Query 035754
Match_columns 335
No_of_seqs 149 out of 1496
Neff 9.6
Searched_HMMs 46136
Date Fri Mar 29 06:05:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035754.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035754hhsearch_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 7.6E-62 1.7E-66 442.8 23.6 313 10-331 177-499 (503)
2 cd07920 Pumilio Pumilio-family 100.0 8.2E-60 1.8E-64 427.5 32.3 308 11-327 9-322 (322)
3 KOG2049 Translational represso 100.0 2.3E-51 5E-56 377.5 22.7 317 10-327 215-532 (536)
4 COG5099 RNA-binding protein of 100.0 3.9E-47 8.5E-52 366.2 28.5 308 17-332 446-762 (777)
5 cd07920 Pumilio Pumilio-family 100.0 1.2E-43 2.6E-48 321.6 28.0 277 45-332 6-291 (322)
6 KOG1488 Translational represso 100.0 1.1E-41 2.3E-46 311.0 15.4 241 86-333 178-422 (503)
7 COG5099 RNA-binding protein of 100.0 4.8E-34 1E-38 275.8 17.8 233 93-333 447-683 (777)
8 KOG2049 Translational represso 100.0 6E-34 1.3E-38 262.6 14.8 239 87-333 217-461 (536)
9 KOG2188 Predicted RNA-binding 100.0 5.9E-31 1.3E-35 241.0 23.8 312 5-327 93-605 (650)
10 KOG2050 Puf family RNA-binding 100.0 1.6E-30 3.4E-35 236.0 21.9 282 8-330 160-443 (652)
11 KOG2188 Predicted RNA-binding 99.9 1.8E-26 3.9E-31 211.8 19.4 309 18-331 59-573 (650)
12 KOG2050 Puf family RNA-binding 99.9 2.3E-20 5.1E-25 170.2 20.9 248 3-258 192-447 (652)
13 KOG4574 RNA-binding protein (c 99.7 4.6E-17 1E-21 153.6 12.5 285 37-332 535-854 (1007)
14 KOG4574 RNA-binding protein (c 99.2 5.8E-12 1.3E-16 119.7 5.2 199 113-320 535-774 (1007)
15 PF00806 PUF: Pumilio-family R 98.5 8.3E-08 1.8E-12 56.4 2.9 35 45-79 1-35 (35)
16 PF00806 PUF: Pumilio-family R 98.4 3.3E-07 7.1E-12 53.8 3.1 30 270-303 5-34 (35)
17 smart00025 Pumilio Pumilio-lik 98.1 2E-06 4.2E-11 50.7 2.3 34 46-79 2-35 (36)
18 smart00025 Pumilio Pumilio-lik 97.9 1.1E-05 2.4E-10 47.3 2.6 31 270-304 5-35 (36)
19 PF08144 CPL: CPL (NUC119) dom 95.1 0.1 2.2E-06 41.4 7.1 125 203-333 1-135 (148)
20 PRK05686 fliG flagellar motor 93.8 5.2 0.00011 36.5 18.4 220 34-258 55-289 (339)
21 PF08144 CPL: CPL (NUC119) dom 92.4 0.35 7.6E-06 38.4 5.5 26 159-184 62-87 (148)
22 TIGR00207 fliG flagellar motor 79.7 49 0.0011 30.2 18.6 221 33-258 51-286 (338)
23 KOG2759 Vacuolar H+-ATPase V1 75.4 71 0.0015 29.8 12.7 41 223-263 311-354 (442)
24 KOG1992 Nuclear export recepto 74.2 1.1E+02 0.0023 31.4 16.7 86 206-293 657-754 (960)
25 PF08625 Utp13: Utp13 specific 73.0 43 0.00094 26.3 9.9 82 208-289 47-138 (141)
26 COG1536 FliG Flagellar motor s 63.4 1.2E+02 0.0026 27.7 17.6 220 31-258 51-289 (339)
27 PF01603 B56: Protein phosphat 59.7 1.6E+02 0.0034 27.8 13.5 33 176-208 279-311 (409)
28 KOG1059 Vesicle coat complex A 56.1 2.3E+02 0.0051 28.7 15.7 24 234-257 420-443 (877)
29 KOG1070 rRNA processing protei 53.5 3.5E+02 0.0075 29.9 14.3 99 225-333 1530-1632(1710)
30 PF11510 FA_FANCE: Fanconi Ana 53.4 1.5E+02 0.0032 26.1 9.3 196 29-234 42-247 (263)
31 PF09770 PAT1: Topoisomerase I 53.4 25 0.00055 36.3 5.5 96 13-108 576-694 (808)
32 PF12231 Rif1_N: Rap1-interact 48.3 2.3E+02 0.0049 26.3 17.8 43 95-146 56-98 (372)
33 PRK05686 fliG flagellar motor 44.7 2.5E+02 0.0054 25.6 20.7 151 71-234 56-229 (339)
34 PRK07194 fliG flagellar motor 43.0 2.6E+02 0.0057 25.5 18.8 89 33-125 49-141 (334)
35 KOG1992 Nuclear export recepto 41.7 4.2E+02 0.0091 27.4 16.1 89 134-222 657-755 (960)
36 KOG2274 Predicted importin 9 [ 41.7 4.3E+02 0.0094 27.6 13.1 91 87-177 578-678 (1005)
37 KOG1059 Vesicle coat complex A 40.1 4.2E+02 0.0091 27.0 20.4 37 47-83 220-262 (877)
38 PF14666 RICTOR_M: Rapamycin-i 34.6 2.7E+02 0.0058 23.8 7.9 128 171-309 83-222 (226)
39 PF10521 DUF2454: Protein of u 34.4 3.3E+02 0.0071 24.1 11.6 52 98-151 96-154 (282)
40 PF08625 Utp13: Utp13 specific 33.4 2.4E+02 0.0051 22.1 7.7 53 135-187 46-98 (141)
41 cd03568 VHS_STAM VHS domain fa 31.7 2.5E+02 0.0055 22.0 7.5 72 245-334 58-135 (144)
42 KOG1086 Cytosolic sorting prot 31.2 1.9E+02 0.0042 27.2 6.7 85 192-291 26-122 (594)
43 COG4399 Uncharacterized protei 31.1 3.3E+02 0.0072 24.9 8.0 24 180-203 331-354 (376)
44 COG5240 SEC21 Vesicle coat com 30.5 5.5E+02 0.012 25.5 14.5 141 126-267 344-498 (898)
45 PF14676 FANCI_S2: FANCI solen 30.0 2.6E+02 0.0057 22.4 6.8 99 207-311 37-141 (158)
46 KOG3821 Heparin sulfate cell s 27.4 6E+02 0.013 24.9 13.8 53 239-293 267-319 (563)
47 PF12213 Dpoe2NT: DNA polymera 26.2 86 0.0019 21.5 2.9 54 14-67 15-70 (73)
48 PF14666 RICTOR_M: Rapamycin-i 23.8 4.2E+02 0.0091 22.6 7.3 68 161-229 145-218 (226)
49 cd00256 VATPase_H VATPase_H, r 23.4 6.5E+02 0.014 23.9 14.9 42 223-264 298-342 (429)
50 KOG1070 rRNA processing protei 22.6 1.1E+03 0.024 26.4 12.9 32 16-47 1450-1485(1710)
51 COG1747 Uncharacterized N-term 22.0 7.6E+02 0.017 24.2 16.3 210 113-327 42-279 (711)
52 PF04858 TH1: TH1 protein; In 21.0 3.7E+02 0.0081 26.7 7.2 68 224-293 484-554 (584)
53 PF09770 PAT1: Topoisomerase I 21.0 2.5E+02 0.0053 29.2 6.4 75 234-311 674-773 (808)
54 smart00288 VHS Domain present 20.7 1.8E+02 0.0039 22.4 4.2 43 246-290 59-105 (133)
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=7.6e-62 Score=442.80 Aligned_cols=313 Identities=24% Similarity=0.391 Sum_probs=300.7
Q ss_pred cCcchhhhccCchhcHHHHHhhcCCCH-HHHHHHHHHHHhhHHhhccCccchHHHHHHhhhcCHHHHHHHHHHHhcccch
Q 035754 10 TNHDLFSLAQDQEGSQYLQENLSSGDS-RILDKLFWVVSGFTFELMSGQYGRFVFGKFIESCNESQLALIILKITFQDQL 88 (335)
Q Consensus 10 ~~g~~~~la~~~~~s~~lq~~l~~~~~-e~~~~i~~e~~~~~~~L~~~~~gs~v~q~ll~~~~~~~~~~i~~~l~~~~~~ 88 (335)
..|++++++.||+|||++|..++...+ +++..+|+++.+.+..||.|.|||||||+++++++++++..+...+. ++
T Consensus 177 ~~~~~v~f~~Dq~GsrfiQqkl~~~~~~~ek~~if~ei~~~~~~L~~dvFGNyvIQkffE~gt~~q~~~l~~~~~---g~ 253 (503)
T KOG1488|consen 177 IPGHLVEFAKDQHGSRFIQQKLETASDNEEKQAVFDEILPPALELMTDVFGNYVIQKFFEHGTEDQRNLLHSQIK---GH 253 (503)
T ss_pred cCCCceeecCCcccchHHHHhccccccHHHHHHHHHHHHHHHHHHHHHHhcCchhhhhhccCCHHHHHHHHHHHH---hh
Confidence 349999999999999999999999977 99999999999999999999999999999999999999999999999 99
Q ss_pred hhhhhccccCcHHHHHHHhhhcCChhHHHHHHHHHHHhhhhhhcCCCccHHHHHHhhcCCcchhHHHHHHHHH--hHHHh
Q 035754 89 FLLASVDKFGSSSVKKLIKVVAHLPPLLYHVMSALKRLFKFLMMTKPGSSVILQCLEPSYNHKNDFIYQAALE--HCLYL 166 (335)
Q Consensus 89 ~~~l~~~~~gs~vlq~ll~~~~~~~~~~~~i~~~l~~~~~~l~~d~~g~~vvq~~l~~~~~~~~~~l~~~~~~--~~~~l 166 (335)
+..|+.|.|||||+|+.|+. .......+++.+ +.+++..++.|.+||||+|++++..+++....|++.|.+ ++..+
T Consensus 254 v~~Lsld~ygCRVIQkale~-id~~~~~~Li~E-Ld~~vl~~v~DQngnHViQK~ie~~p~~~~~Fiv~~f~~~~~~~~l 331 (503)
T KOG1488|consen 254 VLELSLDMYGCRVIQKALEK-VDVSLQIQLIDE-LDGHLLKCVKDQNGNHVIQKCIETLPPDAWQFIVDFFSGDDNLLEL 331 (503)
T ss_pred hhhhhcccccchhHHHHHHh-cCHHHHHHHHHH-HHhhHHHHHhhcccceehhhhhhccChHHHHHHHHHhcCCCceeEe
Confidence 99999999999999999999 777777777776 799999999999999999999999999999999999999 99999
Q ss_pred hcCCCccHHHHHHHhccChHHHHHHHHHHHHhHHhhhcCCChhHHHHHhhccCChhhHHHHHHHHHHhHHHhccCcchhH
Q 035754 167 ACHEQGCINLNNFIDNMKGSRRKQILHLISVNAASLSRHRSGNYVVQHVLSLEDPFLIDAICFALRGHYVDLSLTKCGSF 246 (335)
Q Consensus 167 ~~~~~g~~vlq~~l~~~~~~~~~~l~~~l~~~~~~l~~d~~G~~viq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~gS~ 246 (335)
++|+|||+|+|++++.+.++++..++++|..++..|+.|+|||||||++++++++..+..|++.+.+++.+++.+||+|+
T Consensus 332 s~~~YGCRVIQr~lE~c~~~~~~~i~~ei~~~~~~L~~dQygNYVIQHVie~g~~~~~~~I~~~l~~~ll~~Sq~KfASn 411 (503)
T KOG1488|consen 332 STHKYGCRVIQRILEHCSEDQKQPLMEEIIRNCDQLAQDQYGNYVIQHVIEHGSPYRDTIIIKCLLGNLLSMSQHKFASN 411 (503)
T ss_pred eccCcccHHHHHHhhcCChHhhhHHHHHHHHHHHHHHhhhhhhHHHHHHHhcCChhhhhhHHHHHHhhHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcCCcH--HHHHHHHhC-----hhhHHhhhcCcchhHHHHHHHhhccCcCcHHHHHHHHHHHHHHHHhhhcCCC
Q 035754 247 VVQKCLKYQNAV--HYIIEELLN-----SDQILQVANDKYGNYVIQTALAETMRQDRLSVHQRLVTKLQQHLAALRVMKY 319 (335)
Q Consensus 247 vve~~l~~~~~~--~~i~~~l~~-----~~~~~~l~~~~~g~~Viq~~l~~~~~~~~~~~~~~l~~~l~~~~~~L~~~~~ 319 (335)
|||+|+..++.. ..|++|+++ ++-+..|+.|+|||||||++++.+.+ .+++.|..++++|+..|...+|
T Consensus 412 VVEk~~~~a~~~~r~~i~~Ei~~~~~~~~~~L~~mmkdQYgNYVVQkmi~~~~~----~q~~~i~~rI~~h~~~Lrk~sy 487 (503)
T KOG1488|consen 412 VVEKAFLFAPPLLRALIMNEIFPGYVEHPDALDIMMKDQYGNYVVQKMIDICGP----EQRELIKSRVKPHASRLRKFSY 487 (503)
T ss_pred HHHHHHhhCCHHHHHHHHHHhcCCccCCccHHHHHHHHhhhhhHHHHHHHhcCH----HHHHHHHHHHHHHHHHHccCcc
Confidence 999999999988 999999998 36899999999999999999999988 8999999999999999999999
Q ss_pred hHHHHHHHHhhC
Q 035754 320 GSNVYKWTTASH 331 (335)
Q Consensus 320 gs~v~~~l~~~~ 331 (335)
|+||+.++.+..
T Consensus 488 GKhIia~lek~~ 499 (503)
T KOG1488|consen 488 GKHIIAKLEKLR 499 (503)
T ss_pred HHHHHHHHHHhc
Confidence 999999998864
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=8.2e-60 Score=427.49 Aligned_cols=308 Identities=31% Similarity=0.457 Sum_probs=298.4
Q ss_pred CcchhhhccCchhcHHHHHhhcCCCHHHHHHHHHHHHhhHHhhccCccchHHHHHHhhhcCHHHHHHHHHHHhcccchhh
Q 035754 11 NHDLFSLAQDQEGSQYLQENLSSGDSRILDKLFWVVSGFTFELMSGQYGRFVFGKFIESCNESQLALIILKITFQDQLFL 90 (335)
Q Consensus 11 ~g~~~~la~~~~~s~~lq~~l~~~~~e~~~~i~~e~~~~~~~L~~~~~gs~v~q~ll~~~~~~~~~~i~~~l~~~~~~~~ 90 (335)
.|++.++|+|++|||++|++++.+++++++.|++++.+++.+|+.|+|||||+|+++++++++++..|++.+. +++.
T Consensus 9 ~~~~~~l~~~~~gsr~lQ~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~g~~vvq~~l~~~~~~~~~~i~~~~~---~~~~ 85 (322)
T cd07920 9 AGHIVEFAKDQHGSRFLQQKLEEATPEEKELIFDEILPHVVELMVDPFGNYVIQKLFEHGTEEQRLQLLEKIL---GHVV 85 (322)
T ss_pred CcchhhccCCchhhHHHHHHhccCCHHHHHHHHHHHHHhHHHHhcCccccHHHHHHHHhCCHHHHHHHHHHHH---HHHH
Confidence 3999999999999999999999999999999999999999999999999999999999999999999999999 9999
Q ss_pred hhhccccCcHHHHHHHhhhcCChhHHHHHHHHHHHhhhhhhcCCCccHHHHHHhhcCCcchhHHHHHHHHHhHHHhhcCC
Q 035754 91 LASVDKFGSSSVKKLIKVVAHLPPLLYHVMSALKRLFKFLMMTKPGSSVILQCLEPSYNHKNDFIYQAALEHCLYLACHE 170 (335)
Q Consensus 91 ~l~~~~~gs~vlq~ll~~~~~~~~~~~~i~~~l~~~~~~l~~d~~g~~vvq~~l~~~~~~~~~~l~~~~~~~~~~l~~~~ 170 (335)
+++.|+|||+++|++++. +. +++...+.+++.+++..|+.|++||||+|++++.++++.++.+++.+.+++..++.|+
T Consensus 86 ~l~~~~~g~~vlqkll~~-~~-~~~~~~i~~~l~~~~~~L~~d~~gn~Vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~ 163 (322)
T cd07920 86 RLSLDMYGCRVIQKLLES-IS-EEQISLLVKELRGHVVELVKDQNGNHVIQKCIEKFPPEDLQFIIDAFKGNCVALSTHP 163 (322)
T ss_pred HHcccchhHHHHHHHHHh-cC-HHHHHHHHHHHHHCHHHHhhcccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHcCc
Confidence 999999999999999998 54 7788888888999999999999999999999999999999999999999999999999
Q ss_pred CccHHHHHHHhccChHHHHHHHHHHHHhHHhhhcCCChhHHHHHhhccCChhhHHHHHHHHHHhHHHhccCcchhHHHHH
Q 035754 171 QGCINLNNFIDNMKGSRRKQILHLISVNAASLSRHRSGNYVVQHVLSLEDPFLIDAICFALRGHYVDLSLTKCGSFVVQK 250 (335)
Q Consensus 171 ~g~~vlq~~l~~~~~~~~~~l~~~l~~~~~~l~~d~~G~~viq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~gS~vve~ 250 (335)
+||+++|++++.++++++..+++++.+++..|+.|++||||+|++++.++++.+..+++.+.+++.++++++|||+|+|+
T Consensus 164 ~G~~vvq~~l~~~~~~~~~~l~~~l~~~~~~L~~d~~Gn~vvq~~l~~~~~~~~~~i~~~l~~~~~~l~~~k~Gs~Vve~ 243 (322)
T cd07920 164 YGCRVIQRCLEHCSEEQREPLLEEILEHALELVQDQFGNYVVQHVLELGDPDDTSRIIEKLLGNIVQLSCHKFASNVVEK 243 (322)
T ss_pred cccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHhcCCHHHHHHHHHHHHHHHHHHHcCcchHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhcCCcH--HHHHHHHhCh----hhHHhhhcCcchhHHHHHHHhhccCcCcHHHHHHHHHHHHHHHHhhhcCCChHHHH
Q 035754 251 CLKYQNAV--HYIIEELLNS----DQILQVANDKYGNYVIQTALAETMRQDRLSVHQRLVTKLQQHLAALRVMKYGSNVY 324 (335)
Q Consensus 251 ~l~~~~~~--~~i~~~l~~~----~~~~~l~~~~~g~~Viq~~l~~~~~~~~~~~~~~l~~~l~~~~~~L~~~~~gs~v~ 324 (335)
|++.+++. +.++++++.. +++.+|++|+|||||||++|+.+++ ..++.+++.|.+++.+|+.++|||+|+
T Consensus 244 ~l~~~~~~~~~~ii~~l~~~~~~~~~l~~l~~d~~Gn~Viq~~l~~~~~----~~~~~i~~~l~~~~~~L~~~~~G~~v~ 319 (322)
T cd07920 244 CLKHASKEERELIIDEILASGNETSALDTLMKDQYGNYVIQTALDVAKE----EQRELLVEAIRPHLPSLRKSPYGKHIL 319 (322)
T ss_pred HHHHCCHHHHHHHHHHHhcCCCchhHHHHHhCCCcccHHHHHHHHhCCH----HHHHHHHHHHHHHHHHHcCCCcHHHHH
Confidence 99999987 8899999873 4999999999999999999999997 899999999999999999999999999
Q ss_pred HHH
Q 035754 325 KWT 327 (335)
Q Consensus 325 ~~l 327 (335)
++|
T Consensus 320 ~~~ 322 (322)
T cd07920 320 AKL 322 (322)
T ss_pred HhC
Confidence 985
No 3
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.3e-51 Score=377.54 Aligned_cols=317 Identities=36% Similarity=0.509 Sum_probs=304.3
Q ss_pred cCcchhhhccCchhcHHHHHhhcCCCHHHHHHHHHHHHhhHHhhccCccchHHHHHHhhhcCHHHHHHHHHHHhcccchh
Q 035754 10 TNHDLFSLAQDQEGSQYLQENLSSGDSRILDKLFWVVSGFTFELMSGQYGRFVFGKFIESCNESQLALIILKITFQDQLF 89 (335)
Q Consensus 10 ~~g~~~~la~~~~~s~~lq~~l~~~~~e~~~~i~~e~~~~~~~L~~~~~gs~v~q~ll~~~~~~~~~~i~~~l~~~~~~~ 89 (335)
.+|.+..+|+|++||+++|+.++.++......|+.++..+..+|+.|+||++++|++++.|+.+++..|+..+..+++.+
T Consensus 215 ~~~~~~~~akd~~gc~~lq~~~~~~~~~~~~~if~~~~~~~~~Lm~d~fGny~vqkl~~~~~~eq~~~i~~~lts~p~~f 294 (536)
T KOG2049|consen 215 IQGSINLIAKDQHGCRLLQKLLSEGTKVSILKIFLETIQDVPELMEDPFGNYLVQKLLEVCDEEQLTKIVSLLTSDPRLF 294 (536)
T ss_pred cchhhhhhcccccCCcccccCcccCccccHHHHHHHHHHHHHHHHhccchhHHHHHHHHhhCHHHHHHHHHHHhcCccce
Confidence 34899999999999999999999999999999999999999999999999999999999999999999999999889999
Q ss_pred hhhhccccCcHHHHHHHhhhcCChhHHHHHHHHHHHhhhhhhcCCCccHHHHHHhhcCCcchhHHHHHHHHHhHHHhhcC
Q 035754 90 LLASVDKFGSSSVKKLIKVVAHLPPLLYHVMSALKRLFKFLMMTKPGSSVILQCLEPSYNHKNDFIYQAALEHCLYLACH 169 (335)
Q Consensus 90 ~~l~~~~~gs~vlq~ll~~~~~~~~~~~~i~~~l~~~~~~l~~d~~g~~vvq~~l~~~~~~~~~~l~~~~~~~~~~l~~~ 169 (335)
..++.+.||++++|++++. ....++...+.+++.+.+..|++|.+|+||+|+|+...+++..+.+++.+..++..+|+|
T Consensus 295 v~i~~N~~GTr~iQkl~~~-~~~~dqI~~~~~ai~~~fl~L~~D~~g~~Viq~cl~~f~~~~~~~l~e~i~~~c~~iA~~ 373 (536)
T KOG2049|consen 295 VEICTNMYGTRAVQKLLGK-SDSVDQISLFLDAIKPNFLHLIKDKNGNHVIQRCLRVFSKEKNEFLYEAILRYCLDLATD 373 (536)
T ss_pred eEeeecCchhHHHHHHHhc-cccHHHHHHHHHHHHhhhHHhhhhcchhHHHHHHHHhcCchhhhHHHHHHHHHHHHHHHh
Confidence 9999999999999999999 888889999999999999999999999999999999999999999999999999999999
Q ss_pred CCccHHHHHHHhccChHHHHHHHHHHHHhHHhhhcCCChhHHHHHhhccCChhhHHHHHHHHHHhHHHhccCcchhHHHH
Q 035754 170 EQGCINLNNFIDNMKGSRRKQILHLISVNAASLSRHRSGNYVVQHVLSLEDPFLIDAICFALRGHYVDLSLTKCGSFVVQ 249 (335)
Q Consensus 170 ~~g~~vlq~~l~~~~~~~~~~l~~~l~~~~~~l~~d~~G~~viq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~gS~vve 249 (335)
++||.|+|+||....++++..+++++..+...|+.|+|||||+|++++..++.....|++.|.|++.+||.+||||+|||
T Consensus 374 ~hGCcvLq~cl~~~~~~~rd~Lv~~i~~naL~Ls~d~~GNyvVQyvl~L~~~~~t~~i~~~L~g~~veLS~qKfgS~vVE 453 (536)
T KOG2049|consen 374 QHGCCVLQKCLDYSRGEQRDRLVEEISRNALLLSNDPYGNYVVQYVLELNDPSCTVNIAEKLRGHYVELSFQKFGSHVVE 453 (536)
T ss_pred ccccchhHHHhcchhHHHHHHHHHHHHHHhHhhhcCccccchhhhhhhhcCcchHHHHHHhhhhHHHHHHHHhhccHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhcCCcH-HHHHHHHhChhhHHhhhcCcchhHHHHHHHhhccCcCcHHHHHHHHHHHHHHHHhhhcCCChHHHHHHH
Q 035754 250 KCLKYQNAV-HYIIEELLNSDQILQVANDKYGNYVIQTALAETMRQDRLSVHQRLVTKLQQHLAALRVMKYGSNVYKWT 327 (335)
Q Consensus 250 ~~l~~~~~~-~~i~~~l~~~~~~~~l~~~~~g~~Viq~~l~~~~~~~~~~~~~~l~~~l~~~~~~L~~~~~gs~v~~~l 327 (335)
+||+..+.. ..++.||++-+++.+|+.|+|||||||++|......++...+..++.++++.+..|+.+++|..+..+.
T Consensus 454 k~L~~~~~~~~~iV~ell~~~~~~~Ll~D~ygNyViq~AL~vtk~~~~~~~~~~lv~~~~~~~~~lr~~p~~~~~~~~~ 532 (536)
T KOG2049|consen 454 KLLKVRESSRAQIVLELLSCDELDRLLRDPYGNYVIQTALRVTKVKLREDLFGLLVQKLMPRIRLLRNNPGGNIALIKD 532 (536)
T ss_pred HHHhcCcchhhHHHHHHHccccHHHHhhCccchHHHHHHHHHhhhcccchhhHHHHHHHhhhhHHhhcCcccceeeehh
Confidence 999999999 999999998779999999999999999999998842333789999999999999999999999876654
No 4
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.9e-47 Score=366.21 Aligned_cols=308 Identities=27% Similarity=0.409 Sum_probs=295.2
Q ss_pred hccCchhcHHHHHhhcCCCHHHHHHHHHHHHhhHHhhccCccchHHHHHHhhhcCHHHHHHHHHHHhcccchhhhhhccc
Q 035754 17 LAQDQEGSQYLQENLSSGDSRILDKLFWVVSGFTFELMSGQYGRFVFGKFIESCNESQLALIILKITFQDQLFLLASVDK 96 (335)
Q Consensus 17 la~~~~~s~~lq~~l~~~~~e~~~~i~~e~~~~~~~L~~~~~gs~v~q~ll~~~~~~~~~~i~~~l~~~~~~~~~l~~~~ 96 (335)
.++||+|||.||+.|+.-+.+..+.++.++.+...+|+.|.|||||+|++++++++.++..++..+. +++..++.|+
T Consensus 446 ~~~Dq~g~r~LQk~Lds~s~~~~~~~~~e~~d~~~eLs~d~fGNyliQK~fe~~s~~q~~~ml~~~~---~~~~~ls~~~ 522 (777)
T COG5099 446 SCKDQHGSRFLQKLLDSNSSPEIEVIFNEILDQLVELSSDYFGNYLIQKLFEYGSEIQKSIMLSKSS---KHLVSLSVHK 522 (777)
T ss_pred ccCCcHHHHHHHHHhcccchHHHHHHHHHHhhhhHHHHHhhhcchhhHHHHHhccHHHHHHHHHHhh---hhHHHhhccc
Confidence 3699999999999999988999999999999999999999999999999999999999999999999 9999999999
Q ss_pred cCcHHHHHHHhhhcCChhHHHHHHHHHHHhhhhhhcCCCccHHHHHHhhcCCcchhHHHHHHHHHhHHHhhcCCCccHHH
Q 035754 97 FGSSSVKKLIKVVAHLPPLLYHVMSALKRLFKFLMMTKPGSSVILQCLEPSYNHKNDFIYQAALEHCLYLACHEQGCINL 176 (335)
Q Consensus 97 ~gs~vlq~ll~~~~~~~~~~~~i~~~l~~~~~~l~~d~~g~~vvq~~l~~~~~~~~~~l~~~~~~~~~~l~~~~~g~~vl 176 (335)
||+||+||+++. +.++++...+.+++.+.+..+++|.+||||+|+|++..+.+....|++.+.++++++++|+|||+|+
T Consensus 523 ~Gtrv~QK~id~-~~t~~qi~~lv~~l~~~~~~li~dqngNHviqKci~~~~~~~~~fif~~~~~~~~~is~~r~Gs~vv 601 (777)
T COG5099 523 YGTRVLQKAIDI-VSTDIQISLLVEELRPYCLQLIKDQNGNHVIQKCIEKFNKEKNQFIFDSINENLYDLSTHRYGSRVV 601 (777)
T ss_pred cccHHHHHHHhc-cCchhhHHHHHHHhhhhhHHHHHhccCCHHHHHHHHhcCccccchHHHHHHhhhHhhhccccccHHH
Confidence 999999999999 9899999888999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhccChHHHHHHHHHHHHhHHhhhcCCChhHHHHHhhccCChhhHHHHHHHHHH-hHHHhccCcchhHHHHHHHhcC
Q 035754 177 NNFIDNMKGSRRKQILHLISVNAASLSRHRSGNYVVQHVLSLEDPFLIDAICFALRG-HYVDLSLTKCGSFVVQKCLKYQ 255 (335)
Q Consensus 177 q~~l~~~~~~~~~~l~~~l~~~~~~l~~d~~G~~viq~~l~~~~~~~~~~i~~~l~~-~~~~l~~~~~gS~vve~~l~~~ 255 (335)
|+|++.+..+....++++|..+...|+.|+|||||||++|+.+.+..++.++..+.. ++.+++++++||.|||+|++.+
T Consensus 602 q~~le~~~~~~~~~~~~~Ii~~~~~L~~dq~GNyvvq~il~~g~~~~k~~i~~~~l~~~v~elS~~kfaSnvVeK~i~~~ 681 (777)
T COG5099 602 QRCLENCNSEDKENLVEEIISNSKYLSQDQYGNYVVQHILDNGAEPNKERIIIKLLSKRVVELSTHKFASNVVEKCIKYA 681 (777)
T ss_pred HHHHHhccHhHHHHHHHHHHHHHHhhccCCcchhhhhHHhhcCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 999999999999999999999999999999999999999999999999999998888 9999999999999999999999
Q ss_pred CcH---HHHHHHHhC-----hhhHHhhhcCcchhHHHHHHHhhccCcCcHHHHHHHHHHHHHHHHhhhcCCChHHHHHHH
Q 035754 256 NAV---HYIIEELLN-----SDQILQVANDKYGNYVIQTALAETMRQDRLSVHQRLVTKLQQHLAALRVMKYGSNVYKWT 327 (335)
Q Consensus 256 ~~~---~~i~~~l~~-----~~~~~~l~~~~~g~~Viq~~l~~~~~~~~~~~~~~l~~~l~~~~~~L~~~~~gs~v~~~l 327 (335)
++. .+|+.++.. +.-+..|+.|.|||||+|+++..... ..+..+.+.+.+.+..|..++||.++..++
T Consensus 682 ~~~~~~~ril~~~~~~~~~~~~~l~~i~~d~y~Nyv~q~~~~~s~~----~~~~l~~~~i~~~~~~l~~s~~g~~i~~~l 757 (777)
T COG5099 682 SDSFKRSRILNELTNRGIEKPGFLMLILDDQYANYVIQYLLDVSPE----IQRSLLARAIKKVIPSLKKSMYGQHILALL 757 (777)
T ss_pred CcchHHHHHHHHHhcccccCChHHHHHHHhhhcchHHHHHHhhCch----hhHHHHHHHHHHHHHHHhcCCccHHHHHHH
Confidence 988 488888876 33489999999999999999999999 899999999999999999999999999999
Q ss_pred HhhCC
Q 035754 328 TASHP 332 (335)
Q Consensus 328 ~~~~~ 332 (335)
.+.+.
T Consensus 758 e~~~~ 762 (777)
T COG5099 758 EKVGS 762 (777)
T ss_pred HHHhc
Confidence 88764
No 5
>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=1.2e-43 Score=321.65 Aligned_cols=277 Identities=20% Similarity=0.261 Sum_probs=264.7
Q ss_pred HHH-hhHHhhccCccchHHHHHHhhhcCHHHHHHHHHHHhcccchhhhhhccccCcHHHHHHHhhhcCChhHHHHHHHHH
Q 035754 45 VVS-GFTFELMSGQYGRFVFGKFIESCNESQLALIILKITFQDQLFLLASVDKFGSSSVKKLIKVVAHLPPLLYHVMSAL 123 (335)
Q Consensus 45 e~~-~~~~~L~~~~~gs~v~q~ll~~~~~~~~~~i~~~l~~~~~~~~~l~~~~~gs~vlq~ll~~~~~~~~~~~~i~~~l 123 (335)
+.. +++.+++.|++||+++|++++.++++++..|+..+. +++.+++.|+||++|+|++++. +++++...+.+.+
T Consensus 6 ~~~~~~~~~l~~~~~gsr~lQ~~l~~~~~~~~~~i~~~l~---~~~~~l~~~~~g~~vvq~~l~~--~~~~~~~~i~~~~ 80 (322)
T cd07920 6 DIKAGHIVEFAKDQHGSRFLQQKLEEATPEEKELIFDEIL---PHVVELMVDPFGNYVIQKLFEH--GTEEQRLQLLEKI 80 (322)
T ss_pred hccCcchhhccCCchhhHHHHHHhccCCHHHHHHHHHHHH---HhHHHHhcCccccHHHHHHHHh--CCHHHHHHHHHHH
Confidence 344 899999999999999999999999999999999999 9999999999999999999998 5678888888889
Q ss_pred HHhhhhhhcCCCccHHHHHHhhcCCcchhHHHHHHHHHhHHHhhcCCCccHHHHHHHhccChHHHHHHHHHHHHhHHhhh
Q 035754 124 KRLFKFLMMTKPGSSVILQCLEPSYNHKNDFIYQAALEHCLYLACHEQGCINLNNFIDNMKGSRRKQILHLISVNAASLS 203 (335)
Q Consensus 124 ~~~~~~l~~d~~g~~vvq~~l~~~~~~~~~~l~~~~~~~~~~l~~~~~g~~vlq~~l~~~~~~~~~~l~~~l~~~~~~l~ 203 (335)
.+++..++.|++|++++|++++..+++++..+++.+.+++..|+.|++|++|+|++++.++++++..+++.+.+++..++
T Consensus 81 ~~~~~~l~~~~~g~~vlqkll~~~~~~~~~~i~~~l~~~~~~L~~d~~gn~Vvq~~l~~~~~~~~~~i~~~l~~~~~~l~ 160 (322)
T cd07920 81 LGHVVRLSLDMYGCRVIQKLLESISEEQISLLVKELRGHVVELVKDQNGNHVIQKCIEKFPPEDLQFIIDAFKGNCVALS 160 (322)
T ss_pred HHHHHHHcccchhHHHHHHHHHhcCHHHHHHHHHHHHHCHHHHhhcccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCChhHHHHHhhccCChhhHHHHHHHHHHhHHHhccCcchhHHHHHHHhcCCcH--HHHHHHHhChhhHHhhhcCcchh
Q 035754 204 RHRSGNYVVQHVLSLEDPFLIDAICFALRGHYVDLSLTKCGSFVVQKCLKYQNAV--HYIIEELLNSDQILQVANDKYGN 281 (335)
Q Consensus 204 ~d~~G~~viq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~gS~vve~~l~~~~~~--~~i~~~l~~~~~~~~l~~~~~g~ 281 (335)
.|++|++++|++++..+++.++.+++.+.+++..|+.|+||++|+|++++.+++. +.+++.+.+ ++..|+.|+||+
T Consensus 161 ~~~~G~~vvq~~l~~~~~~~~~~l~~~l~~~~~~L~~d~~Gn~vvq~~l~~~~~~~~~~i~~~l~~--~~~~l~~~k~Gs 238 (322)
T cd07920 161 THPYGCRVIQRCLEHCSEEQREPLLEEILEHALELVQDQFGNYVVQHVLELGDPDDTSRIIEKLLG--NIVQLSCHKFAS 238 (322)
T ss_pred cCccccHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHhcCCHHHHHHHHHHHHH--HHHHHHcCcchH
Confidence 9999999999999999999999999999999999999999999999999999877 889999997 999999999999
Q ss_pred HHHHHHHhhccCcCcHHHHHHHHHHHH------HHHHhhhcCCChHHHHHHHHhhCC
Q 035754 282 YVIQTALAETMRQDRLSVHQRLVTKLQ------QHLAALRVMKYGSNVYKWTTASHP 332 (335)
Q Consensus 282 ~Viq~~l~~~~~~~~~~~~~~l~~~l~------~~~~~L~~~~~gs~v~~~l~~~~~ 332 (335)
+|++++++.+++ ..++.+++++. +++.+|+.++||++|+++++...+
T Consensus 239 ~Vve~~l~~~~~----~~~~~ii~~l~~~~~~~~~l~~l~~d~~Gn~Viq~~l~~~~ 291 (322)
T cd07920 239 NVVEKCLKHASK----EERELIIDEILASGNETSALDTLMKDQYGNYVIQTALDVAK 291 (322)
T ss_pred HHHHHHHHHCCH----HHHHHHHHHHhcCCCchhHHHHHhCCCcccHHHHHHHHhCC
Confidence 999999999998 89999999994 589999999999999999998765
No 6
>KOG1488 consensus Translational repressor Pumilio/PUF3 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.1e-41 Score=310.99 Aligned_cols=241 Identities=21% Similarity=0.250 Sum_probs=231.3
Q ss_pred cchhhhhhccccCcHHHHHHHhhhcCChhHHHHHHHHHHHhhhhhhcCCCccHHHHHHhhcCCcchhHHHHHHHHHhHHH
Q 035754 86 DQLFLLASVDKFGSSSVKKLIKVVAHLPPLLYHVMSALKRLFKFLMMTKPGSSVILQCLEPSYNHKNDFIYQAALEHCLY 165 (335)
Q Consensus 86 ~~~~~~l~~~~~gs~vlq~ll~~~~~~~~~~~~i~~~l~~~~~~l~~d~~g~~vvq~~l~~~~~~~~~~l~~~~~~~~~~ 165 (335)
.+++.+++.|++||+.+|.-++. ....+....+++.+.+.+.+||.|.+||||||+++++.+.+++..+...+.+++..
T Consensus 178 ~~~~v~f~~Dq~GsrfiQqkl~~-~~~~~ek~~if~ei~~~~~~L~~dvFGNyvIQkffE~gt~~q~~~l~~~~~g~v~~ 256 (503)
T KOG1488|consen 178 PGHLVEFAKDQHGSRFIQQKLET-ASDNEEKQAVFDEILPPALELMTDVFGNYVIQKFFEHGTEDQRNLLHSQIKGHVLE 256 (503)
T ss_pred CCCceeecCCcccchHHHHhccc-cccHHHHHHHHHHHHHHHHHHHHHHhcCchhhhhhccCCHHHHHHHHHHHHhhhhh
Confidence 38899999999999999999998 55547788888889999999999999999999999999999999999999999999
Q ss_pred hhcCCCccHHHHHHHhccChHHHHHHHHHHHHhHHhhhcCCChhHHHHHhhccCChhhHHHHHHHHHH--hHHHhccCcc
Q 035754 166 LACHEQGCINLNNFIDNMKGSRRKQILHLISVNAASLSRHRSGNYVVQHVLSLEDPFLIDAICFALRG--HYVDLSLTKC 243 (335)
Q Consensus 166 l~~~~~g~~vlq~~l~~~~~~~~~~l~~~l~~~~~~l~~d~~G~~viq~~l~~~~~~~~~~i~~~l~~--~~~~l~~~~~ 243 (335)
||.++|||+|+|+.++..+.+....|+.+|.+++..+++|++||||||++++..+++....|++.|.+ ++..++.|||
T Consensus 257 Lsld~ygCRVIQkale~id~~~~~~Li~ELd~~vl~~v~DQngnHViQK~ie~~p~~~~~Fiv~~f~~~~~~~~ls~~~Y 336 (503)
T KOG1488|consen 257 LSLDMYGCRVIQKALEKVDVSLQIQLIDELDGHLLKCVKDQNGNHVIQKCIETLPPDAWQFIVDFFSGDDNLLELSTHKY 336 (503)
T ss_pred hhcccccchhHHHHHHhcCHHHHHHHHHHHHhhHHHHHhhcccceehhhhhhccChHHHHHHHHHhcCCCceeEeeccCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999 9999999999
Q ss_pred hhHHHHHHHhcCCcH--HHHHHHHhChhhHHhhhcCcchhHHHHHHHhhccCcCcHHHHHHHHHHHHHHHHhhhcCCChH
Q 035754 244 GSFVVQKCLKYQNAV--HYIIEELLNSDQILQVANDKYGNYVIQTALAETMRQDRLSVHQRLVTKLQQHLAALRVMKYGS 321 (335)
Q Consensus 244 gS~vve~~l~~~~~~--~~i~~~l~~~~~~~~l~~~~~g~~Viq~~l~~~~~~~~~~~~~~l~~~l~~~~~~L~~~~~gs 321 (335)
||+|+|++++.+.+. ..++++|.. ++.+|+.|+|||||||++++.+++ ..+..|.+.|.+++..++.++|+|
T Consensus 337 GCRVIQr~lE~c~~~~~~~i~~ei~~--~~~~L~~dQygNYVIQHVie~g~~----~~~~~I~~~l~~~ll~~Sq~KfAS 410 (503)
T KOG1488|consen 337 GCRVIQRILEHCSEDQKQPLMEEIIR--NCDQLAQDQYGNYVIQHVIEHGSP----YRDTIIIKCLLGNLLSMSQHKFAS 410 (503)
T ss_pred ccHHHHHHhhcCChHhhhHHHHHHHH--HHHHHHhhhhhhHHHHHHHhcCCh----hhhhhHHHHHHhhHHHHHHHHHHH
Confidence 999999999999999 669999999 999999999999999999999999 899999999999999999999999
Q ss_pred HHHHHHHhhCCC
Q 035754 322 NVYKWTTASHPC 333 (335)
Q Consensus 322 ~v~~~l~~~~~~ 333 (335)
+|+++|...+|.
T Consensus 411 nVVEk~~~~a~~ 422 (503)
T KOG1488|consen 411 NVVEKAFLFAPP 422 (503)
T ss_pred HHHHHHHhhCCH
Confidence 999999998774
No 7
>COG5099 RNA-binding protein of the Puf family, translational repressor [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.8e-34 Score=275.79 Aligned_cols=233 Identities=22% Similarity=0.302 Sum_probs=219.8
Q ss_pred hccccCcHHHHHHHhhhcCChhHHHHHHHHHHHhhhhhhcCCCccHHHHHHhhcCCcchhHHHHHHHHHhHHHhhcCCCc
Q 035754 93 SVDKFGSSSVKKLIKVVAHLPPLLYHVMSALKRLFKFLMMTKPGSSVILQCLEPSYNHKNDFIYQAALEHCLYLACHEQG 172 (335)
Q Consensus 93 ~~~~~gs~vlq~ll~~~~~~~~~~~~i~~~l~~~~~~l~~d~~g~~vvq~~l~~~~~~~~~~l~~~~~~~~~~l~~~~~g 172 (335)
+.|++|||.||+.++. ...+..+.+..++.+...+||.|.+||||+|++++.++..++..++..+.+++..++.|++|
T Consensus 447 ~~Dq~g~r~LQk~Lds--~s~~~~~~~~~e~~d~~~eLs~d~fGNyliQK~fe~~s~~q~~~ml~~~~~~~~~ls~~~~G 524 (777)
T COG5099 447 CKDQHGSRFLQKLLDS--NSSPEIEVIFNEILDQLVELSSDYFGNYLIQKLFEYGSEIQKSIMLSKSSKHLVSLSVHKYG 524 (777)
T ss_pred cCCcHHHHHHHHHhcc--cchHHHHHHHHHHhhhhHHHHHhhhcchhhHHHHHhccHHHHHHHHHHhhhhHHHhhccccc
Confidence 6999999999999998 55566777777799999999999999999999999999999999999999999999999999
Q ss_pred cHHHHHHHhccChHH-HHHHHHHHHHhHHhhhcCCChhHHHHHhhccCChhhHHHHHHHHHHhHHHhccCcchhHHHHHH
Q 035754 173 CINLNNFIDNMKGSR-RKQILHLISVNAASLSRHRSGNYVVQHVLSLEDPFLIDAICFALRGHYVDLSLTKCGSFVVQKC 251 (335)
Q Consensus 173 ~~vlq~~l~~~~~~~-~~~l~~~l~~~~~~l~~d~~G~~viq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~gS~vve~~ 251 (335)
|+++|++++....+. ...++.++.+++..+++|++||+|+|++++...++....|++.+.+++.+++.++|||+|+|+|
T Consensus 525 trv~QK~id~~~t~~qi~~lv~~l~~~~~~li~dqngNHviqKci~~~~~~~~~fif~~~~~~~~~is~~r~Gs~vvq~~ 604 (777)
T COG5099 525 TRVLQKAIDIVSTDIQISLLVEELRPYCLQLIKDQNGNHVIQKCIEKFNKEKNQFIFDSINENLYDLSTHRYGSRVVQRC 604 (777)
T ss_pred cHHHHHHHhccCchhhHHHHHHHhhhhhHHHHHhccCCHHHHHHHHhcCccccchHHHHHHhhhHhhhccccccHHHHHH
Confidence 999999999987655 5589999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhcCCcH--HHHHHHHhChhhHHhhhcCcchhHHHHHHHhhccCcCcHHHHHHHHHHHHH-HHHhhhcCCChHHHHHHHH
Q 035754 252 LKYQNAV--HYIIEELLNSDQILQVANDKYGNYVIQTALAETMRQDRLSVHQRLVTKLQQ-HLAALRVMKYGSNVYKWTT 328 (335)
Q Consensus 252 l~~~~~~--~~i~~~l~~~~~~~~l~~~~~g~~Viq~~l~~~~~~~~~~~~~~l~~~l~~-~~~~L~~~~~gs~v~~~l~ 328 (335)
++.+... +.++++++. +...|++|+|||||||++++.+.. ..+++++..+.. ++.+|+.++||+.|++||.
T Consensus 605 le~~~~~~~~~~~~~Ii~--~~~~L~~dq~GNyvvq~il~~g~~----~~k~~i~~~~l~~~v~elS~~kfaSnvVeK~i 678 (777)
T COG5099 605 LENCNSEDKENLVEEIIS--NSKYLSQDQYGNYVVQHILDNGAE----PNKERIIIKLLSKRVVELSTHKFASNVVEKCI 678 (777)
T ss_pred HHhccHhHHHHHHHHHHH--HHHhhccCCcchhhhhHHhhcCCC----cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999998 789999999 999999999999999999999999 788999998888 9999999999999999999
Q ss_pred hhCCC
Q 035754 329 ASHPC 333 (335)
Q Consensus 329 ~~~~~ 333 (335)
++.+.
T Consensus 679 ~~~~~ 683 (777)
T COG5099 679 KYASD 683 (777)
T ss_pred hcCCc
Confidence 98764
No 8
>KOG2049 consensus Translational repressor MPT5/PUF4 and related RNA-binding proteins (Puf superfamily) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6e-34 Score=262.60 Aligned_cols=239 Identities=22% Similarity=0.263 Sum_probs=225.2
Q ss_pred chhhhhhccccCcHHHHHHHhhhcCChhHHHHHHHHHHHhhhhhhcCCCccHHHHHHhhcCCcchhHHHHHHHHH---hH
Q 035754 87 QLFLLASVDKFGSSSVKKLIKVVAHLPPLLYHVMSALKRLFKFLMMTKPGSSVILQCLEPSYNHKNDFIYQAALE---HC 163 (335)
Q Consensus 87 ~~~~~l~~~~~gs~vlq~ll~~~~~~~~~~~~i~~~l~~~~~~l~~d~~g~~vvq~~l~~~~~~~~~~l~~~~~~---~~ 163 (335)
+.+..+++|++||+++|+.++. ++......+...+..++.+||.|++|++++|++++.++.+++..|.+.+.. .+
T Consensus 217 ~~~~~~akd~~gc~~lq~~~~~--~~~~~~~~if~~~~~~~~~Lm~d~fGny~vqkl~~~~~~eq~~~i~~~lts~p~~f 294 (536)
T KOG2049|consen 217 GSINLIAKDQHGCRLLQKLLSE--GTKVSILKIFLETIQDVPELMEDPFGNYLVQKLLEVCDEEQLTKIVSLLTSDPRLF 294 (536)
T ss_pred hhhhhhcccccCCcccccCccc--CccccHHHHHHHHHHHHHHHHhccchhHHHHHHHHhhCHHHHHHHHHHHhcCccce
Confidence 7889999999999999999997 666667777777999999999999999999999999999999999999987 48
Q ss_pred HHhhcCCCccHHHHHHHhccC-hHHHHHHHHHHHHhHHhhhcCCChhHHHHHhhccCChhhHHHHHHHHHHhHHHhccCc
Q 035754 164 LYLACHEQGCINLNNFIDNMK-GSRRKQILHLISVNAASLSRHRSGNYVVQHVLSLEDPFLIDAICFALRGHYVDLSLTK 242 (335)
Q Consensus 164 ~~l~~~~~g~~vlq~~l~~~~-~~~~~~l~~~l~~~~~~l~~d~~G~~viq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~ 242 (335)
..++.+.+|++++|++++... .+++..++..+.+.+..|++|.||+||+|.+++..++...+.+++.......++|.++
T Consensus 295 v~i~~N~~GTr~iQkl~~~~~~~dqI~~~~~ai~~~fl~L~~D~~g~~Viq~cl~~f~~~~~~~l~e~i~~~c~~iA~~~ 374 (536)
T KOG2049|consen 295 VEICTNMYGTRAVQKLLGKSDSVDQISLFLDAIKPNFLHLIKDKNGNHVIQRCLRVFSKEKNEFLYEAILRYCLDLATDQ 374 (536)
T ss_pred eEeeecCchhHHHHHHHhccccHHHHHHHHHHHHhhhHHhhhhcchhHHHHHHHHhcCchhhhHHHHHHHHHHHHHHHhc
Confidence 999999999999999999874 5678889999999999999999999999999999999999999999999999999999
Q ss_pred chhHHHHHHHhcCCcH--HHHHHHHhChhhHHhhhcCcchhHHHHHHHhhccCcCcHHHHHHHHHHHHHHHHhhhcCCCh
Q 035754 243 CGSFVVQKCLKYQNAV--HYIIEELLNSDQILQVANDKYGNYVIQTALAETMRQDRLSVHQRLVTKLQQHLAALRVMKYG 320 (335)
Q Consensus 243 ~gS~vve~~l~~~~~~--~~i~~~l~~~~~~~~l~~~~~g~~Viq~~l~~~~~~~~~~~~~~l~~~l~~~~~~L~~~~~g 320 (335)
+|+.|+++|+...... +.+++++.. +...|+.|+|||||+|++++.-+. .....|+..|.|+..+|+..+||
T Consensus 375 hGCcvLq~cl~~~~~~~rd~Lv~~i~~--naL~Ls~d~~GNyvVQyvl~L~~~----~~t~~i~~~L~g~~veLS~qKfg 448 (536)
T KOG2049|consen 375 HGCCVLQKCLDYSRGEQRDRLVEEISR--NALLLSNDPYGNYVVQYVLELNDP----SCTVNIAEKLRGHYVELSFQKFG 448 (536)
T ss_pred cccchhHHHhcchhHHHHHHHHHHHHH--HhHhhhcCccccchhhhhhhhcCc----chHHHHHHhhhhHHHHHHHHhhc
Confidence 9999999999999988 999999999 999999999999999999999998 67899999999999999999999
Q ss_pred HHHHHHHHhhCCC
Q 035754 321 SNVYKWTTASHPC 333 (335)
Q Consensus 321 s~v~~~l~~~~~~ 333 (335)
|+||++|++..|.
T Consensus 449 S~vVEk~L~~~~~ 461 (536)
T KOG2049|consen 449 SHVVEKLLKVRES 461 (536)
T ss_pred cHHHHHHHhcCcc
Confidence 9999999998764
No 9
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.9e-31 Score=241.05 Aligned_cols=312 Identities=19% Similarity=0.246 Sum_probs=243.6
Q ss_pred ccccccCcchhhhccCchhcHHHHHhhcCCCHHHHHHHHHHHHhhHHhhccCccchHHHHHHhhhc--------------
Q 035754 5 AFEHCTNHDLFSLAQDQEGSQYLQENLSSGDSRILDKLFWVVSGFTFELMSGQYGRFVFGKFIESC-------------- 70 (335)
Q Consensus 5 ~~~~~~~g~~~~la~~~~~s~~lq~~l~~~~~e~~~~i~~e~~~~~~~L~~~~~gs~v~q~ll~~~-------------- 70 (335)
.|+|.. |++.++|+++.||..||+++..++..+...++.++.+++..+++|+|||||+|.++...
T Consensus 93 i~ee~~-grel~l~tnqi~Sk~le~l~~f~d~~ql~~ff~~~~g~lr~i~~~r~gshVle~~L~~~a~~vg~e~~~~s~d 171 (650)
T KOG2188|consen 93 IFEEVY-GRELDLATNQIGSKVLEDLLGFSDSRQLCDFFSALNGVLRSIAQHRFGSHVLESALEKLAALVGQEAALLSED 171 (650)
T ss_pred HHHHhc-cceeehhccchhHHHHHHHhccCCchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhCccccccchh
Confidence 577777 99999999999999999999999999999999999999999999999999999999874
Q ss_pred ------------CHHHHHHHHHHHhcccchhh-hhhccccCcHHHHHHHhhhcCCh------------------------
Q 035754 71 ------------NESQLALIILKITFQDQLFL-LASVDKFGSSSVKKLIKVVAHLP------------------------ 113 (335)
Q Consensus 71 ------------~~~~~~~i~~~l~~~~~~~~-~l~~~~~gs~vlq~ll~~~~~~~------------------------ 113 (335)
-++...-+..++. +++. .++.|.+|+||+++++-. +.+.
T Consensus 172 ea~~~ke~p~~t~e~~~~~m~nei~---~~~~~~l~~~~~gshv~rt~~l~-l~s~~~~~~~~~~~~~~~~~~~~~~~~~ 247 (650)
T KOG2188|consen 172 EAAVEKEGPFVTCENLLLLMLNEIS---PHVLKTLMELIFGSHVLRTILLL-LFSMCPIAESEHKLALRKAAHRGMDDWD 247 (650)
T ss_pred hhcccccCcccccchHHHHHHHHhh---HHHHHHHHHHHHhHHHHHHHHHH-HccCcchhhhHHHHHHHHHhhccccchh
Confidence 1133445566777 8887 999999999999998865 3220
Q ss_pred ---------------------------------hHH------------HHHHHHHH------------------------
Q 035754 114 ---------------------------------PLL------------YHVMSALK------------------------ 124 (335)
Q Consensus 114 ---------------------------------~~~------------~~i~~~l~------------------------ 124 (335)
+.. +..+....
T Consensus 248 ~~~~~pqsFp~~l~~~i~~~l~~~~~~s~~~~~~~k~~~vDk~~s~v~q~~i~l~~~~~~~~~~~~~~~lv~~~~~~~e~ 327 (650)
T KOG2188|consen 248 AVTTPPQSFPQRLIVWICTGLSALQDVSESKKRDLKGYEVDKSSSNVLQKAIRLAFDENKNDQFMESPRLVTKFQLFNEK 327 (650)
T ss_pred hhhcChhhccHHHHHHHhhhccccccchhhhhhHHHHHHHHHHHHHHHHHHHHHHhhhhcchhhhhhhhHHHhhhhcccc
Confidence 000 00000000
Q ss_pred --------HhhhhhhcCCCccHHHHHHhhcCCcchhHHHHHHHHHhHHHhhcCCCccHHHHHHHhccC-hHHHHHHHHHH
Q 035754 125 --------RLFKFLMMTKPGSSVILQCLEPSYNHKNDFIYQAALEHCLYLACHEQGCINLNNFIDNMK-GSRRKQILHLI 195 (335)
Q Consensus 125 --------~~~~~l~~d~~g~~vvq~~l~~~~~~~~~~l~~~~~~~~~~l~~~~~g~~vlq~~l~~~~-~~~~~~l~~~l 195 (335)
+....+..|+.|||+++.+++.++++....++..+.+++.+||.|+.++++||+++++.. .++...+++++
T Consensus 328 d~~~~kE~~~~k~~l~d~tgSrllE~Imeva~~~~~~lf~~~f~~rl~~La~~p~aNF~lQrli~h~~~~e~v~~v~eeL 407 (650)
T KOG2188|consen 328 DGLWGKERSFLKELLSDQTGSRLLEVIMEVASESLLSLFYIVFCGRLDELAVHPIANFPLQRLINHLTSLEDVGSVIEEL 407 (650)
T ss_pred CcccccccHHHHHHHhcCcccHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHhCccccchHHHHHHhccCHHHHHHHHHHH
Confidence 013366779999999999999999999988888899999999999999999999999986 78899999999
Q ss_pred HHhHHhhhcCC-----------------------------------------------------------------ChhH
Q 035754 196 SVNAASLSRHR-----------------------------------------------------------------SGNY 210 (335)
Q Consensus 196 ~~~~~~l~~d~-----------------------------------------------------------------~G~~ 210 (335)
.+++..|.... .|+.
T Consensus 408 ~P~~~~LL~~g~~gVv~sLia~~~rl~s~q~~~l~~Li~a~~~~~~~~k~il~~lL~~~~~~g~~~~~~~t~~~h~~ga~ 487 (650)
T KOG2188|consen 408 APKLSSLLEQGNSGVVASLIAASARLGSYQDKMLQQLIQAFHAASESKKNILPCLLFSLTLFGCVGEWFLTEKFHQKGAV 487 (650)
T ss_pred hHHHHHHHHcCCchHhHHHHHHHHhhchhHHHHHHHHHHHHhcCChhhcchHHHHHHHhhhcccccccccHHHHhhchhH
Confidence 88877666522 3455
Q ss_pred HHHHhhccCChh---hHHHHHHHHHHhHHHhccCcchhHHHHHHHhcCC--cH--HHHHHHHhChhhHHhhhcCcchhHH
Q 035754 211 VVQHVLSLEDPF---LIDAICFALRGHYVDLSLTKCGSFVVQKCLKYQN--AV--HYIIEELLNSDQILQVANDKYGNYV 283 (335)
Q Consensus 211 viq~~l~~~~~~---~~~~i~~~l~~~~~~l~~~~~gS~vve~~l~~~~--~~--~~i~~~l~~~~~~~~l~~~~~g~~V 283 (335)
++|.+++...+. ....+.+...+++.+++++++||||||.+++... .. ++++..|-+ .+.+|+.+.+||+|
T Consensus 488 lle~lv~f~k~~i~~litsll~L~~eqi~e~~~~~~~ShlIeavL~S~~l~~~~~~kLi~~l~g--~~~~La~~~~GSrv 565 (650)
T KOG2188|consen 488 LLEELVNFSKTHIQTLITSLLSLSEEQILEMSCNGVGSHLIEAVLASKDLGEKIKEKLINILDG--SFVTLALSTFGSRV 565 (650)
T ss_pred HHHHHHhhchhhhHHHHHHHHhhhHHHHHHHhcCCchHHHHHHHHHhccccHHHHHHHHHHhhc--cchheeecCcccHH
Confidence 555555543331 2233444445678888888888888888888833 33 777777776 88888888888888
Q ss_pred HHHHHhhccCcCcHHHHHHHHHHHHHHHHhhhcCCChHHHHHHH
Q 035754 284 IQTALAETMRQDRLSVHQRLVTKLQQHLAALRVMKYGSNVYKWT 327 (335)
Q Consensus 284 iq~~l~~~~~~~~~~~~~~l~~~l~~~~~~L~~~~~gs~v~~~l 327 (335)
+.++|+.++. .+|++|+.+|.+.-.++..++||++|+.++
T Consensus 566 ~eK~wea~~~----~~k~rIakeL~~~~~~vk~s~~gk~v~~~~ 605 (650)
T KOG2188|consen 566 FEKCWEATDV----LYKERIAKELVGIHNDVKSSKYGKFVMLNW 605 (650)
T ss_pred HHHHHHHhhH----HHHHHHHHHHHhhccccccCcchHHHHHhc
Confidence 8888888887 888888888888888888888888888765
No 10
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=99.97 E-value=1.6e-30 Score=236.00 Aligned_cols=282 Identities=18% Similarity=0.167 Sum_probs=211.1
Q ss_pred cccCcchhhhccCchhcHHHHHhhcCCCHHHHHHHHHHHHhhHHhhccCccchHHHHHHhhhcCHHHHHHHHHHHhcccc
Q 035754 8 HCTNHDLFSLAQDQEGSQYLQENLSSGDSRILDKLFWVVSGFTFELMSGQYGRFVFGKFIESCNESQLALIILKITFQDQ 87 (335)
Q Consensus 8 ~~~~g~~~~la~~~~~s~~lq~~l~~~~~e~~~~i~~e~~~~~~~L~~~~~gs~v~q~ll~~~~~~~~~~i~~~l~~~~~ 87 (335)
.+.+|++.+++..++.||++|++++++++.+|+.||+|+.|.+.+||.++||-|++|+++.++++.++..|+..+. |
T Consensus 160 ~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 160 KLIKGKISKLVFAHDTSRVIQTCVKYGSEAQREQIFEELLPFFVELAKSKYAKFFVQKMLKYGSKAQKAKIINSLR---G 236 (652)
T ss_pred HHHhhhHHHHHHHhhhHHHHHHHHHhcCHHHHHHHHHHHhHHHHHHHHhHHHHHHHHHHHhcCCHHHHHHHHHHHh---h
Confidence 3456999999999999999999999999999999999999999999999999999999999999999999999999 9
Q ss_pred hhhhhhccccCcHHHHHHHhhhcCChhHHHHHHHHHHHhhhhhhcCCCccHHHHHHhhcCCcchhHHHHHHHHHhHHHhh
Q 035754 88 LFLLASVDKFGSSSVKKLIKVVAHLPPLLYHVMSALKRLFKFLMMTKPGSSVILQCLEPSYNHKNDFIYQAALEHCLYLA 167 (335)
Q Consensus 88 ~~~~l~~~~~gs~vlq~ll~~~~~~~~~~~~i~~~l~~~~~~l~~d~~g~~vvq~~l~~~~~~~~~~l~~~~~~~~~~l~ 167 (335)
|++.|+-|+.|+.|++.++.. .++.++...++.++.+....++++.+--++...+.+. ++.+..|...+.+.+..++
T Consensus 237 hv~kLlRH~eaa~Vve~ay~~-~A~l~Qr~~li~EfYG~efqlfK~sn~~Tl~kil~~~--pekk~~I~~~l~~~I~~v~ 313 (652)
T KOG2050|consen 237 HVVKLLRHREAAYVVEYAYND-FATLEQRQYLIQEFYGDEFQLFKDSNDKTLDKILAEA--PEKKASILRHLKAIITPVA 313 (652)
T ss_pred hHHHHHhhhHHHHHHHHHHHh-hccHHHHHHHHHHHhhHHHHHHhccCcccHHHHHHhC--hHhHHHHHHHHHHHhHHHh
Confidence 999999999999999999998 8889999999998999999999985544444433333 5556666555544332221
Q ss_pred cCCCccHHHHHHHhccChHHHHHHHHHHHHhHHhhhcCCChhHHHHHhhccCChhhHHHHHHHHHHhHHHhccCcchhHH
Q 035754 168 CHEQGCINLNNFIDNMKGSRRKQILHLISVNAASLSRHRSGNYVVQHVLSLEDPFLIDAICFALRGHYVDLSLTKCGSFV 247 (335)
Q Consensus 168 ~~~~g~~vlq~~l~~~~~~~~~~l~~~l~~~~~~l~~d~~G~~viq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~gS~v 247 (335)
.- +.....|+.. ++.-.+..++++.+.++++.+.+.+++|.+++.||+|
T Consensus 314 eK---------------g~v~~tivHk----------------~mlEy~~~ade~e~~e~l~ll~elv~e~vHT~dGS~v 362 (652)
T KOG2050|consen 314 EK---------------GSVDHTIVHK----------------LMLEYLTIADEEEKSELLELLKELVPEMVHTRDGSRV 362 (652)
T ss_pred hc---------------chhHHHHHHH----------------HHHHHHHhCCHHHHHHHHHHHHHHHHHHhcCCchHHH
Confidence 10 0011112111 1112234456666677777777777777777777777
Q ss_pred HHHHHhcCCcH--HHHHHHHhChhhHHhhhcCcchhHHHHHHHhhccCcCcHHHHHHHHHHHHHHHHhhhcCCChHHHHH
Q 035754 248 VQKCLKYQNAV--HYIIEELLNSDQILQVANDKYGNYVIQTALAETMRQDRLSVHQRLVTKLQQHLAALRVMKYGSNVYK 325 (335)
Q Consensus 248 ve~~l~~~~~~--~~i~~~l~~~~~~~~l~~~~~g~~Viq~~l~~~~~~~~~~~~~~l~~~l~~~~~~L~~~~~gs~v~~ 325 (335)
...|+..++++ +.|++.+.. ++..+|+|+||+.|+-++|+..++|+ ..++.|+.++.+.+..+..++||++|+.
T Consensus 363 Am~li~~a~aKeRK~IiK~~K~--h~~K~A~~~yGh~vlia~ldc~DDT~--l~kk~i~~e~~~el~~li~Dk~Grrv~l 438 (652)
T KOG2050|consen 363 AMKLIWHATAKERKLIIKNMKE--HVEKIANDEYGHLVLIALLDCTDDTK--LLKKLIYDELKSELKSLISDKYGRRVIL 438 (652)
T ss_pred HHHHHhhCCHHHHHHHHHHHHH--HHHHHHhhccCceehhhhhcccchHH--HHHHHHHHHHHHHHHHHhccchhhhhhh
Confidence 77777777776 666677766 77777777777777777777777642 5666667777777777777777777777
Q ss_pred HHHhh
Q 035754 326 WTTAS 330 (335)
Q Consensus 326 ~l~~~ 330 (335)
.++..
T Consensus 439 yll~p 443 (652)
T KOG2050|consen 439 YLLAP 443 (652)
T ss_pred hhccC
Confidence 76654
No 11
>KOG2188 consensus Predicted RNA-binding protein, contains Pumilio domains [Translation, ribosomal structure and biogenesis]
Probab=99.95 E-value=1.8e-26 Score=211.77 Aligned_cols=309 Identities=17% Similarity=0.238 Sum_probs=238.1
Q ss_pred ccCchhcHHHHHhhcC---CCH--H----HH-HHHHHHHHhhHHhhccCccchHHHHHHhhhcCHHHHHHHHHHHhcccc
Q 035754 18 AQDQEGSQYLQENLSS---GDS--R----IL-DKLFWVVSGFTFELMSGQYGRFVFGKFIESCNESQLALIILKITFQDQ 87 (335)
Q Consensus 18 a~~~~~s~~lq~~l~~---~~~--e----~~-~~i~~e~~~~~~~L~~~~~gs~v~q~ll~~~~~~~~~~i~~~l~~~~~ 87 (335)
..||.+..+.+..... +.. + .. +.|++|..+...++++++.||+++|.++..|+..+...+++.+. +
T Consensus 59 ~~dpE~~~YF~~a~~a~~~~~~~~eEr~~~f~n~i~ee~~grel~l~tnqi~Sk~le~l~~f~d~~ql~~ff~~~~---g 135 (650)
T KOG2188|consen 59 GLDPEELGYFRRAESAFKGGFERGEERNRMFVNSIFEEVYGRELDLATNQIGSKVLEDLLGFSDSRQLCDFFSALN---G 135 (650)
T ss_pred CcChhhhhHHHHHHHHhhcCccccccceeeeehhHHHHhccceeehhccchhHHHHHHHhccCCchhHHHHHHHHh---h
Confidence 4567776666555543 211 1 23 34999999999999999999999999999999999999999999 9
Q ss_pred hhhhhhccccCcHHHHHHHhhhcC------------------------ChhHHHHHHHHHHHhhh-hhhcCCCccHHHHH
Q 035754 88 LFLLASVDKFGSSSVKKLIKVVAH------------------------LPPLLYHVMSALKRLFK-FLMMTKPGSSVILQ 142 (335)
Q Consensus 88 ~~~~l~~~~~gs~vlq~ll~~~~~------------------------~~~~~~~i~~~l~~~~~-~l~~d~~g~~vvq~ 142 (335)
+++.+++|++||||+|++++.+++ .++....+.+++.+++. .+|.|.+|+||++.
T Consensus 136 ~lr~i~~~r~gshVle~~L~~~a~~vg~e~~~~s~dea~~~ke~p~~t~e~~~~~m~nei~~~~~~~l~~~~~gshv~rt 215 (650)
T KOG2188|consen 136 VLRSIAQHRFGSHVLESALEKLAALVGQEAALLSEDEAAVEKEGPFVTCENLLLLMLNEISPHVLKTLMELIFGSHVLRT 215 (650)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhCccccccchhhhcccccCcccccchHHHHHHHHhhHHHHHHHHHHHHhHHHHHH
Confidence 999999999999999999987421 13344566677999998 99999999999998
Q ss_pred HhhcCCcc----------------------------------------------------------------------hh
Q 035754 143 CLEPSYNH----------------------------------------------------------------------KN 152 (335)
Q Consensus 143 ~l~~~~~~----------------------------------------------------------------------~~ 152 (335)
++-..... ..
T Consensus 216 ~~l~l~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pqsFp~~l~~~i~~~l~~~~~~s~~~~~~~k~~~vDk~~s~v~ 295 (650)
T KOG2188|consen 216 ILLLLFSMCPIAESEHKLALRKAAHRGMDDWDAVTTPPQSFPQRLIVWICTGLSALQDVSESKKRDLKGYEVDKSSSNVL 295 (650)
T ss_pred HHHHHccCcchhhhHHHHHHHHHhhccccchhhhhcChhhccHHHHHHHhhhccccccchhhhhhHHHHHHHHHHHHHHH
Confidence 88763220 00
Q ss_pred HHHHHH---------HHH-----------------------hHHHhhcCCCccHHHHHHHhccChHHHHHHHHHHHHhHH
Q 035754 153 DFIYQA---------ALE-----------------------HCLYLACHEQGCINLNNFIDNMKGSRRKQILHLISVNAA 200 (335)
Q Consensus 153 ~~l~~~---------~~~-----------------------~~~~l~~~~~g~~vlq~~l~~~~~~~~~~l~~~l~~~~~ 200 (335)
+.++.. +.. -...+..|+.||++++.+++.++++....+...+.+.+.
T Consensus 296 q~~i~l~~~~~~~~~~~~~~~lv~~~~~~~e~d~~~~kE~~~~k~~l~d~tgSrllE~Imeva~~~~~~lf~~~f~~rl~ 375 (650)
T KOG2188|consen 296 QKAIRLAFDENKNDQFMESPRLVTKFQLFNEKDGLWGKERSFLKELLSDQTGSRLLEVIMEVASESLLSLFYIVFCGRLD 375 (650)
T ss_pred HHHHHHHhhhhcchhhhhhhhHHHhhhhccccCcccccccHHHHHHHhcCcccHHHHHHHHhcCHHHHHHHHHHHHHHHH
Confidence 000000 000 012444678899999999999998888555555678999
Q ss_pred hhhcCCChhHHHHHhhccCC-hhhHHHHHHHHHHhHHHh-----------------------------------------
Q 035754 201 SLSRHRSGNYVVQHVLSLED-PFLIDAICFALRGHYVDL----------------------------------------- 238 (335)
Q Consensus 201 ~l~~d~~G~~viq~~l~~~~-~~~~~~i~~~l~~~~~~l----------------------------------------- 238 (335)
.|+.++.+|+++|++|++.. ++....+++.+.+++..|
T Consensus 376 ~La~~p~aNF~lQrli~h~~~~e~v~~v~eeL~P~~~~LL~~g~~gVv~sLia~~~rl~s~q~~~l~~Li~a~~~~~~~~ 455 (650)
T KOG2188|consen 376 ELAVHPIANFPLQRLINHLTSLEDVGSVIEELAPKLSSLLEQGNSGVVASLIAASARLGSYQDKMLQQLIQAFHAASESK 455 (650)
T ss_pred HHHhCccccchHHHHHHhccCHHHHHHHHHHHhHHHHHHHHcCCchHhHHHHHHHHhhchhHHHHHHHHHHHHhcCChhh
Confidence 99999999999999999875 777777777766633220
Q ss_pred ------------------------ccCcchhHHHHHHHhcCCcH-HHHHHHHhC--hhhHHhhhcCcchhHHHHHHHhhc
Q 035754 239 ------------------------SLTKCGSFVVQKCLKYQNAV-HYIIEELLN--SDQILQVANDKYGNYVIQTALAET 291 (335)
Q Consensus 239 ------------------------~~~~~gS~vve~~l~~~~~~-~~i~~~l~~--~~~~~~l~~~~~g~~Viq~~l~~~ 291 (335)
-.+..|+.++|.+++...+. +.++..+++ ..++.+++.+++|++||+++|++.
T Consensus 456 k~il~~lL~~~~~~g~~~~~~~t~~~h~~ga~lle~lv~f~k~~i~~litsll~L~~eqi~e~~~~~~~ShlIeavL~S~ 535 (650)
T KOG2188|consen 456 KNILPCLLFSLTLFGCVGEWFLTEKFHQKGAVLLEELVNFSKTHIQTLITSLLSLSEEQILEMSCNGVGSHLIEAVLASK 535 (650)
T ss_pred cchHHHHHHHhhhcccccccccHHHHhhchhHHHHHHHhhchhhhHHHHHHHHhhhHHHHHHHhcCCchHHHHHHHHHhc
Confidence 01235677778888777776 666666655 469999999999999999999996
Q ss_pred cCcCcHHHHHHHHHHHHHHHHhhhcCCChHHHHHHHHhhC
Q 035754 292 MRQDRLSVHQRLVTKLQQHLAALRVMKYGSNVYKWTTASH 331 (335)
Q Consensus 292 ~~~~~~~~~~~l~~~l~~~~~~L~~~~~gs~v~~~l~~~~ 331 (335)
+. .+..++++++.+.+...+|+.+.+||||++|||+..
T Consensus 536 ~l--~~~~~~kLi~~l~g~~~~La~~~~GSrv~eK~wea~ 573 (650)
T KOG2188|consen 536 DL--GEKIKEKLINILDGSFVTLALSTFGSRVFEKCWEAT 573 (650)
T ss_pred cc--cHHHHHHHHHHhhccchheeecCcccHHHHHHHHHh
Confidence 54 238999999999999999999999999999999853
No 12
>KOG2050 consensus Puf family RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=99.87 E-value=2.3e-20 Score=170.20 Aligned_cols=248 Identities=15% Similarity=0.154 Sum_probs=206.9
Q ss_pred ccccccccCcchhhhccCchhcHHHHHhhcCCCHHHHHHHHHHHHhhHHhhccCccchHHHHHHhhh-cCHHHHHHHHHH
Q 035754 3 TIAFEHCTNHDLFSLAQDQEGSQYLQENLSSGDSRILDKLFWVVSGFTFELMSGQYGRFVFGKFIES-CNESQLALIILK 81 (335)
Q Consensus 3 ~~~~~~~~~g~~~~la~~~~~s~~lq~~l~~~~~e~~~~i~~e~~~~~~~L~~~~~gs~v~q~ll~~-~~~~~~~~i~~~ 81 (335)
+.+|+++. |..++||.+++|-.++|++|.+|++.+++.|++++.|++..|+.|+.|++|++-++.. .+.+||..++.+
T Consensus 192 ~~if~eL~-p~~v~l~kskY~k~~v~KmLkyGsk~q~a~iI~sl~Ghv~kLlRH~eaa~Vve~ay~~~A~l~Qr~~li~E 270 (652)
T KOG2050|consen 192 EQIFEELL-PFFVELAKSKYAKFFVQKMLKYGSKAQKAKIINSLRGHVVKLLRHREAAYVVEYAYNDFATLEQRQYLIQE 270 (652)
T ss_pred HHHHHHHh-HHHHHHHHhHHHHHHHHHHHhcCCHHHHHHHHHHHhhhHHHHHhhhHHHHHHHHHHHhhccHHHHHHHHHH
Confidence 45789999 9999999999999999999999999999999999999999999999999999988866 899999999999
Q ss_pred HhcccchhhhhhccccCcHHHHHHHhhhcCChhHHHHHHHHHHHhhhhhhc-CCCcc----HHHHHHhhcCCcchhHHHH
Q 035754 82 ITFQDQLFLLASVDKFGSSSVKKLIKVVAHLPPLLYHVMSALKRLFKFLMM-TKPGS----SVILQCLEPSYNHKNDFIY 156 (335)
Q Consensus 82 l~~~~~~~~~l~~~~~gs~vlq~ll~~~~~~~~~~~~i~~~l~~~~~~l~~-d~~g~----~vvq~~l~~~~~~~~~~l~ 156 (335)
|. +.-..+..+. --.-+.+++.. .++....|...+...+..... ...|. -++...+..++++.+..++
T Consensus 271 fY---G~efqlfK~s-n~~Tl~kil~~---~pekk~~I~~~l~~~I~~v~eKg~v~~tivHk~mlEy~~~ade~e~~e~l 343 (652)
T KOG2050|consen 271 FY---GDEFQLFKDS-NDKTLDKILAE---APEKKASILRHLKAIITPVAEKGSVDHTIVHKLMLEYLTIADEEEKSELL 343 (652)
T ss_pred Hh---hHHHHHHhcc-CcccHHHHHHh---ChHhHHHHHHHHHHHhHHHhhcchhHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence 99 9888888873 33355566654 366677777666665554442 22332 3455566678888888899
Q ss_pred HHHHHhHHHhhcCCCccHHHHHHHhccChHHHHHHHHHHHHhHHhhhcCCChhHHHHHhhccCChh--hHHHHHHHHHHh
Q 035754 157 QAALEHCLYLACHEQGCINLNNFIDNMKGSRRKQILHLISVNAASLSRHRSGNYVVQHVLSLEDPF--LIDAICFALRGH 234 (335)
Q Consensus 157 ~~~~~~~~~l~~~~~g~~vlq~~l~~~~~~~~~~l~~~l~~~~~~l~~d~~G~~viq~~l~~~~~~--~~~~i~~~l~~~ 234 (335)
+.+...+..+.-.+.|+++-.++|..+++++|+.|+.++.+++..++.|.||+.|+-++|+..+.. ..+-|.+.+.+.
T Consensus 344 ~ll~elv~e~vHT~dGS~vAm~li~~a~aKeRK~IiK~~K~h~~K~A~~~yGh~vlia~ldc~DDT~l~kk~i~~e~~~e 423 (652)
T KOG2050|consen 344 ELLKELVPEMVHTRDGSRVAMKLIWHATAKERKLIIKNMKEHVEKIANDEYGHLVLIALLDCTDDTKLLKKLIYDELKSE 423 (652)
T ss_pred HHHHHHHHHHhcCCchHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHhhccCceehhhhhcccchHHHHHHHHHHHHHHH
Confidence 988888899999999999999999999999999999999999999999999999999999976543 567788889999
Q ss_pred HHHhccCcchhHHHHHHHhcCCcH
Q 035754 235 YVDLSLTKCGSFVVQKCLKYQNAV 258 (335)
Q Consensus 235 ~~~l~~~~~gS~vve~~l~~~~~~ 258 (335)
+..+..|+||-+|++.++...+..
T Consensus 424 l~~li~Dk~Grrv~lyll~p~D~~ 447 (652)
T KOG2050|consen 424 LKSLISDKYGRRVILYLLAPRDGR 447 (652)
T ss_pred HHHHhccchhhhhhhhhccCCccc
Confidence 999999999999999888875443
No 13
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=99.72 E-value=4.6e-17 Score=153.60 Aligned_cols=285 Identities=19% Similarity=0.203 Sum_probs=238.0
Q ss_pred HHHHHHHHHHHhhHHhhccCccchHHHHHHhhhcCHHHHHHHHHHHhcccchhhhhhccccCcHHHHHHHhhhcCChhHH
Q 035754 37 RILDKLFWVVSGFTFELMSGQYGRFVFGKFIESCNESQLALIILKITFQDQLFLLASVDKFGSSSVKKLIKVVAHLPPLL 116 (335)
Q Consensus 37 e~~~~i~~e~~~~~~~L~~~~~gs~v~q~ll~~~~~~~~~~i~~~l~~~~~~~~~l~~~~~gs~vlq~ll~~~~~~~~~~ 116 (335)
.+.+.+.-++.+...++..|=-|+-|+|+++++++...+....+... ..+..+..|++|.+..|++++. +-.+.+.
T Consensus 535 pEied~ai~mLDe~~elsSdylGNtVvqkfFe~sS~~ik~aml~r~s---~ylts~gvHknGtw~~qk~ik~-a~te~qi 610 (1007)
T KOG4574|consen 535 PEIEDLAILMLDELPELSSDYLGNTVVQKFFELSSDIIKDAMLRRGS---KYLTSMGVHKNGTWACQKIIKM-AFTERQI 610 (1007)
T ss_pred hhHHHHHHHHhccCCcchhhhhcchhhHHHHhhccHHHHHHHHhhhh---hhhhhccccccchHHHHHHHHH-hhchhhh
Confidence 45666677777888999999999999999999999999999999999 9999999999999999999999 8888889
Q ss_pred HHHHHHHHHhhhhhhcCCCccHHHHHHhhcCCcchhHHHHHHHHHhHHHhhcCCCccHHHHHHHhccC--hHHHHHHHHH
Q 035754 117 YHVMSALKRLFKFLMMTKPGSSVILQCLEPSYNHKNDFIYQAALEHCLYLACHEQGCINLNNFIDNMK--GSRRKQILHL 194 (335)
Q Consensus 117 ~~i~~~l~~~~~~l~~d~~g~~vvq~~l~~~~~~~~~~l~~~~~~~~~~l~~~~~g~~vlq~~l~~~~--~~~~~~l~~~ 194 (335)
+.+.....+....++.|.+||||+|.+|... -.-..++++.+..+++++...++|++.+.+|++.-. .+........
T Consensus 611 k~iv~g~dpyc~~l~~dqfgnyvaqd~LkF~-fp~nsFVfE~v~s~~~~ivQsrfGsravrAcle~lNa~~e~qsl~~~s 689 (1007)
T KOG4574|consen 611 KLIVRGVDPYCTPLLNDQFGNYVAQDSLKFG-FPWNSFVFESVFSHFWDIVQSRFGSRAVRACLEALNANTEDQSLVRES 689 (1007)
T ss_pred heeeeccCcchhhHHHHhhcceeeeeehhcc-CccchHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhccCchhhhhhhhh
Confidence 9999989999999999999999999999985 334556789999999999999999999999998642 2332222222
Q ss_pred -HHHhHHhhhcCCChhHHHHHhhccCChhhH-HHHHHHHHHhHHHhccCcchhHHHHHHHhcCCcH---HHHHHHHhC--
Q 035754 195 -ISVNAASLSRHRSGNYVVQHVLSLEDPFLI-DAICFALRGHYVDLSLTKCGSFVVQKCLKYQNAV---HYIIEELLN-- 267 (335)
Q Consensus 195 -l~~~~~~l~~d~~G~~viq~~l~~~~~~~~-~~i~~~l~~~~~~l~~~~~gS~vve~~l~~~~~~---~~i~~~l~~-- 267 (335)
+......++.+..|-..|..+++.+....+ ..++..+.++++.+|+|+-||-++.|+++.+.+. ++|++.|+.
T Consensus 690 ~iIs~ss~latnsng~llvtw~lDns~~~nrh~~l~~~lt~el~~lC~h~Lgsttv~Kl~n~~qepvs~ekii~hlf~~~ 769 (1007)
T KOG4574|consen 690 CIISKSSYLATNSNGLLLVTWLLDNSSLPNRHTILAHGLTKELVMLCFHKLGSTTVLKLLNLRQEPVSREKIIEHLFHLR 769 (1007)
T ss_pred hhhhchhhhhhcCccceeeeeecccccccchhhHHhhhhhhccchhhhhhccchhhhhhhhcCCChHHHHHHHHHHhhcc
Confidence 344577899999999999999998754433 3445677799999999999999999999999887 888888884
Q ss_pred --------------------------hhhHHhhhcCcchhHHHHHHHhhccCcCcHHHHHHHHHHHHHHHHhhhcCCChH
Q 035754 268 --------------------------SDQILQVANDKYGNYVIQTALAETMRQDRLSVHQRLVTKLQQHLAALRVMKYGS 321 (335)
Q Consensus 268 --------------------------~~~~~~l~~~~~g~~Viq~~l~~~~~~~~~~~~~~l~~~l~~~~~~L~~~~~gs 321 (335)
.+.+.....|+++++|.|.++...... ...++.|...+.-.+.+++|+
T Consensus 770 n~kd~~lt~Vl~~~~~gpmfiikvi~~p~iel~f~dQf~kvvrq~il~~~a~~------narv~~LleevgliSasksgs 843 (1007)
T KOG4574|consen 770 NFKDSALTEVLTEANYGPMFIIKVITKPTIELAFRDQFIKVVRQVILNSPAVS------NARVQRLLEEVGLISASKSGS 843 (1007)
T ss_pred ccccchhhhhhhhhccccceeeeeeccccchHHHHHHHHHHHHHHHHhcCCcc------HHHHHHHHHHHhhhccccchh
Confidence 035667778999999999999988763 222266666777788999999
Q ss_pred HHHHHHHhhCC
Q 035754 322 NVYKWTTASHP 332 (335)
Q Consensus 322 ~v~~~l~~~~~ 332 (335)
+-++.+...++
T Consensus 844 ~s~q~~~sss~ 854 (1007)
T KOG4574|consen 844 QSIQMHISSSK 854 (1007)
T ss_pred HHHHhhhccCC
Confidence 99999988765
No 14
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=99.25 E-value=5.8e-12 Score=119.67 Aligned_cols=199 Identities=20% Similarity=0.242 Sum_probs=155.2
Q ss_pred hhHHHHHHHHHHHhhhhhhcCCCccHHHHHHhhcCCcchhHHHHHHHHHhHHHhhcCCCccHHHHHHHhccC-hHHHHHH
Q 035754 113 PPLLYHVMSALKRLFKFLMMTKPGSSVILQCLEPSYNHKNDFIYQAALEHCLYLACHEQGCINLNNFIDNMK-GSRRKQI 191 (335)
Q Consensus 113 ~~~~~~i~~~l~~~~~~l~~d~~g~~vvq~~l~~~~~~~~~~l~~~~~~~~~~l~~~~~g~~vlq~~l~~~~-~~~~~~l 191 (335)
+|..++.+. +.++..++-.|..||.|+|++++..+...++.+...-..++.....|++|++..|++++.+. +.+.+.+
T Consensus 535 pEied~ai~-mLDe~~elsSdylGNtVvqkfFe~sS~~ik~aml~r~s~ylts~gvHknGtw~~qk~ik~a~te~qik~i 613 (1007)
T KOG4574|consen 535 PEIEDLAIL-MLDELPELSSDYLGNTVVQKFFELSSDIIKDAMLRRGSKYLTSMGVHKNGTWACQKIIKMAFTERQIKLI 613 (1007)
T ss_pred hhHHHHHHH-HhccCCcchhhhhcchhhHHHHhhccHHHHHHHHhhhhhhhhhccccccchHHHHHHHHHhhchhhhhee
Confidence 454455544 77889999999999999999999999999999999888999999999999999999999985 4567777
Q ss_pred HHHHHHhHHhhhcCCChhHHHHHhhccCChhhHHHHHHHHHHhHHHhccCcchhHHHHHHHhcCCcH---HHHHHHHh--
Q 035754 192 LHLISVNAASLSRHRSGNYVVQHVLSLEDPFLIDAICFALRGHYVDLSLTKCGSFVVQKCLKYQNAV---HYIIEELL-- 266 (335)
Q Consensus 192 ~~~l~~~~~~l~~d~~G~~viq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~gS~vve~~l~~~~~~---~~i~~~l~-- 266 (335)
+.-..+....++.|++|||++|..|..+-| -...+++....++..+....||++-+.+|++..... +.+..+..
T Consensus 614 v~g~dpyc~~l~~dqfgnyvaqd~LkF~fp-~nsFVfE~v~s~~~~ivQsrfGsravrAcle~lNa~~e~qsl~~~s~iI 692 (1007)
T KOG4574|consen 614 VRGVDPYCTPLLNDQFGNYVAQDSLKFGFP-WNSFVFESVFSHFWDIVQSRFGSRAVRACLEALNANTEDQSLVRESCII 692 (1007)
T ss_pred eeccCcchhhHHHHhhcceeeeeehhccCc-cchHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhccCchhhhhhhhhhhh
Confidence 777888999999999999999999998866 345668888899999999999999999999986554 22222111
Q ss_pred --------------------C---------------hhhHHhhhcCcchhHHHHHHHhhccCcCcHHHHHHHHHHHHHHH
Q 035754 267 --------------------N---------------SDQILQVANDKYGNYVIQTALAETMRQDRLSVHQRLVTKLQQHL 311 (335)
Q Consensus 267 --------------------~---------------~~~~~~l~~~~~g~~Viq~~l~~~~~~~~~~~~~~l~~~l~~~~ 311 (335)
+ .+++..+|.|.-|+-+++++++...++ . ..+++.+++
T Consensus 693 s~ss~latnsng~llvtw~lDns~~~nrh~~l~~~lt~el~~lC~h~Lgsttv~Kl~n~~qep----v---s~ekii~hl 765 (1007)
T KOG4574|consen 693 SKSSYLATNSNGLLLVTWLLDNSSLPNRHTILAHGLTKELVMLCFHKLGSTTVLKLLNLRQEP----V---SREKIIEHL 765 (1007)
T ss_pred hchhhhhhcCccceeeeeecccccccchhhHHhhhhhhccchhhhhhccchhhhhhhhcCCCh----H---HHHHHHHHH
Confidence 1 146777788888888888888877762 2 334444555
Q ss_pred HhhhcCCCh
Q 035754 312 AALRVMKYG 320 (335)
Q Consensus 312 ~~L~~~~~g 320 (335)
..+..++-|
T Consensus 766 f~~~n~kd~ 774 (1007)
T KOG4574|consen 766 FHLRNFKDS 774 (1007)
T ss_pred hhccccccc
Confidence 555555544
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=98.52 E-value=8.3e-08 Score=56.39 Aligned_cols=35 Identities=34% Similarity=0.532 Sum_probs=29.3
Q ss_pred HHHhhHHhhccCccchHHHHHHhhhcCHHHHHHHH
Q 035754 45 VVSGFTFELMSGQYGRFVFGKFIESCNESQLALII 79 (335)
Q Consensus 45 e~~~~~~~L~~~~~gs~v~q~ll~~~~~~~~~~i~ 79 (335)
++.+++.+|+.|+|||||+|++++.++++++..|+
T Consensus 1 ~i~~~~~~l~~d~~Gn~VvQk~le~~~~~~~~~il 35 (35)
T PF00806_consen 1 EIKGNLVELSKDQYGNYVVQKCLEHASPEQRQLIL 35 (35)
T ss_dssp CHTTTHHHHHTSTTHHHHHHHHHHHSSHHHHHHHH
T ss_pred ChHHHHHHHHhccccCHHHHHHHHHCCHHHHHhhC
Confidence 36688889999999999999999998888877664
No 16
>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=98.38 E-value=3.3e-07 Score=53.82 Aligned_cols=30 Identities=30% Similarity=0.645 Sum_probs=25.8
Q ss_pred hHHhhhcCcchhHHHHHHHhhccCcCcHHHHHHH
Q 035754 270 QILQVANDKYGNYVIQTALAETMRQDRLSVHQRL 303 (335)
Q Consensus 270 ~~~~l~~~~~g~~Viq~~l~~~~~~~~~~~~~~l 303 (335)
++.+|+.|+|||||||++|+..++ .+++.+
T Consensus 5 ~~~~l~~d~~Gn~VvQk~le~~~~----~~~~~i 34 (35)
T PF00806_consen 5 NLVELSKDQYGNYVVQKCLEHASP----EQRQLI 34 (35)
T ss_dssp THHHHHTSTTHHHHHHHHHHHSSH----HHHHHH
T ss_pred HHHHHHhccccCHHHHHHHHHCCH----HHHHhh
Confidence 899999999999999999999776 666655
No 17
>smart00025 Pumilio Pumilio-like repeats. Pumilio-like repeats that bind RNA.
Probab=98.11 E-value=2e-06 Score=50.68 Aligned_cols=34 Identities=41% Similarity=0.579 Sum_probs=26.8
Q ss_pred HHhhHHhhccCccchHHHHHHhhhcCHHHHHHHH
Q 035754 46 VSGFTFELMSGQYGRFVFGKFIESCNESQLALII 79 (335)
Q Consensus 46 ~~~~~~~L~~~~~gs~v~q~ll~~~~~~~~~~i~ 79 (335)
+.+++.+|+.|+|||+|+|++++.+++.++..++
T Consensus 2 ~~~~~~~l~~~~~g~~viqk~l~~~~~~~~~~i~ 35 (36)
T smart00025 2 IKGHLLELSKDQYGNRVVQKLLEHASESQREQII 35 (36)
T ss_pred chHHHHHHHhcchhhHHHHHHHHHCCHHHHHHhh
Confidence 4577888888888888888888888887776654
No 18
>smart00025 Pumilio Pumilio-like repeats. Pumilio-like repeats that bind RNA.
Probab=97.88 E-value=1.1e-05 Score=47.35 Aligned_cols=31 Identities=29% Similarity=0.629 Sum_probs=26.0
Q ss_pred hHHhhhcCcchhHHHHHHHhhccCcCcHHHHHHHH
Q 035754 270 QILQVANDKYGNYVIQTALAETMRQDRLSVHQRLV 304 (335)
Q Consensus 270 ~~~~l~~~~~g~~Viq~~l~~~~~~~~~~~~~~l~ 304 (335)
++.+|+.|+|||||+|++++..+. .++..++
T Consensus 5 ~~~~l~~~~~g~~viqk~l~~~~~----~~~~~i~ 35 (36)
T smart00025 5 HLLELSKDQYGNRVVQKLLEHASE----SQREQII 35 (36)
T ss_pred HHHHHHhcchhhHHHHHHHHHCCH----HHHHHhh
Confidence 788999999999999999999887 6666554
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=95.13 E-value=0.1 Score=41.40 Aligned_cols=125 Identities=14% Similarity=0.130 Sum_probs=64.9
Q ss_pred hcCCChhHHHHHhhccCChhhHH-HHHHHHHHhHHHhccCcchhHH-HHHHHhcCCcHHHHHHHHhChhhHHhhhcCcch
Q 035754 203 SRHRSGNYVVQHVLSLEDPFLID-AICFALRGHYVDLSLTKCGSFV-VQKCLKYQNAVHYIIEELLNSDQILQVANDKYG 280 (335)
Q Consensus 203 ~~d~~G~~viq~~l~~~~~~~~~-~i~~~l~~~~~~l~~~~~gS~v-ve~~l~~~~~~~~i~~~l~~~~~~~~l~~~~~g 280 (335)
+.|+||..++..++...++.+.. .+++.|.+.- .-.+.|--..+ -+.+++... ..+++.+.. +...|+.+++|
T Consensus 1 i~dk~gRr~llYLl~~~d~~~f~p~~i~~L~~~d-~~~tSKKd~~~Rr~ELl~~~s--p~Ll~~i~~--~~~~ll~~~~g 75 (148)
T PF08144_consen 1 INDKYGRRVLLYLLSPRDPRYFSPEIIKLLKEGD-RNATSKKDPEVRRKELLEAIS--PPLLEAIAE--NAEELLSSSFG 75 (148)
T ss_pred CCCccCceeeeeeccCCCcccCCHHHHHHHhhhc-ccccccCCHHHHHHHHHHHhh--HHHHHHHHH--hHHHHHhcCcc
Confidence 36788888888888866654332 2222222111 00000100011 011111111 233434444 77788888888
Q ss_pred hHHHHHHHhhccCcCcHHHHHHHHHHHHHH--------HHhhhcCCChHHHHHHHHhhCCC
Q 035754 281 NYVIQTALAETMRQDRLSVHQRLVTKLQQH--------LAALRVMKYGSNVYKWTTASHPC 333 (335)
Q Consensus 281 ~~Viq~~l~~~~~~~~~~~~~~l~~~l~~~--------~~~L~~~~~gs~v~~~l~~~~~~ 333 (335)
..+|.-+|..+...+. ...+.|+..+... -..+..+++|++++.+|.....+
T Consensus 76 ~~~i~eiL~~~~gdk~-~a~~Aia~~~~~~~~~~~~~~e~H~i~~p~~~r~lK~Liq~~~~ 135 (148)
T PF08144_consen 76 CQFITEILLSATGDKS-AALEAIASLAAEPLFPGDIDEEYHLIEHPFGHRMLKKLIQGDKK 135 (148)
T ss_pred cHHHHHHHhccCccHH-HHHHHHHHHHhhccCCCCCcCccchhcCchHHHHHHHHHHCCCc
Confidence 8888888877654111 2222444444332 23467889999999988876653
No 20
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=93.80 E-value=5.2 Score=36.53 Aligned_cols=220 Identities=13% Similarity=0.077 Sum_probs=115.3
Q ss_pred CCHHHHHHHHHHHHhhHHhhcc-CccchHHHHHHhhh-cCHHHHHHHHHHHhcccc--hhhhhhccccCcHHHHHHHhhh
Q 035754 34 GDSRILDKLFWVVSGFTFELMS-GQYGRFVFGKFIES-CNESQLALIILKITFQDQ--LFLLASVDKFGSSSVKKLIKVV 109 (335)
Q Consensus 34 ~~~e~~~~i~~e~~~~~~~L~~-~~~gs~v~q~ll~~-~~~~~~~~i~~~l~~~~~--~~~~l~~~~~gs~vlq~ll~~~ 109 (335)
-+++..+.+++++...+..-.. ..-|.-.+..++.. .+++.-..|+..+...++ .|..|. .-....++.++..
T Consensus 55 vs~~~~~~vL~ef~~~~~~~~~~~~gg~~~~~~iL~~~l~~~~a~~il~~i~~~~~~~~fe~L~--~ld~~~l~~lL~~- 131 (339)
T PRK05686 55 VSPEQVEAVLEEFEDEFEAGAYILMGGIDYARSLLEKALGEEKADSILERILESLGTSGFDFLR--KMDPQQLANFIRN- 131 (339)
T ss_pred CCHHHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHcCHHHHHHHHHHHhccccCchHHHHh--cCCHHHHHHHHHh-
Confidence 3566777777777776654332 33444457778775 677777888888774322 222222 2345566666665
Q ss_pred cCChhHHHHHHHHHHH----hhhhhhcCCCccHHHHHHhhc--CCcchhHHHHHHHHHhHHHhh----cCCCccHHHHHH
Q 035754 110 AHLPPLLYHVMSALKR----LFKFLMMTKPGSSVILQCLEP--SYNHKNDFIYQAALEHCLYLA----CHEQGCINLNNF 179 (335)
Q Consensus 110 ~~~~~~~~~i~~~l~~----~~~~l~~d~~g~~vvq~~l~~--~~~~~~~~l~~~~~~~~~~l~----~~~~g~~vlq~~ 179 (335)
-+++....+...+.+ .+...+......-|+.++... .+++..+.+-+.+...+.... ....|...+-.+
T Consensus 132 -EhpqtiA~iLs~l~~~~aa~vL~~l~~~~~~~v~~ria~l~~v~~~~~~~i~~~L~~~l~~~~~~~~~~~~g~~~~a~I 210 (339)
T PRK05686 132 -EHPQTIALILSYLKPDQAAEILSLLPEELRADVMMRIATLEGVSPEALKEVEEVLEKKLSSMANADRTKMGGVKTVAEI 210 (339)
T ss_pred -cCHHHHHHHHhCCCHHHHHHHHHhCCHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHhhcccccccccCcHHHHHHH
Confidence 344444444433332 233333333344444444443 223333333344444443322 233466778888
Q ss_pred HhccChHHHHHHHHHHHHhHHhhhcCCC-hhHHHHHhhccCChhhHHHHHHHHHHhHHHhccCcchhHHHHHHHhcCCcH
Q 035754 180 IDNMKGSRRKQILHLISVNAASLSRHRS-GNYVVQHVLSLEDPFLIDAICFALRGHYVDLSLTKCGSFVVQKCLKYQNAV 258 (335)
Q Consensus 180 l~~~~~~~~~~l~~~l~~~~~~l~~d~~-G~~viq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~gS~vve~~l~~~~~~ 258 (335)
+...+.+....++..+...=..++..-- --|+..-++. -++.....+++.+......++..--..-+.++++..-+..
T Consensus 211 ln~~~~~~~~~il~~L~~~d~~~a~~Ir~~mF~Fedl~~-l~~~~l~~ll~~v~~~~L~~ALkga~~~~~~~il~nmS~R 289 (339)
T PRK05686 211 LNNLDRQTEKTILESLEEEDPELAEKIKDLMFVFEDLVD-LDDRSIQRLLREVDNDVLALALKGASEELREKFLSNMSKR 289 (339)
T ss_pred HhcCCchHHHHHHHHHHhhCHHHHHHHHHHhcCHHHHhc-CCHHHHHHHHHhCCHHHHHHHHCCCCHHHHHHHHHhcCHH
Confidence 8888877777777766543333322110 1122222322 3445566777666666666665555556666666666655
No 21
>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=92.44 E-value=0.35 Score=38.38 Aligned_cols=26 Identities=15% Similarity=0.201 Sum_probs=15.4
Q ss_pred HHHhHHHhhcCCCccHHHHHHHhccC
Q 035754 159 ALEHCLYLACHEQGCINLNNFIDNMK 184 (335)
Q Consensus 159 ~~~~~~~l~~~~~g~~vlq~~l~~~~ 184 (335)
+..+..++..++.||.++..++..+.
T Consensus 62 i~~~~~~ll~~~~g~~~i~eiL~~~~ 87 (148)
T PF08144_consen 62 IAENAEELLSSSFGCQFITEILLSAT 87 (148)
T ss_pred HHHhHHHHHhcCcccHHHHHHHhccC
Confidence 33445566666666666666666654
No 22
>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=79.67 E-value=49 Score=30.21 Aligned_cols=221 Identities=14% Similarity=0.066 Sum_probs=109.5
Q ss_pred CCCHHHHHHHHHHHHhhHHhhccCccc-hHHHHHHhhh-cCHHHHHHHHHHHhccc--c-hhhhhhccccCcHHHHHHHh
Q 035754 33 SGDSRILDKLFWVVSGFTFELMSGQYG-RFVFGKFIES-CNESQLALIILKITFQD--Q-LFLLASVDKFGSSSVKKLIK 107 (335)
Q Consensus 33 ~~~~e~~~~i~~e~~~~~~~L~~~~~g-s~v~q~ll~~-~~~~~~~~i~~~l~~~~--~-~~~~l~~~~~gs~vlq~ll~ 107 (335)
.-++++.+.|++|+...+..-..-..| .-.++.++.. .+++.-..+++.+.... . .|..|. ......+-.++.
T Consensus 51 ~v~~~~~~~vl~eF~~~~~~~~~~~~g~~~~~~~~L~~alg~~~a~~il~~i~~~~~~~~~~~~L~--~~~~~~la~~l~ 128 (338)
T TIGR00207 51 QIDNQQKDDVLEEFEQIAEAQAYINIGGLDYAREVLEKALGEEKAASILNDLTSSLQTAPGFEFLR--KAEPQQIADFIQ 128 (338)
T ss_pred CCCHHHHHHHHHHHHHHHHhcCCccCChHHHHHHHHHHhcCHHHHHHHHHHHhcccccCchhHHHH--CCCHHHHHHHHH
Confidence 446778888888887777655433333 3344666644 45555666777776321 1 133332 224556666666
Q ss_pred hhcCChhHHHHHHHHHHHhhh----hhhcCCCccHHHHHHhhc--CCcchhHHHHHHHHHhHHHhhc---CCCccHHHHH
Q 035754 108 VVAHLPPLLYHVMSALKRLFK----FLMMTKPGSSVILQCLEP--SYNHKNDFIYQAALEHCLYLAC---HEQGCINLNN 178 (335)
Q Consensus 108 ~~~~~~~~~~~i~~~l~~~~~----~l~~d~~g~~vvq~~l~~--~~~~~~~~l~~~~~~~~~~l~~---~~~g~~vlq~ 178 (335)
. -+|+....+...+.+... ..+-+....-|+.++... .+++..+.+-+.+...+..... ..-|...+..
T Consensus 129 ~--EhPQ~iAliLs~L~p~~AA~VL~~Lp~~~~~ei~~ria~l~~vs~~~i~~ie~~L~~~~~~~~~~~~~~gG~~~~a~ 206 (338)
T TIGR00207 129 Q--EHPQTIALILSHLDPAQAADILSLFPEEVQAEVARRIATMGRTSPEVVAEVERVLEGKLDSLNSDYTKMGGVRAVAE 206 (338)
T ss_pred c--cCHHHHHHHHHcCCHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhhccccccCChHHHHHH
Confidence 4 455555555554544322 222222333333333333 2333333332333333333221 2246677888
Q ss_pred HHhccChHHHHHHHHHHHHhHHhhhcCC-ChhHHHHHhhccCChhhHHHHHHHHHHhHHHhccCcchhHHHHHHHhcCCc
Q 035754 179 FIDNMKGSRRKQILHLISVNAASLSRHR-SGNYVVQHVLSLEDPFLIDAICFALRGHYVDLSLTKCGSFVVQKCLKYQNA 257 (335)
Q Consensus 179 ~l~~~~~~~~~~l~~~l~~~~~~l~~d~-~G~~viq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~gS~vve~~l~~~~~ 257 (335)
++...+.+....++..+...=..++..- .--|+..-++. -++.....+++.+......++..--..-+.++++..-+.
T Consensus 207 ILN~~~~~~~~~il~~L~~~dp~la~~Ir~~mF~Fedl~~-ld~~~l~~llrev~~~~L~~ALkga~~e~~~~il~nmS~ 285 (338)
T TIGR00207 207 IINLMDRKTEKTIITSLEEFDPELAEEIKKEMFVFEDIVD-LDDRSIQRVLREVDSEDLLLALKGAEQPLREKFLNNMSQ 285 (338)
T ss_pred HHHhCCchHHHHHHHHHHHhCHHHHHHHHHHccCHHHHhc-CCHHHHHHHHHhCCHHHHHHHHCcCCHHHHHHHHHHhhH
Confidence 8888887777777777654333333211 11122222322 344455666665555555555444444555666655554
Q ss_pred H
Q 035754 258 V 258 (335)
Q Consensus 258 ~ 258 (335)
.
T Consensus 286 R 286 (338)
T TIGR00207 286 R 286 (338)
T ss_pred H
Confidence 4
No 23
>KOG2759 consensus Vacuolar H+-ATPase V1 sector, subunit H [Energy production and conversion]
Probab=75.43 E-value=71 Score=29.84 Aligned_cols=41 Identities=17% Similarity=0.089 Sum_probs=30.3
Q ss_pred hHHHHHHHHHHhHHHhcc-CcchhHHHHHHHhcCCcH--HHHHH
Q 035754 223 LIDAICFALRGHYVDLSL-TKCGSFVVQKCLKYQNAV--HYIIE 263 (335)
Q Consensus 223 ~~~~i~~~l~~~~~~l~~-~~~gS~vve~~l~~~~~~--~~i~~ 263 (335)
..+.+-+.+...+..|+. |.|.+-+-...+..+|.. +.+++
T Consensus 311 di~~L~e~L~~svq~LsSFDeY~sEl~sG~L~WSP~Hk~e~FW~ 354 (442)
T KOG2759|consen 311 DIEFLTEKLKNSVQDLSSFDEYKSELRSGRLEWSPVHKSEKFWR 354 (442)
T ss_pred HHHHHHHHHHHHHHhhccHHHHHHHHHhCCcCCCccccccchHH
Confidence 345666777778888754 699999999999888876 44443
No 24
>KOG1992 consensus Nuclear export receptor CSE1/CAS (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=74.19 E-value=1.1e+02 Score=31.35 Aligned_cols=86 Identities=14% Similarity=0.032 Sum_probs=47.4
Q ss_pred CChhHHHHHhhccCCh---hhHHHHHH-HHHHhHHHhccCcc-hhHHHHHHHhcCCcH-H--HHHHHHhChhhHHh----
Q 035754 206 RSGNYVVQHVLSLEDP---FLIDAICF-ALRGHYVDLSLTKC-GSFVVQKCLKYQNAV-H--YIIEELLNSDQILQ---- 273 (335)
Q Consensus 206 ~~G~~viq~~l~~~~~---~~~~~i~~-~l~~~~~~l~~~~~-gS~vve~~l~~~~~~-~--~i~~~l~~~~~~~~---- 273 (335)
||+-.++-.++++... +....++. .+.+++++...+-- --++++.+++.++.. . .-+.-+++ .+.+
T Consensus 657 PYvfQlla~lve~~~~~ip~~~~~l~~~lLsp~lW~r~gNipalvrLl~aflk~g~~~~~~~~~l~~iLG--ifqkLiaS 734 (960)
T KOG1992|consen 657 PYVFQLLAVLVEHSSGTIPDSYSPLFPPLLSPNLWKRSGNIPALVRLLQAFLKTGSQIVEAADKLSGILG--IFQKLIAS 734 (960)
T ss_pred HHHHHHHHHHHHhcCCCCchhHHHHHHHhcCHHHHhhcCCcHHHHHHHHHHHhcCchhhcccccchhHHH--HHHHHhcC
Confidence 3444444555555432 33333333 34455555443332 236777777777654 1 22233333 3333
Q ss_pred hhcCcchhHHHHHHHhhccC
Q 035754 274 VANDKYGNYVIQTALAETMR 293 (335)
Q Consensus 274 l~~~~~g~~Viq~~l~~~~~ 293 (335)
=+.|.+|=|.+++++..-+.
T Consensus 735 ka~Dh~GF~LLn~i~~~~~~ 754 (960)
T KOG1992|consen 735 KANDHHGFYLLNTIIESIPP 754 (960)
T ss_pred cccchhHHHHHHHHHhcCCH
Confidence 35689999999999998776
No 25
>PF08625 Utp13: Utp13 specific WD40 associated domain; InterPro: IPR013934 A large ribonuclear protein complex is required for the processing of the small-ribosomal-subunit rRNA - the small-subunit (SSU) processome [, ]. This preribosomal complex contains the U3 snoRNA and at least 40 proteins, which have the following properties: They are nucleolar. They are able to coimmunoprecipitate with the U3 snoRNA and Mpp10 (a protein specific to the SSU processome). They are required for 18S rRNA biogenesis. There appears to be a linkage between polymerase I transcription and the formation of the SSU processome; as some, but not all, of the SSU processome components are required for pre-rRNA transcription initiation. These SSU processome components have been termed t-Utps. They form a pre-complex with pre-18S rRNA in the absence of snoRNA U3 and other SSU processome components. It has been proposed that the t-Utp complex proteins are both rDNA and rRNA binding proteins that are involved in the initiation of pre18S rRNA transcription. Initially binding to rDNA then associating with the 5' end of the nascent pre18S rRNA. The t-Utpcomplex forms the nucleus around which the rest of the SSU processome components, including snoRNA U3, assemble []. From electron microscopy the SSU processome may correspond to the terminal knobs visualized at the 5' ends of nascent 18S rRNA. Utp13 is a nucleolar protein and component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA []. Upt13 is also a component of the Pwp2 complex that forms part of a stable particle subunit independent of the U3 small nucleolar ribonucleoprotein that is essential for the initial assembly steps of the 90S pre-ribosome []. Components of the Pwp2 complex are: Utp1 (Pwp2), Utp6, Utp12 (Dip2), Utp13, Utp18, and Utp21. The relationship between the Pwp2 complex and the t-Utps complex [] that also associates with the 5' end of nascent pre-18S rRNA is unclear. ; GO: 0006364 rRNA processing, 0032040 small-subunit processome
Probab=73.03 E-value=43 Score=26.26 Aligned_cols=82 Identities=15% Similarity=0.183 Sum_probs=46.5
Q ss_pred hhHHHHHhhccCChhhHHHHHHHHHHhHHHhccCcchhHHHHHHHhcCCcH--------HHHHHHHhC--hhhHHhhhcC
Q 035754 208 GNYVVQHVLSLEDPFLIDAICFALRGHYVDLSLTKCGSFVVQKCLKYQNAV--------HYIIEELLN--SDQILQVAND 277 (335)
Q Consensus 208 G~~viq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~gS~vve~~l~~~~~~--------~~i~~~l~~--~~~~~~l~~~ 277 (335)
|+-.+..++..-+++....+++.+.++-..--....+-.|+-.++..-++. ..+++.+++ +.|+.++-.-
T Consensus 47 g~~~l~~~i~~L~~~~l~~LL~~ir~WNTNsr~~~vAQ~vL~~il~~~~~~~L~~~~~~~~~le~lipYteRH~~Rl~~L 126 (141)
T PF08625_consen 47 GSEELDEVIKKLDDEQLEKLLRFIRDWNTNSRTSHVAQRVLNAILKSHPPEELLKIPGLKEILEALIPYTERHFQRLDRL 126 (141)
T ss_pred hHHHHHHHHHhcCHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCCHHHHHccccHHHHHHHHhhhHHHHHHHHHHH
Confidence 556666666666666666666655555444333344445555555554443 556666665 4566666555
Q ss_pred cchhHHHHHHHh
Q 035754 278 KYGNYVIQTALA 289 (335)
Q Consensus 278 ~~g~~Viq~~l~ 289 (335)
--.+|++...|.
T Consensus 127 ~q~syllDy~l~ 138 (141)
T PF08625_consen 127 LQKSYLLDYTLQ 138 (141)
T ss_pred HHHHHHHHHHHH
Confidence 556666666554
No 26
>COG1536 FliG Flagellar motor switch protein [Cell motility and secretion]
Probab=63.37 E-value=1.2e+02 Score=27.70 Aligned_cols=220 Identities=11% Similarity=0.021 Sum_probs=90.9
Q ss_pred hcCCCHHHHHHHHHHHHhhHHhhc-cCccchHHHHHHhhhcCHHHH-HHHHHHHhccc--chhhhhhccccCcHHHHHHH
Q 035754 31 LSSGDSRILDKLFWVVSGFTFELM-SGQYGRFVFGKFIESCNESQL-ALIILKITFQD--QLFLLASVDKFGSSSVKKLI 106 (335)
Q Consensus 31 l~~~~~e~~~~i~~e~~~~~~~L~-~~~~gs~v~q~ll~~~~~~~~-~~i~~~l~~~~--~~~~~l~~~~~gs~vlq~ll 106 (335)
++.-+++....++.|+...+..-. -..-|.--.+.++...-++.+ ..+++.+.... ....++...--- ..+-.++
T Consensus 51 lk~v~~~~~~~il~eF~~~~~~~~~i~~~~~~~~~~lL~kalg~~~a~~i~~~i~~~~~~~~~~~~l~~~~p-~~l~~~i 129 (339)
T COG1536 51 LKTVSPEEKEQVLEEFEELFTEQAGINKGADEYARELLEKALGEEKAESLLERITGSAIQTSPFDLLRKLDP-SQLADLI 129 (339)
T ss_pred ccCCCHHHHHHHHHHHHHHHHhccccccChHHHHHHHHHHhCcHhHHHHHHHHhhhccccccHHHHhhhCCH-HHHHHHH
Confidence 344566677777777765554333 112222234444444333333 33455554110 001111110000 1133334
Q ss_pred hhhcCChhHHHHHHHHHHHh----hhhhhcCCCccHHHHHHhhc--CCcchhHHHHHHHHHhHHHhhcC----CCccHHH
Q 035754 107 KVVAHLPPLLYHVMSALKRL----FKFLMMTKPGSSVILQCLEP--SYNHKNDFIYQAALEHCLYLACH----EQGCINL 176 (335)
Q Consensus 107 ~~~~~~~~~~~~i~~~l~~~----~~~l~~d~~g~~vvq~~l~~--~~~~~~~~l~~~~~~~~~~l~~~----~~g~~vl 176 (335)
.. .+|....++...+.++ +...+.+..-.-|+.++... .+++..+.+-..+.+.+..+... .-|...+
T Consensus 130 ~~--EhPQtia~iLs~L~~~~aa~vL~~l~~e~r~~v~~Ria~l~~v~p~al~~i~~~l~~~l~~~~~~~~~~~gg~~~~ 207 (339)
T COG1536 130 KN--EHPQTIALILSYLPPDQAAEILSTLPEELRADVVKRIATLEGVSPEALAELENVLEKKLQSLVNEDYSKLGGIKAA 207 (339)
T ss_pred Hc--cccHHHHHHHHhcCHHHHHHHHHhCCHHHHHHHHHHHHhhccCCHHHHHHHHHHHHHHHHhhccccccccccHhHH
Confidence 33 3344444444433332 22223333334444444333 33444444444555555444221 2355567
Q ss_pred HHHHhccChHHHHHHHHHHHHhHHhhhcCCChhHHHHHhhcc-----CChhhHHHHHHHHHHhHHHhccCcchhHHHHHH
Q 035754 177 NNFIDNMKGSRRKQILHLISVNAASLSRHRSGNYVVQHVLSL-----EDPFLIDAICFALRGHYVDLSLTKCGSFVVQKC 251 (335)
Q Consensus 177 q~~l~~~~~~~~~~l~~~l~~~~~~l~~d~~G~~viq~~l~~-----~~~~~~~~i~~~l~~~~~~l~~~~~gS~vve~~ 251 (335)
..++...+....+.+++.+-..-..+ ...+-.+++.. .+......++..+......++..-..+-+-|++
T Consensus 208 aeIlN~~d~~~e~~il~~l~~~~~~l-----a~~I~~kmF~Fediv~ldd~~iq~lL~~v~~~~La~aLkg~~~~lreki 282 (339)
T COG1536 208 AEILNLLDRGTEKTILESLEEEDPEL-----AEEIKEKMFVFEDIVLLDDRSIQRLLREVDKEDLAIALKGASEELREKI 282 (339)
T ss_pred HHHHHhcchhHHHHHHHHHhhcCHHH-----HHHHHHHHhhHHHHHhccHHHHHHHHHHcCHHHHHHHHcCCCHHHHHHH
Confidence 77777776555555554443211111 12222222221 123344444444444444444444455555555
Q ss_pred HhcCCcH
Q 035754 252 LKYQNAV 258 (335)
Q Consensus 252 l~~~~~~ 258 (335)
+..-+..
T Consensus 283 lsnmskR 289 (339)
T COG1536 283 LSNMSKR 289 (339)
T ss_pred HHhccHH
Confidence 5555443
No 27
>PF01603 B56: Protein phosphatase 2A regulatory B subunit (B56 family); InterPro: IPR002554 Protein phosphatase 2A (PP2A) is a major intracellular protein phosphatase that regulates multiple aspects of cell growth and metabolism. The ability of this widely distributed heterotrimeric enzyme to act on a diverse array of substrates is largely controlled by the nature of its regulatory B subunit. There are multiple families of B subunits, this family is called the B56 family [].; GO: 0008601 protein phosphatase type 2A regulator activity, 0007165 signal transduction, 0000159 protein phosphatase type 2A complex; PDB: 2NYM_B 2NYL_B 2IAE_E 2NPP_B 3FGA_B 2JAK_A.
Probab=59.75 E-value=1.6e+02 Score=27.78 Aligned_cols=33 Identities=9% Similarity=0.038 Sum_probs=19.7
Q ss_pred HHHHHhccChHHHHHHHHHHHHhHHhhhcCCCh
Q 035754 176 LNNFIDNMKGSRRKQILHLISVNAASLSRHRSG 208 (335)
Q Consensus 176 lq~~l~~~~~~~~~~l~~~l~~~~~~l~~d~~G 208 (335)
+..+++..++++...+...+...+...+..++-
T Consensus 279 l~~il~~~~~~~f~~i~~~lf~~la~ci~S~h~ 311 (409)
T PF01603_consen 279 LEEILEVLPPEEFQKIMVPLFKRLAKCISSPHF 311 (409)
T ss_dssp HHHHHTT--HHHHHHHHHHHHHHHHHHHTSSSH
T ss_pred HHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCCH
Confidence 455666666666666666666666666655543
No 28
>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=56.07 E-value=2.3e+02 Score=28.67 Aligned_cols=24 Identities=17% Similarity=0.260 Sum_probs=15.7
Q ss_pred hHHHhccCcchhHHHHHHHhcCCc
Q 035754 234 HYVDLSLTKCGSFVVQKCLKYQNA 257 (335)
Q Consensus 234 ~~~~l~~~~~gS~vve~~l~~~~~ 257 (335)
.+..+....+|+.+.+.+++.+-.
T Consensus 420 eLa~l~~~~~G~~I~eQi~Dv~iR 443 (877)
T KOG1059|consen 420 ELARLEGTRHGSLIAEQIIDVAIR 443 (877)
T ss_pred HHHhccccchhhHHHHHHHHHhee
Confidence 344455677777777777776644
No 29
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=53.54 E-value=3.5e+02 Score=29.90 Aligned_cols=99 Identities=14% Similarity=0.130 Sum_probs=71.3
Q ss_pred HHHHHHHHHhHHHhccCcchhHHHHHHHhcCCcH----HHHHHHHhChhhHHhhhcCcchhHHHHHHHhhccCcCcHHHH
Q 035754 225 DAICFALRGHYVDLSLTKCGSFVVQKCLKYQNAV----HYIIEELLNSDQILQVANDKYGNYVIQTALAETMRQDRLSVH 300 (335)
Q Consensus 225 ~~i~~~l~~~~~~l~~~~~gS~vve~~l~~~~~~----~~i~~~l~~~~~~~~l~~~~~g~~Viq~~l~~~~~~~~~~~~ 300 (335)
..+...|.+-+..-....-+-.+++.+++..... ..+.+.|+. --.-+-+.-+++.+|..... ..+
T Consensus 1530 ~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF~q~~~vW~~y~~fLl~------~ne~~aa~~lL~rAL~~lPk----~eH 1599 (1710)
T KOG1070|consen 1530 YTVHLKLLGIYEKSEKNDEADELLRLMLKKFGQTRKVWIMYADFLLR------QNEAEAARELLKRALKSLPK----QEH 1599 (1710)
T ss_pred HHHHHHHHHHHHHhhcchhHHHHHHHHHHHhcchhhHHHHHHHHHhc------ccHHHHHHHHHHHHHhhcch----hhh
Confidence 4455566666777777777888888888887744 333344443 22223466789999998887 788
Q ss_pred HHHHHHHHHHHHhhhcCCChHHHHHHHHhhCCC
Q 035754 301 QRLVTKLQQHLAALRVMKYGSNVYKWTTASHPC 333 (335)
Q Consensus 301 ~~l~~~l~~~~~~L~~~~~gs~v~~~l~~~~~~ 333 (335)
..++.++..-.-..-...-|+-+++-++..+|+
T Consensus 1600 v~~IskfAqLEFk~GDaeRGRtlfEgll~ayPK 1632 (1710)
T KOG1070|consen 1600 VEFISKFAQLEFKYGDAERGRTLFEGLLSAYPK 1632 (1710)
T ss_pred HHHHHHHHHHHhhcCCchhhHHHHHHHHhhCcc
Confidence 888888877777777778888899988888885
No 30
>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=53.42 E-value=1.5e+02 Score=26.06 Aligned_cols=196 Identities=10% Similarity=0.009 Sum_probs=0.0
Q ss_pred HhhcCCCHHHHHHHHHHHH-hhHHhhccCccchHHHHHHhhhcCHHHHHHHHHHHhcccchhhhhhccccCcHHHHHHHh
Q 035754 29 ENLSSGDSRILDKLFWVVS-GFTFELMSGQYGRFVFGKFIESCNESQLALIILKITFQDQLFLLASVDKFGSSSVKKLIK 107 (335)
Q Consensus 29 ~~l~~~~~e~~~~i~~e~~-~~~~~L~~~~~gs~v~q~ll~~~~~~~~~~i~~~l~~~~~~~~~l~~~~~gs~vlq~ll~ 107 (335)
..+-.++|.+.+.+++++. +...+=..-+.-+..+.-=-+..-..-...+-..+. +.+..+ +.-+||++...+-
T Consensus 42 q~L~~csp~q~e~lc~~L~l~~lsd~~l~~lc~~ll~Ls~dls~~~a~~l~~sl~L---pkilsL--~~~ASR~L~sal~ 116 (263)
T PF11510_consen 42 QFLNECSPSQVEMLCSQLQLPQLSDDGLLQLCSSLLALSPDLSHSNATVLLRSLFL---PKILSL--EEPASRLLVSALT 116 (263)
T ss_dssp HGGGG--HHHHHHHHHHHTGGG--HHHHHHHHHHHHH-SS---HHHHHHHHHHHHH---HHHHH---SS---HHHHHHHH
T ss_pred HHHHhCCHHHHHHHHHHhCcCCCCHHHHHHHHHHHHccCcccchhhHHHHHHHHHH---HHHHhc--CCCccHHHHHHHH
Q ss_pred hhcCChhHHHHHHHHHHHhhhhhhcCCCccHHHHHHh--hcCCcchhHHHHHHHHHhHHHhhcCCCccHHHHHHHhcc--
Q 035754 108 VVAHLPPLLYHVMSALKRLFKFLMMTKPGSSVILQCL--EPSYNHKNDFIYQAALEHCLYLACHEQGCINLNNFIDNM-- 183 (335)
Q Consensus 108 ~~~~~~~~~~~i~~~l~~~~~~l~~d~~g~~vvq~~l--~~~~~~~~~~l~~~~~~~~~~l~~~~~g~~vlq~~l~~~-- 183 (335)
. +....-...+.-.+.|-+..-...+.-.-++-+++ +..+++.+..++..+. ++.-+..-..|+|.+++..
T Consensus 117 ~-f~k~~p~~~~~all~PlL~~~~~g~~Q~eLl~rlvk~~~l~p~~~~l~l~~~L----~~~W~E~~~~Vlq~lL~~k~~ 191 (263)
T PF11510_consen 117 S-FCKKYPRPVCEALLVPLLQAPGLGPPQCELLCRLVKKECLEPDHRLLLLRQIL----ELVWNEETFLVLQSLLERKVE 191 (263)
T ss_dssp H-HHHHSHHHHHHHHHHHHHHSTT--HHHHHHHHHHHH-TTS-HHHHHHHHHHHH----HS---HHHHHHHHHHHTT---
T ss_pred H-HHHhCcHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccCCHHHHHHHHHHHH----hCcCcHHHHHHHHHHHhcCCC
Q ss_pred -ChHHHHHHHHHHHHhHHhhhcC-CChhHHHHHhhccC---ChhhHHHHHHHHHHh
Q 035754 184 -KGSRRKQILHLISVNAASLSRH-RSGNYVVQHVLSLE---DPFLIDAICFALRGH 234 (335)
Q Consensus 184 -~~~~~~~l~~~l~~~~~~l~~d-~~G~~viq~~l~~~---~~~~~~~i~~~l~~~ 234 (335)
+++....++..+..+.....++ +|+..++.-+=+++ .+.++..+...+..+
T Consensus 192 l~~~~~~~l~~~L~~~a~~~skSlkFakLlLtvltKy~~~it~~~~~~L~~~l~~n 247 (263)
T PF11510_consen 192 LSQELFSLLVELLCEQAPQFSKSLKFAKLLLTVLTKYQSQITEAHKLSLAEALELN 247 (263)
T ss_dssp --HHHHHHHHHHHH--------SHHHHHHHHHHHHHTGGG--HHHHHHHHHHH-SS
T ss_pred CCHHHHHHHHHHHHHhhHhhhcchHHHHHHHHHHHHcchhccHHHHHHHHHHHHhc
No 31
>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=53.42 E-value=25 Score=36.26 Aligned_cols=96 Identities=15% Similarity=0.130 Sum_probs=63.5
Q ss_pred chhhhccCchhcHHHHHhhcCCCHHHHHHHHHHHHhhHHhhc---------------------cCccchHHHHHHhhhcC
Q 035754 13 DLFSLAQDQEGSQYLQENLSSGDSRILDKLFWVVSGFTFELM---------------------SGQYGRFVFGKFIESCN 71 (335)
Q Consensus 13 ~~~~la~~~~~s~~lq~~l~~~~~e~~~~i~~e~~~~~~~L~---------------------~~~~gs~v~q~ll~~~~ 71 (335)
..+.+.+-+-|-++|-+++..-+.+++..|+..|..++..|. .+.|-..|+-.|..+.+
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 356777778899999999999999999999999988883332 23455555555555555
Q ss_pred HHHHHHHHHHHhc--ccchhhhhhccccCcHHHHHHHhh
Q 035754 72 ESQLALIILKITF--QDQLFLLASVDKFGSSSVKKLIKV 108 (335)
Q Consensus 72 ~~~~~~i~~~l~~--~~~~~~~l~~~~~gs~vlq~ll~~ 108 (335)
...+..|+..+.. +..++..++++++|--+|-.+|..
T Consensus 656 ~~~~~~i~gll~~~~~~~~~~~i~~tk~Gls~lt~llsR 694 (808)
T PF09770_consen 656 EAPFNEIIGLLGLLINNNNVSFIAQTKFGLSLLTMLLSR 694 (808)
T ss_dssp HHHHHHHTTSTTT-S--HHHHHHHTSHHHHHHHHHHHHH
T ss_pred hCCHHHHHHHHHHHHhCCCceEEEEChHHHHHHHHHHHH
Confidence 5544444432221 346778889999999999888876
No 32
>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=48.34 E-value=2.3e+02 Score=26.25 Aligned_cols=43 Identities=19% Similarity=0.189 Sum_probs=21.2
Q ss_pred cccCcHHHHHHHhhhcCChhHHHHHHHHHHHhhhhhhcCCCccHHHHHHhhc
Q 035754 95 DKFGSSSVKKLIKVVAHLPPLLYHVMSALKRLFKFLMMTKPGSSVILQCLEP 146 (335)
Q Consensus 95 ~~~gs~vlq~ll~~~~~~~~~~~~i~~~l~~~~~~l~~d~~g~~vvq~~l~~ 146 (335)
+++.++++..+++. ++. +. -.+.+.+.+.+..+.+++..+++.
T Consensus 56 ~p~~~~L~~qALkl-l~~------~l--~~~~i~~~l~~d~~~~~i~~~i~~ 98 (372)
T PF12231_consen 56 DPFDSRLVIQALKL-LGF------FL--YHPEIVSTLSDDFASFIIDHSIES 98 (372)
T ss_pred CCcchHHHHHHHHH-HHH------HH--ccHHHHhhCChHHHHHHHHHHHHH
Confidence 44666777766665 211 11 123344444555555555555554
No 33
>PRK05686 fliG flagellar motor switch protein G; Validated
Probab=44.69 E-value=2.5e+02 Score=25.64 Aligned_cols=151 Identities=10% Similarity=0.011 Sum_probs=70.6
Q ss_pred CHHHHHHHHHHHhcccchhhhhhc-cccCcHHHHHHHhhhcCChhHHHHHHHHHHHhhhhhhcCCCccHHHHHHhhcCCc
Q 035754 71 NESQLALIILKITFQDQLFLLASV-DKFGSSSVKKLIKVVAHLPPLLYHVMSALKRLFKFLMMTKPGSSVILQCLEPSYN 149 (335)
Q Consensus 71 ~~~~~~~i~~~l~~~~~~~~~l~~-~~~gs~vlq~ll~~~~~~~~~~~~i~~~l~~~~~~l~~d~~g~~vvq~~l~~~~~ 149 (335)
+++....+++.+. ..+..-.. ..-|-..++.++.. .-+++....+.+.+.+.-. ..++..+- ..++
T Consensus 56 s~~~~~~vL~ef~---~~~~~~~~~~~gg~~~~~~iL~~-~l~~~~a~~il~~i~~~~~--------~~~fe~L~-~ld~ 122 (339)
T PRK05686 56 SPEQVEAVLEEFE---DEFEAGAYILMGGIDYARSLLEK-ALGEEKADSILERILESLG--------TSGFDFLR-KMDP 122 (339)
T ss_pred CHHHHHHHHHHHH---HHHHhcccccCChHHHHHHHHHH-HcCHHHHHHHHHHHhcccc--------CchHHHHh-cCCH
Confidence 5556666666666 54443332 22334457788875 3444444444444433111 12333322 2234
Q ss_pred chhHHHHHHHHHhHHHhhcCCCccHHHHHHHhccChHHHHHHHHH------------------HHHhHHhhh----cCCC
Q 035754 150 HKNDFIYQAALEHCLYLACHEQGCINLNNFIDNMKGSRRKQILHL------------------ISVNAASLS----RHRS 207 (335)
Q Consensus 150 ~~~~~l~~~~~~~~~~l~~~~~g~~vlq~~l~~~~~~~~~~l~~~------------------l~~~~~~l~----~d~~ 207 (335)
+....++....+....++...-..-.-.+++...++..+..++.. +...+.... .+..
T Consensus 123 ~~l~~lL~~EhpqtiA~iLs~l~~~~aa~vL~~l~~~~~~~v~~ria~l~~v~~~~~~~i~~~L~~~l~~~~~~~~~~~~ 202 (339)
T PRK05686 123 QQLANFIRNEHPQTIALILSYLKPDQAAEILSLLPEELRADVMMRIATLEGVSPEALKEVEEVLEKKLSSMANADRTKMG 202 (339)
T ss_pred HHHHHHHHhcCHHHHHHHHhCCCHHHHHHHHHhCCHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHhhcccccccccC
Confidence 444444444444444443333333333444444443333332222 222222211 2334
Q ss_pred hhHHHHHhhccCChhhHHHHHHHHHHh
Q 035754 208 GNYVVQHVLSLEDPFLIDAICFALRGH 234 (335)
Q Consensus 208 G~~viq~~l~~~~~~~~~~i~~~l~~~ 234 (335)
|...+-.+|...+.+..+.+++.+...
T Consensus 203 g~~~~a~Iln~~~~~~~~~il~~L~~~ 229 (339)
T PRK05686 203 GVKTVAEILNNLDRQTEKTILESLEEE 229 (339)
T ss_pred cHHHHHHHHhcCCchHHHHHHHHHHhh
Confidence 666677777777777777777766653
No 34
>PRK07194 fliG flagellar motor switch protein G; Reviewed
Probab=42.97 E-value=2.6e+02 Score=25.45 Aligned_cols=89 Identities=7% Similarity=-0.098 Sum_probs=47.9
Q ss_pred CCCHHHHHHHHHHHHhhHHhhccCccch-HHHHHHhhh-cCHHHHHHHHHHHhccc--chhhhhhccccCcHHHHHHHhh
Q 035754 33 SGDSRILDKLFWVVSGFTFELMSGQYGR-FVFGKFIES-CNESQLALIILKITFQD--QLFLLASVDKFGSSSVKKLIKV 108 (335)
Q Consensus 33 ~~~~e~~~~i~~e~~~~~~~L~~~~~gs-~v~q~ll~~-~~~~~~~~i~~~l~~~~--~~~~~l~~~~~gs~vlq~ll~~ 108 (335)
.-++++.+.+++++...+..-..-..|+ -.++.++.. .+++.-..|++.+.... ..+..| ..-....+-.++..
T Consensus 49 ~v~~~~~~~vl~eF~~~~~~~~~~~~g~~~~~~~~L~~alg~~~a~~il~~i~~~~~~~~~~~L--~~~~~~~la~~l~~ 126 (334)
T PRK07194 49 GIKVDQARQVLQRFFDDYREQSGINGASRSYLQRTLNKALGGDIAKSLINSIYGDEIRHRMQRL--QWVDPQQLARLIAN 126 (334)
T ss_pred CCCHHHHHHHHHHHHHHHHhcCCcccchHHHHHHHHHHHcCHHHHHHHHHHHhccccCchHHHH--HCCCHHHHHHHHHc
Confidence 4467788888888877765443333343 234555544 45555666777665221 222222 22244556666664
Q ss_pred hcCChhHHHHHHHHHHH
Q 035754 109 VAHLPPLLYHVMSALKR 125 (335)
Q Consensus 109 ~~~~~~~~~~i~~~l~~ 125 (335)
-+|+....+...+.+
T Consensus 127 --EhPQ~iAiiL~~L~~ 141 (334)
T PRK07194 127 --EHLQMQAVFLAFLPP 141 (334)
T ss_pred --cCHHHHHHHHHhcCH
Confidence 455555555555544
No 35
>KOG1992 consensus Nuclear export receptor CSE1/CAS (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=41.73 E-value=4.2e+02 Score=27.43 Aligned_cols=89 Identities=11% Similarity=0.012 Sum_probs=47.5
Q ss_pred CCccHHHHHHhhcCCc---chhHHHHHHH-HHhHHHhhcC-CCccHHHHHHHhccChHHH-HHHHHHHHHhHHhhh----
Q 035754 134 KPGSSVILQCLEPSYN---HKNDFIYQAA-LEHCLYLACH-EQGCINLNNFIDNMKGSRR-KQILHLISVNAASLS---- 203 (335)
Q Consensus 134 ~~g~~vvq~~l~~~~~---~~~~~l~~~~-~~~~~~l~~~-~~g~~vlq~~l~~~~~~~~-~~l~~~l~~~~~~l~---- 203 (335)
+|+=.++-.+++.+.+ +....++..+ .+++|+..-+ +--.++++.+++.++.... ..-+.-+++.+..+.
T Consensus 657 PYvfQlla~lve~~~~~ip~~~~~l~~~lLsp~lW~r~gNipalvrLl~aflk~g~~~~~~~~~l~~iLGifqkLiaSka 736 (960)
T KOG1992|consen 657 PYVFQLLAVLVEHSSGTIPDSYSPLFPPLLSPNLWKRSGNIPALVRLLQAFLKTGSQIVEAADKLSGILGIFQKLIASKA 736 (960)
T ss_pred HHHHHHHHHHHHhcCCCCchhHHHHHHHhcCHHHHhhcCCcHHHHHHHHHHHhcCchhhcccccchhHHHHHHHHhcCcc
Confidence 3444445555555433 2333333322 2444444322 2234677888877653221 122344555555544
Q ss_pred cCCChhHHHHHhhccCChh
Q 035754 204 RHRSGNYVVQHVLSLEDPF 222 (335)
Q Consensus 204 ~d~~G~~viq~~l~~~~~~ 222 (335)
.|.+|-|+++.++++-++.
T Consensus 737 ~Dh~GF~LLn~i~~~~~~~ 755 (960)
T KOG1992|consen 737 NDHHGFYLLNTIIESIPPN 755 (960)
T ss_pred cchhHHHHHHHHHhcCCHh
Confidence 4778999999999887664
No 36
>KOG2274 consensus Predicted importin 9 [Intracellular trafficking, secretion, and vesicular transport; Nuclear structure]
Probab=41.69 E-value=4.3e+02 Score=27.60 Aligned_cols=91 Identities=14% Similarity=0.108 Sum_probs=49.6
Q ss_pred chhhhhhccccCcHHHHHHHhhhcCChhHHHHHHHHHHHhhhhhhcCCC----------ccHHHHHHhhcCCcchhHHHH
Q 035754 87 QLFLLASVDKFGSSSVKKLIKVVAHLPPLLYHVMSALKRLFKFLMMTKP----------GSSVILQCLEPSYNHKNDFIY 156 (335)
Q Consensus 87 ~~~~~l~~~~~gs~vlq~ll~~~~~~~~~~~~i~~~l~~~~~~l~~d~~----------g~~vvq~~l~~~~~~~~~~l~ 156 (335)
.-|...+.|+|-+-..|.+++-.+.....-....+.+.|-+.+.+.-+. |--++-.+++..++...+.++
T Consensus 578 ~lF~k~s~DP~V~~~~qd~f~el~q~~~~~g~m~e~~iPslisil~~~~~~~~~~l~~~aidvLttvvr~tp~pL~~~l~ 657 (1005)
T KOG2274|consen 578 NLFLKYSEDPQVASLAQDLFEELLQIAANYGPMQERLIPSLISVLQLNADKAPAGLCAIAIDVLTTVLRNTPSPLPNLLI 657 (1005)
T ss_pred HHHHHhcCCchHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHcCcccccCchhhHHHHHHHHHHHhcCCCCccHHHH
Confidence 4456677777777777777664111111111122223344444443322 234566777777777778888
Q ss_pred HHHHHhHHHhhcCCCccHHHH
Q 035754 157 QAALEHCLYLACHEQGCINLN 177 (335)
Q Consensus 157 ~~~~~~~~~l~~~~~g~~vlq 177 (335)
...++-+.....|.--.-.+|
T Consensus 658 ~~~FpaVak~tlHsdD~~tlQ 678 (1005)
T KOG2274|consen 658 CYAFPAVAKITLHSDDHETLQ 678 (1005)
T ss_pred HHHhHHhHhheeecCChHHHH
Confidence 777776666666654444443
No 37
>KOG1059 consensus Vesicle coat complex AP-3, delta subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=40.10 E-value=4.2e+02 Score=26.99 Aligned_cols=37 Identities=16% Similarity=0.197 Sum_probs=25.1
Q ss_pred HhhHHhhccCccchHHHHHHhhhc------CHHHHHHHHHHHh
Q 035754 47 SGFTFELMSGQYGRFVFGKFIESC------NESQLALIILKIT 83 (335)
Q Consensus 47 ~~~~~~L~~~~~gs~v~q~ll~~~------~~~~~~~i~~~l~ 83 (335)
.|.+.+|+++..-|+++=+++... .|...++++..+.
T Consensus 220 AP~ffkllttSsNNWmLIKiiKLF~aLtplEPRLgKKLieplt 262 (877)
T KOG1059|consen 220 APLFYKLLVTSSNNWVLIKLLKLFAALTPLEPRLGKKLIEPIT 262 (877)
T ss_pred cHHHHHHHhccCCCeehHHHHHHHhhccccCchhhhhhhhHHH
Confidence 366788999999999988888763 3444455554443
No 38
>PF14666 RICTOR_M: Rapamycin-insensitive companion of mTOR, middle domain
Probab=34.61 E-value=2.7e+02 Score=23.83 Aligned_cols=128 Identities=17% Similarity=0.184 Sum_probs=65.6
Q ss_pred CccHHHHHHHhccChHHHH---HHHHHHHHhHHhhhcCCChhHHHHHhhccCChhhHHHHHHHHHHhHHHhccCcchhHH
Q 035754 171 QGCINLNNFIDNMKGSRRK---QILHLISVNAASLSRHRSGNYVVQHVLSLEDPFLIDAICFALRGHYVDLSLTKCGSFV 247 (335)
Q Consensus 171 ~g~~vlq~~l~~~~~~~~~---~l~~~l~~~~~~l~~d~~G~~viq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~gS~v 247 (335)
.||..++.++....+.... .++..+.+.+.++-. ..|...-..++. +......++..--..+..++.++.|=.+
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 4777788887774322211 233333333333200 122221111222 1223344555555567788999999877
Q ss_pred HHH---------HHhcCCcHHHHHHHHhChhhHHhhhcCcchhHHHHHHHhhccCcCcHHHHHHHHHHHHH
Q 035754 248 VQK---------CLKYQNAVHYIIEELLNSDQILQVANDKYGNYVIQTALAETMRQDRLSVHQRLVTKLQQ 309 (335)
Q Consensus 248 ve~---------~l~~~~~~~~i~~~l~~~~~~~~l~~~~~g~~Viq~~l~~~~~~~~~~~~~~l~~~l~~ 309 (335)
+++ +++..+. ..++.-++. . .+...+.+..-++.++|..++. ..|....+.|..
T Consensus 160 Le~~~if~~l~~i~~~~~~-~~l~klil~--~-LDY~~~~~~R~iLsKaLt~~s~----~iRl~aT~~L~~ 222 (226)
T PF14666_consen 160 LERWNIFTMLYHIFSLSSR-DDLLKLILS--S-LDYSVDGHPRIILSKALTSGSE----SIRLYATKHLRV 222 (226)
T ss_pred HHHCCHHHHHHHHHccCch-HHHHHHHHh--h-CCCCCccHHHHHHHHHHhcCCH----HHHHHHHHHHHH
Confidence 664 2222211 444444443 2 2455577777888888888887 566555554443
No 39
>PF10521 DUF2454: Protein of unknown function (DUF2454); InterPro: IPR018870 Putative protein of unknown function; subunit of the ASTRA complex which is part of the chromatin remodeling machinery; similar to Schizosaccharomyces pombe (Fission yeast) Tti2p; may interact with Rsm23p [].
Probab=34.42 E-value=3.3e+02 Score=24.05 Aligned_cols=52 Identities=12% Similarity=0.049 Sum_probs=28.3
Q ss_pred CcHHHHHHHh-hhcCChhHHHHHHHHHHHhhhhhhcCC------CccHHHHHHhhcCCcch
Q 035754 98 GSSSVKKLIK-VVAHLPPLLYHVMSALKRLFKFLMMTK------PGSSVILQCLEPSYNHK 151 (335)
Q Consensus 98 gs~vlq~ll~-~~~~~~~~~~~i~~~l~~~~~~l~~d~------~g~~vvq~~l~~~~~~~ 151 (335)
+++++.-++. . ...+. .+.....+.+-+..++-|. .|-.+++.+++..++..
T Consensus 96 ~~~~l~w~v~~~-~~~~~-i~~~~~liiP~iL~llDD~~~~~K~~G~~lL~~ll~~~~~~~ 154 (282)
T PF10521_consen 96 ASHVLSWIVLSQ-LDRPW-ISQHWPLIIPPILNLLDDYSPEIKIQGCQLLHHLLEKVPAAE 154 (282)
T ss_pred cHHHHHHHHHhc-CCcch-HHHhhhHHHhhHHHHhcCCCHHHHHHHHHHHHHHHHhCChhh
Confidence 4456666666 4 33333 3334444666666676664 34555666666655444
No 40
>PF08625 Utp13: Utp13 specific WD40 associated domain; InterPro: IPR013934 A large ribonuclear protein complex is required for the processing of the small-ribosomal-subunit rRNA - the small-subunit (SSU) processome [, ]. This preribosomal complex contains the U3 snoRNA and at least 40 proteins, which have the following properties: They are nucleolar. They are able to coimmunoprecipitate with the U3 snoRNA and Mpp10 (a protein specific to the SSU processome). They are required for 18S rRNA biogenesis. There appears to be a linkage between polymerase I transcription and the formation of the SSU processome; as some, but not all, of the SSU processome components are required for pre-rRNA transcription initiation. These SSU processome components have been termed t-Utps. They form a pre-complex with pre-18S rRNA in the absence of snoRNA U3 and other SSU processome components. It has been proposed that the t-Utp complex proteins are both rDNA and rRNA binding proteins that are involved in the initiation of pre18S rRNA transcription. Initially binding to rDNA then associating with the 5' end of the nascent pre18S rRNA. The t-Utpcomplex forms the nucleus around which the rest of the SSU processome components, including snoRNA U3, assemble []. From electron microscopy the SSU processome may correspond to the terminal knobs visualized at the 5' ends of nascent 18S rRNA. Utp13 is a nucleolar protein and component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA []. Upt13 is also a component of the Pwp2 complex that forms part of a stable particle subunit independent of the U3 small nucleolar ribonucleoprotein that is essential for the initial assembly steps of the 90S pre-ribosome []. Components of the Pwp2 complex are: Utp1 (Pwp2), Utp6, Utp12 (Dip2), Utp13, Utp18, and Utp21. The relationship between the Pwp2 complex and the t-Utps complex [] that also associates with the 5' end of nascent pre-18S rRNA is unclear. ; GO: 0006364 rRNA processing, 0032040 small-subunit processome
Probab=33.37 E-value=2.4e+02 Score=22.12 Aligned_cols=53 Identities=8% Similarity=-0.002 Sum_probs=31.5
Q ss_pred CccHHHHHHhhcCCcchhHHHHHHHHHhHHHhhcCCCccHHHHHHHhccChHH
Q 035754 135 PGSSVILQCLEPSYNHKNDFIYQAALEHCLYLACHEQGCINLNNFIDNMKGSR 187 (335)
Q Consensus 135 ~g~~vvq~~l~~~~~~~~~~l~~~~~~~~~~l~~~~~g~~vlq~~l~~~~~~~ 187 (335)
.|+.-+..++...+.++...+++.+...-..--....+..|+..+|...+++.
T Consensus 46 ~g~~~l~~~i~~L~~~~l~~LL~~ir~WNTNsr~~~vAQ~vL~~il~~~~~~~ 98 (141)
T PF08625_consen 46 IGSEELDEVIKKLDDEQLEKLLRFIRDWNTNSRTSHVAQRVLNAILKSHPPEE 98 (141)
T ss_pred chHHHHHHHHHhcCHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCCHHH
Confidence 36677778888877777777776666543322222334455556666655544
No 41
>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=31.70 E-value=2.5e+02 Score=21.98 Aligned_cols=72 Identities=15% Similarity=0.230 Sum_probs=42.4
Q ss_pred hHHHHHHHhcCCcH--HHHH-HHHhChhhHHhhhcCcchhHHHHHHHhhccCcCcHHHHHHHHHHHHHHHHhhhcCCCh-
Q 035754 245 SFVVQKCLKYQNAV--HYII-EELLNSDQILQVANDKYGNYVIQTALAETMRQDRLSVHQRLVTKLQQHLAALRVMKYG- 320 (335)
Q Consensus 245 S~vve~~l~~~~~~--~~i~-~~l~~~~~~~~l~~~~~g~~Viq~~l~~~~~~~~~~~~~~l~~~l~~~~~~L~~~~~g- 320 (335)
=.+++.|++.|+.. ..|. ++++. .+..++.++. .. ..+++++.-+...-......+.=
T Consensus 58 L~LLe~~vkNCG~~fh~evask~Fl~--eL~kl~~~~~------------~~----~Vk~kil~li~~W~~~f~~~~~l~ 119 (144)
T cd03568 58 LTLLDACAENCGKRFHQEVASRDFTQ--ELKKLINDRV------------HP----TVKEKLREVVKQWADEFKNDPSLS 119 (144)
T ss_pred HHHHHHHHHHCCHHHHHHHhhHHHHH--HHHHHhcccC------------CH----HHHHHHHHHHHHHHHHhCCCcccH
Confidence 35889999999976 3333 34555 6667777651 22 56666666666665555544422
Q ss_pred --HHHHHHHHhhCCCC
Q 035754 321 --SNVYKWTTASHPCL 334 (335)
Q Consensus 321 --s~v~~~l~~~~~~~ 334 (335)
..+...|..+.+.|
T Consensus 120 ~i~~~y~~L~~~G~~f 135 (144)
T cd03568 120 LMSDLYKKLKNEGPDL 135 (144)
T ss_pred HHHHHHHHHHHcCCCC
Confidence 34455555555544
No 42
>KOG1086 consensus Cytosolic sorting protein/ADP-ribosylation factor effector GGA [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.17 E-value=1.9e+02 Score=27.24 Aligned_cols=85 Identities=15% Similarity=0.219 Sum_probs=0.0
Q ss_pred HHHHHHhHHhhhcCCChhHHHHHhhccC--ChhhHHHHHHHHHHhHHHhccCcchhHHHHHHHhcCCcH-------HHHH
Q 035754 192 LHLISVNAASLSRHRSGNYVVQHVLSLE--DPFLIDAICFALRGHYVDLSLTKCGSFVVQKCLKYQNAV-------HYII 262 (335)
Q Consensus 192 ~~~l~~~~~~l~~d~~G~~viq~~l~~~--~~~~~~~i~~~l~~~~~~l~~~~~gS~vve~~l~~~~~~-------~~i~ 262 (335)
+..|.+.+.++-+|+.|-.+.-.+|.+. +|...+.+... .|++.|++.|+.+ -+++
T Consensus 26 w~ai~~fceqinkdp~gp~lAv~LlaHKiqSPqe~EAl~al---------------tvLe~cmkncGekfH~evgkfrFL 90 (594)
T KOG1086|consen 26 WKAIDGFCEQINKDPEGPLLAVRLLAHKIQSPQEWEALQAL---------------TVLEYCMKNCGEKFHEEVGKFRFL 90 (594)
T ss_pred HHHHHHHHHHHhcCCCCchhHHHHHHhhcCChhHHHHHHHH---------------HHHHHHHHhhhHHHHHHHHHHHHH
Q ss_pred HHHhC---hhhHHhhhcCcchhHHHHHHHhhc
Q 035754 263 EELLN---SDQILQVANDKYGNYVIQTALAET 291 (335)
Q Consensus 263 ~~l~~---~~~~~~l~~~~~g~~Viq~~l~~~ 291 (335)
+||+. +..+.....+..-+.||.-++...
T Consensus 91 NELIkvvsPKYlG~~tSekvKtkiIelLfsWt 122 (594)
T KOG1086|consen 91 NELIKVVSPKYLGSRTSEKVKTKIIELLFSWT 122 (594)
T ss_pred HHHHHHhCchhcchhhhHHHHHHHHHHHhhhe
No 43
>COG4399 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.08 E-value=3.3e+02 Score=24.94 Aligned_cols=24 Identities=17% Similarity=0.199 Sum_probs=12.4
Q ss_pred HhccChHHHHHHHHHHHHhHHhhh
Q 035754 180 IDNMKGSRRKQILHLISVNAASLS 203 (335)
Q Consensus 180 l~~~~~~~~~~l~~~l~~~~~~l~ 203 (335)
++..+.+....++.++..+-..+.
T Consensus 331 i~~fs~~~lE~lV~~Is~kElkmI 354 (376)
T COG4399 331 INTFSLERLEKLVLEISRKELKMI 354 (376)
T ss_pred HhcCCHHHHHHHHHHHHHHHHHHH
Confidence 334455555666666655544443
No 44
>COG5240 SEC21 Vesicle coat complex COPI, gamma subunit [Intracellular trafficking and secretion]
Probab=30.47 E-value=5.5e+02 Score=25.51 Aligned_cols=141 Identities=11% Similarity=0.043 Sum_probs=86.8
Q ss_pred hhhhhhcCC---CccHHHHHHhhcCCcchhHHHHHHHHHhHHHhhcCCCccHHHHHH--HhccChHHHHHHHHHHHHhHH
Q 035754 126 LFKFLMMTK---PGSSVILQCLEPSYNHKNDFIYQAALEHCLYLACHEQGCINLNNF--IDNMKGSRRKQILHLISVNAA 200 (335)
Q Consensus 126 ~~~~l~~d~---~g~~vvq~~l~~~~~~~~~~l~~~~~~~~~~l~~~~~g~~vlq~~--l~~~~~~~~~~l~~~l~~~~~ 200 (335)
++.+|+.|. .+.|-+-.+++....+....+++.+..-+-+++ +.+--.++.++ +....+..+..+++-+...+.
T Consensus 344 evEsLIsd~Nr~IstyAITtLLKTGt~e~idrLv~~I~sfvhD~S-D~FKiI~ida~rsLsl~Fp~k~~s~l~FL~~~L~ 422 (898)
T COG5240 344 EVESLISDENRTISTYAITTLLKTGTEETIDRLVNLIPSFVHDMS-DGFKIIAIDALRSLSLLFPSKKLSYLDFLGSSLL 422 (898)
T ss_pred hHHHHhhcccccchHHHHHHHHHcCchhhHHHHHHHHHHHHHhhc-cCceEEeHHHHHHHHhhCcHHHHHHHHHHHHHHH
Confidence 355666664 456888899999888888888887766555553 22322333332 222234455556555554444
Q ss_pred hhhcCCChhHHHHHhhccC--ChhhHHHHHHHHHHhHHHhccCcchhHHHHHHHhcCCcH-------HHHHHHHhC
Q 035754 201 SLSRHRSGNYVVQHVLSLE--DPFLIDAICFALRGHYVDLSLTKCGSFVVQKCLKYQNAV-------HYIIEELLN 267 (335)
Q Consensus 201 ~l~~d~~G~~viq~~l~~~--~~~~~~~i~~~l~~~~~~l~~~~~gS~vve~~l~~~~~~-------~~i~~~l~~ 267 (335)
+=-.=.+-+|.+.++.+.. .|+.+++.++.|...+..--.++..-+++--+=+.++.. ..|+++++-
T Consensus 423 ~eGg~eFK~~~Vdaisd~~~~~p~skEraLe~LC~fIEDcey~~I~vrIL~iLG~EgP~a~~P~~yvrhIyNR~iL 498 (898)
T COG5240 423 QEGGLEFKKYMVDAISDAMENDPDSKERALEVLCTFIEDCEYHQITVRILGILGREGPRAKTPGKYVRHIYNRLIL 498 (898)
T ss_pred hcccchHHHHHHHHHHHHHhhCchHHHHHHHHHHHHHhhcchhHHHHHHHHHhcccCCCCCCcchHHHHHHHHHHH
Confidence 4222235667777776643 678888888888888888777777777776555554433 455555543
No 45
>PF14676 FANCI_S2: FANCI solenoid 2; PDB: 3S51_A 3S4Z_A 3S4W_A.
Probab=30.01 E-value=2.6e+02 Score=22.35 Aligned_cols=99 Identities=12% Similarity=0.101 Sum_probs=45.4
Q ss_pred ChhHHHHHhhccCChhhHHHHHHHHHHhHHHhccCc--chhHHHHHHHhcCCcH----HHHHHHHhChhhHHhhhcCcch
Q 035754 207 SGNYVVQHVLSLEDPFLIDAICFALRGHYVDLSLTK--CGSFVVQKCLKYQNAV----HYIIEELLNSDQILQVANDKYG 280 (335)
Q Consensus 207 ~G~~viq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~--~gS~vve~~l~~~~~~----~~i~~~l~~~~~~~~l~~~~~g 280 (335)
-|.-+++.+++. .+..+.+|++.+.+.+..-+.++ .-..++-.+....+.. ..-+.++++ ++ .......+
T Consensus 37 LG~~IL~~~fk~-h~~~r~~Ile~l~~rI~~~s~~~~~~~idlL~~lv~~~p~~vle~~~~l~~~ld--~l-~~lp~~~a 112 (158)
T PF14676_consen 37 LGIQILLELFKV-HEMIRSEILEQLLNRIVTKSSSPSSQYIDLLSELVRKAPLTVLECSSKLKELLD--YL-SFLPGDVA 112 (158)
T ss_dssp HHHHHHHHHHHH--GGGHHHHHHHHHHHHHH--SS--HHHHHHHHHHHHH-HHHHS-S-HHHHGGGG--GT-TTS-HHHH
T ss_pred HHHHHHHHHHHH-hHHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHChHHHHHHHHHHHHHHH--HH-HhCCHHHH
Confidence 466666666652 34456666666666666555542 1233444444444433 223334443 22 22223334
Q ss_pred hHHHHHHHhhccCcCcHHHHHHHHHHHHHHH
Q 035754 281 NYVIQTALAETMRQDRLSVHQRLVTKLQQHL 311 (335)
Q Consensus 281 ~~Viq~~l~~~~~~~~~~~~~~l~~~l~~~~ 311 (335)
...+.+++-.... ....|+.++-.|+..+
T Consensus 113 ~~ll~Al~PLi~~--s~~lrd~lilvLRKam 141 (158)
T PF14676_consen 113 IGLLRALLPLIKF--SPSLRDSLILVLRKAM 141 (158)
T ss_dssp HHHHHHHHHHHTT---HHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHhc--CHHHHHHHHHHHHHHH
Confidence 4555555544433 1166777777766653
No 46
>KOG3821 consensus Heparin sulfate cell surface proteoglycan [Signal transduction mechanisms]
Probab=27.42 E-value=6e+02 Score=24.90 Aligned_cols=53 Identities=17% Similarity=0.224 Sum_probs=35.4
Q ss_pred ccCcchhHHHHHHHhcCCcHHHHHHHHhChhhHHhhhcCcchhHHHHHHHhhccC
Q 035754 239 SLTKCGSFVVQKCLKYQNAVHYIIEELLNSDQILQVANDKYGNYVIQTALAETMR 293 (335)
Q Consensus 239 ~~~~~gS~vve~~l~~~~~~~~i~~~l~~~~~~~~l~~~~~g~~Viq~~l~~~~~ 293 (335)
-|.-|-.+|+.-|+..-.+.+.-+...++ .+..|+..-+|.|=|...+.....
T Consensus 267 PC~gYC~NVmrGClA~~adLd~~W~~~id--Sl~~L~~~l~g~~~iesvl~~i~v 319 (563)
T KOG3821|consen 267 PCYGYCLNVMRGCLANQADLDPEWRNYID--SLLELADKLEGPFNIESVLLPIHV 319 (563)
T ss_pred CcHHHHHHHHHHHhhhhcccchHHHHHHH--HHHHHHHhhcCcchHHHHHhhhhh
Confidence 34557789999999886655445555555 566677666777766666666554
No 47
>PF12213 Dpoe2NT: DNA polymerases epsilon N terminal; InterPro: IPR024639 This domain is found in the N-terminal of DNA polymerase epsilon subunit B proteins. It contains a single completely conserved phenylalanine residue that may be functionally important. It forms a primarily alpha helical structure in which four helices are arranged in two hairpins with connecting loops containing beta strands which form a short parallel sheet. DNA polymerase epsilon is required in DNA replication for synthesis of the leading strand. The N-terminal domain has close structural relation to AAA+ protein C-terminal domains [].; PDB: 2V6Z_M.
Probab=26.24 E-value=86 Score=21.48 Aligned_cols=54 Identities=20% Similarity=0.127 Sum_probs=31.1
Q ss_pred hhhhccCchhcHHHHHhhcCCCHHHHHHHHHHHHhhHH--hhccCccchHHHHHHh
Q 035754 14 LFSLAQDQEGSQYLQENLSSGDSRILDKLFWVVSGFTF--ELMSGQYGRFVFGKFI 67 (335)
Q Consensus 14 ~~~la~~~~~s~~lq~~l~~~~~e~~~~i~~e~~~~~~--~L~~~~~gs~v~q~ll 67 (335)
+..+....++++++-..|..-++++++.+++.+.+.+. .|.+.-..--+++..+
T Consensus 15 L~Gl~Lr~eA~~~l~~~l~~~~~~e~e~~l~~Ii~~v~kq~Lss~~v~~~~ie~Av 70 (73)
T PF12213_consen 15 LRGLSLRSEASKYLAEQLQSLSEEEREDWLDKIIDAVQKQPLSSSIVDKEHIESAV 70 (73)
T ss_dssp HTT-EE-HHHHHHHHHHTTTS-TTTHHHHHHHHHHHHTTS--SSSEE-HHHHHHHH
T ss_pred hccceecHHHHHHHHHHHccCCHHHHHHHHHHHHHHHhcCCCCCCccCHHHHHHHH
Confidence 44566677888888888877777777777777776663 3444444444444433
No 48
>PF14666 RICTOR_M: Rapamycin-insensitive companion of mTOR, middle domain
Probab=23.77 E-value=4.2e+02 Score=22.65 Aligned_cols=68 Identities=15% Similarity=0.060 Sum_probs=35.5
Q ss_pred HhHHHhhcCCCccHHHHHH------HhccChHHHHHHHHHHHHhHHhhhcCCChhHHHHHhhccCChhhHHHHHH
Q 035754 161 EHCLYLACHEQGCINLNNF------IDNMKGSRRKQILHLISVNAASLSRHRSGNYVVQHVLSLEDPFLIDAICF 229 (335)
Q Consensus 161 ~~~~~l~~~~~g~~vlq~~------l~~~~~~~~~~l~~~l~~~~~~l~~d~~G~~viq~~l~~~~~~~~~~i~~ 229 (335)
.-+-.++.++.|-.++++. ...+..+.+..++.-+..++ +...+....-+++++|..++...|-...+
T Consensus 145 ~~IG~lS~~~~Gl~lLe~~~if~~l~~i~~~~~~~~l~klil~~L-DY~~~~~~R~iLsKaLt~~s~~iRl~aT~ 218 (226)
T PF14666_consen 145 LFIGVLSSTPNGLKLLERWNIFTMLYHIFSLSSRDDLLKLILSSL-DYSVDGHPRIILSKALTSGSESIRLYATK 218 (226)
T ss_pred HHHHHHhCChhHHHHHHHCCHHHHHHHHHccCchHHHHHHHHhhC-CCCCccHHHHHHHHHHhcCCHHHHHHHHH
Confidence 3456778888888776632 12222223344444444443 33445556666677777666555444443
No 49
>cd00256 VATPase_H VATPase_H, regulatory vacuolar ATP synthase subunit H (Vma13p); activation component of the peripheral V1 complex of V-ATPase, a heteromultimeric enzyme which uses ATP to actively transport protons into organelles and extracellular compartments. The topology is that of a superhelical spiral, in part the geometry is similar to superhelices composed of armadillo repeat motifs, as found in importins for example.
Probab=23.38 E-value=6.5e+02 Score=23.93 Aligned_cols=42 Identities=17% Similarity=0.120 Sum_probs=28.4
Q ss_pred hHHHHHHHHHHhHHHhc-cCcchhHHHHHHHhcCCcH--HHHHHH
Q 035754 223 LIDAICFALRGHYVDLS-LTKCGSFVVQKCLKYQNAV--HYIIEE 264 (335)
Q Consensus 223 ~~~~i~~~l~~~~~~l~-~~~~gS~vve~~l~~~~~~--~~i~~~ 264 (335)
..+.+-+.+.+.+.+++ .++|-+-|--.-++.++.. +.++.+
T Consensus 298 dl~~L~e~L~~~~k~ltsfD~Y~~El~sg~L~WSp~H~se~FW~E 342 (429)
T cd00256 298 DLKFLTEELKNSVQDLSSFDEYKSELRSGRLHWSPVHKSEKFWRE 342 (429)
T ss_pred HHHHHHHHHHHHHHHcCCHHHHHHHHhcCCccCCCCCCCchHHHH
Confidence 34566667777777776 7888888877777776555 555544
No 50
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=22.58 E-value=1.1e+03 Score=26.37 Aligned_cols=32 Identities=9% Similarity=-0.032 Sum_probs=19.2
Q ss_pred hhccCchhcHH----HHHhhcCCCHHHHHHHHHHHH
Q 035754 16 SLAQDQEGSQY----LQENLSSGDSRILDKLFWVVS 47 (335)
Q Consensus 16 ~la~~~~~s~~----lq~~l~~~~~e~~~~i~~e~~ 47 (335)
.+-.+|+.|.. |+-.|+.+..|..+.+.++..
T Consensus 1450 lvrssPNSSi~WI~YMaf~LelsEiekAR~iaerAL 1485 (1710)
T KOG1070|consen 1450 LVRSSPNSSILWIRYMAFHLELSEIEKARKIAERAL 1485 (1710)
T ss_pred HHhcCCCcchHHHHHHHHHhhhhhhHHHHHHHHHHh
Confidence 34567777654 455556666666666666554
No 51
>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]
Probab=21.96 E-value=7.6e+02 Score=24.23 Aligned_cols=210 Identities=8% Similarity=0.009 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHhhhhhhcCCCccHHHHHHhhcCCcchhHHHHHHHHHhHHHhhcCCCccHHHHHHHhccChHHHHHHH
Q 035754 113 PPLLYHVMSALKRLFKFLMMTKPGSSVILQCLEPSYNHKNDFIYQAALEHCLYLACHEQGCINLNNFIDNMKGSRRKQIL 192 (335)
Q Consensus 113 ~~~~~~i~~~l~~~~~~l~~d~~g~~vvq~~l~~~~~~~~~~l~~~~~~~~~~l~~~~~g~~vlq~~l~~~~~~~~~~l~ 192 (335)
....+.++-.-...+..+.+.+-.-..+-+++...+...+..|++.++.+.....-++.+.+-+-+++....+++.-.+.
T Consensus 42 ~~~k~si~~lyisg~~~~s~~~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e~kmal~el~q~y~en~n~~l~~lW 121 (711)
T COG1747 42 AHSKNSIIALYISGIISLSKQLLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGESKMALLELLQCYKENGNEQLYSLW 121 (711)
T ss_pred HHhhhhhHHHHHHHHHHhhhccccchHHHHHHHHhccchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhcCchhhHHHH
Q ss_pred H--------------HHHHhHHhhhcCCChhHHHHHhhccCChhhHHHHHHHHHHhHHHhccCcchh--HHHHHHHhcCC
Q 035754 193 H--------------LISVNAASLSRHRSGNYVVQHVLSLEDPFLIDAICFALRGHYVDLSLTKCGS--FVVQKCLKYQN 256 (335)
Q Consensus 193 ~--------------~l~~~~~~l~~d~~G~~viq~~l~~~~~~~~~~i~~~l~~~~~~l~~~~~gS--~vve~~l~~~~ 256 (335)
. ++.....+ .+........-+++...-|.....-++.+...++++..+..-+ .+++++=...+
T Consensus 122 er~ve~dfnDvv~~ReLa~~yEk-ik~sk~a~~f~Ka~yrfI~~~q~~~i~evWeKL~~~i~dD~D~fl~l~~kiqt~lg 200 (711)
T COG1747 122 ERLVEYDFNDVVIGRELADKYEK-IKKSKAAEFFGKALYRFIPRRQNAAIKEVWEKLPELIGDDKDFFLRLQKKIQTKLG 200 (711)
T ss_pred HHHHHhcchhHHHHHHHHHHHHH-hchhhHHHHHHHHHHHhcchhhhhhHHHHHHHHHHhccccHHHHHHHHHHHHHhhc
Q ss_pred cH--HHHHHHHhChhhHHhhhcCcchhHHHHHHHhhccCcCcHHHHHHHHHHHHH----------HHHhhhcCCChHHHH
Q 035754 257 AV--HYIIEELLNSDQILQVANDKYGNYVIQTALAETMRQDRLSVHQRLVTKLQQ----------HLAALRVMKYGSNVY 324 (335)
Q Consensus 257 ~~--~~i~~~l~~~~~~~~l~~~~~g~~Viq~~l~~~~~~~~~~~~~~l~~~l~~----------~~~~L~~~~~gs~v~ 324 (335)
.. ...+..+.. +...=..=.-+=.++.++|++... +.+-|+.+++-++. .+.----++.|+.+.
T Consensus 201 ~~~~~Vl~qdv~~--~Ys~~eN~~eai~Ilk~il~~d~k--~~~ar~~~i~~lRd~y~~~~~~e~yl~~s~i~~~~rnf~ 276 (711)
T COG1747 201 EGRGSVLMQDVYK--KYSENENWTEAIRILKHILEHDEK--DVWARKEIIENLRDKYRGHSQLEEYLKISNISQSGRNFF 276 (711)
T ss_pred cchHHHHHHHHHH--HhccccCHHHHHHHHHHHhhhcch--hhhHHHHHHHHHHHHhccchhHHHHHHhcchhhccccHH
Q ss_pred HHH
Q 035754 325 KWT 327 (335)
Q Consensus 325 ~~l 327 (335)
+.+
T Consensus 277 ~~l 279 (711)
T COG1747 277 EAL 279 (711)
T ss_pred HHH
No 52
>PF04858 TH1: TH1 protein; InterPro: IPR006942 TH1 is a highly conserved but uncharacterised metazoan protein. No homologue has been identified in Caenorhabditis elegans []. TH1 binds specifically to A-Raf kinase [].; GO: 0045892 negative regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=21.03 E-value=3.7e+02 Score=26.69 Aligned_cols=68 Identities=13% Similarity=0.032 Sum_probs=48.4
Q ss_pred HHHHHHHHHHhHHHhccCcchhHHHHHHHhcCCc-H--HHHHHHHhChhhHHhhhcCcchhHHHHHHHhhccC
Q 035754 224 IDAICFALRGHYVDLSLTKCGSFVVQKCLKYQNA-V--HYIIEELLNSDQILQVANDKYGNYVIQTALAETMR 293 (335)
Q Consensus 224 ~~~i~~~l~~~~~~l~~~~~gS~vve~~l~~~~~-~--~~i~~~l~~~~~~~~l~~~~~g~~Viq~~l~~~~~ 293 (335)
.-++-+.+.+.++.|...-|--.|++.+-+.... . ..+++-++. .+.+++.-||+.-.++.++.....
T Consensus 484 ~le~kr~ilD~~V~L~s~G~VlPVl~~i~~~~~~~~iD~SLiRyFv~--eVLeii~PPYS~~Fv~~~l~ll~~ 554 (584)
T PF04858_consen 484 QLELKRTILDRMVHLLSRGYVLPVLEYIRKCWARGDIDPSLIRYFVT--EVLEIIGPPYSPEFVQLFLPLLEN 554 (584)
T ss_pred HHHHHHHHHHHHHHHHhCCeeehHHHHHHHHHhccCCcHHHHHHHHH--HHHHHcCCCCCHHHHHHHHHHHhc
Confidence 3455566677777777777777788777766443 2 677777777 777788888888888888776544
No 53
>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=21.01 E-value=2.5e+02 Score=29.17 Aligned_cols=75 Identities=17% Similarity=0.169 Sum_probs=18.4
Q ss_pred hHHHhccCcchhHHHHHHHhcCCc-------H-------HHHHHHHhChhhH-----Hh------hhcCcchhHHHHHHH
Q 035754 234 HYVDLSLTKCGSFVVQKCLKYQNA-------V-------HYIIEELLNSDQI-----LQ------VANDKYGNYVIQTAL 288 (335)
Q Consensus 234 ~~~~l~~~~~gS~vve~~l~~~~~-------~-------~~i~~~l~~~~~~-----~~------l~~~~~g~~Viq~~l 288 (335)
++..++++|+|--++-.+|..+.. . ..+++.|+. .+ .. -..+---+||.|-+-
T Consensus 674 ~~~~i~~tk~Gls~lt~llsRae~l~~~~~~~~~~~~~W~~~~~~lf~--~l~~~~~~~~fp~~~~~~~~~~~~vwq~la 751 (808)
T PF09770_consen 674 NVSFIAQTKFGLSLLTMLLSRAELLKQSGSSSEEEWSQWTEFYDQLFD--SLEEPRLPSIFPPDSSINSGDDSYVWQFLA 751 (808)
T ss_dssp HHHHHHTSHHHHHHHHHHHHHHHHHHHT------HHHHHHHH--------------------------------------
T ss_pred CceEEEEChHHHHHHHHHHHHHHHhhccCCCCHHHHHHhhhhhhhccc--cccccccccccccccccccccccccccccc
Confidence 566788899998887777665321 1 445555554 22 11 122233457766554
Q ss_pred hhccCcCcHHHHHHHHHHHHHHH
Q 035754 289 AETMRQDRLSVHQRLVTKLQQHL 311 (335)
Q Consensus 289 ~~~~~~~~~~~~~~l~~~l~~~~ 311 (335)
..+-.+ ..++-..|+.++++.+
T Consensus 752 ~~~~~~-~~~~q~~lv~~vrd~v 773 (808)
T PF09770_consen 752 ALALGA-SPEQQQILVDEVRDRV 773 (808)
T ss_dssp -----------------------
T ss_pred cccccc-cccccccccccccccc
Confidence 443221 1256666777666654
No 54
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=20.72 E-value=1.8e+02 Score=22.38 Aligned_cols=43 Identities=21% Similarity=0.326 Sum_probs=26.0
Q ss_pred HHHHHHHhcCCcH--HHHH-HHHhChhhHHhhhcCcchhH-HHHHHHhh
Q 035754 246 FVVQKCLKYQNAV--HYII-EELLNSDQILQVANDKYGNY-VIQTALAE 290 (335)
Q Consensus 246 ~vve~~l~~~~~~--~~i~-~~l~~~~~~~~l~~~~~g~~-Viq~~l~~ 290 (335)
.+++.|++.|+.. ..+. ++++. .+..++.+++..- |-+++++.
T Consensus 59 ~lLe~~vkNcg~~f~~ev~s~~fl~--~L~~l~~~~~~~~~Vk~kil~l 105 (133)
T smart00288 59 TLLDACVKNCGSKFHLEVASKEFLN--ELVKLIKPKYPLPLVKKRILEL 105 (133)
T ss_pred HHHHHHHHHCCHHHHHHHHhHHHHH--HHHHHHcCCCCcHHHHHHHHHH
Confidence 5788888888876 3332 33555 6677777766544 44444443
Done!