Query 037508
Match_columns 449
No_of_seqs 261 out of 1549
Neff 7.9
Searched_HMMs 46136
Date Fri Mar 29 12:58:03 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037508.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037508hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1488 Translational represso 100.0 5.8E-58 1.3E-62 464.0 24.2 286 148-437 174-467 (503)
2 cd07920 Pumilio Pumilio-family 100.0 4.5E-52 9.7E-57 414.6 29.6 285 148-436 4-293 (322)
3 KOG1488 Translational represso 100.0 1.8E-52 3.9E-57 424.0 20.9 307 69-393 177-497 (503)
4 KOG2049 Translational represso 100.0 3.9E-48 8.5E-53 395.8 20.4 288 147-435 211-498 (536)
5 COG5099 RNA-binding protein of 100.0 3.1E-45 6.8E-50 391.6 22.3 274 159-435 447-727 (777)
6 cd07920 Pumilio Pumilio-family 100.0 2.9E-43 6.3E-48 351.1 29.6 294 130-429 16-322 (322)
7 KOG2049 Translational represso 100.0 6.2E-36 1.3E-40 306.2 14.4 299 70-390 216-531 (536)
8 COG5099 RNA-binding protein of 100.0 2.8E-35 6.1E-40 315.3 17.6 296 77-393 447-759 (777)
9 KOG2050 Puf family RNA-binding 100.0 3.3E-29 7.1E-34 252.5 21.7 295 147-448 158-459 (652)
10 KOG2188 Predicted RNA-binding 100.0 1.9E-27 4.1E-32 242.1 24.1 280 144-428 90-604 (650)
11 KOG2050 Puf family RNA-binding 99.9 8.5E-22 1.9E-26 199.2 20.7 258 135-398 175-447 (652)
12 KOG2188 Predicted RNA-binding 99.8 7.1E-17 1.5E-21 165.3 20.5 245 154-403 337-621 (650)
13 KOG4574 RNA-binding protein (c 99.7 3.4E-18 7.3E-23 178.3 8.6 252 178-433 535-819 (1007)
14 KOG4574 RNA-binding protein (c 99.5 2.8E-15 6E-20 156.8 3.5 291 134-430 556-888 (1007)
15 PF00806 PUF: Pumilio-family R 98.4 1.5E-07 3.3E-12 61.9 2.3 34 187-220 2-35 (35)
16 smart00025 Pumilio Pumilio-lik 98.0 4.7E-06 1E-10 54.5 2.9 34 187-220 2-35 (36)
17 PF00806 PUF: Pumilio-family R 98.0 8.9E-06 1.9E-10 53.4 3.6 30 337-366 4-33 (35)
18 smart00025 Pumilio Pumilio-lik 97.8 1.6E-05 3.4E-10 52.0 2.6 34 151-184 2-35 (36)
19 PF08144 CPL: CPL (NUC119) dom 90.6 1.4 3.1E-05 38.8 8.1 31 331-361 58-88 (148)
20 PF08144 CPL: CPL (NUC119) dom 90.3 0.66 1.4E-05 40.9 5.7 64 295-358 58-132 (148)
21 PRK05686 fliG flagellar motor 89.2 26 0.00057 35.2 19.2 226 174-407 54-298 (339)
22 KOG1059 Vesicle coat complex A 74.4 48 0.001 36.5 12.3 24 187-210 219-242 (877)
23 TIGR00207 fliG flagellar motor 70.1 1.3E+02 0.0027 30.4 19.6 162 173-337 50-225 (338)
24 PRK05686 fliG flagellar motor 63.6 1.7E+02 0.0036 29.4 16.5 83 273-372 200-287 (339)
25 PF12231 Rif1_N: Rap1-interact 58.0 2.2E+02 0.0048 29.0 17.0 42 161-211 56-99 (372)
26 PF09770 PAT1: Topoisomerase I 50.6 32 0.0007 38.9 6.3 97 154-250 576-695 (808)
27 COG1536 FliG Flagellar motor s 50.5 2.8E+02 0.0061 28.0 18.9 162 172-335 51-226 (339)
28 cd03567 VHS_GGA VHS domain fam 44.4 1.6E+02 0.0035 25.5 8.4 58 314-379 60-119 (139)
29 smart00288 VHS Domain present 40.1 1.3E+02 0.0028 25.7 7.1 37 314-350 59-96 (133)
30 COG4399 Uncharacterized protei 38.0 4.4E+02 0.0096 26.6 13.9 66 340-409 283-348 (376)
31 COG1747 Uncharacterized N-term 36.9 5.6E+02 0.012 27.5 14.9 60 181-243 46-105 (711)
32 cd07439 FANCE_c-term Fanconi a 34.5 4.3E+02 0.0094 25.5 17.3 81 308-389 131-216 (254)
33 TIGR00207 fliG flagellar motor 34.1 5E+02 0.011 26.1 19.9 54 210-266 51-105 (338)
34 cd03568 VHS_STAM VHS domain fa 33.2 3.3E+02 0.0071 23.7 9.8 54 314-379 59-113 (144)
35 PF12231 Rif1_N: Rap1-interact 29.4 6.2E+02 0.013 25.7 15.6 45 350-395 179-223 (372)
36 KOG0166 Karyopherin (importin) 26.5 8.2E+02 0.018 26.2 14.3 139 238-379 256-416 (514)
37 PF14666 RICTOR_M: Rapamycin-i 25.4 2.9E+02 0.0064 26.1 7.4 25 377-401 190-214 (226)
38 PRK07194 fliG flagellar motor 25.1 7E+02 0.015 24.9 19.4 54 172-225 47-102 (334)
39 PF14666 RICTOR_M: Rapamycin-i 24.8 1.5E+02 0.0032 28.1 5.3 120 311-436 83-211 (226)
40 PF11510 FA_FANCE: Fanconi Ana 24.3 6.6E+02 0.014 24.4 10.9 196 170-374 42-247 (263)
41 PF04054 Not1: CCR4-Not comple 24.0 6.2E+02 0.013 26.0 9.9 77 311-387 262-344 (379)
42 PRK14720 transcript cleavage f 23.4 1.2E+03 0.026 27.0 13.0 68 192-262 74-141 (906)
43 cd03569 VHS_Hrs_Vps27p VHS dom 22.0 5.2E+02 0.011 22.3 11.0 54 314-379 63-117 (142)
44 cd07356 HN_L-whirlin_R1_like F 21.9 1.1E+02 0.0024 23.6 3.0 31 318-348 46-76 (78)
45 PF12188 STAT2_C: Signal trans 20.9 36 0.00079 24.3 0.2 23 52-74 6-29 (56)
46 PF05327 RRN3: RNA polymerase 20.7 1.1E+03 0.023 25.5 12.8 69 254-324 51-121 (563)
No 1
>KOG1488 consensus Translational repressor Pumilio/PUF3 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.8e-58 Score=463.98 Aligned_cols=286 Identities=32% Similarity=0.525 Sum_probs=271.8
Q ss_pred HHHHHHHHHHHhcCccccHHHHHhhccCCH-HHHHHHHHHHHHHHHHhhcCCCccHHHHHHHhcCCHHHHHHHHHHhhCC
Q 037508 148 LRDLRGNIVALAKDQYGCRHLQRTMSSLPK-EEIEMIFVEVIDRVCELMIDPFGNYVVQKLVELCSEEQRTRILLMLTND 226 (449)
Q Consensus 148 l~~i~g~i~~La~d~~gsrvlQ~lLe~~~~-e~~~~i~~ei~~~~~~L~~d~~Gn~VvQklle~~~~~~~~~i~~~l~~~ 226 (449)
+..+.|++++++.||+|||++|..++.++. +++..||+++.+.+.+||+|.||||||||++|+++++++..+...+.+
T Consensus 174 ~~~~~~~~v~f~~Dq~GsrfiQqkl~~~~~~~ek~~if~ei~~~~~~L~~dvFGNyvIQkffE~gt~~q~~~l~~~~~g- 252 (503)
T KOG1488|consen 174 LVDIPGHLVEFAKDQHGSRFIQQKLETASDNEEKQAVFDEILPPALELMTDVFGNYVIQKFFEHGTEDQRNLLHSQIKG- 252 (503)
T ss_pred ccccCCCceeecCCcccchHHHHhccccccHHHHHHHHHHHHHHHHHHHHHHhcCchhhhhhccCCHHHHHHHHHHHHh-
Confidence 456789999999999999999999999987 999999999999999999999999999999999999999999999998
Q ss_pred chhhHHHhcCCchhHHHHHHHHhcCchHHHHHHHHHHhhchhchhcCcCccHHHHHHHhcCChhhHHHHHHHHHH--hHH
Q 037508 227 DFQLVRICLNTHGIRAVLKLLENLTNPQQISLVLAALRPGAVTLTKDTNGHYVIQYCVKHFSHEDTKYLLNEVAD--NCY 304 (449)
Q Consensus 227 ~~~l~~L~~~~~G~~VvQklle~~~~~~~~~~I~~el~~~~~~L~~d~~Gn~ViQ~~L~~~~~~~~~~i~~~l~~--~~~ 304 (449)
++..||.++|||||||++|+.+....+.++| +||..++..++.|++||||||+|+++.+++.+++|++.+.+ ++.
T Consensus 253 --~v~~Lsld~ygCRVIQkale~id~~~~~~Li-~ELd~~vl~~v~DQngnHViQK~ie~~p~~~~~Fiv~~f~~~~~~~ 329 (503)
T KOG1488|consen 253 --HVLELSLDMYGCRVIQKALEKVDVSLQIQLI-DELDGHLLKCVKDQNGNHVIQKCIETLPPDAWQFIVDFFSGDDNLL 329 (503)
T ss_pred --hhhhhhcccccchhHHHHHHhcCHHHHHHHH-HHHHhhHHHHHhhcccceehhhhhhccChHHHHHHHHHhcCCCcee
Confidence 6999999999999999999999776666655 78899999999999999999999999999999999999999 999
Q ss_pred hhhcCCchhHHHHHHHhhccHHHHHHHHHHHHHhHHHHhcCCChhHHHHHHhccCchhHHHHHHHHHHhhhhhhcCCcch
Q 037508 305 GIATDKSGCCVLQHCVEYSKGAQRERLVAEIIANALLLAEDCYGNYVVQHLLALRVPQITASLLRQLEGHYVSFSCNKYG 384 (449)
Q Consensus 305 ~ls~~k~GS~Vvq~~L~~~~~~~~~~il~~l~~~l~~L~~d~~Gn~VIQ~lL~~~~~~~r~~li~~L~~~~~~Ls~~k~G 384 (449)
.+|+|+|||+|||++||+|.++++..++++|..++..|++|+|||||||++|+++++..+..|++.|.+++..||.+||+
T Consensus 330 ~ls~~~YGCRVIQr~lE~c~~~~~~~i~~ei~~~~~~L~~dQygNYVIQHVie~g~~~~~~~I~~~l~~~ll~~Sq~KfA 409 (503)
T KOG1488|consen 330 ELSTHKYGCRVIQRILEHCSEDQKQPLMEEIIRNCDQLAQDQYGNYVIQHVIEHGSPYRDTIIIKCLLGNLLSMSQHKFA 409 (503)
T ss_pred EeeccCcccHHHHHHhhcCChHhhhHHHHHHHHHHHHHHhhhhhhHHHHHHHhcCChhhhhhHHHHHHhhHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999988889999999999999999999
Q ss_pred hHHHHHHHhhcCHHHHHHHHHHHhcC-----CChhhhccCcChhHHHHHHhhhccccc
Q 037508 385 SNVVERCLLESGEEQSTRIIIELLRS-----PNVSMLLMHPFGNYVIQSALLVSKVRL 437 (449)
Q Consensus 385 S~Vvek~l~~~~~~~r~~ii~ell~~-----~~l~~L~~d~yGnyVvq~lL~~~~~~~ 437 (449)
|+|||+|+.+++...|..|++|++.. +.|..|+.|+|||||||+||++|+.+.
T Consensus 410 SnVVEk~~~~a~~~~r~~i~~Ei~~~~~~~~~~L~~mmkdQYgNYVVQkmi~~~~~~q 467 (503)
T KOG1488|consen 410 SNVVEKAFLFAPPLLRALIMNEIFPGYVEHPDALDIMMKDQYGNYVVQKMIDICGPEQ 467 (503)
T ss_pred HHHHHHHHhhCCHHHHHHHHHHhcCCccCCccHHHHHHHHhhhhhHHHHHHHhcCHHH
Confidence 99999999999999999999999973 467889999999999999999996643
No 2
>cd07920 Pumilio Pumilio-family RNA binding domain. Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canon
Probab=100.00 E-value=4.5e-52 Score=414.57 Aligned_cols=285 Identities=45% Similarity=0.745 Sum_probs=274.5
Q ss_pred HHHHH-HHHHHHhcCccccHHHHHhhccCCHHHHHHHHHHHHHHHHHhhcCCCccHHHHHHHhcCCHHHHHHHHHHhhCC
Q 037508 148 LRDLR-GNIVALAKDQYGCRHLQRTMSSLPKEEIEMIFVEVIDRVCELMIDPFGNYVVQKLVELCSEEQRTRILLMLTND 226 (449)
Q Consensus 148 l~~i~-g~i~~La~d~~gsrvlQ~lLe~~~~e~~~~i~~ei~~~~~~L~~d~~Gn~VvQklle~~~~~~~~~i~~~l~~~ 226 (449)
++++. |++.++|.|++|||++|++|++++++++..|++++.|++.+||.|+|||||+|+++++++++++..|++.+.+
T Consensus 4 ~~~~~~~~~~~l~~~~~gsr~lQ~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~g~~vvq~~l~~~~~~~~~~i~~~~~~- 82 (322)
T cd07920 4 LQDIKAGHIVEFAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKILG- 82 (322)
T ss_pred HHhccCcchhhccCCchhhHHHHHHhccCCHHHHHHHHHHHHHhHHHHhcCccccHHHHHHHHhCCHHHHHHHHHHHHH-
Confidence 45556 9999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred chhhHHHhcCCchhHHHHHHHHhcCchHHHHHHHHHHhhchhchhcCcCccHHHHHHHhcCChhhHHHHHHHHHHhHHhh
Q 037508 227 DFQLVRICLNTHGIRAVLKLLENLTNPQQISLVLAALRPGAVTLTKDTNGHYVIQYCVKHFSHEDTKYLLNEVADNCYGI 306 (449)
Q Consensus 227 ~~~l~~L~~~~~G~~VvQklle~~~~~~~~~~I~~el~~~~~~L~~d~~Gn~ViQ~~L~~~~~~~~~~i~~~l~~~~~~l 306 (449)
++.+||.|++||+|||++++.++ ++++..+++++.+++..|+.|++||||+|+++++++++.++.|++.+.+++.++
T Consensus 83 --~~~~l~~~~~g~~vlqkll~~~~-~~~~~~i~~~l~~~~~~L~~d~~gn~Vvq~~l~~~~~~~~~~i~~~l~~~~~~l 159 (322)
T cd07920 83 --HVVRLSLDMYGCRVIQKLLESIS-EEQISLLVKELRGHVVELVKDQNGNHVIQKCIEKFPPEDLQFIIDAFKGNCVAL 159 (322)
T ss_pred --HHHHHcccchhHHHHHHHHHhcC-HHHHHHHHHHHHHCHHHHhhcccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHH
Confidence 79999999999999999999987 678899999999999999999999999999999999999999999999999999
Q ss_pred hcCCchhHHHHHHHhhccHHHHHHHHHHHHHhHHHHhcCCChhHHHHHHhccCchhHHHHHHHHHHhhhhhhcCCcchhH
Q 037508 307 ATDKSGCCVLQHCVEYSKGAQRERLVAEIIANALLLAEDCYGNYVVQHLLALRVPQITASLLRQLEGHYVSFSCNKYGSN 386 (449)
Q Consensus 307 s~~k~GS~Vvq~~L~~~~~~~~~~il~~l~~~l~~L~~d~~Gn~VIQ~lL~~~~~~~r~~li~~L~~~~~~Ls~~k~GS~ 386 (449)
+.|++||+|+|++++.++++.+..+++++.+++..|+.|+|||||||++|+.++++.++.+++.+.+++.+|+.++|||+
T Consensus 160 ~~~~~G~~vvq~~l~~~~~~~~~~l~~~l~~~~~~L~~d~~Gn~vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~~k~Gs~ 239 (322)
T cd07920 160 STHPYGCRVIQRCLEHCSEEQREPLLEEILEHALELVQDQFGNYVVQHVLELGDPDDTSRIIEKLLGNIVQLSCHKFASN 239 (322)
T ss_pred HcCccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHhcCCHHHHHHHHHHHHHHHHHHHcCcchHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhcCHHHHHHHHHHHhcC----CChhhhccCcChhHHHHHHhhhcccc
Q 037508 387 VVERCLLESGEEQSTRIIIELLRS----PNVSMLLMHPFGNYVIQSALLVSKVR 436 (449)
Q Consensus 387 Vvek~l~~~~~~~r~~ii~ell~~----~~l~~L~~d~yGnyVvq~lL~~~~~~ 436 (449)
|+++|++.++.+.+..++++++.. +++..|+.|+|||||||++|+.+++.
T Consensus 240 Vve~~l~~~~~~~~~~ii~~l~~~~~~~~~l~~l~~d~~Gn~Viq~~l~~~~~~ 293 (322)
T cd07920 240 VVEKCLKHASKEERELIIDEILASGNETSALDTLMKDQYGNYVIQTALDVAKEE 293 (322)
T ss_pred HHHHHHHHCCHHHHHHHHHHHhcCCCchhHHHHHhCCCcccHHHHHHHHhCCHH
Confidence 999999999999999999999974 47899999999999999999998854
No 3
>KOG1488 consensus Translational repressor Pumilio/PUF3 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.8e-52 Score=424.02 Aligned_cols=307 Identities=20% Similarity=0.301 Sum_probs=276.8
Q ss_pred cCCcccCCccccCCCCCCCCCCCCCCccchhHHhhhhhcccccccCCCCCCCCcccccccccCCCcCCchhhcccccccH
Q 037508 69 FDNPVHHFPLVENGFFSHPCQEAEPINQDSSILNLLHNHNFDGLRSNGNELSSVPRNQWMSSLSLKRNQWLQDSFDCSSL 148 (449)
Q Consensus 69 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~~l 148 (449)
+-..+-.|++|++|+ +|.|++.+....++. ++..|+...+ .....+.+.+||+++||+|++++.
T Consensus 177 ~~~~~v~f~~Dq~Gs--rfiQqkl~~~~~~~e----k~~if~ei~~----------~~~~L~~dvFGNyvIQkffE~gt~ 240 (503)
T KOG1488|consen 177 IPGHLVEFAKDQHGS--RFIQQKLETASDNEE----KQAVFDEILP----------PALELMTDVFGNYVIQKFFEHGTE 240 (503)
T ss_pred cCCCceeecCCcccc--hHHHHhccccccHHH----HHHHHHHHHH----------HHHHHHHHHhcCchhhhhhccCCH
Confidence 555567799999999 999999997766332 2222322221 334556677899999999999954
Q ss_pred -------HHHHHHHHHHhcCccccHHHHHhhccCCHHHHHHHHHHHHHHHHHhhcCCCccHHHHHHHhcCCHHHHHHHHH
Q 037508 149 -------RDLRGNIVALAKDQYGCRHLQRTMSSLPKEEIEMIFVEVIDRVCELMIDPFGNYVVQKLVELCSEEQRTRILL 221 (449)
Q Consensus 149 -------~~i~g~i~~La~d~~gsrvlQ~lLe~~~~e~~~~i~~ei~~~~~~L~~d~~Gn~VvQklle~~~~~~~~~i~~ 221 (449)
..+.|++.+||.|.+||||||+.|++.+.++..+++.|+-+++.+++.|++|||||||++|..+++.+..|++
T Consensus 241 ~q~~~l~~~~~g~v~~Lsld~ygCRVIQkale~id~~~~~~Li~ELd~~vl~~v~DQngnHViQK~ie~~p~~~~~Fiv~ 320 (503)
T KOG1488|consen 241 DQRNLLHSQIKGHVLELSLDMYGCRVIQKALEKVDVSLQIQLIDELDGHLLKCVKDQNGNHVIQKCIETLPPDAWQFIVD 320 (503)
T ss_pred HHHHHHHHHHHhhhhhhhcccccchhHHHHHHhcCHHHHHHHHHHHHhhHHHHHhhcccceehhhhhhccChHHHHHHHH
Confidence 4578999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhCCchhhHHHhcCCchhHHHHHHHHhcCchHHHHHHHHHHhhchhchhcCcCccHHHHHHHhcCChhhHHHHHHHHHH
Q 037508 222 MLTNDDFQLVRICLNTHGIRAVLKLLENLTNPQQISLVLAALRPGAVTLTKDTNGHYVIQYCVKHFSHEDTKYLLNEVAD 301 (449)
Q Consensus 222 ~l~~~~~~l~~L~~~~~G~~VvQklle~~~~~~~~~~I~~el~~~~~~L~~d~~Gn~ViQ~~L~~~~~~~~~~i~~~l~~ 301 (449)
.+.++ .++..+|.|+|||||||+++|+|+..+ ...++++|..++..|+.|+|||||||++|+++.++.+..|++.+.+
T Consensus 321 ~f~~~-~~~~~ls~~~YGCRVIQr~lE~c~~~~-~~~i~~ei~~~~~~L~~dQygNYVIQHVie~g~~~~~~~I~~~l~~ 398 (503)
T KOG1488|consen 321 FFSGD-DNLLELSTHKYGCRVIQRILEHCSEDQ-KQPLMEEIIRNCDQLAQDQYGNYVIQHVIEHGSPYRDTIIIKCLLG 398 (503)
T ss_pred HhcCC-CceeEeeccCcccHHHHHHhhcCChHh-hhHHHHHHHHHHHHHHhhhhhhHHHHHHHhcCChhhhhhHHHHHHh
Confidence 99996 679999999999999999999997654 5668899999999999999999999999999999888999999999
Q ss_pred hHHhhhcCCchhHHHHHHHhhccHHHHHHHHHHHHH-------hHHHHhcCCChhHHHHHHhccCchhHHHHHHHHHHhh
Q 037508 302 NCYGIATDKSGCCVLQHCVEYSKGAQRERLVAEIIA-------NALLLAEDCYGNYVVQHLLALRVPQITASLLRQLEGH 374 (449)
Q Consensus 302 ~~~~ls~~k~GS~Vvq~~L~~~~~~~~~~il~~l~~-------~l~~L~~d~~Gn~VIQ~lL~~~~~~~r~~li~~L~~~ 374 (449)
++.++++|||+|+||++|+.+++...+..|++++++ -+..|++|+|||||||++|+.+++++|+.|..++++|
T Consensus 399 ~ll~~Sq~KfASnVVEk~~~~a~~~~r~~i~~Ei~~~~~~~~~~L~~mmkdQYgNYVVQkmi~~~~~~q~~~i~~rI~~h 478 (503)
T KOG1488|consen 399 NLLSMSQHKFASNVVEKAFLFAPPLLRALIMNEIFPGYVEHPDALDIMMKDQYGNYVVQKMIDICGPEQRELIKSRVKPH 478 (503)
T ss_pred hHHHHHHHHHHHHHHHHHHhhCCHHHHHHHHHHhcCCccCCccHHHHHHHHhhhhhHHHHHHHhcCHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999984 3788999999999999999999999999999999999
Q ss_pred hhhhcCCcchhHHHHHHHh
Q 037508 375 YVSFSCNKYGSNVVERCLL 393 (449)
Q Consensus 375 ~~~Ls~~k~GS~Vvek~l~ 393 (449)
+..|...+||.|+++++=+
T Consensus 479 ~~~Lrk~syGKhIia~lek 497 (503)
T KOG1488|consen 479 ASRLRKFSYGKHIIAKLEK 497 (503)
T ss_pred HHHHccCccHHHHHHHHHH
Confidence 9999999999999998654
No 4
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.9e-48 Score=395.82 Aligned_cols=288 Identities=50% Similarity=0.801 Sum_probs=278.9
Q ss_pred cHHHHHHHHHHHhcCccccHHHHHhhccCCHHHHHHHHHHHHHHHHHhhcCCCccHHHHHHHhcCCHHHHHHHHHHhhCC
Q 037508 147 SLRDLRGNIVALAKDQYGCRHLQRTMSSLPKEEIEMIFVEVIDRVCELMIDPFGNYVVQKLVELCSEEQRTRILLMLTND 226 (449)
Q Consensus 147 ~l~~i~g~i~~La~d~~gsrvlQ~lLe~~~~e~~~~i~~ei~~~~~~L~~d~~Gn~VvQklle~~~~~~~~~i~~~l~~~ 226 (449)
.+.+..|.+..+|+|++|||++|+.++.++......|+.++..++.+|+.|++|+|++|+++++|+++++..|+..+..+
T Consensus 211 ~~~~~~~~~~~~akd~~gc~~lq~~~~~~~~~~~~~if~~~~~~~~~Lm~d~fGny~vqkl~~~~~~eq~~~i~~~lts~ 290 (536)
T KOG2049|consen 211 SMVEIQGSINLIAKDQHGCRLLQKLLSEGTKVSILKIFLETIQDVPELMEDPFGNYLVQKLLEVCDEEQLTKIVSLLTSD 290 (536)
T ss_pred hhhccchhhhhhcccccCCcccccCcccCccccHHHHHHHHHHHHHHHHhccchhHHHHHHHHhhCHHHHHHHHHHHhcC
Confidence 34677899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhhHHHhcCCchhHHHHHHHHhcCchHHHHHHHHHHhhchhchhcCcCccHHHHHHHhcCChhhHHHHHHHHHHhHHhh
Q 037508 227 DFQLVRICLNTHGIRAVLKLLENLTNPQQISLVLAALRPGAVTLTKDTNGHYVIQYCVKHFSHEDTKYLLNEVADNCYGI 306 (449)
Q Consensus 227 ~~~l~~L~~~~~G~~VvQklle~~~~~~~~~~I~~el~~~~~~L~~d~~Gn~ViQ~~L~~~~~~~~~~i~~~l~~~~~~l 306 (449)
...++.+|.+++|+++||++++...+.+|+..+++.+.+.+..|++|.||+||||+||...+++..+.+++.+...+.++
T Consensus 291 p~~fv~i~~N~~GTr~iQkl~~~~~~~dqI~~~~~ai~~~fl~L~~D~~g~~Viq~cl~~f~~~~~~~l~e~i~~~c~~i 370 (536)
T KOG2049|consen 291 PRLFVEICTNMYGTRAVQKLLGKSDSVDQISLFLDAIKPNFLHLIKDKNGNHVIQRCLRVFSKEKNEFLYEAILRYCLDL 370 (536)
T ss_pred ccceeEeeecCchhHHHHHHHhccccHHHHHHHHHHHHhhhHHhhhhcchhHHHHHHHHhcCchhhhHHHHHHHHHHHHH
Confidence 88999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCchhHHHHHHHhhccHHHHHHHHHHHHHhHHHHhcCCChhHHHHHHhccCchhHHHHHHHHHHhhhhhhcCCcchhH
Q 037508 307 ATDKSGCCVLQHCVEYSKGAQRERLVAEIIANALLLAEDCYGNYVVQHLLALRVPQITASLLRQLEGHYVSFSCNKYGSN 386 (449)
Q Consensus 307 s~~k~GS~Vvq~~L~~~~~~~~~~il~~l~~~l~~L~~d~~Gn~VIQ~lL~~~~~~~r~~li~~L~~~~~~Ls~~k~GS~ 386 (449)
|+++|||.|+|+||......++..+++++..+.+.|++|+|||||||++|+..++.....|+..|.||+++||..|||||
T Consensus 371 A~~~hGCcvLq~cl~~~~~~~rd~Lv~~i~~naL~Ls~d~~GNyvVQyvl~L~~~~~t~~i~~~L~g~~veLS~qKfgS~ 450 (536)
T KOG2049|consen 371 ATDQHGCCVLQKCLDYSRGEQRDRLVEEISRNALLLSNDPYGNYVVQYVLELNDPSCTVNIAEKLRGHYVELSFQKFGSH 450 (536)
T ss_pred HHhccccchhHHHhcchhHHHHHHHHHHHHHHhHhhhcCccccchhhhhhhhcCcchHHHHHHhhhhHHHHHHHHhhccH
Confidence 99999999999999999999999999999999999999999999999999999988899999999999999999999999
Q ss_pred HHHHHHhhcCHHHHHHHHHHHhcCCChhhhccCcChhHHHHHHhhhccc
Q 037508 387 VVERCLLESGEEQSTRIIIELLRSPNVSMLLMHPFGNYVIQSALLVSKV 435 (449)
Q Consensus 387 Vvek~l~~~~~~~r~~ii~ell~~~~l~~L~~d~yGnyVvq~lL~~~~~ 435 (449)
|||||++.+... +..|+.|++..+++..|++|+|||||||++|..+++
T Consensus 451 vVEk~L~~~~~~-~~~iV~ell~~~~~~~Ll~D~ygNyViq~AL~vtk~ 498 (536)
T KOG2049|consen 451 VVEKLLKVRESS-RAQIVLELLSCDELDRLLRDPYGNYVIQTALRVTKV 498 (536)
T ss_pred HHHHHHhcCcch-hhHHHHHHHccccHHHHhhCccchHHHHHHHHHhhh
Confidence 999999987763 489999999988999999999999999999999997
No 5
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.1e-45 Score=391.65 Aligned_cols=274 Identities=38% Similarity=0.617 Sum_probs=263.4
Q ss_pred hcCccccHHHHHhhccCCHHHHHHHHHHHHHHHHHhhcCCCccHHHHHHHhcCCHHHHHHHHHHhhCCchhhHHHhcCCc
Q 037508 159 AKDQYGCRHLQRTMSSLPKEEIEMIFVEVIDRVCELMIDPFGNYVVQKLVELCSEEQRTRILLMLTNDDFQLVRICLNTH 238 (449)
Q Consensus 159 a~d~~gsrvlQ~lLe~~~~e~~~~i~~ei~~~~~~L~~d~~Gn~VvQklle~~~~~~~~~i~~~l~~~~~~l~~L~~~~~ 238 (449)
+.||+|||.||+.|+.-+.++.+.++.++.+...+||.|.|||||+||++|+++.+++..++..+.+ ++..++.|+|
T Consensus 447 ~~Dq~g~r~LQk~Lds~s~~~~~~~~~e~~d~~~eLs~d~fGNyliQK~fe~~s~~q~~~ml~~~~~---~~~~ls~~~~ 523 (777)
T COG5099 447 CKDQHGSRFLQKLLDSNSSPEIEVIFNEILDQLVELSSDYFGNYLIQKLFEYGSEIQKSIMLSKSSK---HLVSLSVHKY 523 (777)
T ss_pred cCCcHHHHHHHHHhcccchHHHHHHHHHHhhhhHHHHHhhhcchhhHHHHHhccHHHHHHHHHHhhh---hHHHhhcccc
Confidence 6999999999999999999999999999999999999999999999999999999999999999988 7999999999
Q ss_pred hhHHHHHHHHhcCchHHHHHHHHHHhhchhchhcCcCccHHHHHHHhcCChhhHHHHHHHHHHhHHhhhcCCchhHHHHH
Q 037508 239 GIRAVLKLLENLTNPQQISLVLAALRPGAVTLTKDTNGHYVIQYCVKHFSHEDTKYLLNEVADNCYGIATDKSGCCVLQH 318 (449)
Q Consensus 239 G~~VvQklle~~~~~~~~~~I~~el~~~~~~L~~d~~Gn~ViQ~~L~~~~~~~~~~i~~~l~~~~~~ls~~k~GS~Vvq~ 318 (449)
||||+||+++.+.++.+...+++++.+.+..+++|++||||+|+|++....+...+|++.+.++++++++|+|||+|||+
T Consensus 524 Gtrv~QK~id~~~t~~qi~~lv~~l~~~~~~li~dqngNHviqKci~~~~~~~~~fif~~~~~~~~~is~~r~Gs~vvq~ 603 (777)
T COG5099 524 GTRVLQKAIDIVSTDIQISLLVEELRPYCLQLIKDQNGNHVIQKCIEKFNKEKNQFIFDSINENLYDLSTHRYGSRVVQR 603 (777)
T ss_pred ccHHHHHHHhccCchhhHHHHHHHhhhhhHHHHHhccCCHHHHHHHHhcCccccchHHHHHHhhhHhhhccccccHHHHH
Confidence 99999999999999999989999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhccHHHHHHHHHHHHHhHHHHhcCCChhHHHHHHhccCchhHHHHHHHHHHh-hhhhhcCCcchhHHHHHHHhhcCH
Q 037508 319 CVEYSKGAQRERLVAEIIANALLLAEDCYGNYVVQHLLALRVPQITASLLRQLEG-HYVSFSCNKYGSNVVERCLLESGE 397 (449)
Q Consensus 319 ~L~~~~~~~~~~il~~l~~~l~~L~~d~~Gn~VIQ~lL~~~~~~~r~~li~~L~~-~~~~Ls~~k~GS~Vvek~l~~~~~ 397 (449)
|+|++..++.+.++++|..++..|++|+|||||||++|+.+.+..++.++..+.. ++++|+.+||||.|||||+.++.+
T Consensus 604 ~le~~~~~~~~~~~~~Ii~~~~~L~~dq~GNyvvq~il~~g~~~~k~~i~~~~l~~~v~elS~~kfaSnvVeK~i~~~~~ 683 (777)
T COG5099 604 CLENCNSEDKENLVEEIISNSKYLSQDQYGNYVVQHILDNGAEPNKERIIIKLLSKRVVELSTHKFASNVVEKCIKYASD 683 (777)
T ss_pred HHHhccHhHHHHHHHHHHHHHHhhccCCcchhhhhHHhhcCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCc
Confidence 9999999999999999999999999999999999999999999999999999888 999999999999999999999999
Q ss_pred HHH-HHHHHHHhc----CCC-hhhhccCcChhHHHHHHhhhccc
Q 037508 398 EQS-TRIIIELLR----SPN-VSMLLMHPFGNYVIQSALLVSKV 435 (449)
Q Consensus 398 ~~r-~~ii~ell~----~~~-l~~L~~d~yGnyVvq~lL~~~~~ 435 (449)
.++ .+|+.++.. .|. +..|+.|+|||||+|++++.+..
T Consensus 684 ~~~~~ril~~~~~~~~~~~~~l~~i~~d~y~Nyv~q~~~~~s~~ 727 (777)
T COG5099 684 SFKRSRILNELTNRGIEKPGFLMLILDDQYANYVIQYLLDVSPE 727 (777)
T ss_pred chHHHHHHHHHhcccccCChHHHHHHHhhhcchHHHHHHhhCch
Confidence 885 999999986 444 77899999999999999998765
No 6
>cd07920 Pumilio Pumilio-family RNA binding domain. Puf repeats (also labelled PUM-HD or Pumilio homology domain) mediate sequence specific RNA binding in fly Pumilio, worm FBF-1 and FBF-2, and many other proteins such as vertebrate Pumilio. These proteins function as translational repressors in early embryonic development by binding to sequences in the 3' UTR of target mRNAs, such as the nanos response element (NRE) in fly Hunchback mRNA, or the point mutation element (PME) in worm fem-3 mRNA. Other proteins that contain Puf domains are also plausible RNA binding proteins. Yeast PUF1 (JSN1), for instance, appears to contain a single RNA-recognition motif (RRM) domain. Puf repeat proteins have been observed to function asymmetrically and may be responsible for creating protein gradients involved in the specification of cell fate and differentiation. Puf domains usually occur as a tandem repeat of 8 domains. This model encompasses all 8 tandem repeats. Some proteins may have fewer (canon
Probab=100.00 E-value=2.9e-43 Score=351.10 Aligned_cols=294 Identities=21% Similarity=0.390 Sum_probs=279.6
Q ss_pred cCCCcCCchhhcccccc-------cHHHHHHHHHHHhcCccccHHHHHhhccCCHHHHHHHHHHHHHHHHHhhcCCCccH
Q 037508 130 SLSLKRNQWLQDSFDCS-------SLRDLRGNIVALAKDQYGCRHLQRTMSSLPKEEIEMIFVEVIDRVCELMIDPFGNY 202 (449)
Q Consensus 130 ~~~~~~~~~~q~~~~~~-------~l~~i~g~i~~La~d~~gsrvlQ~lLe~~~~e~~~~i~~ei~~~~~~L~~d~~Gn~ 202 (449)
..+..|++.+|+.++++ +++++.+++.+|+.|++|++++|+++++++++++..|++++.+++.+|+.|++|+|
T Consensus 16 ~~~~~gsr~lQ~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~g~~vvq~~l~~~~~~~~~~i~~~~~~~~~~l~~~~~g~~ 95 (322)
T cd07920 16 AKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKILGHVVRLSLDMYGCR 95 (322)
T ss_pred cCCchhhHHHHHHhccCCHHHHHHHHHHHHHhHHHHhcCccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHcccchhHH
Confidence 34556999999999987 67889999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcCCHHHHHHHHHHhhCCchhhHHHhcCCchhHHHHHHHHhcCchHHHHHHHHHHhhchhchhcCcCccHHHHH
Q 037508 203 VVQKLVELCSEEQRTRILLMLTNDDFQLVRICLNTHGIRAVLKLLENLTNPQQISLVLAALRPGAVTLTKDTNGHYVIQY 282 (449)
Q Consensus 203 VvQklle~~~~~~~~~i~~~l~~~~~~l~~L~~~~~G~~VvQklle~~~~~~~~~~I~~el~~~~~~L~~d~~Gn~ViQ~ 282 (449)
|+|++++.++++++..|++++.+ ++..|+.|++|++|+|++++.++ +++.+.+++.+.+++..++.|++|++|+|+
T Consensus 96 vlqkll~~~~~~~~~~i~~~l~~---~~~~L~~d~~gn~Vvq~~l~~~~-~~~~~~i~~~l~~~~~~l~~~~~G~~vvq~ 171 (322)
T cd07920 96 VIQKLLESISEEQISLLVKELRG---HVVELVKDQNGNHVIQKCIEKFP-PEDLQFIIDAFKGNCVALSTHPYGCRVIQR 171 (322)
T ss_pred HHHHHHHhcCHHHHHHHHHHHHH---CHHHHhhcccccHHHHHHHHhCC-HHHHHHHHHHHHHHHHHHHcCccccHHHHH
Confidence 99999999999999999999997 68999999999999999999974 567888999999999999999999999999
Q ss_pred HHhcCChhhHHHHHHHHHHhHHhhhcCCchhHHHHHHHhhccHHHHHHHHHHHHHhHHHHhcCCChhHHHHHHhccCchh
Q 037508 283 CVKHFSHEDTKYLLNEVADNCYGIATDKSGCCVLQHCVEYSKGAQRERLVAEIIANALLLAEDCYGNYVVQHLLALRVPQ 362 (449)
Q Consensus 283 ~L~~~~~~~~~~i~~~l~~~~~~ls~~k~GS~Vvq~~L~~~~~~~~~~il~~l~~~l~~L~~d~~Gn~VIQ~lL~~~~~~ 362 (449)
+++..+++.++.+++.+.+++..++.++||++|+|++++.++++.+..+++.+.+++..|++|+||++|++++|+.+++.
T Consensus 172 ~l~~~~~~~~~~l~~~l~~~~~~L~~d~~Gn~vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~~k~Gs~Vve~~l~~~~~~ 251 (322)
T cd07920 172 CLEHCSEEQREPLLEEILEHALELVQDQFGNYVVQHVLELGDPDDTSRIIEKLLGNIVQLSCHKFASNVVEKCLKHASKE 251 (322)
T ss_pred HHHhCCHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHhcCCHHHHHHHHHHHHHHHHHHHcCcchHHHHHHHHHHCCHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHH------hhhhhhcCCcchhHHHHHHHhhcCHHHHHHHHHHHhcCCChhhhccCcChhHHHHHH
Q 037508 363 ITASLLRQLE------GHYVSFSCNKYGSNVVERCLLESGEEQSTRIIIELLRSPNVSMLLMHPFGNYVIQSA 429 (449)
Q Consensus 363 ~r~~li~~L~------~~~~~Ls~~k~GS~Vvek~l~~~~~~~r~~ii~ell~~~~l~~L~~d~yGnyVvq~l 429 (449)
.|+.+++.+. +++.+|+.++||++|++++|+.+++..++.|+.++.+ ++..|..++||+.|+.++
T Consensus 252 ~~~~ii~~l~~~~~~~~~l~~l~~d~~Gn~Viq~~l~~~~~~~~~~i~~~l~~--~~~~L~~~~~G~~v~~~~ 322 (322)
T cd07920 252 ERELIIDEILASGNETSALDTLMKDQYGNYVIQTALDVAKEEQRELLVEAIRP--HLPSLRKSPYGKHILAKL 322 (322)
T ss_pred HHHHHHHHHhcCCCchhHHHHHhCCCcccHHHHHHHHhCCHHHHHHHHHHHHH--HHHHHcCCCcHHHHHHhC
Confidence 9999999994 5899999999999999999999999999999999987 899999999999999874
No 7
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.2e-36 Score=306.24 Aligned_cols=299 Identities=18% Similarity=0.253 Sum_probs=256.7
Q ss_pred CCcccCCccccCCCCCCCCCCCCCCccchhHHhhhhhcccccccCCCCCCCCcccccccccCCCcCCchhhcccccccHH
Q 037508 70 DNPVHHFPLVENGFFSHPCQEAEPINQDSSILNLLHNHNFDGLRSNGNELSSVPRNQWMSSLSLKRNQWLQDSFDCSSLR 149 (449)
Q Consensus 70 ~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~~l~ 149 (449)
++-+..+++|+.|| +.+|.........+++..+..- .. .+ ..-+.+.+|++++|+.++.+.-+
T Consensus 216 ~~~~~~~akd~~gc--~~lq~~~~~~~~~~~~~if~~~-----~~------~~----~~Lm~d~fGny~vqkl~~~~~~e 278 (536)
T KOG2049|consen 216 QGSINLIAKDQHGC--RLLQKLLSEGTKVSILKIFLET-----IQ------DV----PELMEDPFGNYLVQKLLEVCDEE 278 (536)
T ss_pred chhhhhhcccccCC--cccccCcccCccccHHHHHHHH-----HH------HH----HHHHhccchhHHHHHHHHhhCHH
Confidence 47788899999999 9999887755555554332211 10 01 12345778999999999877333
Q ss_pred H----------HHHHHHHHhcCccccHHHHHhhccC-CHHHHHHHHHHHHHHHHHhhcCCCccHHHHHHHhcCCHHHHHH
Q 037508 150 D----------LRGNIVALAKDQYGCRHLQRTMSSL-PKEEIEMIFVEVIDRVCELMIDPFGNYVVQKLVELCSEEQRTR 218 (449)
Q Consensus 150 ~----------i~g~i~~La~d~~gsrvlQ~lLe~~-~~e~~~~i~~ei~~~~~~L~~d~~Gn~VvQklle~~~~~~~~~ 218 (449)
+ -.+.++.+|++++|+|.+|++++.. +.+|...++..+.+.+..|++|.||+||+|+++.+.+++..+.
T Consensus 279 q~~~i~~~lts~p~~fv~i~~N~~GTr~iQkl~~~~~~~dqI~~~~~ai~~~fl~L~~D~~g~~Viq~cl~~f~~~~~~~ 358 (536)
T KOG2049|consen 279 QLTKIVSLLTSDPRLFVEICTNMYGTRAVQKLLGKSDSVDQISLFLDAIKPNFLHLIKDKNGNHVIQRCLRVFSKEKNEF 358 (536)
T ss_pred HHHHHHHHHhcCccceeEeeecCchhHHHHHHHhccccHHHHHHHHHHHHhhhHHhhhhcchhHHHHHHHHhcCchhhhH
Confidence 2 2357899999999999999999988 5678899999999999999999999999999999999999999
Q ss_pred HHHHhhCCchhhHHHhcCCchhHHHHHHHHhcCchHHHHHHHHHHhhchhchhcCcCccHHHHHHHhcCChhhHHHHHHH
Q 037508 219 ILLMLTNDDFQLVRICLNTHGIRAVLKLLENLTNPQQISLVLAALRPGAVTLTKDTNGHYVIQYCVKHFSHEDTKYLLNE 298 (449)
Q Consensus 219 i~~~l~~~~~~l~~L~~~~~G~~VvQklle~~~~~~~~~~I~~el~~~~~~L~~d~~Gn~ViQ~~L~~~~~~~~~~i~~~ 298 (449)
+++.+.. ...++|+|++||.|+|+++.... .++++.+++++..+...|+.|+|||||+|++|+.-.+.....|+..
T Consensus 359 l~e~i~~---~c~~iA~~~hGCcvLq~cl~~~~-~~~rd~Lv~~i~~naL~Ls~d~~GNyvVQyvl~L~~~~~t~~i~~~ 434 (536)
T KOG2049|consen 359 LYEAILR---YCLDLATDQHGCCVLQKCLDYSR-GEQRDRLVEEISRNALLLSNDPYGNYVVQYVLELNDPSCTVNIAEK 434 (536)
T ss_pred HHHHHHH---HHHHHHHhccccchhHHHhcchh-HHHHHHHHHHHHHHhHhhhcCccccchhhhhhhhcCcchHHHHHHh
Confidence 9999998 68999999999999999999964 5789999999999999999999999999999998888888999999
Q ss_pred HHHhHHhhhcCCchhHHHHHHHhhccHHHHHHHHHHHHH--hHHHHhcCCChhHHHHHHhccCch----hHHHHHHHHHH
Q 037508 299 VADNCYGIATDKSGCCVLQHCVEYSKGAQRERLVAEIIA--NALLLAEDCYGNYVVQHLLALRVP----QITASLLRQLE 372 (449)
Q Consensus 299 l~~~~~~ls~~k~GS~Vvq~~L~~~~~~~~~~il~~l~~--~l~~L~~d~~Gn~VIQ~lL~~~~~----~~r~~li~~L~ 372 (449)
+.+++.++|.+||||+|||+||++.... +..++.+++. .+..|++|+|||||||++|..... ..+..++.+++
T Consensus 435 L~g~~veLS~qKfgS~vVEk~L~~~~~~-~~~iV~ell~~~~~~~Ll~D~ygNyViq~AL~vtk~~~~~~~~~~lv~~~~ 513 (536)
T KOG2049|consen 435 LRGHYVELSFQKFGSHVVEKLLKVRESS-RAQIVLELLSCDELDRLLRDPYGNYVIQTALRVTKVKLREDLFGLLVQKLM 513 (536)
T ss_pred hhhHHHHHHHHhhccHHHHHHHhcCcch-hhHHHHHHHccccHHHHhhCccchHHHHHHHHHhhhcccchhhHHHHHHHh
Confidence 9999999999999999999999997654 3677777776 899999999999999999998765 68889999999
Q ss_pred hhhhhhcCCcchhHHHHH
Q 037508 373 GHYVSFSCNKYGSNVVER 390 (449)
Q Consensus 373 ~~~~~Ls~~k~GS~Vvek 390 (449)
..+..|...++|..+..+
T Consensus 514 ~~~~~lr~~p~~~~~~~~ 531 (536)
T KOG2049|consen 514 PRIRLLRNNPGGNIALIK 531 (536)
T ss_pred hhhHHhhcCcccceeeeh
Confidence 999999999998877654
No 8
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.8e-35 Score=315.30 Aligned_cols=296 Identities=23% Similarity=0.337 Sum_probs=256.6
Q ss_pred ccccCCCCCCCCCCCCCCccchhHHhhhhhcccccccCCCCCCCCcccccccccCCCcCCchhhccccccc-------HH
Q 037508 77 PLVENGFFSHPCQEAEPINQDSSILNLLHNHNFDGLRSNGNELSSVPRNQWMSSLSLKRNQWLQDSFDCSS-------LR 149 (449)
Q Consensus 77 ~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~~~~~~-------l~ 149 (449)
-+|+.|| +++|.....+....+ ..+-+...... ...+.+.+||+++||+||+++ +.
T Consensus 447 ~~Dq~g~--r~LQk~Lds~s~~~~-~~~~~e~~d~~--------------~eLs~d~fGNyliQK~fe~~s~~q~~~ml~ 509 (777)
T COG5099 447 CKDQHGS--RFLQKLLDSNSSPEI-EVIFNEILDQL--------------VELSSDYFGNYLIQKLFEYGSEIQKSIMLS 509 (777)
T ss_pred cCCcHHH--HHHHHHhcccchHHH-HHHHHHHhhhh--------------HHHHHhhhcchhhHHHHHhccHHHHHHHHH
Confidence 4888888 888887665443332 22222222211 234567789999999999993 56
Q ss_pred HHHHHHHHHhcCccccHHHHHhhccCCHH-HHHHHHHHHHHHHHHhhcCCCccHHHHHHHhcCCHHHHHHHHHHhhCCch
Q 037508 150 DLRGNIVALAKDQYGCRHLQRTMSSLPKE-EIEMIFVEVIDRVCELMIDPFGNYVVQKLVELCSEEQRTRILLMLTNDDF 228 (449)
Q Consensus 150 ~i~g~i~~La~d~~gsrvlQ~lLe~~~~e-~~~~i~~ei~~~~~~L~~d~~Gn~VvQklle~~~~~~~~~i~~~l~~~~~ 228 (449)
.+.+++++++.+++|||++|+++++.+++ +...|++++.+.+..|..|++||||+||+++....+....|++.+.+
T Consensus 510 ~~~~~~~~ls~~~~Gtrv~QK~id~~~t~~qi~~lv~~l~~~~~~li~dqngNHviqKci~~~~~~~~~fif~~~~~--- 586 (777)
T COG5099 510 KSSKHLVSLSVHKYGTRVLQKAIDIVSTDIQISLLVEELRPYCLQLIKDQNGNHVIQKCIEKFNKEKNQFIFDSINE--- 586 (777)
T ss_pred HhhhhHHHhhccccccHHHHHHHhccCchhhHHHHHHHhhhhhHHHHHhccCCHHHHHHHHhcCccccchHHHHHHh---
Confidence 68899999999999999999999999654 56699999999999999999999999999999999999999999998
Q ss_pred hhHHHhcCCchhHHHHHHHHhcCchHHHHHHHHHHhhchhchhcCcCccHHHHHHHhcCChhhHHHHHHHHHH-hHHhhh
Q 037508 229 QLVRICLNTHGIRAVLKLLENLTNPQQISLVLAALRPGAVTLTKDTNGHYVIQYCVKHFSHEDTKYLLNEVAD-NCYGIA 307 (449)
Q Consensus 229 ~l~~L~~~~~G~~VvQklle~~~~~~~~~~I~~el~~~~~~L~~d~~Gn~ViQ~~L~~~~~~~~~~i~~~l~~-~~~~ls 307 (449)
++.+++.|+|||+|||+|+|++.... .+.++++|..++..|+.|+|||||||++|+.+.+..++.|+..+.. ++.+++
T Consensus 587 ~~~~is~~r~Gs~vvq~~le~~~~~~-~~~~~~~Ii~~~~~L~~dq~GNyvvq~il~~g~~~~k~~i~~~~l~~~v~elS 665 (777)
T COG5099 587 NLYDLSTHRYGSRVVQRCLENCNSED-KENLVEEIISNSKYLSQDQYGNYVVQHILDNGAEPNKERIIIKLLSKRVVELS 665 (777)
T ss_pred hhHhhhccccccHHHHHHHHhccHhH-HHHHHHHHHHHHHhhccCCcchhhhhHHhhcCCCcchhHHHHHHHHHHHHHHH
Confidence 58899999999999999999997655 4778899999999999999999999999999999999999988887 999999
Q ss_pred cCCchhHHHHHHHhhccHHH-HHHHHHHHHH------h-HHHHhcCCChhHHHHHHhccCchhHHHHHHHHHHhhhhhhc
Q 037508 308 TDKSGCCVLQHCVEYSKGAQ-RERLVAEIIA------N-ALLLAEDCYGNYVVQHLLALRVPQITASLLRQLEGHYVSFS 379 (449)
Q Consensus 308 ~~k~GS~Vvq~~L~~~~~~~-~~~il~~l~~------~-l~~L~~d~~Gn~VIQ~lL~~~~~~~r~~li~~L~~~~~~Ls 379 (449)
+||+||.||++|+.++.... +..|+.++.. . +..|+.|+|||||+|+++....+..|..+.+.++.++..|-
T Consensus 666 ~~kfaSnvVeK~i~~~~~~~~~~ril~~~~~~~~~~~~~l~~i~~d~y~Nyv~q~~~~~s~~~~~~l~~~~i~~~~~~l~ 745 (777)
T COG5099 666 THKFASNVVEKCIKYASDSFKRSRILNELTNRGIEKPGFLMLILDDQYANYVIQYLLDVSPEIQRSLLARAIKKVIPSLK 745 (777)
T ss_pred HHHHHHHHHHHHHhcCCcchHHHHHHHHHhcccccCChHHHHHHHhhhcchHHHHHHhhCchhhHHHHHHHHHHHHHHHh
Confidence 99999999999999999877 4888888875 2 68899999999999999999999999999999999999999
Q ss_pred CCcchhHHHHHHHh
Q 037508 380 CNKYGSNVVERCLL 393 (449)
Q Consensus 380 ~~k~GS~Vvek~l~ 393 (449)
..++|-|+..++=+
T Consensus 746 ~s~~g~~i~~~le~ 759 (777)
T COG5099 746 KSMYGQHILALLEK 759 (777)
T ss_pred cCCccHHHHHHHHH
Confidence 99999988765544
No 9
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=99.97 E-value=3.3e-29 Score=252.52 Aligned_cols=295 Identities=17% Similarity=0.217 Sum_probs=264.6
Q ss_pred cHHHHHHHHHHHhcCccccHHHHHhhccCCHHHHHHHHHHHHHHHHHhhcCCCccHHHHHHHhcCCHHHHHHHHHHhhCC
Q 037508 147 SLRDLRGNIVALAKDQYGCRHLQRTMSSLPKEEIEMIFVEVIDRVCELMIDPFGNYVVQKLVELCSEEQRTRILLMLTND 226 (449)
Q Consensus 147 ~l~~i~g~i~~La~d~~gsrvlQ~lLe~~~~e~~~~i~~ei~~~~~~L~~d~~Gn~VvQklle~~~~~~~~~i~~~l~~~ 226 (449)
.++-++|++.+++.-+..|||||+++.++++.+++.|++++.|.+++||.++||-|+|||++.++++.++..|++.+.+
T Consensus 158 l~~likg~i~~lv~aHDtSRViQt~Vky~s~~~r~~if~eL~p~~v~l~kskY~k~~v~KmLkyGsk~q~a~iI~sl~G- 236 (652)
T KOG2050|consen 158 LYKLIKGKISKLVFAHDTSRVIQTCVKYGSEAQREQIFEELLPFFVELAKSKYAKFFVQKMLKYGSKAQKAKIINSLRG- 236 (652)
T ss_pred HHHHHhhhHHHHHHHhhhHHHHHHHHHhcCHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHhcCCHHHHHHHHHHHhh-
Confidence 4667899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chhhHHHhcCCchhHHHHHHHHhcCchHHHHHHHHHHhhchhchhcCcCccHHHHHHHhcCChhhHHHHHHHHHHhHHhh
Q 037508 227 DFQLVRICLNTHGIRAVLKLLENLTNPQQISLVLAALRPGAVTLTKDTNGHYVIQYCVKHFSHEDTKYLLNEVADNCYGI 306 (449)
Q Consensus 227 ~~~l~~L~~~~~G~~VvQklle~~~~~~~~~~I~~el~~~~~~L~~d~~Gn~ViQ~~L~~~~~~~~~~i~~~l~~~~~~l 306 (449)
+++.|..|+.|+.||..++....+.+|+..+..|+.+....+.++.+ -..|..++.. .++.+..|...+.+.+..+
T Consensus 237 --hv~kLlRH~eaa~Vve~ay~~~A~l~Qr~~li~EfYG~efqlfK~sn-~~Tl~kil~~-~pekk~~I~~~l~~~I~~v 312 (652)
T KOG2050|consen 237 --HVVKLLRHREAAYVVEYAYNDFATLEQRQYLIQEFYGDEFQLFKDSN-DKTLDKILAE-APEKKASILRHLKAIITPV 312 (652)
T ss_pred --hHHHHHhhhHHHHHHHHHHHhhccHHHHHHHHHHHhhHHHHHHhccC-cccHHHHHHh-ChHhHHHHHHHHHHHhHHH
Confidence 68888999999999999999988899999999999999999999933 3356666663 5788888888887776655
Q ss_pred hc-CCchhHHHHH----HHhhccHHHHHHHHHHHHHhHHHHhcCCChhHHHHHHhccCchhHHHHHHHHHHhhhhhhcCC
Q 037508 307 AT-DKSGCCVLQH----CVEYSKGAQRERLVAEIIANALLLAEDCYGNYVVQHLLALRVPQITASLLRQLEGHYVSFSCN 381 (449)
Q Consensus 307 s~-~k~GS~Vvq~----~L~~~~~~~~~~il~~l~~~l~~L~~d~~Gn~VIQ~lL~~~~~~~r~~li~~L~~~~~~Ls~~ 381 (449)
+. ..-|.-+|-+ .+..|+++.+..+++.+.+.+..|+..+-|+.|.-+++.+++++.|+.|++.+++|+..++.+
T Consensus 313 ~eKg~v~~tivHk~mlEy~~~ade~e~~e~l~ll~elv~e~vHT~dGS~vAm~li~~a~aKeRK~IiK~~K~h~~K~A~~ 392 (652)
T KOG2050|consen 313 AEKGSVDHTIVHKLMLEYLTIADEEEKSELLELLKELVPEMVHTRDGSRVAMKLIWHATAKERKLIIKNMKEHVEKIAND 392 (652)
T ss_pred hhcchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHhh
Confidence 43 3345555554 445699999999999999999999999999999999999999999999999999999999999
Q ss_pred cchhHHHHHHHhhcCHH--HHHHHHHHHhcCCChhhhccCcChhHHHHHHhhhcccccCCCCCCccCCC
Q 037508 382 KYGSNVVERCLLESGEE--QSTRIIIELLRSPNVSMLLMHPFGNYVIQSALLVSKVRLFSSPPISVCKP 448 (449)
Q Consensus 382 k~GS~Vvek~l~~~~~~--~r~~ii~ell~~~~l~~L~~d~yGnyVvq~lL~~~~~~~~~~~~i~~l~~ 448 (449)
.||+.|+-.+|++.+++ .++.|+.++.. .+..++.|+||+-|++++|...|.+.++++.|+.|..
T Consensus 393 ~yGh~vlia~ldc~DDT~l~kk~i~~e~~~--el~~li~Dk~Grrv~lyll~p~D~~~f~~e~ie~l~~ 459 (652)
T KOG2050|consen 393 EYGHLVLIALLDCTDDTKLLKKLIYDELKS--ELKSLISDKYGRRVILYLLAPRDGRYFVPEFIEVLEE 459 (652)
T ss_pred ccCceehhhhhcccchHHHHHHHHHHHHHH--HHHHHhccchhhhhhhhhccCCccccccHHHHHHHHh
Confidence 99999999999999886 57888999877 8999999999999999999999999999999966543
No 10
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=1.9e-27 Score=242.12 Aligned_cols=280 Identities=20% Similarity=0.319 Sum_probs=211.6
Q ss_pred ccccHHHHHHHHHHHhcCccccHHHHHhhccCCHHHHHHHHHHHHHHHHHhhcCCCccHHHHH-----------------
Q 037508 144 DCSSLRDLRGNIVALAKDQYGCRHLQRTMSSLPKEEIEMIFVEVIDRVCELMIDPFGNYVVQK----------------- 206 (449)
Q Consensus 144 ~~~~l~~i~g~i~~La~d~~gsrvlQ~lLe~~~~e~~~~i~~ei~~~~~~L~~d~~Gn~VvQk----------------- 206 (449)
.++++++..|+.+++|+||.||.++|+++..++..+...++.++.++++.++.|++|+||+|+
T Consensus 90 ~n~i~ee~~grel~l~tnqi~Sk~le~l~~f~d~~ql~~ff~~~~g~lr~i~~~r~gshVle~~L~~~a~~vg~e~~~~s 169 (650)
T KOG2188|consen 90 VNSIFEEVYGRELDLATNQIGSKVLEDLLGFSDSRQLCDFFSALNGVLRSIAQHRFGSHVLESALEKLAALVGQEAALLS 169 (650)
T ss_pred ehhHHHHhccceeehhccchhHHHHHHHhccCCchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhCccccccc
Confidence 344789999999999999999999999999999999999999999999999999999999999
Q ss_pred --------------------------------------------------------------------------------
Q 037508 207 -------------------------------------------------------------------------------- 206 (449)
Q Consensus 207 -------------------------------------------------------------------------------- 206 (449)
T Consensus 170 ~dea~~~ke~p~~t~e~~~~~m~nei~~~~~~~l~~~~~gshv~rt~~l~l~s~~~~~~~~~~~~~~~~~~~~~~~~~~~ 249 (650)
T KOG2188|consen 170 EDEAAVEKEGPFVTCENLLLLMLNEISPHVLKTLMELIFGSHVLRTILLLLFSMCPIAESEHKLALRKAAHRGMDDWDAV 249 (650)
T ss_pred hhhhcccccCcccccchHHHHHHHHhhHHHHHHHHHHHHhHHHHHHHHHHHccCcchhhhHHHHHHHHHhhccccchhhh
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q 037508 207 -------------------------------------------------------------------------------- 206 (449)
Q Consensus 207 -------------------------------------------------------------------------------- 206 (449)
T Consensus 250 ~~~pqsFp~~l~~~i~~~l~~~~~~s~~~~~~~k~~~vDk~~s~v~q~~i~l~~~~~~~~~~~~~~~lv~~~~~~~e~d~ 329 (650)
T KOG2188|consen 250 TTPPQSFPQRLIVWICTGLSALQDVSESKKRDLKGYEVDKSSSNVLQKAIRLAFDENKNDQFMESPRLVTKFQLFNEKDG 329 (650)
T ss_pred hcChhhccHHHHHHHhhhccccccchhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhhhhHHHhhhhccccCc
Confidence
Q ss_pred ------------------------HHhcCCHHHHHHHHHHhhCCchhhHHHhcCCchhHHHHHHHHhcCchHHHHHHHHH
Q 037508 207 ------------------------LVELCSEEQRTRILLMLTNDDFQLVRICLNTHGIRAVLKLLENLTNPQQISLVLAA 262 (449)
Q Consensus 207 ------------------------lle~~~~~~~~~i~~~l~~~~~~l~~L~~~~~G~~VvQklle~~~~~~~~~~I~~e 262 (449)
+++++++..+..+...+.+ ++.+||.|+.++++||++|+++++.+++..|+++
T Consensus 330 ~~~kE~~~~k~~l~d~tgSrllE~Imeva~~~~~~lf~~~f~~---rl~~La~~p~aNF~lQrli~h~~~~e~v~~v~ee 406 (650)
T KOG2188|consen 330 LWGKERSFLKELLSDQTGSRLLEVIMEVASESLLSLFYIVFCG---RLDELAVHPIANFPLQRLINHLTSLEDVGSVIEE 406 (650)
T ss_pred ccccccHHHHHHHhcCcccHHHHHHHHhcCHHHHHHHHHHHHH---HHHHHHhCccccchHHHHHHhccCHHHHHHHHHH
Confidence 3344444444323333332 5666777777777777777777666677777777
Q ss_pred HhhchhchhcCcCc--------------cH---HHHHHHh--cCChhhHHHHHHHHHH--hH------Hhhh--cCCchh
Q 037508 263 LRPGAVTLTKDTNG--------------HY---VIQYCVK--HFSHEDTKYLLNEVAD--NC------YGIA--TDKSGC 313 (449)
Q Consensus 263 l~~~~~~L~~d~~G--------------n~---ViQ~~L~--~~~~~~~~~i~~~l~~--~~------~~ls--~~k~GS 313 (449)
+.|++..|+...+- +| ++|.+++ +...+....|+..+.- .. +..+ .|..||
T Consensus 407 L~P~~~~LL~~g~~gVv~sLia~~~rl~s~q~~~l~~Li~a~~~~~~~~k~il~~lL~~~~~~g~~~~~~~t~~~h~~ga 486 (650)
T KOG2188|consen 407 LAPKLSSLLEQGNSGVVASLIAASARLGSYQDKMLQQLIQAFHAASESKKNILPCLLFSLTLFGCVGEWFLTEKFHQKGA 486 (650)
T ss_pred HhHHHHHHHHcCCchHhHHHHHHHHhhchhHHHHHHHHHHHHhcCChhhcchHHHHHHHhhhcccccccccHHHHhhchh
Confidence 77777666664331 11 2233332 1111111111111110 00 1111 244799
Q ss_pred HHHHHHHhhccH---HHHHHHHHHHHHhHHHHhcCCChhHHHHHHhcc--CchhHHHHHHHHHHhhhhhhcCCcchhHHH
Q 037508 314 CVLQHCVEYSKG---AQRERLVAEIIANALLLAEDCYGNYVVQHLLAL--RVPQITASLLRQLEGHYVSFSCNKYGSNVV 388 (449)
Q Consensus 314 ~Vvq~~L~~~~~---~~~~~il~~l~~~l~~L~~d~~Gn~VIQ~lL~~--~~~~~r~~li~~L~~~~~~Ls~~k~GS~Vv 388 (449)
.++|.++.+..+ ...+.+++...+++.+++++++|++||+++|.+ .++..+++|+..|.+++++|+.+.+||||+
T Consensus 487 ~lle~lv~f~k~~i~~litsll~L~~eqi~e~~~~~~~ShlIeavL~S~~l~~~~~~kLi~~l~g~~~~La~~~~GSrv~ 566 (650)
T KOG2188|consen 487 VLLEELVNFSKTHIQTLITSLLSLSEEQILEMSCNGVGSHLIEAVLASKDLGEKIKEKLINILDGSFVTLALSTFGSRVF 566 (650)
T ss_pred HHHHHHHhhchhhhHHHHHHHHhhhHHHHHHHhcCCchHHHHHHHHHhccccHHHHHHHHHHhhccchheeecCcccHHH
Confidence 999999999776 345666677778999999999999999999999 468899999999999999999999999999
Q ss_pred HHHHhhcCHHHHHHHHHHHhcCCChhhhccCcChhHHHHH
Q 037508 389 ERCLLESGEEQSTRIIIELLRSPNVSMLLMHPFGNYVIQS 428 (449)
Q Consensus 389 ek~l~~~~~~~r~~ii~ell~~~~l~~L~~d~yGnyVvq~ 428 (449)
||||++++...|.+|+++|+. .-.++..++||.||+.+
T Consensus 567 eK~wea~~~~~k~rIakeL~~--~~~~vk~s~~gk~v~~~ 604 (650)
T KOG2188|consen 567 EKCWEATDVLYKERIAKELVG--IHNDVKSSKYGKFVMLN 604 (650)
T ss_pred HHHHHHhhHHHHHHHHHHHHh--hccccccCcchHHHHHh
Confidence 999999999999999999998 55678999999999875
No 11
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=99.89 E-value=8.5e-22 Score=199.16 Aligned_cols=258 Identities=19% Similarity=0.262 Sum_probs=220.5
Q ss_pred CCchhhcccccc-------cHHHHHHHHHHHhcCccccHHHHHhhccCCHHHHHHHHHHHHHHHHHhhcCCCccHHHHHH
Q 037508 135 RNQWLQDSFDCS-------SLRDLRGNIVALAKDQYGCRHLQRTMSSLPKEEIEMIFVEVIDRVCELMIDPFGNYVVQKL 207 (449)
Q Consensus 135 ~~~~~q~~~~~~-------~l~~i~g~i~~La~d~~gsrvlQ~lLe~~~~e~~~~i~~ei~~~~~~L~~d~~Gn~VvQkl 207 (449)
.++++|..+.|+ +++++.+.+++||.+.||-+++|++|.+++++++..|++++.+|++.|++|..|+||+.-+
T Consensus 175 tSRViQt~Vky~s~~~r~~if~eL~p~~v~l~kskY~k~~v~KmLkyGsk~q~a~iI~sl~Ghv~kLlRH~eaa~Vve~a 254 (652)
T KOG2050|consen 175 TSRVIQTCVKYGSEAQREQIFEELLPFFVELAKSKYAKFFVQKMLKYGSKAQKAKIINSLRGHVVKLLRHREAAYVVEYA 254 (652)
T ss_pred hHHHHHHHHHhcCHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHhcCCHHHHHHHHHHHhhhHHHHHhhhHHHHHHHHH
Confidence 456888888887 6899999999999999999999999999999999999999999999999999999999998
Q ss_pred H-hcCCHHHHHHHHHHhhCCchhhHHHhcCCchhHHHHHHHHhcCchHHHHHHHHHHhhchhchhcCc-CccH----HHH
Q 037508 208 V-ELCSEEQRTRILLMLTNDDFQLVRICLNTHGIRAVLKLLENLTNPQQISLVLAALRPGAVTLTKDT-NGHY----VIQ 281 (449)
Q Consensus 208 l-e~~~~~~~~~i~~~l~~~~~~l~~L~~~~~G~~VvQklle~~~~~~~~~~I~~el~~~~~~L~~d~-~Gn~----ViQ 281 (449)
+ ++++.+||..|+.+++++..+++. + .--..|.++++.. +++...|+..+...+...+.-. -+.- ++.
T Consensus 255 y~~~A~l~Qr~~li~EfYG~efqlfK---~-sn~~Tl~kil~~~--pekk~~I~~~l~~~I~~v~eKg~v~~tivHk~ml 328 (652)
T KOG2050|consen 255 YNDFATLEQRQYLIQEFYGDEFQLFK---D-SNDKTLDKILAEA--PEKKASILRHLKAIITPVAEKGSVDHTIVHKLML 328 (652)
T ss_pred HHhhccHHHHHHHHHHHhhHHHHHHh---c-cCcccHHHHHHhC--hHhHHHHHHHHHHHhHHHhhcchhHHHHHHHHHH
Confidence 8 668999999999999997555554 3 2233466677664 5677888888877765555432 2222 334
Q ss_pred HHHhcCChhhHHHHHHHHHHhHHhhhcCCchhHHHHHHHhhccHHHHHHHHHHHHHhHHHHhcCCChhHHHHHHhccCch
Q 037508 282 YCVKHFSHEDTKYLLNEVADNCYGIATDKSGCCVLQHCVEYSKGAQRERLVAEIIANALLLAEDCYGNYVVQHLLALRVP 361 (449)
Q Consensus 282 ~~L~~~~~~~~~~i~~~l~~~~~~ls~~k~GS~Vvq~~L~~~~~~~~~~il~~l~~~l~~L~~d~~Gn~VIQ~lL~~~~~ 361 (449)
-.+..++++.+..+++.+...+.++...+-||+|.-+|+.+++++.|+.|+..+.+++..++.|+||+.|+-++|++.++
T Consensus 329 Ey~~~ade~e~~e~l~ll~elv~e~vHT~dGS~vAm~li~~a~aKeRK~IiK~~K~h~~K~A~~~yGh~vlia~ldc~DD 408 (652)
T KOG2050|consen 329 EYLTIADEEEKSELLELLKELVPEMVHTRDGSRVAMKLIWHATAKERKLIIKNMKEHVEKIANDEYGHLVLIALLDCTDD 408 (652)
T ss_pred HHHHhCCHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHhhccCceehhhhhcccch
Confidence 44557788888899999999999999999999999999999999999999999999999999999999999999999765
Q ss_pred h--HHHHHHHHHHhhhhhhcCCcchhHHHHHHHhhcCHH
Q 037508 362 Q--ITASLLRQLEGHYVSFSCNKYGSNVVERCLLESGEE 398 (449)
Q Consensus 362 ~--~r~~li~~L~~~~~~Ls~~k~GS~Vvek~l~~~~~~ 398 (449)
. ..+.|++.+.+++..|..++||.+|+.-++.-.+..
T Consensus 409 T~l~kk~i~~e~~~el~~li~Dk~Grrv~lyll~p~D~~ 447 (652)
T KOG2050|consen 409 TKLLKKLIYDELKSELKSLISDKYGRRVILYLLAPRDGR 447 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHhccchhhhhhhhhccCCccc
Confidence 4 677899999999999999999999999988764443
No 12
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis]
Probab=99.75 E-value=7.1e-17 Score=165.33 Aligned_cols=245 Identities=16% Similarity=0.233 Sum_probs=184.7
Q ss_pred HHHHHhcCccccHHHHHhhccCCHHHHHHHHHHHHHHHHHhhcCCCccHHHHHHHhcCC-HHHHHHHHHHhhCCchhhHH
Q 037508 154 NIVALAKDQYGCRHLQRTMSSLPKEEIEMIFVEVIDRVCELMIDPFGNYVVQKLVELCS-EEQRTRILLMLTNDDFQLVR 232 (449)
Q Consensus 154 ~i~~La~d~~gsrvlQ~lLe~~~~e~~~~i~~ei~~~~~~L~~d~~Gn~VvQklle~~~-~~~~~~i~~~l~~~~~~l~~ 232 (449)
...++-.|+.|||+++++++.++......++..+.+.+.+|+.|++||++||++|++.. .++...+++++.++...+.+
T Consensus 337 ~~k~~l~d~tgSrllE~Imeva~~~~~~lf~~~f~~rl~~La~~p~aNF~lQrli~h~~~~e~v~~v~eeL~P~~~~LL~ 416 (650)
T KOG2188|consen 337 FLKELLSDQTGSRLLEVIMEVASESLLSLFYIVFCGRLDELAVHPIANFPLQRLINHLTSLEDVGSVIEELAPKLSSLLE 416 (650)
T ss_pred HHHHHHhcCcccHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHhCccccchHHHHHHhccCHHHHHHHHHHHhHHHHHHHH
Confidence 44566679999999999999999999988888899999999999999999999999997 99999999999996444432
Q ss_pred HhcCCchhHHHHHHHHhcC-ch----HHHHHHHHHHhh----------------chhc------hh--cCcCccHHHHHH
Q 037508 233 ICLNTHGIRAVLKLLENLT-NP----QQISLVLAALRP----------------GAVT------LT--KDTNGHYVIQYC 283 (449)
Q Consensus 233 L~~~~~G~~VvQklle~~~-~~----~~~~~I~~el~~----------------~~~~------L~--~d~~Gn~ViQ~~ 283 (449)
+.+ +-|+-.++..+. .. ..++.+...... .... +. .++.|+.++|.+
T Consensus 417 ---~g~-~gVv~sLia~~~rl~s~q~~~l~~Li~a~~~~~~~~k~il~~lL~~~~~~g~~~~~~~t~~~h~~ga~lle~l 492 (650)
T KOG2188|consen 417 ---QGN-SGVVASLIAASARLGSYQDKMLQQLIQAFHAASESKKNILPCLLFSLTLFGCVGEWFLTEKFHQKGAVLLEEL 492 (650)
T ss_pred ---cCC-chHhHHHHHHHHhhchhHHHHHHHHHHHHhcCChhhcchHHHHHHHhhhcccccccccHHHHhhchhHHHHHH
Confidence 222 234444444331 00 001111111110 0011 11 144788889999
Q ss_pred HhcCChhhHHHHHHH----HHHhHHhhhcCCchhHHHHHHHhh--ccHHHHHHHHHHHHHhHHHHhcCCChhHHHHHHhc
Q 037508 284 VKHFSHEDTKYLLNE----VADNCYGIATDKSGCCVLQHCVEY--SKGAQRERLVAEIIANALLLAEDCYGNYVVQHLLA 357 (449)
Q Consensus 284 L~~~~~~~~~~i~~~----l~~~~~~ls~~k~GS~Vvq~~L~~--~~~~~~~~il~~l~~~l~~L~~d~~Gn~VIQ~lL~ 357 (449)
+.+. .......+.. ..+++.++|++.+||+||+.+|.. .++..+..++..+......|+.+.+|++|+.++++
T Consensus 493 v~f~-k~~i~~litsll~L~~eqi~e~~~~~~~ShlIeavL~S~~l~~~~~~kLi~~l~g~~~~La~~~~GSrv~eK~we 571 (650)
T KOG2188|consen 493 VNFS-KTHIQTLITSLLSLSEEQILEMSCNGVGSHLIEAVLASKDLGEKIKEKLINILDGSFVTLALSTFGSRVFEKCWE 571 (650)
T ss_pred Hhhc-hhhhHHHHHHHHhhhHHHHHHHhcCCchHHHHHHHHHhccccHHHHHHHHHHhhccchheeecCcccHHHHHHHH
Confidence 9864 3344444443 357899999999999999999987 77889999999999999999999999999999999
Q ss_pred cCchhHHHHHHHHHHhhhhhhcCCcchhHHHHHH----HhhcCHHHHHHH
Q 037508 358 LRVPQITASLLRQLEGHYVSFSCNKYGSNVVERC----LLESGEEQSTRI 403 (449)
Q Consensus 358 ~~~~~~r~~li~~L~~~~~~Ls~~k~GS~Vvek~----l~~~~~~~r~~i 403 (449)
.+++..|.+|.+.|.+--..+..++||..|.-++ +...++..+..+
T Consensus 572 a~~~~~k~rIakeL~~~~~~vk~s~~gk~v~~~~~l~ly~~~p~~W~~~~ 621 (650)
T KOG2188|consen 572 ATDVLYKERIAKELVGIHNDVKSSKYGKFVMLNWDLELYRRSPDDWKEKM 621 (650)
T ss_pred HhhHHHHHHHHHHHHhhccccccCcchHHHHHhccHHHHhcCHHHHHHHH
Confidence 9999999999999999999999999999997654 334444444433
No 13
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=99.74 E-value=3.4e-18 Score=178.31 Aligned_cols=252 Identities=24% Similarity=0.300 Sum_probs=214.0
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCccHHHHHHHhcCCHHHHHHHHHHhhCCchhhHHHhcCCchhHHHHHHHHhcCchHHHH
Q 037508 178 EEIEMIFVEVIDRVCELMIDPFGNYVVQKLVELCSEEQRTRILLMLTNDDFQLVRICLNTHGIRAVLKLLENLTNPQQIS 257 (449)
Q Consensus 178 e~~~~i~~ei~~~~~~L~~d~~Gn~VvQklle~~~~~~~~~i~~~l~~~~~~l~~L~~~~~G~~VvQklle~~~~~~~~~ 257 (449)
.+.+.+..++.+...++..|-.||-|+||++|.++...++.+...... ++..+..|++|+|+.|++++.+.++.+..
T Consensus 535 pEied~ai~mLDe~~elsSdylGNtVvqkfFe~sS~~ik~aml~r~s~---ylts~gvHknGtw~~qk~ik~a~te~qik 611 (1007)
T KOG4574|consen 535 PEIEDLAILMLDELPELSSDYLGNTVVQKFFELSSDIIKDAMLRRGSK---YLTSMGVHKNGTWACQKIIKMAFTERQIK 611 (1007)
T ss_pred hhHHHHHHHHhccCCcchhhhhcchhhHHHHhhccHHHHHHHHhhhhh---hhhhccccccchHHHHHHHHHhhchhhhh
Confidence 456667777888899999999999999999999998888877776665 68899999999999999999999999999
Q ss_pred HHHHHHhhchhchhcCcCccHHHHHHHhcCChhhHHHHHHHHHHhHHhhhcCCchhHHHHHHHhhcc--HHHHHHHHHHH
Q 037508 258 LVLAALRPGAVTLTKDTNGHYVIQYCVKHFSHEDTKYLLNEVADNCYGIATDKSGCCVLQHCVEYSK--GAQRERLVAEI 335 (449)
Q Consensus 258 ~I~~el~~~~~~L~~d~~Gn~ViQ~~L~~~~~~~~~~i~~~l~~~~~~ls~~k~GS~Vvq~~L~~~~--~~~~~~il~~l 335 (449)
.|+..+.+.+..++.|+|||||+|.+|+.+- ....+|++.+..+++.+.+.+||++-+.+|++.-+ .++....++.+
T Consensus 612 ~iv~g~dpyc~~l~~dqfgnyvaqd~LkF~f-p~nsFVfE~v~s~~~~ivQsrfGsravrAcle~lNa~~e~qsl~~~s~ 690 (1007)
T KOG4574|consen 612 LIVRGVDPYCTPLLNDQFGNYVAQDSLKFGF-PWNSFVFESVFSHFWDIVQSRFGSRAVRACLEALNANTEDQSLVRESC 690 (1007)
T ss_pred eeeeccCcchhhHHHHhhcceeeeeehhccC-ccchHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhccCchhhhhhhhhh
Confidence 9999999999999999999999999999653 35678899999999999999999999999998733 34443333333
Q ss_pred H-HhHHHHhcCCChhHHHHHHhccCchh-HHHHHHHHHHhhhhhhcCCcchhHHHHHHHhhcCHHH-HHHHHHHHhc---
Q 037508 336 I-ANALLLAEDCYGNYVVQHLLALRVPQ-ITASLLRQLEGHYVSFSCNKYGSNVVERCLLESGEEQ-STRIIIELLR--- 409 (449)
Q Consensus 336 ~-~~l~~L~~d~~Gn~VIQ~lL~~~~~~-~r~~li~~L~~~~~~Ls~~k~GS~Vvek~l~~~~~~~-r~~ii~ell~--- 409 (449)
. .....++++..|-..|.++|+.+... ....++..+.+++++||.|+-|+-++.|+++.+.+.+ |++|+..|+.
T Consensus 691 iIs~ss~latnsng~llvtw~lDns~~~nrh~~l~~~lt~el~~lC~h~Lgsttv~Kl~n~~qepvs~ekii~hlf~~~n 770 (1007)
T KOG4574|consen 691 IISKSSYLATNSNGLLLVTWLLDNSSLPNRHTILAHGLTKELVMLCFHKLGSTTVLKLLNLRQEPVSREKIIEHLFHLRN 770 (1007)
T ss_pred hhhchhhhhhcCccceeeeeecccccccchhhHHhhhhhhccchhhhhhccchhhhhhhhcCCChHHHHHHHHHHhhccc
Confidence 3 34678999999999999999997543 3445666788999999999999999999999888876 9999999983
Q ss_pred -------------------------CCChhhhccCcChhHHHHHHhhhc
Q 037508 410 -------------------------SPNVSMLLMHPFGNYVIQSALLVS 433 (449)
Q Consensus 410 -------------------------~~~l~~L~~d~yGnyVvq~lL~~~ 433 (449)
.|.++...+|++++||.|.++...
T Consensus 771 ~kd~~lt~Vl~~~~~gpmfiikvi~~p~iel~f~dQf~kvvrq~il~~~ 819 (1007)
T KOG4574|consen 771 FKDSALTEVLTEANYGPMFIIKVITKPTIELAFRDQFIKVVRQVILNSP 819 (1007)
T ss_pred cccchhhhhhhhhccccceeeeeeccccchHHHHHHHHHHHHHHHHhcC
Confidence 145677889999999999998754
No 14
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=99.53 E-value=2.8e-15 Score=156.80 Aligned_cols=291 Identities=20% Similarity=0.210 Sum_probs=171.2
Q ss_pred cCCchhhcccccc--c-----HHHHHHHHHHHhcCccccHHHHHhhccCC-HHHHHHHHHHHHHHHHHhhcCCCccHHHH
Q 037508 134 KRNQWLQDSFDCS--S-----LRDLRGNIVALAKDQYGCRHLQRTMSSLP-KEEIEMIFVEVIDRVCELMIDPFGNYVVQ 205 (449)
Q Consensus 134 ~~~~~~q~~~~~~--~-----l~~i~g~i~~La~d~~gsrvlQ~lLe~~~-~e~~~~i~~ei~~~~~~L~~d~~Gn~VvQ 205 (449)
.|+.++|++|+++ + ++.....+..+..+.+|.+.+|++++.+. +.+.+.|+.-..+....+..|+|||||+|
T Consensus 556 lGNtVvqkfFe~sS~~ik~aml~r~s~ylts~gvHknGtw~~qk~ik~a~te~qik~iv~g~dpyc~~l~~dqfgnyvaq 635 (1007)
T KOG4574|consen 556 LGNTVVQKFFELSSDIIKDAMLRRGSKYLTSMGVHKNGTWACQKIIKMAFTERQIKLIVRGVDPYCTPLLNDQFGNYVAQ 635 (1007)
T ss_pred hcchhhHHHHhhccHHHHHHHHhhhhhhhhhccccccchHHHHHHHHHhhchhhhheeeeccCcchhhHHHHhhcceeee
Confidence 3666666766665 1 23333455666666677777777777663 44566666666666667777777777777
Q ss_pred HHHhcCCHHHHHHHHHHhhCCchhhHHHhcCCchhHHHHHHHHhcCch-HHHHHHHH-HHhhchhchhcCcCccHHHHHH
Q 037508 206 KLVELCSEEQRTRILLMLTNDDFQLVRICLNTHGIRAVLKLLENLTNP-QQISLVLA-ALRPGAVTLTKDTNGHYVIQYC 283 (449)
Q Consensus 206 klle~~~~~~~~~i~~~l~~~~~~l~~L~~~~~G~~VvQklle~~~~~-~~~~~I~~-el~~~~~~L~~d~~Gn~ViQ~~ 283 (449)
.+|..+-+.. ..+++.++. ++.++.+.+||++.+.+|++..... ++-..+.+ .+......+..+..|-..|.++
T Consensus 636 d~LkF~fp~n-sFVfE~v~s---~~~~ivQsrfGsravrAcle~lNa~~e~qsl~~~s~iIs~ss~latnsng~llvtw~ 711 (1007)
T KOG4574|consen 636 DSLKFGFPWN-SFVFESVFS---HFWDIVQSRFGSRAVRACLEALNANTEDQSLVRESCIISKSSYLATNSNGLLLVTWL 711 (1007)
T ss_pred eehhccCccc-hHHHHHHHH---HHHHHHHHhhhhHHHHHHHHHhccCchhhhhhhhhhhhhchhhhhhcCccceeeeee
Confidence 7666654432 334455554 4666666667777777776654321 11111111 1222345566666666666666
Q ss_pred HhcCChhhHH-HHHHHHHHhHHhhhcCCchhHHHHHHHhhccHHH-HHHHHHHHHHh-----------------------
Q 037508 284 VKHFSHEDTK-YLLNEVADNCYGIATDKSGCCVLQHCVEYSKGAQ-RERLVAEIIAN----------------------- 338 (449)
Q Consensus 284 L~~~~~~~~~-~i~~~l~~~~~~ls~~k~GS~Vvq~~L~~~~~~~-~~~il~~l~~~----------------------- 338 (449)
++.+....+. ..+..+.+++..+|.|+-|+.+++|+++.+.+.. +..|++.+...
T Consensus 712 lDns~~~nrh~~l~~~lt~el~~lC~h~Lgsttv~Kl~n~~qepvs~ekii~hlf~~~n~kd~~lt~Vl~~~~~gpmfii 791 (1007)
T KOG4574|consen 712 LDNSSLPNRHTILAHGLTKELVMLCFHKLGSTTVLKLLNLRQEPVSREKIIEHLFHLRNFKDSALTEVLTEANYGPMFII 791 (1007)
T ss_pred cccccccchhhHHhhhhhhccchhhhhhccchhhhhhhhcCCChHHHHHHHHHHhhccccccchhhhhhhhhccccceee
Confidence 6644332332 2334456778888888888888888888876654 66776666521
Q ss_pred -------HHHHhcCCChhHHHHHHhccCchhHHHHHHHHHHhhhhhhcCCcchhHHHHHHHhhcCHHHHHHHHHHHhcCC
Q 037508 339 -------ALLLAEDCYGNYVVQHLLALRVPQITASLLRQLEGHYVSFSCNKYGSNVVERCLLESGEEQSTRIIIELLRSP 411 (449)
Q Consensus 339 -------l~~L~~d~~Gn~VIQ~lL~~~~~~~r~~li~~L~~~~~~Ls~~k~GS~Vvek~l~~~~~~~r~~ii~ell~~~ 411 (449)
+.....|+++.+|.|.++.......-+ +.+|...+.-.|..++|++.++.|++..+...-.+++...-...
T Consensus 792 kvi~~p~iel~f~dQf~kvvrq~il~~~a~~nar--v~~LleevgliSasksgs~s~q~~~sss~~~~~qrlls~~~~~S 869 (1007)
T KOG4574|consen 792 KVITKPTIELAFRDQFIKVVRQVILNSPAVSNAR--VQRLLEEVGLISASKSGSQSIQMHISSSKTPFAQRLLSAKRGLS 869 (1007)
T ss_pred eeeccccchHHHHHHHHHHHHHHHHhcCCccHHH--HHHHHHHHhhhccccchhHHHHhhhccCCcccccchhhhheeeE
Confidence 344566788888888888765433211 26666667778888888888888888666544444433111100
Q ss_pred ChhhhccCcChhHHHHHHh
Q 037508 412 NVSMLLMHPFGNYVIQSAL 430 (449)
Q Consensus 412 ~l~~L~~d~yGnyVvq~lL 430 (449)
.-..+..+.-|++++|+..
T Consensus 870 vss~~~gns~g~lt~q~~n 888 (1007)
T KOG4574|consen 870 VSSVLSGNSIGNLTIQKIN 888 (1007)
T ss_pred EEeeeccCcccceEEeecc
Confidence 1123444555555555443
No 15
>PF00806 PUF: Pumilio-family RNA binding repeat; InterPro: IPR001313 The drosophila pumilio gene codes for an unusual protein that binds through the Puf domain that usually occurs as a tandem repeat of eight domains. The FBF-2 protein of Caenorhabditis elegans also has a Puf domain. Both proteins function as translational repressors in early embryonic development by binding sequences in the 3' UTR of target mRNAs [, ]. The same type of repetitive domain has been found in in a number of other proteins from all eukaryotic kingdoms. The Puf proteins characterised to date have been reported to bind to 3'-untranslated region (UTR) sequences encompassing a so-called UGUR tetranucleotide motif and thereby to repress gene expression by affecting mRNA translation or stability. In Saccharomyces cerevisiae (Baker's yeast), five proteins, termed Puf1p to Puf5p, bear six to eight Puf repeats []. Puf3p binds nearly exclusively to cytoplasmic mRNAs that encode mitochondrial proteins; Puf1p and Puf2p interact preferentially with mRNAs encoding membrane-associated proteins; Puf4p preferentially binds mRNAs encoding nucleolar ribosomal RNA-processing factors; and Puf5p is associated with mRNAs encoding chromatin modifiers and components of the spindle pole body. This suggests the existence of an extensive network of RNA-protein interactions that coordinate the post-transcriptional fate of large sets of cytotopically and functionally related RNAs through each stage of its lifecycle.; GO: 0003723 RNA binding; PDB: 3BX2_A 4DZS_B 3BX3_B 3BWT_A 3GVT_B 3GVO_A 1IB2_A 3Q0N_A 2YJY_A 1M8Z_A ....
Probab=98.41 E-value=1.5e-07 Score=61.88 Aligned_cols=34 Identities=50% Similarity=0.675 Sum_probs=26.2
Q ss_pred HHHHHHHhhcCCCccHHHHHHHhcCCHHHHHHHH
Q 037508 187 VIDRVCELMIDPFGNYVVQKLVELCSEEQRTRIL 220 (449)
Q Consensus 187 i~~~~~~L~~d~~Gn~VvQklle~~~~~~~~~i~ 220 (449)
+.+++.+|+.|+||||||||+++.++++++..|+
T Consensus 2 i~~~~~~l~~d~~Gn~VvQk~le~~~~~~~~~il 35 (35)
T PF00806_consen 2 IKGNLVELSKDQYGNYVVQKCLEHASPEQRQLIL 35 (35)
T ss_dssp HTTTHHHHHTSTTHHHHHHHHHHHSSHHHHHHHH
T ss_pred hHHHHHHHHhccccCHHHHHHHHHCCHHHHHhhC
Confidence 5577788888888888888888888877776653
No 16
>smart00025 Pumilio Pumilio-like repeats. Pumilio-like repeats that bind RNA.
Probab=98.01 E-value=4.7e-06 Score=54.53 Aligned_cols=34 Identities=47% Similarity=0.653 Sum_probs=22.7
Q ss_pred HHHHHHHhhcCCCccHHHHHHHhcCCHHHHHHHH
Q 037508 187 VIDRVCELMIDPFGNYVVQKLVELCSEEQRTRIL 220 (449)
Q Consensus 187 i~~~~~~L~~d~~Gn~VvQklle~~~~~~~~~i~ 220 (449)
+.+++.+||.|+|||||+|++++.++++++..|+
T Consensus 2 ~~~~~~~l~~~~~g~~viqk~l~~~~~~~~~~i~ 35 (36)
T smart00025 2 IKGHLLELSKDQYGNRVVQKLLEHASESQREQII 35 (36)
T ss_pred chHHHHHHHhcchhhHHHHHHHHHCCHHHHHHhh
Confidence 3466777777777777777777777766655543
No 17
>PF00806 PUF: Pumilio-family RNA binding repeat; InterPro: IPR001313 The drosophila pumilio gene codes for an unusual protein that binds through the Puf domain that usually occurs as a tandem repeat of eight domains. The FBF-2 protein of Caenorhabditis elegans also has a Puf domain. Both proteins function as translational repressors in early embryonic development by binding sequences in the 3' UTR of target mRNAs [, ]. The same type of repetitive domain has been found in in a number of other proteins from all eukaryotic kingdoms. The Puf proteins characterised to date have been reported to bind to 3'-untranslated region (UTR) sequences encompassing a so-called UGUR tetranucleotide motif and thereby to repress gene expression by affecting mRNA translation or stability. In Saccharomyces cerevisiae (Baker's yeast), five proteins, termed Puf1p to Puf5p, bear six to eight Puf repeats []. Puf3p binds nearly exclusively to cytoplasmic mRNAs that encode mitochondrial proteins; Puf1p and Puf2p interact preferentially with mRNAs encoding membrane-associated proteins; Puf4p preferentially binds mRNAs encoding nucleolar ribosomal RNA-processing factors; and Puf5p is associated with mRNAs encoding chromatin modifiers and components of the spindle pole body. This suggests the existence of an extensive network of RNA-protein interactions that coordinate the post-transcriptional fate of large sets of cytotopically and functionally related RNAs through each stage of its lifecycle.; GO: 0003723 RNA binding; PDB: 3BX2_A 4DZS_B 3BX3_B 3BWT_A 3GVT_B 3GVO_A 1IB2_A 3Q0N_A 2YJY_A 1M8Z_A ....
Probab=97.96 E-value=8.9e-06 Score=53.36 Aligned_cols=30 Identities=40% Similarity=0.564 Sum_probs=14.5
Q ss_pred HhHHHHhcCCChhHHHHHHhccCchhHHHH
Q 037508 337 ANALLLAEDCYGNYVVQHLLALRVPQITAS 366 (449)
Q Consensus 337 ~~l~~L~~d~~Gn~VIQ~lL~~~~~~~r~~ 366 (449)
+++..|++|+|||||||++|+.++++.++.
T Consensus 4 ~~~~~l~~d~~Gn~VvQk~le~~~~~~~~~ 33 (35)
T PF00806_consen 4 GNLVELSKDQYGNYVVQKCLEHASPEQRQL 33 (35)
T ss_dssp TTHHHHHTSTTHHHHHHHHHHHSSHHHHHH
T ss_pred HHHHHHHhccccCHHHHHHHHHCCHHHHHh
Confidence 344445555555555555555444444433
No 18
>smart00025 Pumilio Pumilio-like repeats. Pumilio-like repeats that bind RNA.
Probab=97.80 E-value=1.6e-05 Score=51.96 Aligned_cols=34 Identities=32% Similarity=0.639 Sum_probs=31.3
Q ss_pred HHHHHHHHhcCccccHHHHHhhccCCHHHHHHHH
Q 037508 151 LRGNIVALAKDQYGCRHLQRTMSSLPKEEIEMIF 184 (449)
Q Consensus 151 i~g~i~~La~d~~gsrvlQ~lLe~~~~e~~~~i~ 184 (449)
+.+++.+||.|++||+|+|++|+.++.+++..++
T Consensus 2 ~~~~~~~l~~~~~g~~viqk~l~~~~~~~~~~i~ 35 (36)
T smart00025 2 IKGHLLELSKDQYGNRVVQKLLEHASESQREQII 35 (36)
T ss_pred chHHHHHHHhcchhhHHHHHHHHHCCHHHHHHhh
Confidence 4789999999999999999999999999888775
No 19
>PF08144 CPL: CPL (NUC119) domain; InterPro: IPR012959 This C-terminal domain is found in Penguin-like proteins (CPL) and is associated with Pumilio like repeats [].; GO: 0003723 RNA binding
Probab=90.57 E-value=1.4 Score=38.79 Aligned_cols=31 Identities=23% Similarity=0.284 Sum_probs=21.2
Q ss_pred HHHHHHHhHHHHhcCCChhHHHHHHhccCch
Q 037508 331 LVAEIIANALLLAEDCYGNYVVQHLLALRVP 361 (449)
Q Consensus 331 il~~l~~~l~~L~~d~~Gn~VIQ~lL~~~~~ 361 (449)
|++.+.++...|+.+..|+.||..+|..+..
T Consensus 58 Ll~~i~~~~~~ll~~~~g~~~i~eiL~~~~g 88 (148)
T PF08144_consen 58 LLEAIAENAEELLSSSFGCQFITEILLSATG 88 (148)
T ss_pred HHHHHHHhHHHHHhcCcccHHHHHHHhccCc
Confidence 4444455667788888888888877777543
No 20
>PF08144 CPL: CPL (NUC119) domain; InterPro: IPR012959 This C-terminal domain is found in Penguin-like proteins (CPL) and is associated with Pumilio like repeats [].; GO: 0003723 RNA binding
Probab=90.33 E-value=0.66 Score=40.91 Aligned_cols=64 Identities=19% Similarity=0.331 Sum_probs=38.8
Q ss_pred HHHHHHHhHHhhhcCCchhHHHHHHHhhccHHH---HHHHHHHHHHh--------HHHHhcCCChhHHHHHHhcc
Q 037508 295 LLNEVADNCYGIATDKSGCCVLQHCVEYSKGAQ---RERLVAEIIAN--------ALLLAEDCYGNYVVQHLLAL 358 (449)
Q Consensus 295 i~~~l~~~~~~ls~~k~GS~Vvq~~L~~~~~~~---~~~il~~l~~~--------l~~L~~d~~Gn~VIQ~lL~~ 358 (449)
+++.+..+..++..++.||.+|..+|..+..+. ...|++.+... -..++.+|+|.+++-+++..
T Consensus 58 Ll~~i~~~~~~ll~~~~g~~~i~eiL~~~~gdk~~a~~Aia~~~~~~~~~~~~~~e~H~i~~p~~~r~lK~Liq~ 132 (148)
T PF08144_consen 58 LLEAIAENAEELLSSSFGCQFITEILLSATGDKSAALEAIASLAAEPLFPGDIDEEYHLIEHPFGHRMLKKLIQG 132 (148)
T ss_pred HHHHHHHhHHHHHhcCcccHHHHHHHhccCccHHHHHHHHHHHHhhccCCCCCcCccchhcCchHHHHHHHHHHC
Confidence 455556677788888899999998888765432 22333332222 13455666666666666654
No 21
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=89.22 E-value=26 Score=35.24 Aligned_cols=226 Identities=15% Similarity=0.162 Sum_probs=109.8
Q ss_pred cCCHHHHHHHHHHHHHHHHHhhc-CCCccHHHHHHHhc-CCHHHHHHHHHHhhCCch--hhHHHhcCCchhHHHHHHHHh
Q 037508 174 SLPKEEIEMIFVEVIDRVCELMI-DPFGNYVVQKLVEL-CSEEQRTRILLMLTNDDF--QLVRICLNTHGIRAVLKLLEN 249 (449)
Q Consensus 174 ~~~~e~~~~i~~ei~~~~~~L~~-d~~Gn~VvQklle~-~~~~~~~~i~~~l~~~~~--~l~~L~~~~~G~~VvQklle~ 249 (449)
..+++..+.+++++...+..-.. ..-|.-.+.+++.. .+++.-+.|++.+.+..+ .|-.|. .-....++.++..
T Consensus 54 ~vs~~~~~~vL~ef~~~~~~~~~~~~gg~~~~~~iL~~~l~~~~a~~il~~i~~~~~~~~fe~L~--~ld~~~l~~lL~~ 131 (339)
T PRK05686 54 NVSPEQVEAVLEEFEDEFEAGAYILMGGIDYARSLLEKALGEEKADSILERILESLGTSGFDFLR--KMDPQQLANFIRN 131 (339)
T ss_pred CCCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHcCHHHHHHHHHHHhccccCchHHHHh--cCCHHHHHHHHHh
Confidence 44677777777777776665432 33444558888875 777777888888876422 122211 2233445555554
Q ss_pred cCchHHHHHHHHHHhhchhc----hhcCcCccHHHHHHHhc--CChhhHHHHHHHHHHhHHhhh----cCCchhHHHHHH
Q 037508 250 LTNPQQISLVLAALRPGAVT----LTKDTNGHYVIQYCVKH--FSHEDTKYLLNEVADNCYGIA----TDKSGCCVLQHC 319 (449)
Q Consensus 250 ~~~~~~~~~I~~el~~~~~~----L~~d~~Gn~ViQ~~L~~--~~~~~~~~i~~~l~~~~~~ls----~~k~GS~Vvq~~ 319 (449)
. .++....++..+.+.... .+-.....-|+.++... .+++..+.|-+.+...+..+. ...-|...+-.+
T Consensus 132 E-hpqtiA~iLs~l~~~~aa~vL~~l~~~~~~~v~~ria~l~~v~~~~~~~i~~~L~~~l~~~~~~~~~~~~g~~~~a~I 210 (339)
T PRK05686 132 E-HPQTIALILSYLKPDQAAEILSLLPEELRADVMMRIATLEGVSPEALKEVEEVLEKKLSSMANADRTKMGGVKTVAEI 210 (339)
T ss_pred c-CHHHHHHHHhCCCHHHHHHHHHhCCHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHhhcccccccccCcHHHHHHH
Confidence 3 122333333333322211 11111222233333332 123333333333344443321 234577777788
Q ss_pred HhhccHHHHHHHHHHHHHhHHHHhcCCChhHHHHHHhcc-----CchhHHHHHHHHHHhhhhhhcCCcchhHHHHHHHhh
Q 037508 320 VEYSKGAQRERLVAEIIANALLLAEDCYGNYVVQHLLAL-----RVPQITASLLRQLEGHYVSFSCNKYGSNVVERCLLE 394 (449)
Q Consensus 320 L~~~~~~~~~~il~~l~~~l~~L~~d~~Gn~VIQ~lL~~-----~~~~~r~~li~~L~~~~~~Ls~~k~GS~Vvek~l~~ 394 (449)
|...+......+++.|...=..++ .-|-..++.. -++.....+++.+......+|..--..-+.++++..
T Consensus 211 ln~~~~~~~~~il~~L~~~d~~~a-----~~Ir~~mF~Fedl~~l~~~~l~~ll~~v~~~~L~~ALkga~~~~~~~il~n 285 (339)
T PRK05686 211 LNNLDRQTEKTILESLEEEDPELA-----EKIKDLMFVFEDLVDLDDRSIQRLLREVDNDVLALALKGASEELREKFLSN 285 (339)
T ss_pred HhcCCchHHHHHHHHHHhhCHHHH-----HHHHHHhcCHHHHhcCCHHHHHHHHHhCCHHHHHHHHCCCCHHHHHHHHHh
Confidence 888777777777777664211111 2222333322 133444555555544444444444445566666665
Q ss_pred cCHHHHHHHHHHH
Q 037508 395 SGEEQSTRIIIEL 407 (449)
Q Consensus 395 ~~~~~r~~ii~el 407 (449)
-+...+..+-.++
T Consensus 286 mS~R~a~~l~eel 298 (339)
T PRK05686 286 MSKRAAEMLREDL 298 (339)
T ss_pred cCHHHHHHHHHHH
Confidence 5555444444444
No 22
>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=74.44 E-value=48 Score=36.48 Aligned_cols=24 Identities=25% Similarity=0.448 Sum_probs=20.7
Q ss_pred HHHHHHHhhcCCCccHHHHHHHhc
Q 037508 187 VIDRVCELMIDPFGNYVVQKLVEL 210 (449)
Q Consensus 187 i~~~~~~L~~d~~Gn~VvQklle~ 210 (449)
+.|.|.+|+++.--||++-|+|+.
T Consensus 219 LAP~ffkllttSsNNWmLIKiiKL 242 (877)
T KOG1059|consen 219 LAPLFYKLLVTSSNNWVLIKLLKL 242 (877)
T ss_pred ccHHHHHHHhccCCCeehHHHHHH
Confidence 346799999999999999999974
No 23
>TIGR00207 fliG flagellar motor switch protein FliG. The fliG protein along with fliM and fliN interact to form the switch complex of the bacterial flagellar motor located at the base of the basal body. This complex interacts with chemotaxis proteins (eg CHEY). In addition the complex interacts with other components of the motor that determine the direction of flagellar rotation. The model contains putative members of the fliG family at scores of less than 100 from Agrobacterium radiobacter and Sinorhizobium meliloti as well as fliG-like genes from treponema pallidum and Borrelia burgdorferi. That is why the suggested cutoff is set at 20 but was set at 100 to construct the family.
Probab=70.08 E-value=1.3e+02 Score=30.37 Aligned_cols=162 Identities=14% Similarity=0.144 Sum_probs=84.5
Q ss_pred ccCCHHHHHHHHHHHHHHHHHhhcCC-CccHHHHHHHhcC-CHHHHHHHHHHhhCCc-h--hhHHHhcCCchhHHHHHHH
Q 037508 173 SSLPKEEIEMIFVEVIDRVCELMIDP-FGNYVVQKLVELC-SEEQRTRILLMLTNDD-F--QLVRICLNTHGIRAVLKLL 247 (449)
Q Consensus 173 e~~~~e~~~~i~~ei~~~~~~L~~d~-~Gn~VvQklle~~-~~~~~~~i~~~l~~~~-~--~l~~L~~~~~G~~VvQkll 247 (449)
...+.++.+.+++++...+..-..-. -|.-.++++++.+ +++.-+.|++.+.+.. . .|-.|. .-...++-.++
T Consensus 50 ~~v~~~~~~~vl~eF~~~~~~~~~~~~g~~~~~~~~L~~alg~~~a~~il~~i~~~~~~~~~~~~L~--~~~~~~la~~l 127 (338)
T TIGR00207 50 TQIDNQQKDDVLEEFEQIAEAQAYINIGGLDYAREVLEKALGEEKAASILNDLTSSLQTAPGFEFLR--KAEPQQIADFI 127 (338)
T ss_pred CCCCHHHHHHHHHHHHHHHHhcCCccCChHHHHHHHHHHhcCHHHHHHHHHHHhcccccCchhHHHH--CCCHHHHHHHH
Confidence 45578888888888887776654333 3344567777554 6666677878776641 1 122221 22334444555
Q ss_pred HhcCchHHHHHHHHHHhhchh----chhcCcCccHHHHHHHh--cCChhhHHHHHHHHHHhHHhhh---cCCchhHHHHH
Q 037508 248 ENLTNPQQISLVLAALRPGAV----TLTKDTNGHYVIQYCVK--HFSHEDTKYLLNEVADNCYGIA---TDKSGCCVLQH 318 (449)
Q Consensus 248 e~~~~~~~~~~I~~el~~~~~----~L~~d~~Gn~ViQ~~L~--~~~~~~~~~i~~~l~~~~~~ls---~~k~GS~Vvq~ 318 (449)
.. ..++....|+..+.+... ..+-+..-.-|+.++.. ..+++..+.|-+.+...+..+. ...-|...+-.
T Consensus 128 ~~-EhPQ~iAliLs~L~p~~AA~VL~~Lp~~~~~ei~~ria~l~~vs~~~i~~ie~~L~~~~~~~~~~~~~~gG~~~~a~ 206 (338)
T TIGR00207 128 QQ-EHPQTIALILSHLDPAQAADILSLFPEEVQAEVARRIATMGRTSPEVVAEVERVLEGKLDSLNSDYTKMGGVRAVAE 206 (338)
T ss_pred Hc-cCHHHHHHHHHcCCHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhhccccccCChHHHHHH
Confidence 44 123334444444443321 11111222233334433 2234444443333333333332 23357788888
Q ss_pred HHhhccHHHHHHHHHHHHH
Q 037508 319 CVEYSKGAQRERLVAEIIA 337 (449)
Q Consensus 319 ~L~~~~~~~~~~il~~l~~ 337 (449)
+|...+....+.+++.+..
T Consensus 207 ILN~~~~~~~~~il~~L~~ 225 (338)
T TIGR00207 207 IINLMDRKTEKTIITSLEE 225 (338)
T ss_pred HHHhCCchHHHHHHHHHHH
Confidence 8888777777777777764
No 24
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=63.57 E-value=1.7e+02 Score=29.43 Aligned_cols=83 Identities=13% Similarity=0.186 Sum_probs=49.9
Q ss_pred CcCccHHHHHHHhcCChhhHHHHHHHHHHhHHhhhcCCchhHHHHHHHhhcc-----HHHHHHHHHHHHHhHHHHhcCCC
Q 037508 273 DTNGHYVIQYCVKHFSHEDTKYLLNEVADNCYGIATDKSGCCVLQHCVEYSK-----GAQRERLVAEIIANALLLAEDCY 347 (449)
Q Consensus 273 d~~Gn~ViQ~~L~~~~~~~~~~i~~~l~~~~~~ls~~k~GS~Vvq~~L~~~~-----~~~~~~il~~l~~~l~~L~~d~~ 347 (449)
...|...+-.+|...+....+.+++.+...-.+++ -.|-++++.+.. +.....++.+ .
T Consensus 200 ~~~g~~~~a~Iln~~~~~~~~~il~~L~~~d~~~a-----~~Ir~~mF~Fedl~~l~~~~l~~ll~~------------v 262 (339)
T PRK05686 200 KMGGVKTVAEILNNLDRQTEKTILESLEEEDPELA-----EKIKDLMFVFEDLVDLDDRSIQRLLRE------------V 262 (339)
T ss_pred ccCcHHHHHHHHhcCCchHHHHHHHHHHhhCHHHH-----HHHHHHhcCHHHHhcCCHHHHHHHHHh------------C
Confidence 34566778888888888887788877765444433 345555555421 2223333333 3
Q ss_pred hhHHHHHHhccCchhHHHHHHHHHH
Q 037508 348 GNYVVQHLLALRVPQITASLLRQLE 372 (449)
Q Consensus 348 Gn~VIQ~lL~~~~~~~r~~li~~L~ 372 (449)
.+-++-.+|.-.++..+++++..+.
T Consensus 263 ~~~~L~~ALkga~~~~~~~il~nmS 287 (339)
T PRK05686 263 DNDVLALALKGASEELREKFLSNMS 287 (339)
T ss_pred CHHHHHHHHCCCCHHHHHHHHHhcC
Confidence 4555666666666777777777664
No 25
>PF12231 Rif1_N: Rap1-interacting factor 1 N terminal; InterPro: IPR022031 This domain family is found in eukaryotes, and is typically between 135 and 146 amino acids in length. Rif1 is a protein which interacts with Rap1 to regulate telomere length. Interaction with telomeres limits their length. The N-terminal region contains many HEAT- and ARMADILLO- type repeats. These are helical folds which form extended curved proteins or RNA interface surfaces.
Probab=58.04 E-value=2.2e+02 Score=28.97 Aligned_cols=42 Identities=12% Similarity=0.335 Sum_probs=27.4
Q ss_pred CccccHHHHHhhccCCHHHHHHHHHHHH--HHHHHhhcCCCccHHHHHHHhcC
Q 037508 161 DQYGCRHLQRTMSSLPKEEIEMIFVEVI--DRVCELMIDPFGNYVVQKLVELC 211 (449)
Q Consensus 161 d~~gsrvlQ~lLe~~~~e~~~~i~~ei~--~~~~~L~~d~~Gn~VvQklle~~ 211 (449)
|+..++++..+|+. +..+. +.+.+...+.++.+++..+++..
T Consensus 56 ~p~~~~L~~qALkl---------l~~~l~~~~i~~~l~~d~~~~~i~~~i~~l 99 (372)
T PF12231_consen 56 DPFDSRLVIQALKL---------LGFFLYHPEIVSTLSDDFASFIIDHSIESL 99 (372)
T ss_pred CCcchHHHHHHHHH---------HHHHHccHHHHhhCChHHHHHHHHHHHHHH
Confidence 34567777666653 34444 66777777777777777777654
No 26
>PF09770 PAT1: Topoisomerase II-associated protein PAT1; InterPro: IPR019167 Proteins in this entry are necessary for accurate chromosome transmission during cell division []. ; PDB: 2XER_C 2XES_B 2XEQ_D.
Probab=50.61 E-value=32 Score=38.94 Aligned_cols=97 Identities=19% Similarity=0.248 Sum_probs=65.1
Q ss_pred HHHHHhcCccccHHHHHhhccCCHHHHHHHHHHHHHHHH-----------------Hhh----cCCCccHHHHHHHhcCC
Q 037508 154 NIVALAKDQYGCRHLQRTMSSLPKEEIEMIFVEVIDRVC-----------------ELM----IDPFGNYVVQKLVELCS 212 (449)
Q Consensus 154 ~i~~La~d~~gsrvlQ~lLe~~~~e~~~~i~~ei~~~~~-----------------~L~----~d~~Gn~VvQklle~~~ 212 (449)
.++.+.+-.-|-++|-+++.+.+.+++..|+..|.-++- .+. .+.|-..|+.-+..+..
T Consensus 576 ~fi~~ls~~KGkkll~R~~~~l~~~q~~~il~~i~~~l~~l~vv~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~l~~~i~ 655 (808)
T PF09770_consen 576 PFISILSVRKGKKLLPRIFPFLSQEQRLTILTMIFRHLDQLDVVRRASYTDGEDQPLLIKRDDIELFLQAVMPPLMNVIN 655 (808)
T ss_dssp HHHHHTTSHHHHHHHHHHGGGS-HHHHHHHHHHHHHTH-----------------HHHHHTTTTT--GGGGHHHS-HHHH
T ss_pred cceEEEeeCChheeHHhhhhhCChhHHHHHHHHHHHHhhhhcccccccccccccCccccchHhHHHHHHHHHHHHHHHHH
Confidence 567777788899999999999999999999999998883 222 34556666666555555
Q ss_pred HHHHHHHHHHhhC--CchhhHHHhcCCchhHHHHHHHHhc
Q 037508 213 EEQRTRILLMLTN--DDFQLVRICLNTHGIRAVLKLLENL 250 (449)
Q Consensus 213 ~~~~~~i~~~l~~--~~~~l~~L~~~~~G~~VvQklle~~ 250 (449)
......|+..+.- +..++.-+++++.|.-+|-.+|.++
T Consensus 656 ~~~~~~i~gll~~~~~~~~~~~i~~tk~Gls~lt~llsRa 695 (808)
T PF09770_consen 656 EAPFNEIIGLLGLLINNNNVSFIAQTKFGLSLLTMLLSRA 695 (808)
T ss_dssp HHHHHHHTTSTTT-S--HHHHHHHTSHHHHHHHHHHHHHH
T ss_pred hCCHHHHHHHHHHHHhCCCceEEEEChHHHHHHHHHHHHH
Confidence 4444433322211 2335677889999999998888875
No 27
>COG1536 FliG Flagellar motor switch protein [Cell motility and secretion]
Probab=50.48 E-value=2.8e+02 Score=27.96 Aligned_cols=162 Identities=17% Similarity=0.218 Sum_probs=74.4
Q ss_pred hccCCHHHHHHHHHHHHHHHHHhh-cCCCccHHHHHHHhcCCHHHH-HHHHHHhhCCchh--hHHHhcCCchhHHHHHHH
Q 037508 172 MSSLPKEEIEMIFVEVIDRVCELM-IDPFGNYVVQKLVELCSEEQR-TRILLMLTNDDFQ--LVRICLNTHGIRAVLKLL 247 (449)
Q Consensus 172 Le~~~~e~~~~i~~ei~~~~~~L~-~d~~Gn~VvQklle~~~~~~~-~~i~~~l~~~~~~--l~~L~~~~~G~~VvQkll 247 (449)
++..+.+++..++.++...+.+-. ...-|.--.+.+++.+-++.+ ..+++.+.+.... ..++.....-.. +-.+|
T Consensus 51 lk~v~~~~~~~il~eF~~~~~~~~~i~~~~~~~~~~lL~kalg~~~a~~i~~~i~~~~~~~~~~~~l~~~~p~~-l~~~i 129 (339)
T COG1536 51 LKTVSPEEKEQVLEEFEELFTEQAGINKGADEYARELLEKALGEEKAESLLERITGSAIQTSPFDLLRKLDPSQ-LADLI 129 (339)
T ss_pred ccCCCHHHHHHHHHHHHHHHHhccccccChHHHHHHHHHHhCcHhHHHHHHHHhhhccccccHHHHhhhCCHHH-HHHHH
Confidence 445678888888888887766654 334444456667766644433 4566666552110 111111111111 22222
Q ss_pred HhcCchHHHHHHHHHHhhc----hhchhcCcCccHHHHHHHh--cCChhhHHHHHHHHHHhHHhhhc----CCchhHHHH
Q 037508 248 ENLTNPQQISLVLAALRPG----AVTLTKDTNGHYVIQYCVK--HFSHEDTKYLLNEVADNCYGIAT----DKSGCCVLQ 317 (449)
Q Consensus 248 e~~~~~~~~~~I~~el~~~----~~~L~~d~~Gn~ViQ~~L~--~~~~~~~~~i~~~l~~~~~~ls~----~k~GS~Vvq 317 (449)
.. ..++....|+..+.+. +.....+..-+-|+.++.. ..++...+.+-..+..++..+.. ..-|...+-
T Consensus 130 ~~-EhPQtia~iLs~L~~~~aa~vL~~l~~e~r~~v~~Ria~l~~v~p~al~~i~~~l~~~l~~~~~~~~~~~gg~~~~a 208 (339)
T COG1536 130 KN-EHPQTIALILSYLPPDQAAEILSTLPEELRADVVKRIATLEGVSPEALAELENVLEKKLQSLVNEDYSKLGGIKAAA 208 (339)
T ss_pred Hc-cccHHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHhhccccccccccHhHHH
Confidence 21 1122233333333332 1222223333334444433 23444455555555555554422 223566666
Q ss_pred HHHhhccHHHHHHHHHHH
Q 037508 318 HCVEYSKGAQRERLVAEI 335 (449)
Q Consensus 318 ~~L~~~~~~~~~~il~~l 335 (449)
.++...+......+++.+
T Consensus 209 eIlN~~d~~~e~~il~~l 226 (339)
T COG1536 209 EILNLLDRGTEKTILESL 226 (339)
T ss_pred HHHHhcchhHHHHHHHHH
Confidence 676665544444444443
No 28
>cd03567 VHS_GGA VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins. The VHS domain has a superhelical structure similar to the structure of the ARM (Armadillo) repeats and is present at the N-termini of proteins. GGA proteins have a multidomain structure consisting of an N-terminal VHS domain linked by a short proline-rich linker to a GAT (GGA and TOM) domain, which is followed by a long flexible linker to the C-terminal appendage, GAE (gamma-adaptin ear) domain. The VHS domain of GGA proteins binds to the acidic-cluster dileucine (DxxLL) motif found on the cytoplasmic tails of cargo proteins trafficked between the trans-Golgi network and the endosomal system.
Probab=44.41 E-value=1.6e+02 Score=25.51 Aligned_cols=58 Identities=12% Similarity=0.259 Sum_probs=36.5
Q ss_pred HHHHHHHhhccHHHHHHHHH-HHHHhHHHHhcCCC-hhHHHHHHhccCchhHHHHHHHHHHhhhhhhc
Q 037508 314 CVLQHCVEYSKGAQRERLVA-EIIANALLLAEDCY-GNYVVQHLLALRVPQITASLLRQLEGHYVSFS 379 (449)
Q Consensus 314 ~Vvq~~L~~~~~~~~~~il~-~l~~~l~~L~~d~~-Gn~VIQ~lL~~~~~~~r~~li~~L~~~~~~Ls 379 (449)
.+++.|.+.|+......+.+ +....+..|+...| |. ..++..+++++..+...-..+.
T Consensus 60 ~LLe~~vkNCG~~fh~evas~~Fl~el~kl~~~k~~~~--------~~~~~Vk~kil~li~~W~~~f~ 119 (139)
T cd03567 60 TVLEACMKNCGERFHSEVGKFRFLNELIKLVSPKYLGS--------RTSEKVKTKIIELLYSWTLELP 119 (139)
T ss_pred HHHHHHHHHcCHHHHHHHHhHHHHHHHHHHhccccCCC--------CCCHHHHHHHHHHHHHHHHHhc
Confidence 47788888888877766663 56666777775433 11 1245667777777765555443
No 29
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=40.10 E-value=1.3e+02 Score=25.73 Aligned_cols=37 Identities=16% Similarity=0.229 Sum_probs=25.9
Q ss_pred HHHHHHHhhccHHHHHHHHH-HHHHhHHHHhcCCChhH
Q 037508 314 CVLQHCVEYSKGAQRERLVA-EIIANALLLAEDCYGNY 350 (449)
Q Consensus 314 ~Vvq~~L~~~~~~~~~~il~-~l~~~l~~L~~d~~Gn~ 350 (449)
.+++.|++.|+......+.+ .+.+.+..++.+++...
T Consensus 59 ~lLe~~vkNcg~~f~~ev~s~~fl~~L~~l~~~~~~~~ 96 (133)
T smart00288 59 TLLDACVKNCGSKFHLEVASKEFLNELVKLIKPKYPLP 96 (133)
T ss_pred HHHHHHHHHCCHHHHHHHHhHHHHHHHHHHHcCCCCcH
Confidence 47788888888776666654 46667777777776544
No 30
>COG4399 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.95 E-value=4.4e+02 Score=26.64 Aligned_cols=66 Identities=21% Similarity=0.353 Sum_probs=29.4
Q ss_pred HHHhcCCChhHHHHHHhccCchhHHHHHHHHHHhhhhhhcCCcchhHHHHHHHhhcCHHHHHHHHHHHhc
Q 037508 340 LLLAEDCYGNYVVQHLLALRVPQITASLLRQLEGHYVSFSCNKYGSNVVERCLLESGEEQSTRIIIELLR 409 (449)
Q Consensus 340 ~~L~~d~~Gn~VIQ~lL~~~~~~~r~~li~~L~~~~~~Ls~~k~GS~Vvek~l~~~~~~~r~~ii~ell~ 409 (449)
..+..++|-++|-+.+. +..-+.+++.+..|+.++-.--.=-.+|+.=++..+.+..++++.++..
T Consensus 283 ~~~~~~~y~~~vteel~----~~L~~~l~~~l~~~l~~il~rl~l~~~v~eqi~~fs~~~lE~lV~~Is~ 348 (376)
T COG4399 283 ITLITNQYESYVTEELA----PKLVRYLIEDLSSHLAQILKRLDLEELVEEQINTFSLERLEKLVLEISR 348 (376)
T ss_pred hhhhcccHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence 34444455555544443 2333334444433333322222223344444455566666666666655
No 31
>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]
Probab=36.90 E-value=5.6e+02 Score=27.53 Aligned_cols=60 Identities=10% Similarity=0.192 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHhhcCCCccHHHHHHHhcCCHHHHHHHHHHhhCCchhhHHHhcCCchhHHH
Q 037508 181 EMIFVEVIDRVCELMIDPFGNYVVQKLVELCSEEQRTRILLMLTNDDFQLVRICLNTHGIRAV 243 (449)
Q Consensus 181 ~~i~~ei~~~~~~L~~d~~Gn~VvQklle~~~~~~~~~i~~~l~~~~~~l~~L~~~~~G~~Vv 243 (449)
..|+.--...+..++...----.+-.++...+...+.+|++.++. ++...+.++.+-+-+
T Consensus 46 ~si~~lyisg~~~~s~~~l~d~~l~~~~~~f~~n~k~~~veh~c~---~~l~~~e~kmal~el 105 (711)
T COG1747 46 NSIIALYISGIISLSKQLLDDSCLVTLLTIFGDNHKNQIVEHLCT---RVLEYGESKMALLEL 105 (711)
T ss_pred hhhHHHHHHHHHHhhhccccchHHHHHHHHhccchHHHHHHHHHH---HHHHhcchHHHHHHH
Confidence 334333334555555555555556666666666666667776665 455555555554443
No 32
>cd07439 FANCE_c-term Fanconi anemia complementation group E protein, C-terminal domain. Fanconi Anemia (FA) is an autosomal recessive disorder associated with increased susceptibility to various cancers, bone marrow failure, cardiac, renal, and limb malformations, and other characteristics. Cells are highly sensitive to DNA damaging agents. A multi-subunit protein complex, the FA core complex, is responsible for ubiquitination of the protein FANCD2 in response to DNA damage. This monoubiquitination results in a downstream effect on homology-directed DNA repair. FANCE is part of the FA core complex and its C-terminal domain, which is modeled here, has been shown to directly interact with FANCD2. The domain contains a five-fold repeat of a structural unit similar to ARM and HEAT repeats. FANCE appears conserved in metazoa and in plants.
Probab=34.47 E-value=4.3e+02 Score=25.48 Aligned_cols=81 Identities=17% Similarity=0.096 Sum_probs=45.6
Q ss_pred cCCchhHHHHHHHhhcc-HHHHHHHHHHHHHhHHHHhcCCChhHHHHHHhccC---chhHHHHHHHHHHhhhhhhcCC-c
Q 037508 308 TDKSGCCVLQHCVEYSK-GAQRERLVAEIIANALLLAEDCYGNYVVQHLLALR---VPQITASLLRQLEGHYVSFSCN-K 382 (449)
Q Consensus 308 ~~k~GS~Vvq~~L~~~~-~~~~~~il~~l~~~l~~L~~d~~Gn~VIQ~lL~~~---~~~~r~~li~~L~~~~~~Ls~~-k 382 (449)
.+.+=+.++.++++.+. +......+..+... ..+.-+..---|+|.+|+.. +++.-..++..+..+...++.+ |
T Consensus 131 ~~~~q~ell~rlike~~~~~~~~l~~~q~L~~-~~~~W~E~~~~v~q~lL~~~~~lte~~~~~Lv~~L~~~a~~~skSlk 209 (254)
T cd07439 131 PGPFQAELLCRLVKECFEPDAVLLLLHQILIS-PNLVWTEETFTVIQALLNRKPPLSEESFSELVSKLQEQAEAFSKSLK 209 (254)
T ss_pred CCHHHHHHHHHHHhccccHHHHHHHHHHHHcc-ccccccHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhhcccc
Confidence 44455566666665543 23333333333211 11223333445788999884 5667788888888877777765 6
Q ss_pred chhHHHH
Q 037508 383 YGSNVVE 389 (449)
Q Consensus 383 ~GS~Vve 389 (449)
||.-++.
T Consensus 210 Fa~lll~ 216 (254)
T cd07439 210 FAKLLLA 216 (254)
T ss_pred HHHHHHH
Confidence 6654443
No 33
>TIGR00207 fliG flagellar motor switch protein FliG. The fliG protein along with fliM and fliN interact to form the switch complex of the bacterial flagellar motor located at the base of the basal body. This complex interacts with chemotaxis proteins (eg CHEY). In addition the complex interacts with other components of the motor that determine the direction of flagellar rotation. The model contains putative members of the fliG family at scores of less than 100 from Agrobacterium radiobacter and Sinorhizobium meliloti as well as fliG-like genes from treponema pallidum and Borrelia burgdorferi. That is why the suggested cutoff is set at 20 but was set at 100 to construct the family.
Probab=34.11 E-value=5e+02 Score=26.09 Aligned_cols=54 Identities=15% Similarity=0.201 Sum_probs=31.4
Q ss_pred cCCHHHHHHHHHHhhCCchhhHHHh-cCCchhHHHHHHHHhcCchHHHHHHHHHHhhc
Q 037508 210 LCSEEQRTRILLMLTNDDFQLVRIC-LNTHGIRAVLKLLENLTNPQQISLVLAALRPG 266 (449)
Q Consensus 210 ~~~~~~~~~i~~~l~~~~~~l~~L~-~~~~G~~VvQklle~~~~~~~~~~I~~el~~~ 266 (449)
..++++.+.+++++... +..-. ....|-..++++++..-.++....+++.+.+.
T Consensus 51 ~v~~~~~~~vl~eF~~~---~~~~~~~~~g~~~~~~~~L~~alg~~~a~~il~~i~~~ 105 (338)
T TIGR00207 51 QIDNQQKDDVLEEFEQI---AEAQAYINIGGLDYAREVLEKALGEEKAASILNDLTSS 105 (338)
T ss_pred CCCHHHHHHHHHHHHHH---HHhcCCccCChHHHHHHHHHHhcCHHHHHHHHHHHhcc
Confidence 35666666776666542 22211 12334556788887766666677777776543
No 34
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=33.23 E-value=3.3e+02 Score=23.71 Aligned_cols=54 Identities=15% Similarity=0.222 Sum_probs=35.9
Q ss_pred HHHHHHHhhccHHHHHHHHH-HHHHhHHHHhcCCChhHHHHHHhccCchhHHHHHHHHHHhhhhhhc
Q 037508 314 CVLQHCVEYSKGAQRERLVA-EIIANALLLAEDCYGNYVVQHLLALRVPQITASLLRQLEGHYVSFS 379 (449)
Q Consensus 314 ~Vvq~~L~~~~~~~~~~il~-~l~~~l~~L~~d~~Gn~VIQ~lL~~~~~~~r~~li~~L~~~~~~Ls 379 (449)
.+++.|.+.|+......+.+ ++.+.+..|+.++ ..+..+++++..+......+.
T Consensus 59 ~LLe~~vkNCG~~fh~evask~Fl~eL~kl~~~~------------~~~~Vk~kil~li~~W~~~f~ 113 (144)
T cd03568 59 TLLDACAENCGKRFHQEVASRDFTQELKKLINDR------------VHPTVKEKLREVVKQWADEFK 113 (144)
T ss_pred HHHHHHHHHCCHHHHHHHhhHHHHHHHHHHhccc------------CCHHHHHHHHHHHHHHHHHhC
Confidence 47788888888877666664 5556677777776 245666666666665554444
No 35
>PF12231 Rif1_N: Rap1-interacting factor 1 N terminal; InterPro: IPR022031 This domain family is found in eukaryotes, and is typically between 135 and 146 amino acids in length. Rif1 is a protein which interacts with Rap1 to regulate telomere length. Interaction with telomeres limits their length. The N-terminal region contains many HEAT- and ARMADILLO- type repeats. These are helical folds which form extended curved proteins or RNA interface surfaces.
Probab=29.40 E-value=6.2e+02 Score=25.70 Aligned_cols=45 Identities=22% Similarity=0.098 Sum_probs=21.5
Q ss_pred HHHHHHhccCchhHHHHHHHHHHhhhhhhcCCcchhHHHHHHHhhc
Q 037508 350 YVVQHLLALRVPQITASLLRQLEGHYVSFSCNKYGSNVVERCLLES 395 (449)
Q Consensus 350 ~VIQ~lL~~~~~~~r~~li~~L~~~~~~Ls~~k~GS~Vvek~l~~~ 395 (449)
.++..++.. ....|.+.+..+.+-...+..++.-++.+..+++..
T Consensus 179 ~l~~~l~~~-~k~ir~~a~~l~~~~~~~l~~~~~~s~~~~~~~~~~ 223 (372)
T PF12231_consen 179 ILFPDLLSS-AKDIRTKAISLLLEAKKCLGPNKELSKSVLEDLQRS 223 (372)
T ss_pred HHHHHHhhc-chHHHHHHHHHHHHHHHHhChhHHHHHHHHHHhccc
Confidence 455555543 233344444444333344444555566665555533
No 36
>KOG0166 consensus Karyopherin (importin) alpha [Intracellular trafficking, secretion, and vesicular transport]
Probab=26.45 E-value=8.2e+02 Score=26.20 Aligned_cols=139 Identities=16% Similarity=0.226 Sum_probs=71.4
Q ss_pred chhHHHHHHHHhcCchHHHHHHH-HHHhhchhchhcCcCccHHHHHHHh-----cCChhhHHHHHHH-HHHhHHhhhcC-
Q 037508 238 HGIRAVLKLLENLTNPQQISLVL-AALRPGAVTLTKDTNGHYVIQYCVK-----HFSHEDTKYLLNE-VADNCYGIATD- 309 (449)
Q Consensus 238 ~G~~VvQklle~~~~~~~~~~I~-~el~~~~~~L~~d~~Gn~ViQ~~L~-----~~~~~~~~~i~~~-l~~~~~~ls~~- 309 (449)
..||.+-.+-+.. .+..+.++ ..+.+.+..++.+..++.+.-++-. .++..+.+.+++. ....+..+...
T Consensus 256 Da~WAlsyLsdg~--ne~iq~vi~~gvv~~LV~lL~~~~~~v~~PaLRaiGNIvtG~d~QTq~vi~~~~L~~l~~ll~~s 333 (514)
T KOG0166|consen 256 DACWALSYLTDGS--NEKIQMVIDAGVVPRLVDLLGHSSPKVVTPALRAIGNIVTGSDEQTQVVINSGALPVLSNLLSSS 333 (514)
T ss_pred HHHHHHHHHhcCC--hHHHHHHHHccchHHHHHHHcCCCcccccHHHhhccceeeccHHHHHHHHhcChHHHHHHHhccC
Confidence 3455555555442 23333332 3455667777777776655333322 2334444444443 33344444332
Q ss_pred ------CchhHHHHHHHhhccHHHHHHHHH-HHHHhHHHHhcC-CC-----hhHHHHHHhccCchhHHHHHHHH-HHhhh
Q 037508 310 ------KSGCCVLQHCVEYSKGAQRERLVA-EIIANALLLAED-CY-----GNYVVQHLLALRVPQITASLLRQ-LEGHY 375 (449)
Q Consensus 310 ------k~GS~Vvq~~L~~~~~~~~~~il~-~l~~~l~~L~~d-~~-----Gn~VIQ~lL~~~~~~~r~~li~~-L~~~~ 375 (449)
+-.|+++..+-. ++.++.+.+++ .+.+-++.+.+. .| +.|+|-.+...+++++-.-|++. +.+++
T Consensus 334 ~~~~ikkEAcW~iSNItA-G~~~qiqaVida~l~p~Li~~l~~~ef~~rKEAawaIsN~ts~g~~~qi~yLv~~giI~pl 412 (514)
T KOG0166|consen 334 PKESIKKEACWTISNITA-GNQEQIQAVIDANLIPVLINLLQTAEFDIRKEAAWAISNLTSSGTPEQIKYLVEQGIIKPL 412 (514)
T ss_pred cchhHHHHHHHHHHHhhc-CCHHHHHHHHHcccHHHHHHHHhccchHHHHHHHHHHHhhcccCCHHHHHHHHHcCCchhh
Confidence 335555555544 56677777776 455555554433 33 45667666666666655555554 33444
Q ss_pred hhhc
Q 037508 376 VSFS 379 (449)
Q Consensus 376 ~~Ls 379 (449)
..|-
T Consensus 413 cdlL 416 (514)
T KOG0166|consen 413 CDLL 416 (514)
T ss_pred hhcc
Confidence 4444
No 37
>PF14666 RICTOR_M: Rapamycin-insensitive companion of mTOR, middle domain
Probab=25.39 E-value=2.9e+02 Score=26.06 Aligned_cols=25 Identities=12% Similarity=0.195 Sum_probs=14.6
Q ss_pred hhcCCcchhHHHHHHHhhcCHHHHH
Q 037508 377 SFSCNKYGSNVVERCLLESGEEQST 401 (449)
Q Consensus 377 ~Ls~~k~GS~Vvek~l~~~~~~~r~ 401 (449)
+.+.+.+...++.|++..++...|.
T Consensus 190 DY~~~~~~R~iLsKaLt~~s~~iRl 214 (226)
T PF14666_consen 190 DYSVDGHPRIILSKALTSGSESIRL 214 (226)
T ss_pred CCCCccHHHHHHHHHHhcCCHHHHH
Confidence 4555556666666666666655443
No 38
>PRK07194 fliG flagellar motor switch protein G; Reviewed
Probab=25.09 E-value=7e+02 Score=24.95 Aligned_cols=54 Identities=7% Similarity=0.057 Sum_probs=33.8
Q ss_pred hccCCHHHHHHHHHHHHHHHHHhhcCCCcc-HHHHHHHhcC-CHHHHHHHHHHhhC
Q 037508 172 MSSLPKEEIEMIFVEVIDRVCELMIDPFGN-YVVQKLVELC-SEEQRTRILLMLTN 225 (449)
Q Consensus 172 Le~~~~e~~~~i~~ei~~~~~~L~~d~~Gn-~VvQklle~~-~~~~~~~i~~~l~~ 225 (449)
++..+.++.+.+++++...+..-..-..|+ -.++++++.+ +++.-..|++.+..
T Consensus 47 l~~v~~~~~~~vl~eF~~~~~~~~~~~~g~~~~~~~~L~~alg~~~a~~il~~i~~ 102 (334)
T PRK07194 47 LSGIKVDQARQVLQRFFDDYREQSGINGASRSYLQRTLNKALGGDIAKSLINSIYG 102 (334)
T ss_pred CCCCCHHHHHHHHHHHHHHHHhcCCcccchHHHHHHHHHHHcCHHHHHHHHHHHhc
Confidence 345578888888888777765543333333 3566666444 66666677777665
No 39
>PF14666 RICTOR_M: Rapamycin-insensitive companion of mTOR, middle domain
Probab=24.80 E-value=1.5e+02 Score=28.07 Aligned_cols=120 Identities=14% Similarity=0.166 Sum_probs=68.9
Q ss_pred chhHHHHHHHhhccHH-H--HHHHHHHHHHhHHHHhcCCChhHHHHHHhccCchhHHHHHHHHHHhhhhhhcCCcchhHH
Q 037508 311 SGCCVLQHCVEYSKGA-Q--RERLVAEIIANALLLAEDCYGNYVVQHLLALRVPQITASLLRQLEGHYVSFSCNKYGSNV 387 (449)
Q Consensus 311 ~GS~Vvq~~L~~~~~~-~--~~~il~~l~~~l~~L~~d~~Gn~VIQ~lL~~~~~~~r~~li~~L~~~~~~Ls~~k~GS~V 387 (449)
-||.+++.++...... . -..++..+.+.+.++-. ..|...-..++. .......+..-...-+..|+.++.|-.+
T Consensus 83 vGc~L~~~Ll~~~eG~~~l~~~~ll~qia~~L~~~d~-~~g~~~~~~lfs--~~~l~~tl~~~Yf~~IG~lS~~~~Gl~l 159 (226)
T PF14666_consen 83 VGCQLLETLLSSPEGIKYLSESKLLPQIAECLAQVDP-MSGITAHDPLFS--PQRLSTTLSRGYFLFIGVLSSTPNGLKL 159 (226)
T ss_pred HHHHHHHHHHcCcHHHHHHHHccHHHHHHHHHHHHhh-hcCCcccccccC--HHHHHhhHHHHHHHHHHHHhCChhHHHH
Confidence 5888888888773322 1 23444455444443311 112222122221 2223345555555667899999999888
Q ss_pred HHHH------HhhcCHHHHHHHHHHHhcCCChhhhccCcChhHHHHHHhhhcccc
Q 037508 388 VERC------LLESGEEQSTRIIIELLRSPNVSMLLMHPFGNYVIQSALLVSKVR 436 (449)
Q Consensus 388 vek~------l~~~~~~~r~~ii~ell~~~~l~~L~~d~yGnyVvq~lL~~~~~~ 436 (449)
+|++ ...++.+.+..+++-++. .+ ....|....-+++++|..+...
T Consensus 160 Le~~~if~~l~~i~~~~~~~~l~klil~--~L-DY~~~~~~R~iLsKaLt~~s~~ 211 (226)
T PF14666_consen 160 LERWNIFTMLYHIFSLSSRDDLLKLILS--SL-DYSVDGHPRIILSKALTSGSES 211 (226)
T ss_pred HHHCCHHHHHHHHHccCchHHHHHHHHh--hC-CCCCccHHHHHHHHHHhcCCHH
Confidence 7652 223333345666666666 33 4566888899999999887653
No 40
>PF11510 FA_FANCE: Fanconi Anaemia group E protein FANCE; InterPro: IPR021025 Fanconi Anaemia (FA) is a cancer predisposition disorder characterised by chromosome fragility and hypersensitivity to genotoxic agents that suggest defects in the molecular mechanisms of DNA damage signalling and repair. In response to DNA damage, the FA core complex monoubiquitinates the FANCD2 protein. This ubiquitination targets FANCD2 to nuclear foci where it interacts with a variety of DNA repair proteins. The FA group E protein (FANCE) has an important role in DNA repair, functioning as the FANCD2-binding protein in the FA core complex []. This entry represents the C-terminal domain of FANCE, which consists predominantly of helices and does not contain any beta-strands. This domain folds in a continuous right-handed solenoidal pattern from its N terminus to its C terminus. ; PDB: 2ILR_A.
Probab=24.28 E-value=6.6e+02 Score=24.36 Aligned_cols=196 Identities=12% Similarity=0.088 Sum_probs=0.0
Q ss_pred HhhccCCHHHHHHHHHHHH-HHHHHhhcCCCccHHHHHHHhcCCHHHHHHHHHHhhCCchhhHHHhcCCchhHHHHHHHH
Q 037508 170 RTMSSLPKEEIEMIFVEVI-DRVCELMIDPFGNYVVQKLVELCSEEQRTRILLMLTNDDFQLVRICLNTHGIRAVLKLLE 248 (449)
Q Consensus 170 ~lLe~~~~e~~~~i~~ei~-~~~~~L~~d~~Gn~VvQklle~~~~~~~~~i~~~l~~~~~~l~~L~~~~~G~~VvQklle 248 (449)
+.|-.|++.+.+.+...+. +.+.+=..=+.-++++.---+-....-...+-..+.+ ++..+ ..-++|++..++.
T Consensus 42 q~L~~csp~q~e~lc~~L~l~~lsd~~l~~lc~~ll~Ls~dls~~~a~~l~~sl~Lp---kilsL--~~~ASR~L~sal~ 116 (263)
T PF11510_consen 42 QFLNECSPSQVEMLCSQLQLPQLSDDGLLQLCSSLLALSPDLSHSNATVLLRSLFLP---KILSL--EEPASRLLVSALT 116 (263)
T ss_dssp HGGGG--HHHHHHHHHHHTGGG--HHHHHHHHHHHHH-SS---HHHHHHHHHHHHHH---HHHH---SS---HHHHHHHH
T ss_pred HHHHhCCHHHHHHHHHHhCcCCCCHHHHHHHHHHHHccCcccchhhHHHHHHHHHHH---HHHhc--CCCccHHHHHHHH
Q ss_pred hcCchHHHHHHHHHHhhchhchhcCcCccHHHHHHH--hcCChhhHHHHHHHHHHhHHhhhcCCchhHHHHHHHhh---c
Q 037508 249 NLTNPQQISLVLAALRPGAVTLTKDTNGHYVIQYCV--KHFSHEDTKYLLNEVADNCYGIATDKSGCCVLQHCVEY---S 323 (449)
Q Consensus 249 ~~~~~~~~~~I~~el~~~~~~L~~d~~Gn~ViQ~~L--~~~~~~~~~~i~~~l~~~~~~ls~~k~GS~Vvq~~L~~---~ 323 (449)
.+....-...+-.-+.|-+..-.....-.-++.+++ +...++.+..++..+. ++.-+..-..|+|.+++. -
T Consensus 117 ~f~k~~p~~~~~all~PlL~~~~~g~~Q~eLl~rlvk~~~l~p~~~~l~l~~~L----~~~W~E~~~~Vlq~lL~~k~~l 192 (263)
T PF11510_consen 117 SFCKKYPRPVCEALLVPLLQAPGLGPPQCELLCRLVKKECLEPDHRLLLLRQIL----ELVWNEETFLVLQSLLERKVEL 192 (263)
T ss_dssp HHHHHSHHHHHHHHHHHHHHSTT--HHHHHHHHHHHH-TTS-HHHHHHHHHHHH----HS---HHHHHHHHHHHTT----
T ss_pred HHHHhCcHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccCCHHHHHHHHHHHH----hCcCcHHHHHHHHHHHhcCCCC
Q ss_pred cHHHHHHHHHHHHHhHHHHhcCCChhHHHHHHh----ccCchhHHHHHHHHHHhh
Q 037508 324 KGAQRERLVAEIIANALLLAEDCYGNYVVQHLL----ALRVPQITASLLRQLEGH 374 (449)
Q Consensus 324 ~~~~~~~il~~l~~~l~~L~~d~~Gn~VIQ~lL----~~~~~~~r~~li~~L~~~ 374 (449)
+++....+++.+......++++--=.-++.+++ ....+..+..+...+..+
T Consensus 193 ~~~~~~~l~~~L~~~a~~~skSlkFakLlLtvltKy~~~it~~~~~~L~~~l~~n 247 (263)
T PF11510_consen 193 SQELFSLLVELLCEQAPQFSKSLKFAKLLLTVLTKYQSQITEAHKLSLAEALELN 247 (263)
T ss_dssp -HHHHHHHHHHHH--------SHHHHHHHHHHHHHTGGG--HHHHHHHHHHH-SS
T ss_pred CHHHHHHHHHHHHHhhHhhhcchHHHHHHHHHHHHcchhccHHHHHHHHHHHHhc
No 41
>PF04054 Not1: CCR4-Not complex component, Not1; InterPro: IPR007196 The Ccr4-Not complex is a global regulator of gene expression that is conserved from yeast to human. It affects genes positively and negatively and is thought to regulate transcription factor IID function. In Saccharomyces cerevisiae, it exists in two prominent forms and consists of at least nine core subunits: the five Not proteins (Not1p to Not5p), Caf1p, Caf40p, Caf130p and Ccr4p []. The Ccr4-Not complex regulates many different cellular functions, including RNA degradation and transcription initiation. It may be a regulatory platform that senses nutrient levels and stress []. Caf1p and Ccr4p, are directly involved in mRNA deadenylation, and Caf1p is associated with Dhh1p, a putative RNA helicase thought to be a component of the decapping complex []. Pop2, a component of the Ccr4-Not complex, functions as a deadenylase []. The Ccr4-Not complex is a global regulator of transcription that affects genes positively and negatively and is thought to regulate transcription factor TFIID [].
Probab=23.96 E-value=6.2e+02 Score=25.96 Aligned_cols=77 Identities=13% Similarity=0.120 Sum_probs=52.2
Q ss_pred chhHHHHHHHhhccHHHHHHHHHHHHHhHHH-HhcCCChhHHHHHHhc-----cCchhHHHHHHHHHHhhhhhhcCCcch
Q 037508 311 SGCCVLQHCVEYSKGAQRERLVAEIIANALL-LAEDCYGNYVVQHLLA-----LRVPQITASLLRQLEGHYVSFSCNKYG 384 (449)
Q Consensus 311 ~GS~Vvq~~L~~~~~~~~~~il~~l~~~l~~-L~~d~~Gn~VIQ~lL~-----~~~~~~r~~li~~L~~~~~~Ls~~k~G 384 (449)
-...+++.++...+++.|--++..+..++.. =+...|-++++..++. ..+...+++|++.|.+.+..-.-|++|
T Consensus 262 ~~~~ll~~Li~~ld~E~RY~ll~aiaNqLRYPN~HT~~Fs~~lL~lF~~~~~~~~~~~IqEqItRVLLERliv~rPHPWG 341 (379)
T PF04054_consen 262 PHVTLLSKLIHELDPEGRYYLLSAIANQLRYPNSHTHFFSCVLLNLFSSDMNDPNDEDIQEQITRVLLERLIVNRPHPWG 341 (379)
T ss_pred hHHHHHHHHHHhCCHHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcCCCCccchhhhHHHHHHHHHHHHhcCCCCCcc
Confidence 4566778888888888888888888776532 2233355666777776 234557778888777777666677777
Q ss_pred hHH
Q 037508 385 SNV 387 (449)
Q Consensus 385 S~V 387 (449)
=-+
T Consensus 342 lli 344 (379)
T PF04054_consen 342 LLI 344 (379)
T ss_pred HHH
Confidence 544
No 42
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=23.42 E-value=1.2e+03 Score=27.01 Aligned_cols=68 Identities=13% Similarity=0.203 Sum_probs=48.6
Q ss_pred HHhhcCCCccHHHHHHHhcCCHHHHHHHHHHhhCCchhhHHHhcCCchhHHHHHHHHhcCchHHHHHHHHH
Q 037508 192 CELMIDPFGNYVVQKLVELCSEEQRTRILLMLTNDDFQLVRICLNTHGIRAVLKLLENLTNPQQISLVLAA 262 (449)
Q Consensus 192 ~~L~~d~~Gn~VvQklle~~~~~~~~~i~~~l~~~~~~l~~L~~~~~G~~VvQklle~~~~~~~~~~I~~e 262 (449)
..+..++++.+.+-.++...+.+....+++.++. .+.+..-++++-+.+-.|++.....+....+++.
T Consensus 74 l~~q~~~~~~~~lv~~l~~~~~~~~~~~ve~~~~---~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer 141 (906)
T PRK14720 74 LSLSRRPLNDSNLLNLIDSFSQNLKWAIVEHICD---KILLYGENKLALRTLAEAYAKLNENKKLKGVWER 141 (906)
T ss_pred HHHhhcchhhhhhhhhhhhcccccchhHHHHHHH---HHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHH
Confidence 7778888888888899888877766678888876 4666666777777777788776544443333333
No 43
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=22.00 E-value=5.2e+02 Score=22.33 Aligned_cols=54 Identities=13% Similarity=0.297 Sum_probs=33.6
Q ss_pred HHHHHHHhhccHHHHHHHHH-HHHHhHHHHhcCCChhHHHHHHhccCchhHHHHHHHHHHhhhhhhc
Q 037508 314 CVLQHCVEYSKGAQRERLVA-EIIANALLLAEDCYGNYVVQHLLALRVPQITASLLRQLEGHYVSFS 379 (449)
Q Consensus 314 ~Vvq~~L~~~~~~~~~~il~-~l~~~l~~L~~d~~Gn~VIQ~lL~~~~~~~r~~li~~L~~~~~~Ls 379 (449)
.+++.|++.|+......+.+ ++.+.+..|+.+. ..+..+++++..+......+.
T Consensus 63 ~LLe~~vkNCG~~fh~evas~~fl~~l~~l~~~~------------~~~~Vk~kil~li~~W~~~f~ 117 (142)
T cd03569 63 LLLESCVKNCGTHFHDEVASREFMDELKDLIKTT------------KNEEVRQKILELIQAWALAFR 117 (142)
T ss_pred HHHHHHHHHCCHHHHHHHhhHHHHHHHHHHHccc------------CCHHHHHHHHHHHHHHHHHhC
Confidence 47788888888766655554 5556666676652 345566666666655544443
No 44
>cd07356 HN_L-whirlin_R1_like First harmonin_N_like domain (repeat 1) of the long isoform of whirlin, and related domains. This subgroup contains the first of two harmonin_N_like domains of the long isoform of whirlin, and related domains. Whirlin is a postsynaptic density-95/discs-large/ZO-1 (PDZ) domain-containing scaffold protein which binds various components of the Usher protein network of the inner ear and the retina: erythrocyte protein p55, usherin, VlGR1, and myosin XVa. The long isoform of whirlin contains two harmonin_N_like domains, and three PDZ protein-binding domains, PDZ1-3. This first harmonin_N_like domain precedes PDZ1, and is a putative protein-binding module based on its sequence similarity to the N-terminal domain of harmonin. This first harmonin_N_like domain has been assayed for interaction with the cytoplasmic domain of cadherin 23 (a component of the Usher network and an interacting partner of the harmonin N-domain), however no interaction could be detected. Th
Probab=21.94 E-value=1.1e+02 Score=23.61 Aligned_cols=31 Identities=19% Similarity=0.118 Sum_probs=20.7
Q ss_pred HHHhhccHHHHHHHHHHHHHhHHHHhcCCCh
Q 037508 318 HCVEYSKGAQRERLVAEIIANALLLAEDCYG 348 (449)
Q Consensus 318 ~~L~~~~~~~~~~il~~l~~~l~~L~~d~~G 348 (449)
.+|+.....+.-.++..+.+...+++.|+|.
T Consensus 46 ~vLd~P~KrqllplLr~vIP~sDq~lFDq~t 76 (78)
T cd07356 46 VVLDTPEKRQLLPLLRLVIPRSDQLLFDQYT 76 (78)
T ss_pred HHhCCHhHhHHHHHHHHHcccHHHHHHHHHh
Confidence 3444444456667777777778888888764
No 45
>PF12188 STAT2_C: Signal transducer and activator of transcription 2 C terminal; InterPro: IPR022756 This region is found in the mammalian signal transducer and activation of transcription (STAT) 2 protein, and is approximately 60 amino acids in length. The family is found in association with PF02865 from PFAM, PF00017 from PFAM, PF01017 from PFAM, PF02864 from PFAM. There is a conserved DLP sequence motif. STATs are involved in transcriptional regulation and are the only regulators known to be modulated by tyrosine phosphorylation. STAT2 forms a trimeric complex with STAT1 and IRF-9 (Interferon Regulatory Factor 9), on activation of the cell by interferon, which is called ISGF3 (Interferon-stimulated gene factor 3). The C-terminal domain of STAT2 contains a nuclear export signal (NES) which allows export of STAT2 into the cytoplasm along with any complexed molecules. ; PDB: 2KA4_B.
Probab=20.87 E-value=36 Score=24.25 Aligned_cols=23 Identities=39% Similarity=0.671 Sum_probs=12.2
Q ss_pred cCCcccccccccccc-cccCCccc
Q 037508 52 ETDLSAYFSHLNVND-RIFDNPVH 74 (449)
Q Consensus 52 ~~~~~~~~~~~~~~~-~~~~~~~~ 74 (449)
++|+|-=..+||++| +||.|.+-
T Consensus 6 EpDLP~DL~hlnteemeifrN~~~ 29 (56)
T PF12188_consen 6 EPDLPHDLQHLNTEEMEIFRNSMK 29 (56)
T ss_dssp -----HHHHTS--TGGGGGTTS--
T ss_pred CCCccHHHHHhChHHHHHHhcccc
Confidence 568888889999987 78998754
No 46
>PF05327 RRN3: RNA polymerase I specific transcription initiation factor RRN3; InterPro: IPR007991 This family consists of several eukaryotic proteins which are homologous to the Saccharomyces cerevisiae RRN3 protein. RRN3 is one of the RRN genes specifically required for the transcription of rDNA by RNA polymerase I (Pol I) in the S. cerevisiae [] RNA polymerase I complex within the nucleolus. In mammalian cells, the phosphorylation state of Rrn3 regulates rDNA transcription by determining the steady-state concentration of the Rrn3 [].; PDB: 3TJ1_B.
Probab=20.72 E-value=1.1e+03 Score=25.52 Aligned_cols=69 Identities=14% Similarity=-0.001 Sum_probs=40.8
Q ss_pred HHHHHHHHHHhhchhchhcCcCccHHHHHHHhcCChhhHHHHHHHHHHhHHhh--hcCCchhHHHHHHHhhcc
Q 037508 254 QQISLVLAALRPGAVTLTKDTNGHYVIQYCVKHFSHEDTKYLLNEVADNCYGI--ATDKSGCCVLQHCVEYSK 324 (449)
Q Consensus 254 ~~~~~I~~el~~~~~~L~~d~~Gn~ViQ~~L~~~~~~~~~~i~~~l~~~~~~l--s~~k~GS~Vvq~~L~~~~ 324 (449)
.+...++.++...+..|-.+ -+.+|+.++....-...+.++++...-+..| +...|-..|+.++++...
T Consensus 51 ~~l~~~L~~L~~~Vs~Ld~~--~~~LV~ail~~~W~~~~~~~v~~y~~Fl~~Lvsa~~~yl~~vl~~LV~~f~ 121 (563)
T PF05327_consen 51 SQLIRWLKALSSCVSLLDSS--CKQLVEAILSLNWLGRDEDFVEAYIQFLINLVSAQPKYLSPVLSMLVKNFI 121 (563)
T ss_dssp HHHHHHHHHHHHGGGGG-SC--CHHHHHHHHT-TGGGS-HHHHHHHHHHHHHHHHH-GGGHHHHHHHHHHGGG
T ss_pred HHHHHHHHHHHHHHHHhhhH--HHHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcc
Confidence 35566667777666666554 5667888888644333444555554444443 456788888888887643
Done!