++....+....+++.+.+..++.-++.+.+++..+-..+.+.
T Consensus 396 ~~~~~~~~e~el~~l~~~l~~~---~~~e~i~~l~e~l~~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~ 461 (650)
T TIGR03185 396 LLKELRELEEELAEVDKKISTI---PSEEQIAQLLEELGEAQNELFRSEAEIEELLRQLETLKEAIEAL 461 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHhcC---CChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666666655555555331 12234444444455555444444444444444444444444333
No 61
>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=21.29 E-value=3e+02 Score=28.57 Aligned_cols=34 Identities=18% Similarity=0.385 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHhcchhhhhhHHhHHHH
Q 016422 337 EGEVRQRVQELSMVFESIKRGLNPLEGQVREVFH 370 (390)
Q Consensus 337 ~~~v~~~veeL~~~~e~Le~GLe~Le~qVd~lFr 370 (390)
.++++..+.+|+..+..+++-++.+++++++..-
T Consensus 71 ~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 104 (418)
T TIGR00414 71 IEEIKKELKELKEELTELSAALKALEAELQDKLL 104 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567777777777777777777777766666543
No 62
>PLN02320 seryl-tRNA synthetase
Probab=20.22 E-value=3.2e+02 Score=29.20 Aligned_cols=33 Identities=9% Similarity=0.088 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHhcchhhhhhHHhHHH
Q 016422 337 EGEVRQRVQELSMVFESIKRGLNPLEGQVREVF 369 (390)
Q Consensus 337 ~~~v~~~veeL~~~~e~Le~GLe~Le~qVd~lF 369 (390)
.+++...+.+|+..+..|++-+..++.++.++.
T Consensus 132 ~~~l~~~~k~lk~~i~~le~~~~~~~~~l~~~~ 164 (502)
T PLN02320 132 RQALVEEGKNLKEGLVTLEEDLVKLTDELQLEA 164 (502)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445666666666666666666666666555543
No 63
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=20.19 E-value=6.5e+02 Score=23.06 Aligned_cols=54 Identities=15% Similarity=0.210 Sum_probs=21.2
Q ss_pred hHHHHHHHHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHHHHHHHHHHhcchhhh
Q 016422 307 LLREIYQIEKSTRLMNELLDSAQFPITEEKEGEVRQRVQELSMVFESIKRGLNPL 361 (390)
Q Consensus 307 ~l~El~~vdaav~~L~~~i~~~~~~~~~e~~~~v~~~veeL~~~~e~Le~GLe~L 361 (390)
++.+++.++.-..+|...+.... ..+++..+.++..+..++..+....+.+..|
T Consensus 108 ~l~~l~~l~~~~~~l~~el~~~~-~~Dp~~i~~~~~~~~~~~~~anrwTDNI~~l 161 (188)
T PF03962_consen 108 LLEELEELKKELKELKKELEKYS-ENDPEKIEKLKEEIKIAKEAANRWTDNIFSL 161 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-hcCHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence 34444444444444444443211 1223333334444444444444444444333
No 64
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=20.13 E-value=2.1e+02 Score=22.59 Aligned_cols=33 Identities=15% Similarity=0.272 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHhcchhhhhhHHhHHHHHH
Q 016422 340 VRQRVQELSMVFESIKRGLNPLEGQVREVFHKI 372 (390)
Q Consensus 340 v~~~veeL~~~~e~Le~GLe~Le~qVd~lFr~I 372 (390)
+...+.++-.....+.+.++.--+.++.+|+.+
T Consensus 45 i~~e~~~ll~~~n~l~~dv~~k~~~v~~~~~~v 77 (90)
T PF06103_consen 45 ITKEINDLLHNTNELLEDVNEKLEKVDPVFEAV 77 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 334444444444444444455555555555554
No 65
>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=20.12 E-value=3.5e+02 Score=24.01 Aligned_cols=52 Identities=23% Similarity=0.353 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCCChhhHHHHHHHHHHHHHHHHHHhcchhhhhh
Q 016422 309 REIYQIEKSTRLMNELLDSAQFPITEEKEGEVRQRVQELSMVFESIKRGLNPLEG 363 (390)
Q Consensus 309 ~El~~vdaav~~L~~~i~~~~~~~~~e~~~~v~~~veeL~~~~e~Le~GLe~Le~ 363 (390)
.|+..+...++.|...+......++. +++...+++|+..++.+++-|+.|..
T Consensus 86 ~el~~l~~~~k~l~~eL~~L~~~~t~---~el~~~i~~l~~e~~~l~~kL~~l~~ 137 (169)
T PF07106_consen 86 EELAELKKEVKSLEAELASLSSEPTN---EELREEIEELEEEIEELEEKLEKLRS 137 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCH---HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44455555555555554442222222 24555555555555555555555543
Done!