Query 007659
Match_columns 594
No_of_seqs 201 out of 420
Neff 3.2
Searched_HMMs 46136
Date Thu Mar 28 13:37:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007659.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007659hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1960 Predicted RNA-binding 100.0 6.1E-38 1.3E-42 325.5 14.8 371 27-453 13-422 (531)
2 KOG0119 Splicing factor 1/bran 99.9 1.1E-25 2.3E-30 238.9 15.4 160 127-318 61-230 (554)
3 cd02395 SF1_like-KH Splicing f 99.9 1.9E-22 4.2E-27 181.5 8.7 90 210-322 1-99 (120)
4 COG5176 MSL5 Splicing factor ( 99.8 2.1E-18 4.5E-23 169.3 10.4 151 142-320 82-242 (269)
5 KOG1588 RNA-binding protein Sa 99.7 4E-18 8.6E-23 170.7 9.9 127 175-324 55-197 (259)
6 KOG1960 Predicted RNA-binding 99.3 2.4E-12 5.2E-17 135.8 6.0 205 102-326 169-383 (531)
7 KOG0334 RNA helicase [RNA proc 99.0 9.8E-11 2.1E-15 134.0 3.8 82 103-192 897-979 (997)
8 KOG1676 K-homology type RNA bi 98.9 3.6E-08 7.7E-13 108.4 17.9 185 101-341 136-328 (600)
9 TIGR03665 arCOG04150 arCOG0415 98.4 1.1E-06 2.4E-11 83.4 10.1 129 122-317 15-150 (172)
10 KOG1676 K-homology type RNA bi 98.4 5.6E-06 1.2E-10 91.6 16.3 157 107-319 233-390 (600)
11 PRK13763 putative RNA-processi 98.4 2.2E-06 4.7E-11 82.1 11.1 147 104-317 3-156 (180)
12 cd00105 KH-I K homology RNA-bi 98.0 3.1E-05 6.8E-10 60.1 7.3 55 224-312 9-63 (64)
13 cd02393 PNPase_KH Polynucleoti 97.9 2.9E-05 6.2E-10 62.5 6.0 50 225-313 12-61 (61)
14 smart00322 KH K homology RNA-b 97.8 0.00011 2.4E-09 55.7 8.0 65 210-316 4-68 (69)
15 PF00013 KH_1: KH domain syndr 97.7 2.1E-05 4.5E-10 61.5 2.5 52 224-312 9-60 (60)
16 KOG0119 Splicing factor 1/bran 97.4 0.0003 6.5E-09 77.2 6.6 84 97-191 137-231 (554)
17 cd02394 vigilin_like_KH K homo 97.4 0.00028 6E-09 55.6 4.5 53 224-312 9-61 (62)
18 KOG2191 RNA-binding protein NO 97.3 0.015 3.3E-07 62.0 17.1 159 105-323 40-206 (402)
19 cd02396 PCBP_like_KH K homolog 97.2 0.001 2.3E-08 53.5 6.6 56 224-312 9-64 (65)
20 cd02395 SF1_like-KH Splicing f 97.0 0.0022 4.7E-08 58.7 7.0 67 117-191 18-96 (120)
21 KOG2193 IGF-II mRNA-binding pr 96.9 0.0015 3.4E-08 71.0 5.9 100 123-274 217-316 (584)
22 PF13014 KH_3: KH domain 96.8 0.0013 2.7E-08 49.2 3.1 28 225-275 1-28 (43)
23 PRK13763 putative RNA-processi 96.0 0.013 2.8E-07 56.5 5.9 55 225-317 13-70 (180)
24 TIGR02696 pppGpp_PNP guanosine 96.0 0.059 1.3E-06 62.2 11.8 93 225-370 588-680 (719)
25 TIGR03665 arCOG04150 arCOG0415 95.8 0.017 3.6E-07 55.3 5.4 56 225-318 8-65 (172)
26 COG1094 Predicted RNA-binding 95.2 0.023 5.1E-07 56.4 4.5 55 225-320 112-166 (194)
27 KOG2190 PolyC-binding proteins 95.2 0.23 5E-06 55.1 12.5 156 117-335 55-224 (485)
28 TIGR03591 polynuc_phos polyrib 94.8 0.046 1E-06 62.4 6.2 91 225-370 561-651 (684)
29 PLN00207 polyribonucleotide nu 94.3 0.045 9.7E-07 64.4 4.4 93 225-371 695-788 (891)
30 KOG2193 IGF-II mRNA-binding pr 94.1 0.3 6.4E-06 54.0 9.8 155 107-323 414-569 (584)
31 KOG1588 RNA-binding protein Sa 92.6 0.36 7.7E-06 50.1 7.2 75 117-194 110-195 (259)
32 PRK04163 exosome complex RNA-b 91.3 0.33 7.1E-06 48.7 5.2 54 224-316 154-207 (235)
33 PRK00106 hypothetical protein; 90.6 1.7 3.8E-05 49.0 10.5 59 221-317 232-290 (535)
34 PRK11824 polynucleotide phosph 90.6 0.21 4.5E-06 57.3 3.4 91 225-370 564-654 (693)
35 TIGR03319 YmdA_YtgF conserved 89.5 2.2 4.8E-05 47.7 10.2 60 220-317 210-269 (514)
36 PRK12704 phosphodiesterase; Pr 89.4 2.4 5.2E-05 47.5 10.3 59 220-316 216-274 (520)
37 cd02393 PNPase_KH Polynucleoti 87.8 1.6 3.4E-05 35.3 5.7 56 107-185 5-61 (61)
38 KOG2191 RNA-binding protein NO 86.6 2.3 5.1E-05 46.0 7.7 78 209-326 39-116 (402)
39 KOG1067 Predicted RNA-binding 84.1 1.8 3.9E-05 49.6 5.7 56 225-320 607-662 (760)
40 KOG2874 rRNA processing protei 83.3 0.98 2.1E-05 47.9 3.1 50 257-324 168-217 (356)
41 KOG1924 RhoA GTPase effector D 82.2 1.2 2.5E-05 52.6 3.4 9 154-162 155-163 (1102)
42 KOG2190 PolyC-binding proteins 82.1 7.9 0.00017 43.4 9.7 61 117-192 149-210 (485)
43 COG1185 Pnp Polyribonucleotide 81.2 2.6 5.6E-05 49.0 5.7 44 257-316 571-614 (692)
44 PF00013 KH_1: KH domain syndr 80.6 4 8.6E-05 31.9 5.0 49 117-184 11-60 (60)
45 KOG2192 PolyC-binding hnRNP-K 79.1 5.5 0.00012 42.4 6.8 53 257-320 334-386 (390)
46 KOG2814 Transcription coactiva 78.9 3.9 8.6E-05 44.1 5.8 64 225-323 67-130 (345)
47 cd02396 PCBP_like_KH K homolog 77.7 6.4 0.00014 31.7 5.5 52 118-184 12-64 (65)
48 PRK12705 hypothetical protein; 76.2 8.6 0.00019 43.4 7.8 58 220-315 204-261 (508)
49 KOG0336 ATP-dependent RNA heli 74.4 7.4 0.00016 43.7 6.5 70 224-336 56-126 (629)
50 cd02394 vigilin_like_KH K homo 69.5 12 0.00025 29.5 5.0 58 107-184 3-61 (62)
51 cd00105 KH-I K homology RNA-bi 69.1 18 0.00039 27.9 5.9 52 117-184 11-63 (64)
52 COG5176 MSL5 Splicing factor ( 68.3 5.3 0.00012 41.1 3.5 82 97-190 147-240 (269)
53 KOG1924 RhoA GTPase effector D 68.1 5.9 0.00013 47.1 4.2 11 425-435 440-450 (1102)
54 smart00322 KH K homology RNA-b 67.4 38 0.00082 25.3 7.3 63 106-188 5-68 (69)
55 COG1094 Predicted RNA-binding 59.0 19 0.0004 36.4 5.3 70 99-192 88-166 (194)
56 PF13014 KH_3: KH domain 51.2 14 0.0003 27.5 2.4 24 117-140 2-26 (43)
57 COG1097 RRP4 RNA-binding prote 46.6 54 0.0012 34.2 6.5 28 224-274 155-182 (239)
58 KOG1925 Rac1 GTPase effector F 43.4 17 0.00037 41.7 2.5 19 533-551 247-266 (817)
59 KOG2192 PolyC-binding hnRNP-K 42.2 61 0.0013 34.9 6.2 63 257-337 67-129 (390)
60 PHA01732 proline-rich protein 39.6 28 0.00062 31.6 2.9 13 534-546 16-28 (94)
61 PF13184 KH_5: NusA-like KH do 36.0 21 0.00046 30.1 1.4 33 219-274 12-45 (69)
62 PF01371 Trp_repressor: Trp re 35.5 3.1 6.8E-05 36.8 -3.7 33 109-143 31-70 (87)
63 KOG1923 Rac1 GTPase effector F 35.2 44 0.00095 39.9 4.2 14 563-576 362-375 (830)
64 cd02134 NusA_KH NusA_K homolog 34.7 40 0.00086 27.4 2.8 27 224-273 34-60 (61)
65 KOG4307 RNA binding protein RB 33.9 3.3E+02 0.0071 33.0 10.7 26 479-504 171-196 (944)
66 PRK01381 Trp operon repressor; 33.0 17 0.00037 33.2 0.5 27 117-143 43-76 (99)
67 KOG2113 Predicted RNA binding 28.8 1.1E+02 0.0023 33.7 5.5 109 118-274 39-151 (394)
68 COG1702 PhoH Phosphate starvat 27.9 1.3E+02 0.0028 33.0 6.0 48 257-322 34-83 (348)
69 PF07885 Ion_trans_2: Ion chan 25.4 56 0.0012 26.8 2.3 16 422-438 39-54 (79)
70 KOG2675 Adenylate cyclase-asso 23.4 99 0.0022 35.1 4.2 14 177-190 11-24 (480)
71 KOG2208 Vigilin [Lipid transpo 22.4 2.2E+02 0.0048 34.0 7.0 108 107-275 348-456 (753)
72 PRK02114 formylmethanofuran--t 22.0 2.9E+02 0.0062 30.0 7.1 149 125-320 32-191 (297)
73 KOG3671 Actin regulatory prote 21.5 89 0.0019 36.0 3.5 15 100-114 74-88 (569)
No 1
>KOG1960 consensus Predicted RNA-binding protein, contains KH domains [RNA processing and modification]
Probab=100.00 E-value=6.1e-38 Score=325.49 Aligned_cols=371 Identities=18% Similarity=0.140 Sum_probs=252.2
Q ss_pred HhhhccCcchhhhccCCCccC--CCCCCCCC-CCCCCC--cccccccccCccccCCcCCCCcccCCCCCCCCCCCCCCCc
Q 007659 27 RKKRKWDQPAESLINFPLASF--GISLPGVP-VAPVVP--APAAAAFFTNPPVASGATVPPVVLQGPLPPKFNQPKVQDE 101 (594)
Q Consensus 27 r~krkwd~~a~~~~~~p~~~~--g~~~~g~~-~~~~~~--a~~~~a~~~~~q~~~~~~~pp~~~~~~~~~~~~~~K~~de 101 (594)
-++|+||++++.=-.+++... |.-.|+.. +.+... ++++-++.+|.-+-+--..-+..- ...+-+...++.+|+
T Consensus 13 ~~~~~WD~~~~~d~~~~~~~~~s~~~~p~eS~~~~~~~h~~~~s~s~~~N~~~~~k~~~~~~~N-a~~~i~~p~N~~K~~ 91 (531)
T KOG1960|consen 13 NYSRDWDSRFTEDSYSRRDSQRSGNEAPRESRYYRKEEHLQERSRSRSPNRDSRWKSSSSGFAN-AHPPIEEPTNNGKEA 91 (531)
T ss_pred CccccccCCCCCccccCchhhhccCCCCCcccccCcchhhhhhhhccCcchhcccccccccccc-ccchhhcccccchhH
Confidence 468999999986555443222 33444433 222222 455555777765433111111100 111112225666777
Q ss_pred eeEEeeEEeCCCCccccccccchhHHHHHHhhhCCeEeecccccCCCCC--CCCCCCeEEeeecccchhhHHHHHHHHHH
Q 007659 102 LIIAREIVINDSESSVRYKLTKRHTQEEIQKCTGAVVITRGKYRLPNAP--PDGEKPLYLHISAGAHLKETAERILAVDH 179 (594)
Q Consensus 102 ~~f~aEIEINDlPq~vRy~LTKg~Tq~eIqe~TGAsVtTRGrYyPPgk~--~~gEpPLYL~IeG~Te~ket~eR~kaVDr 179 (594)
+. .++.+|||.+++|||.+|||.++++|.+++|+.|.+||+|++++.. .++++||||||.+.|. +++++
T Consensus 92 ~~-~a~~~iN~~~~~~~~~~TRg~~~d~Ie~~~G~~~~~RGs~~~~El~~vg~~~~pLv~hI~~~T~--------Ei~~~ 162 (531)
T KOG1960|consen 92 AA-AAARRINESLQSTKATSTRGTSYDHIEGITGTTSASRGSAPAPELPPVGSSEGPLVDHIPPSTA--------EITSK 162 (531)
T ss_pred HH-HHHHHhhcccccccceeccchhHHhhhhhccceeeccCCCCCccCCCCCCCCCcceeecCCccH--------HHHHH
Confidence 74 8899999999999999999999999999999999999999999864 5789999999999985 68999
Q ss_pred HHHHHHHHHHcCCC----------CCC--Ccc-------cccCCCCCcceeEEEecCCCCCCCceeeeEeCCCCCCCCcc
Q 007659 180 AAAMVEEMLKQGHA----------GFP--TLQ-------TVMGNGVQAMSTSVFLGFDADASLNIAARIRGPNLSLTSPY 240 (594)
Q Consensus 180 AIalIeEIIKe~P~----------~~p--t~~-------~~~~~G~~~~s~kV~Igid~~P~fN~~~rIIGP~~~~~~~~ 240 (594)
|+++|+-..+++.. ..+ -.+ ...-+|+++.+ |+||+++ +|.||+.+..-|++
T Consensus 163 Ai~RIkgv~~~~~~~~n~~~V~i~~~~sP~~~i~~~V~~~~f~~G~~Y~~-k~~v~~~-~P~~~~K~~~~~r~------- 233 (531)
T KOG1960|consen 163 AIERIKGVFMQDVEINNVRNVYILVRASPLSEIENKVGVQLFSKGRYYPN-KALATDK-DPPLYLKIVSHNRK------- 233 (531)
T ss_pred HHhhCccceeecccccccceEEEeecCCchhhhccccccccccccccchh-heecccC-CcchhhhhhccCcc-------
Confidence 99999966555421 011 111 11356777888 9999987 89999999999999
Q ss_pred ccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHHHHHHHHHHHHHHHHHHH
Q 007659 241 NWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPKSLEEAKRLAENLLDTIS 320 (594)
Q Consensus 241 ~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe~l~~Ak~L~EnLL~tV~ 320 (594)
+.||.||+.|++++++|||||||+.|++.|+|++|||||+|+|.+.+++.+||++|+||+++|+
T Consensus 234 ----------------d~~La~~~ie~~i~~l~~Gr~SG~iEP~~G~EsnEPMYI~i~h~~~~g~~~A~r~~~nl~~~v~ 297 (531)
T KOG1960|consen 234 ----------------DLTLALQEIESWINPLIDGRRSGRREPNEGNESNEPMYIFSTHGNGNGENGAPRRKWNLEEKVY 297 (531)
T ss_pred ----------------chhhhhhhhhhhhhhhhccccccccCcccccccCCceeEEeecCCchhhccchhHHHhHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhccccc-----ccccccc-cCCCcccccccccccc---ccccCCCcccceeccccccCCCCCCCCCCccceeeeccee
Q 007659 321 AECGASRV-----SSCKVYN-AVPPPQQLLTGIQGFG---NEQKLNAGSAVILTSTVNLSSVPLAPSVPGVTTVYSQGMM 391 (594)
Q Consensus 321 eEy~~~r~-----s~~k~y~-~~pppqq~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 391 (594)
.+|.+|-- .....|- ..-|+|..+-++..++ ++...|--+ -...++-.+......
T Consensus 298 ~~~sr~~~~~~~~~p~~~y~~~~~~~~~~~~~~~g~~s~~i~p~~~~~~----------------~~p~~~~~~~~~~~~ 361 (531)
T KOG1960|consen 298 INLSRGFHRQAIVGPQGAYVKHIQQETRTRVQIKGQGSAFIEPSTNRES----------------DEPIHLCIMSHDPNA 361 (531)
T ss_pred HHhhhhhhhcccccCCcccccccCCCCCcceeccCccceeecCCCCCCC----------------CCCcccccccCChhh
Confidence 99976521 1111121 1224555555555554 332222111 011122222222222
Q ss_pred ecccc--ccccCC--CCCCccCCCCCCCCCCcccccCCCCCcCCChHHHHHHHHhcCCCCCccccc
Q 007659 392 LQSGG--ILNSVQ--PQQNIVGYPQPVSTGGTSYSGYEGIYPQATPLQQVALALRQSSSPLTSLVA 453 (594)
Q Consensus 392 ~q~~~--~~~~~~--~~~~~~~~~~p~~~~g~~y~gy~~iypqatplqqva~~l~~~~~~~~~~v~ 453 (594)
+|.-- .-.+++ +++-.+--.|| .+-+.-+|-||-+|-+-| |+.+|+-+.-+-|+..+
T Consensus 362 ~~~~~~~~~~~i~~v~~qy~~~~~qp--~~~~~~~~~~~~~~p~~~---~~~~~~~~~q~~~qp~~ 422 (531)
T KOG1960|consen 362 IQRAKVLCEDLIASVHQQYKAWKSQP--KDRDQNQGNRAYNPPNRN---QAFSARDSRQEKTQPTN 422 (531)
T ss_pred hhhhhhcccccCCcccccCcccccCC--CcccccCCCCCCCCCCcc---ccccCCCCCCCCCCCCC
Confidence 22210 011111 45555666788 555667788999987776 67888877666665443
No 2
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=99.93 E-value=1.1e-25 Score=238.89 Aligned_cols=160 Identities=24% Similarity=0.354 Sum_probs=135.4
Q ss_pred HHHHHhhhCCeEeecccc-cCCC-C-CCCCCCCeEEeeecccchhhHHHHHHHHHHHHHHHHHHHHcCCCCCCCcccccC
Q 007659 127 QEEIQKCTGAVVITRGKY-RLPN-A-PPDGEKPLYLHISAGAHLKETAERILAVDHAAAMVEEMLKQGHAGFPTLQTVMG 203 (594)
Q Consensus 127 q~eIqe~TGAsVtTRGrY-yPPg-k-~~~gEpPLYL~IeG~Te~ket~eR~kaVDrAIalIeEIIKe~P~~~pt~~~~~~ 203 (594)
++||.+..+. |.+ .+++ + ..++..++|..-.-+.+++|.+.|.++.+++++.|+++|+.++.+.+++++...
T Consensus 61 iee~t~kLrt-----~d~~~p~~~e~rSPsp~p~yda~g~R~ntRe~R~r~~Le~er~e~I~~~lk~nP~fkpP~DYk~p 135 (554)
T KOG0119|consen 61 IEEITRKLRT-----GDVGVPPPRELRSPSPEPVYDAKGKRLNTREQRARKKLEDERHEIIEEILKLNPGFKPPADYKPP 135 (554)
T ss_pred HHHhhhhhcc-----ccCCCCCCccccCCCcchhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHhCcCCCCCcccCcc
Confidence 4455554443 223 3555 3 678899999987777888999999999999999999999999999987755322
Q ss_pred CCCCcceeEEEecCCCCCCCceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCC
Q 007659 204 NGVQAMSTSVFLGFDADASLNIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEG 283 (594)
Q Consensus 204 ~G~~~~s~kV~Igid~~P~fN~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~ 283 (594)
...++||||+++++|+|||+|+||||| |+++|+||+||||||.||||||++ |+
T Consensus 136 ---~~~~~Kv~IPvke~Pd~NFvGLiiGPR-----------------------G~TqK~lE~etgAKI~IRGkgSvk-Eg 188 (554)
T KOG0119|consen 136 ---AKLHDKVYIPVKEFPDINFVGLIIGPR-----------------------GNTQKRLERETGAKIAIRGKGSVK-EG 188 (554)
T ss_pred ---cccccceecchhhcCCcceeEEEecCC-----------------------ccHHHHHHHHhCCeEEEecccccc-cc
Confidence 377899999999999999999999999 999999999999999999999995 44
Q ss_pred C--C-----CCCCCCCcEEEEEeCCHHHHHHHHHHHHHHHHH
Q 007659 284 L--Q-----GEEVHQPLHLFLSSNNPKSLEEAKRLAENLLDT 318 (594)
Q Consensus 284 ~--~-----gqEs~EPLHl~IS~~~pe~l~~Ak~L~EnLL~t 318 (594)
. . ....+||||++|+++++|+|++|+++|||||+.
T Consensus 189 k~~~~d~~~~~~~~epLH~~Isadt~eki~~Ai~vienli~~ 230 (554)
T KOG0119|consen 189 KGRSDDLSYIPKENEPLHCLISADTQEKIKKAIAVIENLIQS 230 (554)
T ss_pred ccCCcccccccccccceeEEEecchHHHHHHHHHHHHHHHHh
Confidence 4 1 123789999999999999999999999999995
No 3
>cd02395 SF1_like-KH Splicing factor 1 (SF1) K homology RNA-binding domain (KH). Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 defines an enlarged KH (hnRNP K) fold which is necessary and sufficient for BPS binding. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=99.87 E-value=1.9e-22 Score=181.49 Aligned_cols=90 Identities=23% Similarity=0.431 Sum_probs=83.9
Q ss_pred eeEEEecCCCCCCCceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCC------
Q 007659 210 STSVFLGFDADASLNIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEG------ 283 (594)
Q Consensus 210 s~kV~Igid~~P~fN~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~------ 283 (594)
++||||+++.+|+|||+|+||||+ |+++|+|++||||+|.|||+||++.+.
T Consensus 1 ~~ki~iP~~~~P~~N~IG~IIGPg-----------------------G~tiK~i~~eTg~kI~Irg~gs~~~~~~~~~~~ 57 (120)
T cd02395 1 TEKVYIPVKQYPKYNFVGLILGPR-----------------------GNTLKQLEKETGAKISIRGKGSMKDGKKEEELR 57 (120)
T ss_pred CCEEEcCcccCCCCCeeEEEECCC-----------------------ChHHHHHHHHHCCEEEEecCccccccccccccc
Confidence 479999999999999999999999 999999999999999999999998654
Q ss_pred -CCCCCCCCCcEEEEEeCC--HHHHHHHHHHHHHHHHHHHHH
Q 007659 284 -LQGEEVHQPLHLFLSSNN--PKSLEEAKRLAENLLDTISAE 322 (594)
Q Consensus 284 -~~gqEs~EPLHl~IS~~~--pe~l~~Ak~L~EnLL~tV~eE 322 (594)
...++.+|||||+|++.+ .+.+++|++++++||..++++
T Consensus 58 ~~~~~~~~eplhV~I~a~~~~~e~~~~A~~~I~~ll~~~~~~ 99 (120)
T cd02395 58 GPKYAHLNEPLHVLITAETPPEEALAKAVEAIEELLKPAIEG 99 (120)
T ss_pred CcccccCCCCcEEEEEeCCcHHHHHHHHHHHHHHHhccCCCc
Confidence 355678999999999999 999999999999999999866
No 4
>COG5176 MSL5 Splicing factor (branch point binding protein) [RNA processing and modification]
Probab=99.76 E-value=2.1e-18 Score=169.28 Aligned_cols=151 Identities=13% Similarity=0.113 Sum_probs=129.2
Q ss_pred ccccCCCC--CCCCCCCeEEeeecccchhhHHHHHHHHHHHHHHHHHHHHcCCCCCCCcccccCCCC-CcceeEEEecCC
Q 007659 142 GKYRLPNA--PPDGEKPLYLHISAGAHLKETAERILAVDHAAAMVEEMLKQGHAGFPTLQTVMGNGV-QAMSTSVFLGFD 218 (594)
Q Consensus 142 GrYyPPgk--~~~gEpPLYL~IeG~Te~ket~eR~kaVDrAIalIeEIIKe~P~~~pt~~~~~~~G~-~~~s~kV~Igid 218 (594)
+.++|+.. +.+..+|-|..|....++++.+.++++.|+++.++++.++.-+.+.++. .+-+ ...++||||+++
T Consensus 82 ~d~Vp~~re~Rspsppp~yd~~GrRlntre~ry~kkLeder~~l~era~k~lp~fv~p~----dy~rpsk~q~KiYIPV~ 157 (269)
T COG5176 82 PDGVPSKRELRSPSPPPRYDEIGRRLNTREARYNKKLEDERLWLKERAQKILPRFVLPN----DYIRPSKYQNKIYIPVQ 157 (269)
T ss_pred CCCCCchhhccCCCCCcchhHHhhhhhHHHHHHhhhhhHHHHHHHHHHHHhcCcccCCc----cccCcccccceEEeehh
Confidence 44556653 6788999999999999999999999999999999999999877776543 3332 567899999999
Q ss_pred CCCCCceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCC-------CCCC
Q 007659 219 ADASLNIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGE-------EVHQ 291 (594)
Q Consensus 219 ~~P~fN~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gq-------Es~E 291 (594)
.+|+.||+|+||||+ |+++|+++..|+|||.|||+||.+ |+.... ...+
T Consensus 158 eyPe~NFVGLliGPR-----------------------G~Tlk~le~~s~akIaIRG~gsvK-egk~ssd~p~~~~N~e~ 213 (269)
T COG5176 158 EYPESNFVGLLIGPR-----------------------GSTLKQLERISRAKIAIRGSGSVK-EGKISSDTPESLKNAEA 213 (269)
T ss_pred hCcccceeEEEecCC-----------------------cchHHHHHHHhCCeEEEecccccc-cCcccccCchhhhhhHH
Confidence 999999999999999 999999999999999999999985 432211 3567
Q ss_pred CcEEEEEeCCHHHHHHHHHHHHHHHHHHH
Q 007659 292 PLHLFLSSNNPKSLEEAKRLAENLLDTIS 320 (594)
Q Consensus 292 PLHl~IS~~~pe~l~~Ak~L~EnLL~tV~ 320 (594)
+||++|+.+..+++..+..+|.|.|.+..
T Consensus 214 ~lhcLI~adsedki~~~ik~~~n~I~~a~ 242 (269)
T COG5176 214 VLHCLIEADSEDKICRLIKSQLNAIREAR 242 (269)
T ss_pred hHHHHhhcchhhhHHHHHHHHHHHHHHHh
Confidence 89999999999999999999999998764
No 5
>KOG1588 consensus RNA-binding protein Sam68 and related KH domain proteins [RNA processing and modification]
Probab=99.74 E-value=4e-18 Score=170.71 Aligned_cols=127 Identities=24% Similarity=0.382 Sum_probs=98.1
Q ss_pred HHHHHHHHHHHHHHHcCCCCCCCccc---ccCCCCCcceeEEEecCCCCCCCceeeeEeCCCCCCCCccccchhhhhhcc
Q 007659 175 LAVDHAAAMVEEMLKQGHAGFPTLQT---VMGNGVQAMSTSVFLGFDADASLNIAARIRGPNLSLTSPYNWERLFFCWCF 251 (594)
Q Consensus 175 kaVDrAIalIeEIIKe~P~~~pt~~~---~~~~G~~~~s~kV~Igid~~P~fN~~~rIIGP~~~~~~~~~~~ki~~~~~~ 251 (594)
++++..+.+|.-.+.+.....+.... ..........+||||+++.+|+|||+|||+||+
T Consensus 55 rLL~~Ei~rv~~~~~~~~~~~~~~~~~~~~~~~~~vk~~~Kv~vPv~~yP~fNFVGRILGPr------------------ 116 (259)
T KOG1588|consen 55 RLLDEEIERVQTSGRQHGSKEPEELPYADVYSGKPVKLTEKVLVPVKEYPKFNFVGRILGPR------------------ 116 (259)
T ss_pred HHHHHHHHHHHhhhhhccCCCchhcccccCccCCceeEEEEEEeccCCCCCCccccccccCC------------------
Confidence 47788888888777653211111111 111122577899999999999999999999999
Q ss_pred cccccchhHHHHHhhcCcEEEEeecCCCCC----CCCCC----CCCCCCcEEEEEeCCHH-----HHHHHHHHHHHHHHH
Q 007659 252 RLYMQDQYINHIMNETGATVLLRGRGSGNS----EGLQG----EEVHQPLHLFLSSNNPK-----SLEEAKRLAENLLDT 318 (594)
Q Consensus 252 ~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~----E~~~g----qEs~EPLHl~IS~~~pe-----~l~~Ak~L~EnLL~t 318 (594)
|+++|++|+||||||+||||||.+. |-..+ +.-+|||||+|+...+. .|..|.+.++.||..
T Consensus 117 -----GnSlkrLe~eTgCki~IrGrgSmrD~~KEE~lR~~p~yeHL~epLHVlIe~~~p~~ea~~rl~~AleeI~klL~P 191 (259)
T KOG1588|consen 117 -----GNSLKRLEEETGCKIMIRGRGSMRDKAKEEELRGDPGYEHLNEPLHVLIETEAPPAEAYARLAYALEEIKKLLVP 191 (259)
T ss_pred -----cchHHHHHHHHCCeEEEecCCcccchHHHHHhhcCcchHHhCCCcEEEEEEeCCHHHHHHHHHHHHHHHHHhcCC
Confidence 9999999999999999999999874 22222 35789999999999886 456788899999999
Q ss_pred HHHHhc
Q 007659 319 ISAECG 324 (594)
Q Consensus 319 V~eEy~ 324 (594)
+++++.
T Consensus 192 ~~e~~d 197 (259)
T KOG1588|consen 192 DHEDED 197 (259)
T ss_pred CCCCch
Confidence 988876
No 6
>KOG1960 consensus Predicted RNA-binding protein, contains KH domains [RNA processing and modification]
Probab=99.29 E-value=2.4e-12 Score=135.84 Aligned_cols=205 Identities=24% Similarity=0.379 Sum_probs=139.7
Q ss_pred eeEEeeEEeCCCCccccccccchhHHHHHHhhhCCeEeecccccCCCC-CCCCCCCeEEeeecccchhhHHHHHHHHHHH
Q 007659 102 LIIAREIVINDSESSVRYKLTKRHTQEEIQKCTGAVVITRGKYRLPNA-PPDGEKPLYLHISAGAHLKETAERILAVDHA 180 (594)
Q Consensus 102 ~~f~aEIEINDlPq~vRy~LTKg~Tq~eIqe~TGAsVtTRGrYyPPgk-~~~gEpPLYL~IeG~Te~ket~eR~kaVDrA 180 (594)
.+|.++++||+.. +=|.+-+-+-+.+|...-+.....+|+||+.+. ...++++||+-+..... +.++.|
T Consensus 169 gv~~~~~~~~n~~--~V~i~~~~sP~~~i~~~V~~~~f~~G~~Y~~k~~v~~~~P~~~~K~~~~~r--------~d~~La 238 (531)
T KOG1960|consen 169 GVFMQDVEINNVR--NVYILVRASPLSEIENKVGVQLFSKGRYYPNKALATDKDPPLYLKIVSHNR--------KDLTLA 238 (531)
T ss_pred cceeecccccccc--eEEEeecCCchhhhccccccccccccccchhheecccCCcchhhhhhccCc--------cchhhh
Confidence 4467899999886 667777888999999998888899999999954 34556999986555443 345666
Q ss_pred HHHHHHHHHcCCCCCCCcccccCCCCCcceeEEEecCC--CCCCCceeeeEeCCCCCCCCccccch-hhh--hhccc---
Q 007659 181 AAMVEEMLKQGHAGFPTLQTVMGNGVQAMSTSVFLGFD--ADASLNIAARIRGPNLSLTSPYNWER-LFF--CWCFR--- 252 (594)
Q Consensus 181 IalIeEIIKe~P~~~pt~~~~~~~G~~~~s~kV~Igid--~~P~fN~~~rIIGP~~~~~~~~~~~k-i~~--~~~~~--- 252 (594)
...|+--|+--..+.-.-..-...|. --.+-+||.+. +..+.|-+.|.+ .|.++ +.+ --.|+
T Consensus 239 ~~~ie~~i~~l~~Gr~SG~iEP~~G~-EsnEPMYI~i~h~~~~g~~~A~r~~---------~nl~~~v~~~~sr~~~~~~ 308 (531)
T KOG1960|consen 239 LQEIESWINPLIDGRRSGRREPNEGN-ESNEPMYIFSTHGNGNGENGAPRRK---------WNLEEKVYINLSRGFHRQA 308 (531)
T ss_pred hhhhhhhhhhhhccccccccCccccc-ccCCceeEEeecCCchhhccchhHH---------HhHHHHHHHHhhhhhhhcc
Confidence 66666555421111100000001111 11233444442 223333333221 11111 111 01111
Q ss_pred -ccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHHHHHHHHHHHHHHHHHHHHHhccc
Q 007659 253 -LYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPKSLEEAKRLAENLLDTISAECGAS 326 (594)
Q Consensus 253 -~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe~l~~Ak~L~EnLL~tV~eEy~~~ 326 (594)
...||.|.|||+.||-.++.++|-||+|.|+..++|+++|.||||..+++..|+.|+-||++||..|+++|..+
T Consensus 309 ~~~p~~~y~~~~~~~~~~~~~~~g~~s~~i~p~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~i~~v~~qy~~~ 383 (531)
T KOG1960|consen 309 IVGPQGAYVKHIQQETRTRVQIKGQGSAFIEPSTNRESDEPIHLCIMSHDPNAIQRAKVLCEDLIASVHQQYKAW 383 (531)
T ss_pred cccCCcccccccCCCCCcceeccCccceeecCCCCCCCCCCcccccccCChhhhhhhhhcccccCCcccccCccc
Confidence 22369999999999999999999999999999999999999999999999999999999999999999999887
No 7
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=99.04 E-value=9.8e-11 Score=134.02 Aligned_cols=82 Identities=32% Similarity=0.500 Sum_probs=76.5
Q ss_pred eEEeeEEeCCCCccccccccchhHHHHHHhhhCCeEeecccccCCCC-CCCCCCCeEEeeecccchhhHHHHHHHHHHHH
Q 007659 103 IIAREIVINDSESSVRYKLTKRHTQEEIQKCTGAVVITRGKYRLPNA-PPDGEKPLYLHISAGAHLKETAERILAVDHAA 181 (594)
Q Consensus 103 ~f~aEIEINDlPq~vRy~LTKg~Tq~eIqe~TGAsVtTRGrYyPPgk-~~~gEpPLYL~IeG~Te~ket~eR~kaVDrAI 181 (594)
+|.++++|||+||.+||.+|..+++..|.+.+++.|+|||.|||+++ +.++|++|||+|++.++ ..|++|+
T Consensus 897 ~y~~~~~inD~Pq~~r~~vt~~~~L~~i~e~~~~~it~rg~f~~~gk~p~~gErklyl~ve~~~e--------~~vqra~ 968 (997)
T KOG0334|consen 897 IYEAELEINDFPQNARWRVTYKEALLRISEPTAAGITTRGKFNPPGKEPKPGERKLYLLVEGPDE--------LSVQRAI 968 (997)
T ss_pred eeeeeccccccchhcceeeechhhhhhccCccccceeeccccCCCCCCCCCcchhhhhhhhcchh--------HHHHHHH
Confidence 56999999999999999999999999999999999999999999997 66899999999999887 6899999
Q ss_pred HHHHHHHHcCC
Q 007659 182 AMVEEMLKQGH 192 (594)
Q Consensus 182 alIeEIIKe~P 192 (594)
..|++.+++..
T Consensus 969 ~e~~r~l~e~~ 979 (997)
T KOG0334|consen 969 EELERLLEEEV 979 (997)
T ss_pred HHHHHHHHHHH
Confidence 99999887764
No 8
>KOG1676 consensus K-homology type RNA binding proteins [RNA processing and modification]
Probab=98.93 E-value=3.6e-08 Score=108.43 Aligned_cols=185 Identities=20% Similarity=0.272 Sum_probs=128.1
Q ss_pred ceeEEeeEEeCCCCccccccccc-hhHHHHHHhhhCCeEeecccccCCCC-CCCCCCCeEEeeecccchhhHHHHHHHHH
Q 007659 101 ELIIAREIVINDSESSVRYKLTK-RHTQEEIQKCTGAVVITRGKYRLPNA-PPDGEKPLYLHISAGAHLKETAERILAVD 178 (594)
Q Consensus 101 e~~f~aEIEINDlPq~vRy~LTK-g~Tq~eIqe~TGAsVtTRGrYyPPgk-~~~gEpPLYL~IeG~Te~ket~eR~kaVD 178 (594)
....+.||.|-+-. |-.++-| |+|++.+++++|+.++. +-++. .+...+|| .|.|.- ..|+
T Consensus 136 ~~~ttqeI~IPa~k--~GlIIGKgGETikqlqe~sg~k~i~----iqd~~~~~~~~Kpl--ritGdp---------~~ve 198 (600)
T KOG1676|consen 136 SVETTQEILIPANK--CGLIIGKGGETIKQLQEQSGVKMIL----VQDGSIATGADKPL--RITGDP---------DKVE 198 (600)
T ss_pred ccceeeeeccCccc--eeeEeccCccHHHHHHhhcCCceEE----EecCCcCCCCCCce--eecCCH---------HHHH
Confidence 33346788887776 8888877 99999999999987542 11222 33478998 667876 3689
Q ss_pred HHHHHHHHHHHcCCCCCCCcccccCCCC-CcceeEEEecCCCCCCCceeeeEeCCCCCCCCccccchhhhhhcccccccc
Q 007659 179 HAAAMVEEMLKQGHAGFPTLQTVMGNGV-QAMSTSVFLGFDADASLNIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQD 257 (594)
Q Consensus 179 rAIalIeEIIKe~P~~~pt~~~~~~~G~-~~~s~kV~Igid~~P~fN~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qG 257 (594)
.|..+|-++|.++....+... ..+|+ -..++++-|. .|.+ -+|.|||.+ |
T Consensus 199 ~a~~lV~dil~e~~~~~~g~~--~~~g~~~g~~~~~~V~---VPr~-~VG~IIGkg-----------------------G 249 (600)
T KOG1676|consen 199 QAKQLVADILREEDDEVPGSG--GHAGVRGGGSATREVK---VPRS-KVGIIIGKG-----------------------G 249 (600)
T ss_pred HHHHHHHHHHHhcccCCCccc--cccCcCccccceeEEe---cccc-ceeeEEecC-----------------------c
Confidence 999999999997543322221 23333 2233444444 3555 689999999 9
Q ss_pred hhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHHHHHHHHHHHHHHHHHHHHHhc-----cccccccc
Q 007659 258 QYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPKSLEEAKRLAENLLDTISAECG-----ASRVSSCK 332 (594)
Q Consensus 258 s~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe~l~~Ak~L~EnLL~tV~eEy~-----~~r~s~~k 332 (594)
.+||+|++|||+||+++ +.. +..-|+..+..--+.+.++.|++|+.+||..+.+--. -.-.....
T Consensus 250 E~IKklq~etG~KIQfk--------pDd--~p~speR~~~IiG~~d~ie~Aa~lI~eii~~~~~~~~~~~~~G~P~~~~~ 319 (600)
T KOG1676|consen 250 EMIKKLQNETGAKIQFK--------PDD--DPSSPERPAQIIGTVDQIEHAAELINEIIAEAEAGAGGGMGGGAPGLVAQ 319 (600)
T ss_pred hHHHHHhhccCceeEee--------cCC--CCCCccceeeeecCHHHHHHHHHHHHHHHHHHhccCCCCcCCCCccceee
Confidence 99999999999999999 222 2244667777777899999999999999999887620 00111114
Q ss_pred ccccCCCcc
Q 007659 333 VYNAVPPPQ 341 (594)
Q Consensus 333 ~y~~~pppq 341 (594)
.|+.+|.-.
T Consensus 320 fy~~VPa~K 328 (600)
T KOG1676|consen 320 FYMKVPADK 328 (600)
T ss_pred EEEeccccc
Confidence 588887654
No 9
>TIGR03665 arCOG04150 arCOG04150 universal archaeal KH domain protein. This family of proteins is universal among the 41 archaeal genomes analyzed in and is not observed outside of the archaea. The proteins contain a single KH domain (pfam00013) which is likely to confer the ability to bind RNA.
Probab=98.45 E-value=1.1e-06 Score=83.42 Aligned_cols=129 Identities=21% Similarity=0.205 Sum_probs=86.7
Q ss_pred cchhHHHHHHhhhCCeEeecccccCCCCCCCCCCCeEEee--ecccchhhHHHHHHHHHHHHHHHHHHHHcCCCCCCCcc
Q 007659 122 TKRHTQEEIQKCTGAVVITRGKYRLPNAPPDGEKPLYLHI--SAGAHLKETAERILAVDHAAAMVEEMLKQGHAGFPTLQ 199 (594)
Q Consensus 122 TKg~Tq~eIqe~TGAsVtTRGrYyPPgk~~~gEpPLYL~I--eG~Te~ket~eR~kaVDrAIalIeEIIKe~P~~~pt~~ 199 (594)
..|+++++|+++||+.|...- .+.. +.| .+.+. ..+++|+..|+.+...-. +...
T Consensus 15 ~gG~~Ik~I~~~tgv~I~Id~----------~~g~--V~I~~~t~d~--------~~i~kA~~~I~~i~~gf~---~e~A 71 (172)
T TIGR03665 15 KGGETKKEIEERTGVKLDIDS----------ETGE--VKIEEEDEDP--------LAVMKAREVVKAIGRGFS---PEKA 71 (172)
T ss_pred CchhHHHHHHHHhCcEEEEEc----------CCce--EEEecCCCCH--------HHHHHHHHHHHHHHcCCC---HHHH
Confidence 459999999999999987541 1233 455 23332 578999999999765311 1100
Q ss_pred cccCCCCCcceeEEEecCCCC----CCC-ceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEe
Q 007659 200 TVMGNGVQAMSTSVFLGFDAD----ASL-NIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLR 274 (594)
Q Consensus 200 ~~~~~G~~~~s~kV~Igid~~----P~f-N~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LR 274 (594)
. .-.|-....+.+.| .++ -.| ..+|+|||++ |.+++.||+.|||+|.|-
T Consensus 72 ~-~l~gd~y~~~Vi~I--~~~~~~~~~~~~~~griIG~~-----------------------G~t~~~ie~~t~~~i~i~ 125 (172)
T TIGR03665 72 L-KLLDDDYMLEVIDL--KEYGKSPNALRRIKGRIIGEG-----------------------GKTRRIIEELTGVSISVY 125 (172)
T ss_pred H-HhcCCcceEEEEEh--hhccCCHHHHHHHHhhhcCCC-----------------------cHHHHHHHHHHCCeEEEc
Confidence 0 00111111122222 111 111 2799999999 999999999999999996
Q ss_pred ecCCCCCCCCCCCCCCCCcEEEEEeCCHHHHHHHHHHHHHHHH
Q 007659 275 GRGSGNSEGLQGEEVHQPLHLFLSSNNPKSLEEAKRLAENLLD 317 (594)
Q Consensus 275 GKGSG~~E~~~gqEs~EPLHl~IS~~~pe~l~~Ak~L~EnLL~ 317 (594)
| =.++|.| +++.++.|++++++||+
T Consensus 126 ~-----------------~~v~i~G-~~~~~~~A~~~i~~li~ 150 (172)
T TIGR03665 126 G-----------------KTVGIIG-DPEQVQIAREAIEMLIE 150 (172)
T ss_pred C-----------------CEEEEEC-CHHHHHHHHHHHHHHHc
Confidence 4 2588999 99999999999999994
No 10
>KOG1676 consensus K-homology type RNA binding proteins [RNA processing and modification]
Probab=98.43 E-value=5.6e-06 Score=91.60 Aligned_cols=157 Identities=22% Similarity=0.385 Sum_probs=111.5
Q ss_pred eEEeCCCCccccccccc-hhHHHHHHhhhCCeEeecccccCCCCCCCCCCCeEEeeecccchhhHHHHHHHHHHHHHHHH
Q 007659 107 EIVINDSESSVRYKLTK-RHTQEEIQKCTGAVVITRGKYRLPNAPPDGEKPLYLHISAGAHLKETAERILAVDHAAAMVE 185 (594)
Q Consensus 107 EIEINDlPq~vRy~LTK-g~Tq~eIqe~TGAsVtTRGrYyPPgk~~~gEpPLYL~IeG~Te~ket~eR~kaVDrAIalIe 185 (594)
+|.|--+ ++-.+|-| |++++.|+.+||+.| +|.|+..++.-||+| .|-|..+ .+++|.++|.
T Consensus 233 ~V~VPr~--~VG~IIGkgGE~IKklq~etG~KI----QfkpDd~p~speR~~--~IiG~~d---------~ie~Aa~lI~ 295 (600)
T KOG1676|consen 233 EVKVPRS--KVGIIIGKGGEMIKKLQNETGAKI----QFKPDDDPSSPERPA--QIIGTVD---------QIEHAAELIN 295 (600)
T ss_pred EEecccc--ceeeEEecCchHHHHHhhccCcee----EeecCCCCCCcccee--eeecCHH---------HHHHHHHHHH
Confidence 4555444 37778877 999999999999988 578888777779998 6678753 4899999999
Q ss_pred HHHHcCCCCCCCcccccCCCCCcceeEEEecCCCCCCCceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHh
Q 007659 186 EMLKQGHAGFPTLQTVMGNGVQAMSTSVFLGFDADASLNIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMN 265 (594)
Q Consensus 186 EIIKe~P~~~pt~~~~~~~G~~~~s~kV~Igid~~P~fN~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ 265 (594)
+||........-. +.-|.-..-.-+|+-+-++ =.|+|||++ |.+||.|..
T Consensus 296 eii~~~~~~~~~~---~~~G~P~~~~~fy~~VPa~----KcGLvIGrG-----------------------GEtIK~in~ 345 (600)
T KOG1676|consen 296 EIIAEAEAGAGGG---MGGGAPGLVAQFYMKVPAD----KCGLVIGRG-----------------------GETIKQINQ 345 (600)
T ss_pred HHHHHHhccCCCC---cCCCCccceeeEEEecccc----ccccccCCC-----------------------ccchhhhcc
Confidence 9998753222110 1112111111344443222 368999999 999999999
Q ss_pred hcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHHHHHHHHHHHHHHHHHH
Q 007659 266 ETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPKSLEEAKRLAENLLDTI 319 (594)
Q Consensus 266 ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe~l~~Ak~L~EnLL~tV 319 (594)
|+||++.|-=- -.-.+.+..+|+..-++..++-|+.|+++-+.-+
T Consensus 346 qSGA~~el~r~---------~p~~~~~ektf~IrG~~~QIdhAk~LIr~kvg~~ 390 (600)
T KOG1676|consen 346 QSGARCELSRQ---------PPNGNPKEKTFVIRGDKRQIDHAKQLIRDKVGDI 390 (600)
T ss_pred cCCccccccCC---------CCCCCccceEEEEecCcccchHHHHHHHHHhccc
Confidence 99999887511 1234566889999999999999999988766543
No 11
>PRK13763 putative RNA-processing protein; Provisional
Probab=98.41 E-value=2.2e-06 Score=82.07 Aligned_cols=147 Identities=20% Similarity=0.216 Sum_probs=94.3
Q ss_pred EEeeEEeCCCCccccccccc-hhHHHHHHhhhCCeEeecccccCCCCCCCCCCCeEEeee---cccchhhHHHHHHHHHH
Q 007659 104 IAREIVINDSESSVRYKLTK-RHTQEEIQKCTGAVVITRGKYRLPNAPPDGEKPLYLHIS---AGAHLKETAERILAVDH 179 (594)
Q Consensus 104 f~aEIEINDlPq~vRy~LTK-g~Tq~eIqe~TGAsVtTRGrYyPPgk~~~gEpPLYL~Ie---G~Te~ket~eR~kaVDr 179 (594)
+...+.|..-. .+.++.+ |.+++.|+++||+.|...-. +... .|. +.+. ..+++
T Consensus 3 ~~~~i~IP~~k--ig~iIG~gGk~Ik~I~e~tg~~I~i~~~----------~g~V--~I~~~~~~d~--------~~i~k 60 (180)
T PRK13763 3 MMEYVKIPKDR--IGVLIGKKGETKKEIEERTGVKLEIDSE----------TGEV--IIEPTDGEDP--------LAVLK 60 (180)
T ss_pred ceEEEEcCHHH--hhhHhccchhHHHHHHHHHCcEEEEECC----------CCeE--EEEeCCCCCH--------HHHHH
Confidence 34456664443 5556644 89999999999999875421 2344 444 3443 57999
Q ss_pred HHHHHHHHHHcCCCCCCCcccccCCCCCcceeEEEec--CCCCCCC-ceeeeEeCCCCCCCCccccchhhhhhccccccc
Q 007659 180 AAAMVEEMLKQGHAGFPTLQTVMGNGVQAMSTSVFLG--FDADASL-NIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQ 256 (594)
Q Consensus 180 AIalIeEIIKe~P~~~pt~~~~~~~G~~~~s~kV~Ig--id~~P~f-N~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~q 256 (594)
|+.+|+.+...- .+.... .-.|-.+..+.+.|. ....-.| ..+|+|||++
T Consensus 61 A~~~I~ai~~gf---~~e~A~-~l~gd~y~~~Vi~i~~~~~~~~~~~r~~griIG~~----------------------- 113 (180)
T PRK13763 61 ARDIVKAIGRGF---SPEKAL-RLLDDDYVLEVIDLSDYGDSPNALRRIKGRIIGEG----------------------- 113 (180)
T ss_pred HHHHHHHHhcCC---CHHHHH-HHhCCCceEEEEEhhhccCChhHHHHHhhheeCCC-----------------------
Confidence 999999987631 111000 001111111222121 0011111 2799999999
Q ss_pred chhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHHHHHHHHHHHHHHHH
Q 007659 257 DQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPKSLEEAKRLAENLLD 317 (594)
Q Consensus 257 Gs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe~l~~Ak~L~EnLL~ 317 (594)
|.+++.||+.|||+|.|-|+ .++|.+ +++.++.|++.+++|++
T Consensus 114 G~~~k~ie~~t~~~i~i~~~-----------------~v~i~G-~~~~~~~A~~~I~~li~ 156 (180)
T PRK13763 114 GKTRRIIEELTGVDISVYGK-----------------TVAIIG-DPEQVEIAREAIEMLIE 156 (180)
T ss_pred cHHHHHHHHHHCcEEEEcCC-----------------EEEEEe-CHHHHHHHHHHHHHHHc
Confidence 99999999999999999631 277776 99999999999999984
No 12
>cd00105 KH-I K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that belong to different protein folds, but they share a single KH motif. The KH motif is folded into a beta alpha alpha beta unit. In addition to the core, type II KH domains (e.g. ribosomal protein S3) include N-terminal extension and type I KH domains (e.g. hnRNP K) contain C-terminal extension.
Probab=97.97 E-value=3.1e-05 Score=60.08 Aligned_cols=55 Identities=29% Similarity=0.452 Sum_probs=45.3
Q ss_pred ceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHH
Q 007659 224 NIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPK 303 (594)
Q Consensus 224 N~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe 303 (594)
+++++|||++ |+++++|+++|||+|.|...++ ..+...+.|.+. .+
T Consensus 9 ~~~~~vIG~~-----------------------G~~i~~I~~~s~~~I~i~~~~~----------~~~~~~v~i~G~-~~ 54 (64)
T cd00105 9 SLVGRIIGKG-----------------------GSTIKEIREETGAKIKIPDSGS----------GSEERIVTITGT-PE 54 (64)
T ss_pred hhcceeECCC-----------------------CHHHHHHHHHHCCEEEEcCCCC----------CCCceEEEEEcC-HH
Confidence 6889999999 9999999999999999985433 234567888887 77
Q ss_pred HHHHHHHHH
Q 007659 304 SLEEAKRLA 312 (594)
Q Consensus 304 ~l~~Ak~L~ 312 (594)
.++.|+.++
T Consensus 55 ~v~~a~~~i 63 (64)
T cd00105 55 AVEKAKELI 63 (64)
T ss_pred HHHHHHHHh
Confidence 888887765
No 13
>cd02393 PNPase_KH Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to those in other RNA binding proteins: a KH domain and an S1 domain. KH domains bind single-stranded RNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=97.89 E-value=2.9e-05 Score=62.52 Aligned_cols=50 Identities=22% Similarity=0.478 Sum_probs=44.2
Q ss_pred eeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHHH
Q 007659 225 IAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPKS 304 (594)
Q Consensus 225 ~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe~ 304 (594)
++++|||++ |++++.|+++|||+|.|-- + -.|.|++.+++.
T Consensus 12 ~ig~iIGkg-----------------------G~~ik~I~~~tg~~I~i~~------~----------g~v~I~G~~~~~ 52 (61)
T cd02393 12 KIRDVIGPG-----------------------GKTIKKIIEETGVKIDIED------D----------GTVYIAASDKEA 52 (61)
T ss_pred heeeeECCC-----------------------chHHHHHHHHHCCEEEeCC------C----------CEEEEEeCCHHH
Confidence 689999999 9999999999999998751 1 259999999999
Q ss_pred HHHHHHHHH
Q 007659 305 LEEAKRLAE 313 (594)
Q Consensus 305 l~~Ak~L~E 313 (594)
+++|+++++
T Consensus 53 v~~A~~~I~ 61 (61)
T cd02393 53 AEKAKKMIE 61 (61)
T ss_pred HHHHHHHhC
Confidence 999999874
No 14
>smart00322 KH K homology RNA-binding domain.
Probab=97.83 E-value=0.00011 Score=55.67 Aligned_cols=65 Identities=23% Similarity=0.338 Sum_probs=52.3
Q ss_pred eeEEEecCCCCCCCceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCC
Q 007659 210 STSVFLGFDADASLNIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEV 289 (594)
Q Consensus 210 s~kV~Igid~~P~fN~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs 289 (594)
...|+|+. ++++++||++ |.++++|+++|||+|.+.+.++
T Consensus 4 ~~~i~i~~------~~~~~liG~~-----------------------G~~i~~i~~~~~~~i~~~~~~~----------- 43 (69)
T smart00322 4 TIEVLIPA------DKVGLIIGKG-----------------------GSTIKKIEEETGVKIDIPEDGS----------- 43 (69)
T ss_pred EEEEEEcc------hhcceeECCC-----------------------chHHHHHHHHHCCEEEECCCCC-----------
Confidence 34555543 5789999999 9999999999999999985444
Q ss_pred CCCcEEEEEeCCHHHHHHHHHHHHHHH
Q 007659 290 HQPLHLFLSSNNPKSLEEAKRLAENLL 316 (594)
Q Consensus 290 ~EPLHl~IS~~~pe~l~~Ak~L~EnLL 316 (594)
.-..+.|.+. .+.++.|+.++++++
T Consensus 44 -~~~~v~i~g~-~~~v~~a~~~i~~~~ 68 (69)
T smart00322 44 -EERVVEITGP-PENVEKAAELILEIL 68 (69)
T ss_pred -CccEEEEEcC-HHHHHHHHHHHHHHh
Confidence 3356888888 889999998888876
No 15
>PF00013 KH_1: KH domain syndrome, contains KH motifs.; InterPro: IPR018111 The K homology (KH) domain was first identified in the human heterogeneous nuclear ribonucleoprotein (hnRNP) K. It is a domain of around 70 amino acids that is present in a wide variety of quite diverse nucleic acid-binding proteins []. It has been shown to bind RNA [, ]. Like many other RNA-binding motifs, KH motifs are found in one or multiple copies (14 copies in chicken vigilin) and, at least for hnRNP K (three copies) and FMR-1 (two copies), each motif is necessary for in vitro RNA binding activity, suggesting that they may function cooperatively or, in the case of single KH motif proteins (for example, Mer1p), independently []. According to structural [, , ] analysis the KH domain can be separated in two groups. The first group or type-1 contain a beta-alpha-alpha-beta-beta-alpha structure, whereas in the type-2 the two last beta-sheet are located in the N-terminal part of the domain (alpha-beta-beta-alpha-alpha-beta). Sequence similarity between these two folds are limited to a short region (VIGXXGXXI) in the RNA binding motif. This motif is located between helice 1 and 2 in type-1 and between helice 2 and 3 in type-2. Proteins known to contain a type-1 KH domain include bacterial polyribonucleotide nucleotidyltransferases (2.7.7.8 from EC); vertebrate fragile X mental retardation protein 1 (FMR1); eukaryotic heterogeneous nuclear ribonucleoprotein K (hnRNP K), one of at least 20 major proteins that are part of hnRNP particles in mammalian cells; mammalian poly(rC) binding proteins; Artemia salina glycine-rich protein GRP33; yeast PAB1-binding protein 2 (PBP2); vertebrate vigilin; and human high-density lipoprotein binding protein (HDL-binding protein). More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0003723 RNA binding; PDB: 1TUA_A 2Z0S_A 1WE8_A 4AM3_B 4AIM_A 4AID_A 2HH3_A 2JVZ_A 1J4W_A 2HH2_A ....
Probab=97.72 E-value=2.1e-05 Score=61.55 Aligned_cols=52 Identities=25% Similarity=0.433 Sum_probs=45.0
Q ss_pred ceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHH
Q 007659 224 NIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPK 303 (594)
Q Consensus 224 N~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe 303 (594)
.++++|||++ |.++++|+++|||+|.+... ++.-.+.|+| +++
T Consensus 9 ~~~~~iIG~~-----------------------G~~i~~I~~~t~~~I~i~~~-------------~~~~~v~I~G-~~~ 51 (60)
T PF00013_consen 9 SLVGRIIGKK-----------------------GSNIKEIEEETGVKIQIPDD-------------DERDIVTISG-SPE 51 (60)
T ss_dssp HHHHHHHTGG-----------------------GHHHHHHHHHHTSEEEEEST-------------TEEEEEEEEE-SHH
T ss_pred HHcCEEECCC-----------------------CCcHHHhhhhcCeEEEEcCC-------------CCcEEEEEEe-CHH
Confidence 3788999999 99999999999999999743 1446899999 999
Q ss_pred HHHHHHHHH
Q 007659 304 SLEEAKRLA 312 (594)
Q Consensus 304 ~l~~Ak~L~ 312 (594)
.+++|++++
T Consensus 52 ~v~~A~~~I 60 (60)
T PF00013_consen 52 QVEKAKKMI 60 (60)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHhhC
Confidence 999999875
No 16
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=97.38 E-value=0.0003 Score=77.21 Aligned_cols=84 Identities=26% Similarity=0.321 Sum_probs=60.9
Q ss_pred CCCCceeEEe--eEEeCCCCccccccccchhHHHHHHhhhCCeEeecccccCC-CC--------CCCCCCCeEEeeeccc
Q 007659 97 KVQDELIIAR--EIVINDSESSVRYKLTKRHTQEEIQKCTGAVVITRGKYRLP-NA--------PPDGEKPLYLHISAGA 165 (594)
Q Consensus 97 K~~de~~f~a--EIEINDlPq~vRy~LTKg~Tq~eIqe~TGAsVtTRGrYyPP-gk--------~~~gEpPLYL~IeG~T 165 (594)
+..|.++|-- --|||-+- -.+--+|.||+.++++|||.|.+||+=--- |+ ....+.+||.+|++.|
T Consensus 137 ~~~~Kv~IPvke~Pd~NFvG---LiiGPRG~TqK~lE~etgAKI~IRGkgSvkEgk~~~~d~~~~~~~~epLH~~Isadt 213 (554)
T KOG0119|consen 137 KLHDKVYIPVKEFPDINFVG---LIIGPRGNTQKRLERETGAKIAIRGKGSVKEGKGRSDDLSYIPKENEPLHCLISADT 213 (554)
T ss_pred ccccceecchhhcCCcceeE---EEecCCccHHHHHHHHhCCeEEEeccccccccccCCcccccccccccceeEEEecch
Confidence 5666776421 24555553 233378999999999999999999943221 12 1124789999999999
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHcC
Q 007659 166 HLKETAERILAVDHAAAMVEEMLKQG 191 (594)
Q Consensus 166 e~ket~eR~kaVDrAIalIeEIIKe~ 191 (594)
+ +.|++|++.|+.+|+..
T Consensus 214 ~--------eki~~Ai~vienli~~a 231 (554)
T KOG0119|consen 214 Q--------EKIKKAIAVIENLIQSA 231 (554)
T ss_pred H--------HHHHHHHHHHHHHHHhh
Confidence 8 67999999999999863
No 17
>cd02394 vigilin_like_KH K homology RNA-binding domain_vigilin_like. The vigilin family is a large and extended family of multiple KH-domain proteins, including vigilin, also called high density lipoprotein binding protien (HBP), fungal Scp160 and bicaudal-C. Yeast Scp160p has been shown to bind RNA and to associate with both soluble and membrane-bound polyribosomes as a mRNP component. Bicaudal-C is a RNA-binding molecule believed to function in embryonic development at the post-transcriptional level. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=97.36 E-value=0.00028 Score=55.57 Aligned_cols=53 Identities=23% Similarity=0.337 Sum_probs=44.1
Q ss_pred ceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHH
Q 007659 224 NIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPK 303 (594)
Q Consensus 224 N~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe 303 (594)
.+.++|||++ |.++++|+++|||+|.+-..+ +..=.+.|+|. .+
T Consensus 9 ~~~~~iIG~~-----------------------G~~i~~i~~~~g~~I~i~~~~------------~~~~~v~I~G~-~~ 52 (62)
T cd02394 9 KLHRFIIGKK-----------------------GSNIRKIMEETGVKIRFPDPG------------SKSDTITITGP-KE 52 (62)
T ss_pred HHhhhccCCC-----------------------CCcHHHHHHHhCCEEEcCCCC------------CCCCEEEEEcC-HH
Confidence 4779999999 999999999999999997443 23357899999 78
Q ss_pred HHHHHHHHH
Q 007659 304 SLEEAKRLA 312 (594)
Q Consensus 304 ~l~~Ak~L~ 312 (594)
.+..|+.++
T Consensus 53 ~v~~A~~~i 61 (62)
T cd02394 53 NVEKAKEEI 61 (62)
T ss_pred HHHHHHHHh
Confidence 888888765
No 18
>KOG2191 consensus RNA-binding protein NOVA1/PASILLA and related KH domain proteins [RNA processing and modification; General function prediction only]
Probab=97.25 E-value=0.015 Score=61.97 Aligned_cols=159 Identities=17% Similarity=0.216 Sum_probs=99.2
Q ss_pred EeeEEeCCCCccccccccc-hhHHHHHHhhhCCeEee-c-ccccCCCCCCCCCCCeEEeeecccchhhHHHHHHHHHHHH
Q 007659 105 AREIVINDSESSVRYKLTK-RHTQEEIQKCTGAVVIT-R-GKYRLPNAPPDGEKPLYLHISAGAHLKETAERILAVDHAA 181 (594)
Q Consensus 105 ~aEIEINDlPq~vRy~LTK-g~Tq~eIqe~TGAsVtT-R-GrYyPPgk~~~gEpPLYL~IeG~Te~ket~eR~kaVDrAI 181 (594)
+=.|-|-.+- +--+|-| |+|+.++|++|||.|-. | -.|||- ..||- .+|+|..+ .+..-+
T Consensus 40 ~ikvLips~A--aGsIIGKGG~ti~~lqk~tgariklSks~dfyPG----TTeRv--cli~Gt~e---------ai~av~ 102 (402)
T KOG2191|consen 40 FLKVLIPSYA--AGSIIGKGGQTIVQLQKETGARIKLSKSKDFYPG----TTERV--CLIQGTVE---------ALNAVH 102 (402)
T ss_pred EEEEEeeccc--ccceeccchHHHHHHHhccCcEEEeccccccCCC----ccceE--EEEeccHH---------HHHHHH
Confidence 4467776665 6788888 89999999999999854 2 224441 23553 47889764 344445
Q ss_pred HHHHHHHHcCCCC----CCCcccccCCCCCcceeEEEecCCCCCCCceeeeEeCCCCCCCCccccchhhhhhcccccccc
Q 007659 182 AMVEEMLKQGHAG----FPTLQTVMGNGVQAMSTSVFLGFDADASLNIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQD 257 (594)
Q Consensus 182 alIeEIIKe~P~~----~pt~~~~~~~G~~~~s~kV~Igid~~P~fN~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qG 257 (594)
..|.+-|.+.+.. ....+...+. +..+.|+.++- --+|.|||++ |
T Consensus 103 efI~dKire~p~~~~k~v~~~~pqt~~--r~kqikivvPN------stag~iigkg-----------------------g 151 (402)
T KOG2191|consen 103 EFIADKIREKPQAVAKPVDILQPQTPD--RIKQIKIVVPN------STAGMIIGKG-----------------------G 151 (402)
T ss_pred HHHHHHHHHhHHhhcCCccccCCCCcc--ccceeEEeccC------CcccceecCC-----------------------c
Confidence 5555555444321 1111111110 12345655552 1578899999 9
Q ss_pred hhHHHHHhhcCcEEEEee-cCCCCCCCCCCCCCCCCcEEEEEeCCHHHHHHHHHHHHHHHHHHHHHh
Q 007659 258 QYINHIMNETGATVLLRG-RGSGNSEGLQGEEVHQPLHLFLSSNNPKSLEEAKRLAENLLDTISAEC 323 (594)
Q Consensus 258 s~lk~Iq~ETGaKV~LRG-KGSG~~E~~~gqEs~EPLHl~IS~~~pe~l~~Ak~L~EnLL~tV~eEy 323 (594)
.++|.|++|.||-|+|-= +-.+ -.-+ -.|...+.++|.+.+|++| +|++|.++-
T Consensus 152 AtiK~~~Eqsga~iqisPqkpt~----~sLq-----ervvt~sge~e~~~~A~~~---IL~Ki~eDp 206 (402)
T KOG2191|consen 152 ATIKAIQEQSGAWIQISPQKPTG----ISLQ-----ERVVTVSGEPEQNMKAVSL---ILQKIQEDP 206 (402)
T ss_pred chHHHHHHhhCcceEecccCCCC----ccce-----eEEEEecCCHHHHHHHHHH---HHHHhhcCC
Confidence 999999999999999961 1111 1111 2566777888888888665 567777765
No 19
>cd02396 PCBP_like_KH K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are represented here, in tandem arrangement, followed by a large spacer region, with the third domain near the C-terminal end of the protein. The poly(C) binding proteins (PCBPs) can be divided into two groups, hnRNPs K/J and the alphaCPs, which share a triple KH domain configuration and poly(C) binding specificity. They play roles in mRNA stabilization, translational activation, and translational silencing. Nova-1 and Nova-2 are nuclear RNA-binding proteins that regulate splicing. This group also contains plant proteins that seem to have two tandem repeat arrrangements, like Hen4, a protein that plays a role in AGAMOUS (AG) pre-mRNA processing and important step in plant development. In general, KH binds single-stran
Probab=97.22 E-value=0.001 Score=53.46 Aligned_cols=56 Identities=23% Similarity=0.232 Sum_probs=41.2
Q ss_pred ceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHH
Q 007659 224 NIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPK 303 (594)
Q Consensus 224 N~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe 303 (594)
+.+++|||.+ |.++++|+++|||+|.+--.. +.....-++....+++
T Consensus 9 ~~vg~iIG~~-----------------------G~~i~~i~~~tga~I~i~~~~----------~~~~~~r~v~I~G~~~ 55 (65)
T cd02396 9 SQAGSIIGKG-----------------------GSTIKEIREETGAKIRVSKSV----------LPGSTERVVTISGKPS 55 (65)
T ss_pred HHcCeeECCC-----------------------cHHHHHHHHHHCCEEEEcCCC----------CCCCCceEEEEEeCHH
Confidence 4789999999 999999999999999995211 1122233444445589
Q ss_pred HHHHHHHHH
Q 007659 304 SLEEAKRLA 312 (594)
Q Consensus 304 ~l~~Ak~L~ 312 (594)
.+++|+.|+
T Consensus 56 ~v~~A~~~I 64 (65)
T cd02396 56 AVQKALLLI 64 (65)
T ss_pred HHHHHHHhh
Confidence 999998875
No 20
>cd02395 SF1_like-KH Splicing factor 1 (SF1) K homology RNA-binding domain (KH). Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 defines an enlarged KH (hnRNP K) fold which is necessary and sufficient for BPS binding. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=96.98 E-value=0.0022 Score=58.71 Aligned_cols=67 Identities=27% Similarity=0.306 Sum_probs=53.0
Q ss_pred ccccccchhHHHHHHhhhCCeEeecccccCCCC----------CCCCCCCeEEeeeccc--chhhHHHHHHHHHHHHHHH
Q 007659 117 VRYKLTKRHTQEEIQKCTGAVVITRGKYRLPNA----------PPDGEKPLYLHISAGA--HLKETAERILAVDHAAAMV 184 (594)
Q Consensus 117 vRy~LTKg~Tq~eIqe~TGAsVtTRGrYyPPgk----------~~~gEpPLYL~IeG~T--e~ket~eR~kaVDrAIalI 184 (594)
-|.+=.+|.|+++|+++|||.|.+||+---.+. ....+.|||++|++.+ . ..+++|+.+|
T Consensus 18 G~IIGPgG~tiK~i~~eTg~kI~Irg~gs~~~~~~~~~~~~~~~~~~~eplhV~I~a~~~~~--------e~~~~A~~~I 89 (120)
T cd02395 18 GLILGPRGNTLKQLEKETGAKISIRGKGSMKDGKKEEELRGPKYAHLNEPLHVLITAETPPE--------EALAKAVEAI 89 (120)
T ss_pred EEEECCCChHHHHHHHHHCCEEEEecCcccccccccccccCcccccCCCCcEEEEEeCCcHH--------HHHHHHHHHH
Confidence 366668899999999999999999997322211 0124688999999998 5 5799999999
Q ss_pred HHHHHcC
Q 007659 185 EEMLKQG 191 (594)
Q Consensus 185 eEIIKe~ 191 (594)
++++...
T Consensus 90 ~~ll~~~ 96 (120)
T cd02395 90 EELLKPA 96 (120)
T ss_pred HHHhccC
Confidence 9998753
No 21
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=96.87 E-value=0.0015 Score=70.96 Aligned_cols=100 Identities=17% Similarity=0.242 Sum_probs=67.2
Q ss_pred chhHHHHHHhhhCCeEeecccccCCCCCCCCCCCeEEeeecccchhhHHHHHHHHHHHHHHHHHHHHcCCCCCCCccccc
Q 007659 123 KRHTQEEIQKCTGAVVITRGKYRLPNAPPDGEKPLYLHISAGAHLKETAERILAVDHAAAMVEEMLKQGHAGFPTLQTVM 202 (594)
Q Consensus 123 Kg~Tq~eIqe~TGAsVtTRGrYyPPgk~~~gEpPLYL~IeG~Te~ket~eR~kaVDrAIalIeEIIKe~P~~~pt~~~~~ 202 (594)
.|.|++.|-+.|.+.|-+ .--......|+.|-+| +..+ -.-+|.++|-|+|..+-..-
T Consensus 217 eG~TIknItkqTqsriD~----hrken~Gaaek~itvh--~tpE---------g~s~Ac~~ILeimqkEA~~~------- 274 (584)
T KOG2193|consen 217 EGATIKNITKQTQSRIDV----HRKENAGAAEKIITVH--STPE---------GTSKACKMILEIMQKEAVDD------- 274 (584)
T ss_pred CCccccCcchhhhheeee----eecccCCcccCceEEe--cCcc---------chHHHHHHHHHHHHHhhhcc-------
Confidence 499999999999887732 1112234568999776 4433 34557777888886532111
Q ss_pred CCCCCcceeEEEecCCCCCCCceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEe
Q 007659 203 GNGVQAMSTSVFLGFDADASLNIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLR 274 (594)
Q Consensus 203 ~~G~~~~s~kV~Igid~~P~fN~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LR 274 (594)
...+ .|++.-..-=||+||+||-- |.+||+|+++||+||.|-
T Consensus 275 -----k~~~--e~pLk~lAHN~lvGRLIGKe-----------------------GrnlKkIeq~TgTkITis 316 (584)
T KOG2193|consen 275 -----KVAE--EIPLKILAHNNLVGRLIGKE-----------------------GRNLKKIEQDTGTKITIS 316 (584)
T ss_pred -----chhh--hcchhhhhhcchhhhhhhhc-----------------------cccHHHHHhhcCCceeee
Confidence 0111 12333233456999999999 999999999999999995
No 22
>PF13014 KH_3: KH domain
Probab=96.77 E-value=0.0013 Score=49.24 Aligned_cols=28 Identities=32% Similarity=0.455 Sum_probs=25.9
Q ss_pred eeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEee
Q 007659 225 IAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRG 275 (594)
Q Consensus 225 ~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRG 275 (594)
++++|||++ |++|++|+++|||+|.+--
T Consensus 1 ~vg~iIG~~-----------------------G~~I~~I~~~tg~~I~i~~ 28 (43)
T PF13014_consen 1 FVGRIIGKG-----------------------GSTIKEIREETGAKIQIPP 28 (43)
T ss_pred CcCeEECCC-----------------------ChHHHHHHHHhCcEEEECC
Confidence 478999999 9999999999999999974
No 23
>PRK13763 putative RNA-processing protein; Provisional
Probab=96.00 E-value=0.013 Score=56.48 Aligned_cols=55 Identities=11% Similarity=0.216 Sum_probs=48.2
Q ss_pred eeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEE---eCC
Q 007659 225 IAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLS---SNN 301 (594)
Q Consensus 225 ~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS---~~~ 301 (594)
-++.|||++ |.+++.|+++|||+|.|.-. -=.+.|. +.+
T Consensus 13 kig~iIG~g-----------------------Gk~Ik~I~e~tg~~I~i~~~---------------~g~V~I~~~~~~d 54 (180)
T PRK13763 13 RIGVLIGKK-----------------------GETKKEIEERTGVKLEIDSE---------------TGEVIIEPTDGED 54 (180)
T ss_pred HhhhHhccc-----------------------hhHHHHHHHHHCcEEEEECC---------------CCeEEEEeCCCCC
Confidence 578899999 99999999999999999832 1367777 889
Q ss_pred HHHHHHHHHHHHHHHH
Q 007659 302 PKSLEEAKRLAENLLD 317 (594)
Q Consensus 302 pe~l~~Ak~L~EnLL~ 317 (594)
++.+++|+++++.|+.
T Consensus 55 ~~~i~kA~~~I~ai~~ 70 (180)
T PRK13763 55 PLAVLKARDIVKAIGR 70 (180)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 9999999999999987
No 24
>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polynucleotide phosphorylase. Sohlberg, et al. present characterization of two proteins from Streptomyces coelicolor. The protein in this family was shown to have poly(A) polymerase activity and may be responsible for polyadenylating RNA in this species. Reference 2 showed that a nearly identical plasmid-encoded protein from Streptomyces antibioticus is a bifunctional enzyme that acts also as a guanosine pentaphosphate synthetase.
Probab=95.98 E-value=0.059 Score=62.20 Aligned_cols=93 Identities=17% Similarity=0.264 Sum_probs=67.2
Q ss_pred eeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHHH
Q 007659 225 IAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPKS 304 (594)
Q Consensus 225 ~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe~ 304 (594)
-++.||||+ |.++|.|++||||+|-|- +.=++.|.+.+.+.
T Consensus 588 ki~~vIG~g-----------------------Gk~I~~i~~~tg~~Idi~----------------d~G~V~I~a~d~~~ 628 (719)
T TIGR02696 588 KIGEVIGPK-----------------------GKMINQIQDETGAEISIE----------------DDGTVYIGAADGPS 628 (719)
T ss_pred HhhheeCCC-----------------------cHhHHHHHHHHCCEEEEe----------------cCcEEEEEeCCHHH
Confidence 578899999 999999999999999886 23589999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcccccccccccccCCCccccccccccccccccCCCcccceecccccc
Q 007659 305 LEEAKRLAENLLDTISAECGASRVSSCKVYNAVPPPQQLLTGIQGFGNEQKLNAGSAVILTSTVNL 370 (594)
Q Consensus 305 l~~Ak~L~EnLL~tV~eEy~~~r~s~~k~y~~~pppqq~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 370 (594)
+++|++++++|+.. +.+..+.+|.. --..+..||..-.+.. ..-||.|.-.+
T Consensus 629 ~~~A~~~I~~i~~~-------~~~~vG~i~~G------kV~~I~dfGaFVel~~-G~eGLvHISei 680 (719)
T TIGR02696 629 AEAARAMINAIANP-------TMPEVGERFLG------TVVKTTAFGAFVSLLP-GKDGLLHISQI 680 (719)
T ss_pred HHHHHHHHHHhhCc-------CcCCCCCEEEE------EEEEEECceEEEEecC-CceEEEEhhhc
Confidence 99999999999885 11112222321 1344666775544432 35677775544
No 25
>TIGR03665 arCOG04150 arCOG04150 universal archaeal KH domain protein. This family of proteins is universal among the 41 archaeal genomes analyzed in and is not observed outside of the archaea. The proteins contain a single KH domain (pfam00013) which is likely to confer the ability to bind RNA.
Probab=95.76 E-value=0.017 Score=55.33 Aligned_cols=56 Identities=11% Similarity=0.174 Sum_probs=48.1
Q ss_pred eeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEE--EeCCH
Q 007659 225 IAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFL--SSNNP 302 (594)
Q Consensus 225 ~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~I--S~~~p 302 (594)
.+|.|||++ |.+++.|+++|||+|.|--. -=.+.| .+.++
T Consensus 8 kig~vIG~g-----------------------G~~Ik~I~~~tgv~I~Id~~---------------~g~V~I~~~t~d~ 49 (172)
T TIGR03665 8 RIGVLIGKG-----------------------GETKKEIEERTGVKLDIDSE---------------TGEVKIEEEDEDP 49 (172)
T ss_pred HhhhHhCCc-----------------------hhHHHHHHHHhCcEEEEEcC---------------CceEEEecCCCCH
Confidence 578899999 99999999999999999821 125777 78999
Q ss_pred HHHHHHHHHHHHHHHH
Q 007659 303 KSLEEAKRLAENLLDT 318 (594)
Q Consensus 303 e~l~~Ak~L~EnLL~t 318 (594)
+.+.+|+++++.|...
T Consensus 50 ~~i~kA~~~I~~i~~g 65 (172)
T TIGR03665 50 LAVMKAREVVKAIGRG 65 (172)
T ss_pred HHHHHHHHHHHHHHcC
Confidence 9999999999998773
No 26
>COG1094 Predicted RNA-binding protein (contains KH domains) [General function prediction only]
Probab=95.21 E-value=0.023 Score=56.43 Aligned_cols=55 Identities=22% Similarity=0.281 Sum_probs=48.9
Q ss_pred eeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHHH
Q 007659 225 IAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPKS 304 (594)
Q Consensus 225 ~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe~ 304 (594)
..|||||++ |.+.+.||+-|||.|.+-|+ ++.|.| ++++
T Consensus 112 ~kgRIIG~~-----------------------GkTr~~IE~lt~~~I~V~g~-----------------tVaiiG-~~~~ 150 (194)
T COG1094 112 IKGRIIGRE-----------------------GKTRRAIEELTGVYISVYGK-----------------TVAIIG-GFEQ 150 (194)
T ss_pred hhceeeCCC-----------------------chHHHHHHHHhCCeEEEeCc-----------------EEEEec-Chhh
Confidence 789999999 99999999999999999974 566765 5789
Q ss_pred HHHHHHHHHHHHHHHH
Q 007659 305 LEEAKRLAENLLDTIS 320 (594)
Q Consensus 305 l~~Ak~L~EnLL~tV~ 320 (594)
++.||+-+|.||+..+
T Consensus 151 v~iAr~AVemli~G~~ 166 (194)
T COG1094 151 VEIAREAVEMLINGAP 166 (194)
T ss_pred hHHHHHHHHHHHcCCC
Confidence 9999999999998654
No 27
>KOG2190 consensus PolyC-binding proteins alphaCP-1 and related KH domain proteins [RNA processing and modification; General function prediction only]
Probab=95.19 E-value=0.23 Score=55.10 Aligned_cols=156 Identities=17% Similarity=0.193 Sum_probs=83.7
Q ss_pred ccccccchhHHHHHHhhhCCeEeecccccCCCCCCCCCCCeEEeeec---------ccchhhHHHHHHHHHHHHHHHHHH
Q 007659 117 VRYKLTKRHTQEEIQKCTGAVVITRGKYRLPNAPPDGEKPLYLHISA---------GAHLKETAERILAVDHAAAMVEEM 187 (594)
Q Consensus 117 vRy~LTKg~Tq~eIqe~TGAsVtTRGrYyPPgk~~~gEpPLYL~IeG---------~Te~ket~eR~kaVDrAIalIeEI 187 (594)
--|+..+|+++++|..+|++.|-+-=. ...+.||=+ .|.| .. .++.+|..+|=..
T Consensus 55 G~IIGk~G~~vkkir~~t~s~i~i~~~-----~~~c~eRIi--ti~g~~~~~~~~~~~---------~al~ka~~~iv~~ 118 (485)
T KOG2190|consen 55 GSIIGKKGDIVKKIRKETESKIRVNES-----LPGCPERII--TITGNRVELNLSPAT---------DALFKAFDMIVFK 118 (485)
T ss_pred eeEEccCcHHHHHHhhcccccceeecC-----CCCCCcceE--EEecccccccCCchH---------HHHHHHHHHHhhc
Confidence 356778899999999777776522100 011223322 2334 22 2455554444443
Q ss_pred HHcCCCCCCCcccccCCC---CCc-ceeEEEecCCCCCCCceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHH
Q 007659 188 LKQGHAGFPTLQTVMGNG---VQA-MSTSVFLGFDADASLNIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHI 263 (594)
Q Consensus 188 IKe~P~~~pt~~~~~~~G---~~~-~s~kV~Igid~~P~fN~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~I 263 (594)
..++..-. .+++ ..+ ...++-|+ .+-+|-|||-+ |+.||.|
T Consensus 119 ~~~d~~~~------~d~~~~~~~~~v~~RLlVp------~sq~GslIGK~-----------------------G~~Ik~I 163 (485)
T KOG2190|consen 119 LEEDDEAA------EDNGEDASGPEVTCRLLVP------SSQVGSLIGKG-----------------------GSLIKEI 163 (485)
T ss_pred cccccccc------ccCCccccCCceEEEEEec------hhheeeeeccC-----------------------cHHHHHH
Confidence 32222111 1111 133 33444444 34789999999 9999999
Q ss_pred HhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHHHHHHH-HHHHHHHHHHHHHHhcccccccccccc
Q 007659 264 MNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPKSLEEA-KRLAENLLDTISAECGASRVSSCKVYN 335 (594)
Q Consensus 264 q~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe~l~~A-k~L~EnLL~tV~eEy~~~r~s~~k~y~ 335 (594)
.++|||+|++-+. .+ + -+.|.+ +-|++. ++.+.+| ..++.-|+++....+ .+..++..|-
T Consensus 164 re~TgA~I~v~~~---~l-P----~ster~-V~IsG~-~~av~~al~~Is~~L~~~~~~~~--~~~~st~~y~ 224 (485)
T KOG2190|consen 164 REETGAKIRVSSD---ML-P----NSTERA-VTISGE-PDAVKKALVQISSRLLENPPRSP--PPLVSTIPYR 224 (485)
T ss_pred HHhcCceEEecCC---CC-C----ccccee-EEEcCc-hHHHHHHHHHHHHHHHhcCCcCC--CCCCCcccCC
Confidence 9999999999865 22 2 122333 566554 5555555 444555555444422 3334454443
No 28
>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase. Members of this protein family are polyribonucleotide nucleotidyltransferase, also called polynucleotide phosphorylase. Some members have been shown also to have additional functions as guanosine pentaphosphate synthetase and as poly(A) polymerase (see model TIGR02696 for an exception clade, within this family).
Probab=94.85 E-value=0.046 Score=62.40 Aligned_cols=91 Identities=19% Similarity=0.271 Sum_probs=65.5
Q ss_pred eeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHHH
Q 007659 225 IAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPKS 304 (594)
Q Consensus 225 ~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe~ 304 (594)
.++.||||+ |.++|.|++||||+|-|- +.=++.|.+.+.+.
T Consensus 561 kI~~vIG~g-----------------------Gk~Ik~I~~~tg~~I~i~----------------ddG~V~i~~~~~~~ 601 (684)
T TIGR03591 561 KIRDVIGPG-----------------------GKVIREITEETGAKIDIE----------------DDGTVKIAASDGEA 601 (684)
T ss_pred HHHhhcCCC-----------------------cHHHHHHHHHHCCEEEEe----------------cCeEEEEEECcHHH
Confidence 578999999 999999999999999995 23589999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcccccccccccccCCCccccccccccccccccCCCcccceecccccc
Q 007659 305 LEEAKRLAENLLDTISAECGASRVSSCKVYNAVPPPQQLLTGIQGFGNEQKLNAGSAVILTSTVNL 370 (594)
Q Consensus 305 l~~Ak~L~EnLL~tV~eEy~~~r~s~~k~y~~~pppqq~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 370 (594)
+++|+++++.|.... ...++|.. .-.++..+|..-.+.. ...|+.|--++
T Consensus 602 ~~~a~~~I~~~~~~~---------~~G~i~~G------~V~~I~~~GafVei~~-g~~GllHiSei 651 (684)
T TIGR03591 602 AEAAIKMIEGITAEP---------EVGKIYEG------KVVRIMDFGAFVEILP-GKDGLVHISEI 651 (684)
T ss_pred HHHHHHHHHhhhccc---------ccCcEEEE------EEEEEeCCEEEEEECC-CcEEEEEHHHc
Confidence 999999999995521 11233322 1455666775544433 25677765544
No 29
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Probab=94.26 E-value=0.045 Score=64.39 Aligned_cols=93 Identities=19% Similarity=0.257 Sum_probs=68.7
Q ss_pred eeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcE-EEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHH
Q 007659 225 IAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGAT-VLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPK 303 (594)
Q Consensus 225 ~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaK-V~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe 303 (594)
-++.||||+ |.+||.|++|||++ |-|+ +.-++.|.+.+.+
T Consensus 695 ki~~vIG~G-----------------------GktIk~I~eetg~~~Idi~----------------ddg~V~I~a~d~~ 735 (891)
T PLN00207 695 KVNMIIGSG-----------------------GKKVKSIIEETGVEAIDTQ----------------DDGTVKITAKDLS 735 (891)
T ss_pred HHHHHhcCC-----------------------chhHHHHHHHHCCCccCcC----------------CCeeEEEEeCCHH
Confidence 578899999 99999999999999 7776 3489999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHhcccccccccccccCCCccccccccccccccccCCCcccceeccccccC
Q 007659 304 SLEEAKRLAENLLDTISAECGASRVSSCKVYNAVPPPQQLLTGIQGFGNEQKLNAGSAVILTSTVNLS 371 (594)
Q Consensus 304 ~l~~Ak~L~EnLL~tV~eEy~~~r~s~~k~y~~~pppqq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 371 (594)
.+++|++++++|.... -..++|.. ---.++..||..-.+... .-||.|--.++
T Consensus 736 ~i~~A~~~I~~l~~~~---------~vG~iy~~-----g~V~~I~~FGaFVeL~~g-~EGLVHISeLs 788 (891)
T PLN00207 736 SLEKSKAIISSLTMVP---------TVGDIYRN-----CEIKSIAPYGAFVEIAPG-REGLCHISELS 788 (891)
T ss_pred HHHHHHHHHHHHhcCc---------CCCcEEEC-----cEEEEEeccEEEEEeCCC-CEEEEEhhhcC
Confidence 9999999999998621 12344420 013467778866555443 57787755443
No 30
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=94.08 E-value=0.3 Score=53.98 Aligned_cols=155 Identities=17% Similarity=0.219 Sum_probs=95.6
Q ss_pred eEEeCCCCccccccc-cchhHHHHHHhhhCCeEeecccccCCCCCCCCCCCeEEeeecccchhhHHHHHHHHHHHHHHHH
Q 007659 107 EIVINDSESSVRYKL-TKRHTQEEIQKCTGAVVITRGKYRLPNAPPDGEKPLYLHISAGAHLKETAERILAVDHAAAMVE 185 (594)
Q Consensus 107 EIEINDlPq~vRy~L-TKg~Tq~eIqe~TGAsVtTRGrYyPPgk~~~gEpPLYL~IeG~Te~ket~eR~kaVDrAIalIe 185 (594)
.+.|-|.- +.-++ .||..+++|.+.+||+|-. -|++-+--++| -..|.|+.+ +.-+|...|-
T Consensus 414 ~~fiP~~~--vGAiIGkkG~hIKql~RfagASiKI----appE~pdvseR--MViItGppe---------aqfKAQgrif 476 (584)
T KOG2193|consen 414 RMFIPAQA--VGAIIGKKGQHIKQLSRFAGASIKI----APPEIPDVSER--MVIITGPPE---------AQFKAQGRIF 476 (584)
T ss_pred eeeccHHH--HHHHHhhcchhHHHHHHhccceeee----cCCCCCCccee--EEEecCChH---------HHHhhhhhhh
Confidence 45565554 45555 5699999999999999843 13322222344 347889874 5566777788
Q ss_pred HHHHcCCCCCCCcccccCCCCCcceeEEEecCCCCCCCceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHh
Q 007659 186 EMLKQGHAGFPTLQTVMGNGVQAMSTSVFLGFDADASLNIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMN 265 (594)
Q Consensus 186 EIIKe~P~~~pt~~~~~~~G~~~~s~kV~Igid~~P~fN~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ 265 (594)
.-|+++--+.|-. ...+++-|- .|++ .+|||||-+ |.+++.+|+
T Consensus 477 gKikEenf~~Pke-------evklethir-----VPs~-~aGRvIGKG-----------------------GktVnELQn 520 (584)
T KOG2193|consen 477 GKIKEENFFLPKE-------EVKLETHIR-----VPSS-AAGRVIGKG-----------------------GKTVNELQN 520 (584)
T ss_pred hhhhhhccCCchh-------hheeeeeee-----ccch-hhhhhhccc-----------------------cccHHHHhc
Confidence 7777754222211 123333332 3455 899999999 999999999
Q ss_pred hcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHHHHHHHHHHHHHHHHHHHHHh
Q 007659 266 ETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPKSLEEAKRLAENLLDTISAEC 323 (594)
Q Consensus 266 ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe~l~~Ak~L~EnLL~tV~eEy 323 (594)
-|+|.|.+- .| .++.|.|+ .-+-|.++-+.. ..|..-+.+|+..|++.-
T Consensus 521 lt~AeV~vP------rd-qtpdEnd~-vivriiGhfyat-q~aQrki~~iv~qvkq~~ 569 (584)
T KOG2193|consen 521 LTSAEVVVP------RD-QTPDENDQ-VIVRIIGHFYAT-QNAQRKIAHIVNQVKQSG 569 (584)
T ss_pred cccceEEcc------cc-CCCCccce-eeeeeechhhcc-hHHHHHHHHHHHHHHHhh
Confidence 999999885 22 24445333 444555554432 334444556666665544
No 31
>KOG1588 consensus RNA-binding protein Sam68 and related KH domain proteins [RNA processing and modification]
Probab=92.57 E-value=0.36 Score=50.09 Aligned_cols=75 Identities=19% Similarity=0.271 Sum_probs=56.1
Q ss_pred ccccccchhHHHHHHhhhCCeEeecccccCCCC------CC-CC----CCCeEEeeecccchhhHHHHHHHHHHHHHHHH
Q 007659 117 VRYKLTKRHTQEEIQKCTGAVVITRGKYRLPNA------PP-DG----EKPLYLHISAGAHLKETAERILAVDHAAAMVE 185 (594)
Q Consensus 117 vRy~LTKg~Tq~eIqe~TGAsVtTRGrYyPPgk------~~-~g----EpPLYL~IeG~Te~ket~eR~kaVDrAIalIe 185 (594)
-|.+=-||.|++.++++|||.|.+||+--=-++ +. ++ +.|||++|+......+.. .-+..|+++|+
T Consensus 110 GRILGPrGnSlkrLe~eTgCki~IrGrgSmrD~~KEE~lR~~p~yeHL~epLHVlIe~~~p~~ea~---~rl~~AleeI~ 186 (259)
T KOG1588|consen 110 GRILGPRGNSLKRLEEETGCKIMIRGRGSMRDKAKEEELRGDPGYEHLNEPLHVLIETEAPPAEAY---ARLAYALEEIK 186 (259)
T ss_pred cccccCCcchHHHHHHHHCCeEEEecCCcccchHHHHHhhcCcchHHhCCCcEEEEEEeCCHHHHH---HHHHHHHHHHH
Confidence 377778999999999999999999999754442 11 11 689999999876422333 33778999999
Q ss_pred HHHHcCCCC
Q 007659 186 EMLKQGHAG 194 (594)
Q Consensus 186 EIIKe~P~~ 194 (594)
.+|......
T Consensus 187 klL~P~~e~ 195 (259)
T KOG1588|consen 187 KLLVPDHED 195 (259)
T ss_pred HhcCCCCCC
Confidence 998765543
No 32
>PRK04163 exosome complex RNA-binding protein Rrp4; Provisional
Probab=91.34 E-value=0.33 Score=48.73 Aligned_cols=54 Identities=17% Similarity=0.281 Sum_probs=46.4
Q ss_pred ceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHH
Q 007659 224 NIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPK 303 (594)
Q Consensus 224 N~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe 303 (594)
+.++++|||+ |.+++.|.++||++|.|- . + =+++|++.+.+
T Consensus 154 ~~i~~lig~~-----------------------g~~i~~l~~~~~~~I~ig------~---N-------G~VwI~~~~~~ 194 (235)
T PRK04163 154 VKVPRVIGKK-----------------------GSMINMLKEETGCDIIVG------Q---N-------GRIWIKGPDEE 194 (235)
T ss_pred HHHHhhcCCC-----------------------ChhHhhhhhhhCcEEEEc------C---C-------cEEEEeeCCHH
Confidence 3678889999 999999999999999984 1 1 48999999999
Q ss_pred HHHHHHHHHHHHH
Q 007659 304 SLEEAKRLAENLL 316 (594)
Q Consensus 304 ~l~~Ak~L~EnLL 316 (594)
.+++|++.+++|-
T Consensus 195 ~~~~a~~~I~~~e 207 (235)
T PRK04163 195 DEEIAIEAIKKIE 207 (235)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999888754
No 33
>PRK00106 hypothetical protein; Provisional
Probab=90.60 E-value=1.7 Score=49.02 Aligned_cols=59 Identities=27% Similarity=0.361 Sum_probs=51.4
Q ss_pred CCCceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeC
Q 007659 221 ASLNIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSN 300 (594)
Q Consensus 221 P~fN~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~ 300 (594)
|+=.+.|||||.- |.|++.++.-||+.|.|- |.|=-+.|||-
T Consensus 232 p~demkGriIGre-----------------------GrNir~~E~~tGvdliid---------------dtp~~v~lS~f 273 (535)
T PRK00106 232 PDDNMKGRIIGRE-----------------------GRNIRTLESLTGIDVIID---------------DTPEVVVLSGF 273 (535)
T ss_pred CChHhhcceeCCC-----------------------cchHHHHHHHhCceEEEc---------------CCCCeEEEeCC
Confidence 4556999999999 999999999999999986 67888999999
Q ss_pred CHHHHHHHHHHHHHHHH
Q 007659 301 NPKSLEEAKRLAENLLD 317 (594)
Q Consensus 301 ~pe~l~~Ak~L~EnLL~ 317 (594)
||---+.|+.-.|.||.
T Consensus 274 dpvRReiAr~~le~Li~ 290 (535)
T PRK00106 274 DPIRREIARMTLESLIK 290 (535)
T ss_pred ChHHHHHHHHHHHHHHH
Confidence 99998888887766653
No 34
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=90.59 E-value=0.21 Score=57.33 Aligned_cols=91 Identities=19% Similarity=0.250 Sum_probs=64.7
Q ss_pred eeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHHH
Q 007659 225 IAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPKS 304 (594)
Q Consensus 225 ~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe~ 304 (594)
-++.+|||+ |.+||.|++|||++|-|+ +.-++.|.+.+.+.
T Consensus 564 kI~~vIG~g-----------------------g~~ik~I~~~~~~~idi~----------------d~G~v~i~~~~~~~ 604 (693)
T PRK11824 564 KIRDVIGPG-----------------------GKTIREITEETGAKIDIE----------------DDGTVKIAATDGEA 604 (693)
T ss_pred HHHHHhcCC-----------------------chhHHHHHHHHCCccccC----------------CCceEEEEcccHHH
Confidence 478899999 999999999999988775 34679999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcccccccccccccCCCccccccccccccccccCCCcccceecccccc
Q 007659 305 LEEAKRLAENLLDTISAECGASRVSSCKVYNAVPPPQQLLTGIQGFGNEQKLNAGSAVILTSTVNL 370 (594)
Q Consensus 305 l~~Ak~L~EnLL~tV~eEy~~~r~s~~k~y~~~pppqq~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 370 (594)
+++|++++++|....+ ..++|.. .-..+..+|..-.+.. ...|+.|--++
T Consensus 605 ~~~a~~~I~~~~~~~~---------vG~v~~G------~V~~I~~fGafVei~~-~~~GllhiSel 654 (693)
T PRK11824 605 AEAAKERIEGITAEPE---------VGEIYEG------KVVRIVDFGAFVEILP-GKDGLVHISEI 654 (693)
T ss_pred HHHHHHHHHHhcccCc---------CCeEEEE------EEEEEECCeEEEEECC-CCEEEEEeeec
Confidence 9999999999984311 1233322 1445566674444433 25566665444
No 35
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=89.54 E-value=2.2 Score=47.66 Aligned_cols=60 Identities=23% Similarity=0.326 Sum_probs=51.4
Q ss_pred CCCCceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEe
Q 007659 220 DASLNIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSS 299 (594)
Q Consensus 220 ~P~fN~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~ 299 (594)
.|+=.+.|||||.. |-|++.+++-||+.|.|= |.|=-+.||+
T Consensus 210 lp~d~~kgriigre-----------------------Grnir~~e~~tgvd~iid---------------dtp~~v~ls~ 251 (514)
T TIGR03319 210 LPNDEMKGRIIGRE-----------------------GRNIRALETLTGVDLIID---------------DTPEAVILSG 251 (514)
T ss_pred cCChhhhccccCCC-----------------------cchHHHHHHHhCceEEEc---------------CCCCeEEecC
Confidence 34556999999999 999999999999999986 5677899999
Q ss_pred CCHHHHHHHHHHHHHHHH
Q 007659 300 NNPKSLEEAKRLAENLLD 317 (594)
Q Consensus 300 ~~pe~l~~Ak~L~EnLL~ 317 (594)
-||---+.|+.-.|.||.
T Consensus 252 fdp~rreia~~~l~~li~ 269 (514)
T TIGR03319 252 FDPVRREIARMALEKLIQ 269 (514)
T ss_pred CchHHHHHHHHHHHHHHH
Confidence 999988888877766663
No 36
>PRK12704 phosphodiesterase; Provisional
Probab=89.39 E-value=2.4 Score=47.48 Aligned_cols=59 Identities=24% Similarity=0.316 Sum_probs=49.9
Q ss_pred CCCCceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEe
Q 007659 220 DASLNIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSS 299 (594)
Q Consensus 220 ~P~fN~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~ 299 (594)
.|+=.+.|||||.. |-|++.++.-||+.|.|- |.|=-++||+
T Consensus 216 lp~d~mkgriigre-----------------------Grnir~~e~~tgvd~iid---------------dtp~~v~ls~ 257 (520)
T PRK12704 216 LPNDEMKGRIIGRE-----------------------GRNIRALETLTGVDLIID---------------DTPEAVILSG 257 (520)
T ss_pred cCCchhhcceeCCC-----------------------cchHHHHHHHhCCeEEEc---------------CCCCeEEEec
Confidence 34556999999999 999999999999999986 5688899999
Q ss_pred CCHHHHHHHHHHHHHHH
Q 007659 300 NNPKSLEEAKRLAENLL 316 (594)
Q Consensus 300 ~~pe~l~~Ak~L~EnLL 316 (594)
-++-.-+.|+.-.+.|+
T Consensus 258 ~~~~rre~a~~~l~~l~ 274 (520)
T PRK12704 258 FDPIRREIARLALEKLV 274 (520)
T ss_pred CChhhHHHHHHHHHHHH
Confidence 99988777777665554
No 37
>cd02393 PNPase_KH Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to those in other RNA binding proteins: a KH domain and an S1 domain. KH domains bind single-stranded RNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=87.76 E-value=1.6 Score=35.31 Aligned_cols=56 Identities=21% Similarity=0.246 Sum_probs=39.9
Q ss_pred eEEeCCCCccccccccc-hhHHHHHHhhhCCeEeecccccCCCCCCCCCCCeEEeeecccchhhHHHHHHHHHHHHHHHH
Q 007659 107 EIVINDSESSVRYKLTK-RHTQEEIQKCTGAVVITRGKYRLPNAPPDGEKPLYLHISAGAHLKETAERILAVDHAAAMVE 185 (594)
Q Consensus 107 EIEINDlPq~vRy~LTK-g~Tq~eIqe~TGAsVtTRGrYyPPgk~~~gEpPLYL~IeG~Te~ket~eR~kaVDrAIalIe 185 (594)
.|.|..-- ++.++-+ |+++.+|+++|||.|.+- . +. .+.|.|.+. ..++.|+.+|+
T Consensus 5 ~i~Ip~~~--ig~iIGkgG~~ik~I~~~tg~~I~i~-----~------~g--~v~I~G~~~--------~~v~~A~~~I~ 61 (61)
T cd02393 5 TMKIPPDK--IRDVIGPGGKTIKKIIEETGVKIDIE-----D------DG--TVYIAASDK--------EAAEKAKKMIE 61 (61)
T ss_pred EEEeChhh--eeeeECCCchHHHHHHHHHCCEEEeC-----C------CC--EEEEEeCCH--------HHHHHHHHHhC
Confidence 45554433 5667755 999999999999998642 1 22 478899764 57888888874
No 38
>KOG2191 consensus RNA-binding protein NOVA1/PASILLA and related KH domain proteins [RNA processing and modification; General function prediction only]
Probab=86.61 E-value=2.3 Score=45.99 Aligned_cols=78 Identities=23% Similarity=0.230 Sum_probs=54.1
Q ss_pred ceeEEEecCCCCCCCceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCC
Q 007659 209 MSTSVFLGFDADASLNIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEE 288 (594)
Q Consensus 209 ~s~kV~Igid~~P~fN~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqE 288 (594)
..-||.|+- +-+|-|||.+ |++|-++|+||||+|.|- |-+-|.-+.+
T Consensus 39 y~ikvLips------~AaGsIIGKG-----------------------G~ti~~lqk~tgariklS-ks~dfyPGTT--- 85 (402)
T KOG2191|consen 39 YFLKVLIPS------YAAGSIIGKG-----------------------GQTIVQLQKETGARIKLS-KSKDFYPGTT--- 85 (402)
T ss_pred eEEEEEeec------ccccceeccc-----------------------hHHHHHHHhccCcEEEec-cccccCCCcc---
Confidence 556776663 3788999999 999999999999999997 4333332222
Q ss_pred CCCCcEEEEEeCCHHHHHHHHHHHHHHHHHHHHHhccc
Q 007659 289 VHQPLHLFLSSNNPKSLEEAKRLAENLLDTISAECGAS 326 (594)
Q Consensus 289 s~EPLHl~IS~~~pe~l~~Ak~L~EnLL~tV~eEy~~~ 326 (594)
-.+|+..-.-|.|-.- .|-+++.||++.+.-
T Consensus 86 ----eRvcli~Gt~eai~av---~efI~dKire~p~~~ 116 (402)
T KOG2191|consen 86 ----ERVCLIQGTVEALNAV---HEFIADKIREKPQAV 116 (402)
T ss_pred ----ceEEEEeccHHHHHHH---HHHHHHHHHHhHHhh
Confidence 2577766666666555 445566777776543
No 39
>KOG1067 consensus Predicted RNA-binding polyribonucleotide nucleotidyltransferase [General function prediction only]
Probab=84.11 E-value=1.8 Score=49.60 Aligned_cols=56 Identities=21% Similarity=0.268 Sum_probs=47.0
Q ss_pred eeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHHH
Q 007659 225 IAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPKS 304 (594)
Q Consensus 225 ~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe~ 304 (594)
=++.+|||. |-.+|+|+.|||+..++ +.=||-|-++++..
T Consensus 607 k~~~lIGp~-----------------------G~~~kki~~EtGai~~v-----------------De~t~~i~A~~~~a 646 (760)
T KOG1067|consen 607 KRATLIGPG-----------------------GVLKKKIEVETGAISQV-----------------DEGTFSIFAPTQAA 646 (760)
T ss_pred hhheeecCc-----------------------cceeeeEeeeccceeee-----------------cCceEEEEecCHHH
Confidence 467889999 99999999999965443 22589999999999
Q ss_pred HHHHHHHHHHHHHHHH
Q 007659 305 LEEAKRLAENLLDTIS 320 (594)
Q Consensus 305 l~~Ak~L~EnLL~tV~ 320 (594)
+++||++++.++..=+
T Consensus 647 m~~Ak~~I~~i~~~~~ 662 (760)
T KOG1067|consen 647 MEEAKEFIDGIIKDDQ 662 (760)
T ss_pred HHHHHHHHHHHhcCcc
Confidence 9999999999987633
No 40
>KOG2874 consensus rRNA processing protein [Translation, ribosomal structure and biogenesis; Cell cycle control, cell division, chromosome partitioning]
Probab=83.34 E-value=0.98 Score=47.89 Aligned_cols=50 Identities=16% Similarity=0.240 Sum_probs=40.7
Q ss_pred chhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHHHHHHHHHHHHHHHHHHHHHhc
Q 007659 257 DQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPKSLEEAKRLAENLLDTISAECG 324 (594)
Q Consensus 257 Gs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe~l~~Ak~L~EnLL~tV~eEy~ 324 (594)
|++||.|+--|.|-|.+.|.- +++.|+ ..+|+.+++++++-+.+||-=|+
T Consensus 168 g~TLKAlelLT~CYilVqG~T-----------------VsaiGp-fkGlkevr~IV~DcM~NiHPiY~ 217 (356)
T KOG2874|consen 168 GSTLKALELLTNCYILVQGNT-----------------VSAIGP-FKGLKEVRKIVEDCMKNIHPIYN 217 (356)
T ss_pred chhHHHHHHHhhcEEEeeCcE-----------------EEeecC-cchHHHHHHHHHHHHhccchHHH
Confidence 999999999999999999852 333333 35799999999999999887663
No 41
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=82.20 E-value=1.2 Score=52.58 Aligned_cols=9 Identities=22% Similarity=0.202 Sum_probs=4.4
Q ss_pred CCCeEEeee
Q 007659 154 EKPLYLHIS 162 (594)
Q Consensus 154 EpPLYL~Ie 162 (594)
..+||-||+
T Consensus 155 t~~l~~Cle 163 (1102)
T KOG1924|consen 155 TKKLLECLE 163 (1102)
T ss_pred cccHHHHHH
Confidence 455554443
No 42
>KOG2190 consensus PolyC-binding proteins alphaCP-1 and related KH domain proteins [RNA processing and modification; General function prediction only]
Probab=82.12 E-value=7.9 Score=43.43 Aligned_cols=61 Identities=23% Similarity=0.217 Sum_probs=45.9
Q ss_pred ccccccc-hhHHHHHHhhhCCeEeecccccCCCCCCCCCCCeEEeeecccchhhHHHHHHHHHHHHHHHHHHHHcCC
Q 007659 117 VRYKLTK-RHTQEEIQKCTGAVVITRGKYRLPNAPPDGEKPLYLHISAGAHLKETAERILAVDHAAAMVEEMLKQGH 192 (594)
Q Consensus 117 vRy~LTK-g~Tq~eIqe~TGAsVtTRGrYyPPgk~~~gEpPLYL~IeG~Te~ket~eR~kaVDrAIalIeEIIKe~P 192 (594)
+-.+|-| |+.+++|.++|||.|-+-+...|.. .++- +.|.|..+ +|..|+..|-.+|.+..
T Consensus 149 ~GslIGK~G~~Ik~Ire~TgA~I~v~~~~lP~s----ter~--V~IsG~~~---------av~~al~~Is~~L~~~~ 210 (485)
T KOG2190|consen 149 VGSLIGKGGSLIKEIREETGAKIRVSSDMLPNS----TERA--VTISGEPD---------AVKKALVQISSRLLENP 210 (485)
T ss_pred eeeeeccCcHHHHHHHHhcCceEEecCCCCCcc----ccee--EEEcCchH---------HHHHHHHHHHHHHHhcC
Confidence 4556666 9999999999999998877744432 2333 78888763 78889999998888753
No 43
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Probab=81.20 E-value=2.6 Score=48.96 Aligned_cols=44 Identities=23% Similarity=0.355 Sum_probs=39.5
Q ss_pred chhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHHHHHHHHHHHHHHH
Q 007659 257 DQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPKSLEEAKRLAENLL 316 (594)
Q Consensus 257 Gs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe~l~~Ak~L~EnLL 316 (594)
|..++.|..||||+|.|.=.| -+.|++.+.+...+|++.++++.
T Consensus 571 Gk~I~~I~eetg~~IdieddG----------------tv~i~~s~~~~~~~ak~~I~~i~ 614 (692)
T COG1185 571 GKTIKAITEETGVKIDIEDDG----------------TVKIAASDGESAKKAKERIEAIT 614 (692)
T ss_pred ccchhhhhhhhCcEEEecCCC----------------cEEEEecchHHHHHHHHHHHHHH
Confidence 999999999999999997333 46789999999999999999998
No 44
>PF00013 KH_1: KH domain syndrome, contains KH motifs.; InterPro: IPR018111 The K homology (KH) domain was first identified in the human heterogeneous nuclear ribonucleoprotein (hnRNP) K. It is a domain of around 70 amino acids that is present in a wide variety of quite diverse nucleic acid-binding proteins []. It has been shown to bind RNA [, ]. Like many other RNA-binding motifs, KH motifs are found in one or multiple copies (14 copies in chicken vigilin) and, at least for hnRNP K (three copies) and FMR-1 (two copies), each motif is necessary for in vitro RNA binding activity, suggesting that they may function cooperatively or, in the case of single KH motif proteins (for example, Mer1p), independently []. According to structural [, , ] analysis the KH domain can be separated in two groups. The first group or type-1 contain a beta-alpha-alpha-beta-beta-alpha structure, whereas in the type-2 the two last beta-sheet are located in the N-terminal part of the domain (alpha-beta-beta-alpha-alpha-beta). Sequence similarity between these two folds are limited to a short region (VIGXXGXXI) in the RNA binding motif. This motif is located between helice 1 and 2 in type-1 and between helice 2 and 3 in type-2. Proteins known to contain a type-1 KH domain include bacterial polyribonucleotide nucleotidyltransferases (2.7.7.8 from EC); vertebrate fragile X mental retardation protein 1 (FMR1); eukaryotic heterogeneous nuclear ribonucleoprotein K (hnRNP K), one of at least 20 major proteins that are part of hnRNP particles in mammalian cells; mammalian poly(rC) binding proteins; Artemia salina glycine-rich protein GRP33; yeast PAB1-binding protein 2 (PBP2); vertebrate vigilin; and human high-density lipoprotein binding protein (HDL-binding protein). More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0003723 RNA binding; PDB: 1TUA_A 2Z0S_A 1WE8_A 4AM3_B 4AIM_A 4AID_A 2HH3_A 2JVZ_A 1J4W_A 2HH2_A ....
Probab=80.58 E-value=4 Score=31.91 Aligned_cols=49 Identities=22% Similarity=0.245 Sum_probs=35.8
Q ss_pred ccccc-cchhHHHHHHhhhCCeEeecccccCCCCCCCCCCCeEEeeecccchhhHHHHHHHHHHHHHHH
Q 007659 117 VRYKL-TKRHTQEEIQKCTGAVVITRGKYRLPNAPPDGEKPLYLHISAGAHLKETAERILAVDHAAAMV 184 (594)
Q Consensus 117 vRy~L-TKg~Tq~eIqe~TGAsVtTRGrYyPPgk~~~gEpPLYL~IeG~Te~ket~eR~kaVDrAIalI 184 (594)
..+++ -+|.++++|++.|||.|..... + ..-.+.|.|.. ..|++|+++|
T Consensus 11 ~~~iIG~~G~~i~~I~~~t~~~I~i~~~---------~-~~~~v~I~G~~---------~~v~~A~~~I 60 (60)
T PF00013_consen 11 VGRIIGKKGSNIKEIEEETGVKIQIPDD---------D-ERDIVTISGSP---------EQVEKAKKMI 60 (60)
T ss_dssp HHHHHTGGGHHHHHHHHHHTSEEEEEST---------T-EEEEEEEEESH---------HHHHHHHHHH
T ss_pred cCEEECCCCCcHHHhhhhcCeEEEEcCC---------C-CcEEEEEEeCH---------HHHHHHHhhC
Confidence 45666 4599999999999999987433 2 33467888943 4688888776
No 45
>KOG2192 consensus PolyC-binding hnRNP-K protein HRB57A/hnRNP, contains KH domain [RNA processing and modification; General function prediction only]
Probab=79.14 E-value=5.5 Score=42.38 Aligned_cols=53 Identities=25% Similarity=0.397 Sum_probs=41.9
Q ss_pred chhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHHHHHHHHHHHHHHHHHHH
Q 007659 257 DQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPKSLEEAKRLAENLLDTIS 320 (594)
Q Consensus 257 Gs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe~l~~Ak~L~EnLL~tV~ 320 (594)
|.-|++|..|.||.|.|- |+.+|+| -.+.+.-.++++++.|..|.+|-+..-+
T Consensus 334 gqri~~ir~esGA~Ikid-------epleGse----drIitItGTqdQIqnAQYLlQn~Vkq~r 386 (390)
T KOG2192|consen 334 GQRIKQIRHESGASIKID-------EPLEGSE----DRIITITGTQDQIQNAQYLLQNSVKQYR 386 (390)
T ss_pred chhhhhhhhccCceEEec-------CcCCCCC----ceEEEEeccHHHHhhHHHHHHHHHHhhh
Confidence 999999999999999885 5555544 4566677789999999998887665333
No 46
>KOG2814 consensus Transcription coactivator complex, P50 component (LigT RNA ligase/phosphodiesterase family) [Transcription]
Probab=78.89 E-value=3.9 Score=44.08 Aligned_cols=64 Identities=11% Similarity=0.132 Sum_probs=53.6
Q ss_pred eeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHHH
Q 007659 225 IAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPKS 304 (594)
Q Consensus 225 ~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe~ 304 (594)
|.+.|||-+ |.+.++|++||+|+|.|==.+. .--|+-|++-..+.
T Consensus 67 ~~~~lig~~-----------------------g~trkkle~Etq~~i~lp~p~~------------n~~~i~i~~~~~~~ 111 (345)
T KOG2814|consen 67 FIGWLIGKQ-----------------------GKTRKKLEEETQTNIFLPRPNT------------NKEEIKIIGISRNC 111 (345)
T ss_pred Hhhhhhccc-----------------------chHHHHHHHhhccceEccCCCC------------CcceEEEeehhHHH
Confidence 667888888 9999999999999999862211 22489999999999
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 007659 305 LEEAKRLAENLLDTISAEC 323 (594)
Q Consensus 305 l~~Ak~L~EnLL~tV~eEy 323 (594)
|.+|.+-++-||+..+-.|
T Consensus 112 V~~a~~Ri~~~ids~r~s~ 130 (345)
T KOG2814|consen 112 VIQALERIAKLIDSDRKSF 130 (345)
T ss_pred HHHHHHHHHHHHHhhhhcC
Confidence 9999999999999988443
No 47
>cd02396 PCBP_like_KH K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are represented here, in tandem arrangement, followed by a large spacer region, with the third domain near the C-terminal end of the protein. The poly(C) binding proteins (PCBPs) can be divided into two groups, hnRNPs K/J and the alphaCPs, which share a triple KH domain configuration and poly(C) binding specificity. They play roles in mRNA stabilization, translational activation, and translational silencing. Nova-1 and Nova-2 are nuclear RNA-binding proteins that regulate splicing. This group also contains plant proteins that seem to have two tandem repeat arrrangements, like Hen4, a protein that plays a role in AGAMOUS (AG) pre-mRNA processing and important step in plant development. In general, KH binds single-stran
Probab=77.69 E-value=6.4 Score=31.71 Aligned_cols=52 Identities=25% Similarity=0.271 Sum_probs=35.4
Q ss_pred cccc-cchhHHHHHHhhhCCeEeecccccCCCCCCCCCCCeEEeeecccchhhHHHHHHHHHHHHHHH
Q 007659 118 RYKL-TKRHTQEEIQKCTGAVVITRGKYRLPNAPPDGEKPLYLHISAGAHLKETAERILAVDHAAAMV 184 (594)
Q Consensus 118 Ry~L-TKg~Tq~eIqe~TGAsVtTRGrYyPPgk~~~gEpPLYL~IeG~Te~ket~eR~kaVDrAIalI 184 (594)
.+.+ .+|.++++|+++|||.|.+.-.. ...+.++- +.|+|..+ .+++|+.+|
T Consensus 12 g~iIG~~G~~i~~i~~~tga~I~i~~~~----~~~~~~r~--v~I~G~~~---------~v~~A~~~I 64 (65)
T cd02396 12 GSIIGKGGSTIKEIREETGAKIRVSKSV----LPGSTERV--VTISGKPS---------AVQKALLLI 64 (65)
T ss_pred CeeECCCcHHHHHHHHHHCCEEEEcCCC----CCCCCceE--EEEEeCHH---------HHHHHHHhh
Confidence 3344 56999999999999999863221 12334554 57788753 678888776
No 48
>PRK12705 hypothetical protein; Provisional
Probab=76.23 E-value=8.6 Score=43.40 Aligned_cols=58 Identities=28% Similarity=0.309 Sum_probs=45.1
Q ss_pred CCCCceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEe
Q 007659 220 DASLNIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSS 299 (594)
Q Consensus 220 ~P~fN~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~ 299 (594)
.|+=.+.|||||.- |.|++.++..||+-|.|- |-|=-+.|++
T Consensus 204 lp~demkGriIGre-----------------------GrNir~~E~~tGvdliid---------------dtp~~V~ls~ 245 (508)
T PRK12705 204 IPSDAMKGRIIGRE-----------------------GRNIRAFEGLTGVDLIID---------------DTPEAVVISS 245 (508)
T ss_pred cCChHhhccccCcc-----------------------chhHHHHHHhhCCceEec---------------CCccchhhcc
Confidence 44556999999999 999999999999999886 3444477888
Q ss_pred CCHHHHHHHHHHHHHH
Q 007659 300 NNPKSLEEAKRLAENL 315 (594)
Q Consensus 300 ~~pe~l~~Ak~L~EnL 315 (594)
-++..=+.|+.-.++|
T Consensus 246 fdp~rreia~~~l~~L 261 (508)
T PRK12705 246 FNPIRREIARLTLEKL 261 (508)
T ss_pred cCccchHHHHHHHHHH
Confidence 8887766666555544
No 49
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=74.44 E-value=7.4 Score=43.73 Aligned_cols=70 Identities=16% Similarity=0.130 Sum_probs=48.3
Q ss_pred ceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeC-CH
Q 007659 224 NIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSN-NP 302 (594)
Q Consensus 224 N~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~-~p 302 (594)
+++|++||-+ |+.||.||+.|+++|+|- ++.+-+.|+-. .-
T Consensus 56 ~mvg~vigrg-----------------------gskik~iq~~tnt~iqii---------------~~~~e~kv~ifg~~ 97 (629)
T KOG0336|consen 56 EMVGKVIGRG-----------------------GSKIKRIQNDTNTRIQII---------------KCDLEVKVTIFGIN 97 (629)
T ss_pred hhhheeeccC-----------------------cchhhhhhcccceeEEEe---------------ccCceeEEEEechH
Confidence 5899999999 999999999999999996 12233333322 23
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccccccccccccc
Q 007659 303 KSLEEAKRLAENLLDTISAECGASRVSSCKVYNA 336 (594)
Q Consensus 303 e~l~~Ak~L~EnLL~tV~eEy~~~r~s~~k~y~~ 336 (594)
++-.+|+.-++++++.-.+ |+ |.|.+-++
T Consensus 98 ~m~~kaka~id~~~~k~e~-yn----se~~~d~a 126 (629)
T KOG0336|consen 98 HMRKKAKASIDRGQDKDER-YN----SEERYDGA 126 (629)
T ss_pred HHHHHHHhhHhhhhhhhhh-cc----cccccccc
Confidence 4556788888887776544 54 34665554
No 50
>cd02394 vigilin_like_KH K homology RNA-binding domain_vigilin_like. The vigilin family is a large and extended family of multiple KH-domain proteins, including vigilin, also called high density lipoprotein binding protien (HBP), fungal Scp160 and bicaudal-C. Yeast Scp160p has been shown to bind RNA and to associate with both soluble and membrane-bound polyribosomes as a mRNP component. Bicaudal-C is a RNA-binding molecule believed to function in embryonic development at the post-transcriptional level. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=69.47 E-value=12 Score=29.45 Aligned_cols=58 Identities=17% Similarity=0.207 Sum_probs=38.3
Q ss_pred eEEeCCCCccccccccc-hhHHHHHHhhhCCeEeecccccCCCCCCCCCCCeEEeeecccchhhHHHHHHHHHHHHHHH
Q 007659 107 EIVINDSESSVRYKLTK-RHTQEEIQKCTGAVVITRGKYRLPNAPPDGEKPLYLHISAGAHLKETAERILAVDHAAAMV 184 (594)
Q Consensus 107 EIEINDlPq~vRy~LTK-g~Tq~eIqe~TGAsVtTRGrYyPPgk~~~gEpPLYL~IeG~Te~ket~eR~kaVDrAIalI 184 (594)
+|.|.. ...++++-+ |.++.+|++.|||.|.+-.. . ..+.- +.|.|.. ..|+.|+.+|
T Consensus 3 ~i~Vp~--~~~~~iIG~~G~~i~~i~~~~g~~I~i~~~-----~--~~~~~--v~I~G~~---------~~v~~A~~~i 61 (62)
T cd02394 3 EVEIPK--KLHRFIIGKKGSNIRKIMEETGVKIRFPDP-----G--SKSDT--ITITGPK---------ENVEKAKEEI 61 (62)
T ss_pred EEEeCH--HHhhhccCCCCCcHHHHHHHhCCEEEcCCC-----C--CCCCE--EEEEcCH---------HHHHHHHHHh
Confidence 344544 335677755 89999999999999964322 1 23333 5778874 3677887766
No 51
>cd00105 KH-I K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that belong to different protein folds, but they share a single KH motif. The KH motif is folded into a beta alpha alpha beta unit. In addition to the core, type II KH domains (e.g. ribosomal protein S3) include N-terminal extension and type I KH domains (e.g. hnRNP K) contain C-terminal extension.
Probab=69.12 E-value=18 Score=27.90 Aligned_cols=52 Identities=23% Similarity=0.266 Sum_probs=34.7
Q ss_pred ccccc-cchhHHHHHHhhhCCeEeecccccCCCCCCCCCCCeEEeeecccchhhHHHHHHHHHHHHHHH
Q 007659 117 VRYKL-TKRHTQEEIQKCTGAVVITRGKYRLPNAPPDGEKPLYLHISAGAHLKETAERILAVDHAAAMV 184 (594)
Q Consensus 117 vRy~L-TKg~Tq~eIqe~TGAsVtTRGrYyPPgk~~~gEpPLYL~IeG~Te~ket~eR~kaVDrAIalI 184 (594)
+++.+ .+|.++.+|++.||+.|..... .....++. +.|.|.. ..+++|..+|
T Consensus 11 ~~~vIG~~G~~i~~I~~~s~~~I~i~~~-----~~~~~~~~--v~i~G~~---------~~v~~a~~~i 63 (64)
T cd00105 11 VGRIIGKGGSTIKEIREETGAKIKIPDS-----GSGSEERI--VTITGTP---------EAVEKAKELI 63 (64)
T ss_pred cceeECCCCHHHHHHHHHHCCEEEEcCC-----CCCCCceE--EEEEcCH---------HHHHHHHHHh
Confidence 46666 6699999999999999975432 11123333 4667863 3577777765
No 52
>COG5176 MSL5 Splicing factor (branch point binding protein) [RNA processing and modification]
Probab=68.32 E-value=5.3 Score=41.15 Aligned_cols=82 Identities=16% Similarity=0.194 Sum_probs=54.1
Q ss_pred CCCCceeEEeeEEeCCCCccc--cccc-cchhHHHHHHhhhCCeEeecccccCCC-CC-C-------CCCCCeEEeeecc
Q 007659 97 KVQDELIIAREIVINDSESSV--RYKL-TKRHTQEEIQKCTGAVVITRGKYRLPN-AP-P-------DGEKPLYLHISAG 164 (594)
Q Consensus 97 K~~de~~f~aEIEINDlPq~v--Ry~L-TKg~Tq~eIqe~TGAsVtTRGrYyPPg-k~-~-------~gEpPLYL~IeG~ 164 (594)
|..+..| |.+-+||..| ..+| -+|.||+++++.|+|.|-.||+|--.. +. . ..+-+|+-+|++.
T Consensus 147 k~q~KiY----IPV~eyPe~NFVGLliGPRG~Tlk~le~~s~akIaIRG~gsvKegk~ssd~p~~~~N~e~~lhcLI~ad 222 (269)
T COG5176 147 KYQNKIY----IPVQEYPESNFVGLLIGPRGSTLKQLERISRAKIAIRGSGSVKEGKISSDTPESLKNAEAVLHCLIEAD 222 (269)
T ss_pred cccceEE----eehhhCcccceeEEEecCCcchHHHHHHHhCCeEEEecccccccCcccccCchhhhhhHHhHHHHhhcc
Confidence 3445554 4445555433 2333 689999999999999999999997653 21 1 2478999999999
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHc
Q 007659 165 AHLKETAERILAVDHAAAMVEEMLKQ 190 (594)
Q Consensus 165 Te~ket~eR~kaVDrAIalIeEIIKe 190 (594)
++-| ..+++..+..+|.+
T Consensus 223 sedk--------i~~~ik~~~n~I~~ 240 (269)
T COG5176 223 SEDK--------ICRLIKSQLNAIRE 240 (269)
T ss_pred hhhh--------HHHHHHHHHHHHHH
Confidence 8733 34444444444444
No 53
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=68.11 E-value=5.9 Score=47.08 Aligned_cols=11 Identities=18% Similarity=0.141 Sum_probs=6.4
Q ss_pred CCCCcCCChHH
Q 007659 425 EGIYPQATPLQ 435 (594)
Q Consensus 425 ~~iypqatplq 435 (594)
+|+-|+++--+
T Consensus 440 ~~~DPdf~yr~ 450 (1102)
T KOG1924|consen 440 TGMDPDFKYRF 450 (1102)
T ss_pred CCCCCCcchhh
Confidence 45666666544
No 54
>smart00322 KH K homology RNA-binding domain.
Probab=67.42 E-value=38 Score=25.34 Aligned_cols=63 Identities=21% Similarity=0.240 Sum_probs=40.9
Q ss_pred eeEEeCCCCccccccc-cchhHHHHHHhhhCCeEeecccccCCCCCCCCCCCeEEeeecccchhhHHHHHHHHHHHHHHH
Q 007659 106 REIVINDSESSVRYKL-TKRHTQEEIQKCTGAVVITRGKYRLPNAPPDGEKPLYLHISAGAHLKETAERILAVDHAAAMV 184 (594)
Q Consensus 106 aEIEINDlPq~vRy~L-TKg~Tq~eIqe~TGAsVtTRGrYyPPgk~~~gEpPLYL~IeG~Te~ket~eR~kaVDrAIalI 184 (594)
.+|.|..-. ..+.+ .+|.++++|++.||+.|...+.-. .---+.|.|.. ..++.|...|
T Consensus 5 ~~i~i~~~~--~~~liG~~G~~i~~i~~~~~~~i~~~~~~~---------~~~~v~i~g~~---------~~v~~a~~~i 64 (69)
T smart00322 5 IEVLIPADK--VGLIIGKGGSTIKKIEEETGVKIDIPEDGS---------EERVVEITGPP---------ENVEKAAELI 64 (69)
T ss_pred EEEEEcchh--cceeECCCchHHHHHHHHHCCEEEECCCCC---------CccEEEEEcCH---------HHHHHHHHHH
Confidence 355565432 34444 669999999999999987643211 22335777864 3577777777
Q ss_pred HHHH
Q 007659 185 EEML 188 (594)
Q Consensus 185 eEII 188 (594)
.+.+
T Consensus 65 ~~~~ 68 (69)
T smart00322 65 LEIL 68 (69)
T ss_pred HHHh
Confidence 7764
No 55
>COG1094 Predicted RNA-binding protein (contains KH domains) [General function prediction only]
Probab=59.05 E-value=19 Score=36.44 Aligned_cols=70 Identities=23% Similarity=0.255 Sum_probs=50.7
Q ss_pred CCceeEEeeEEeCCCCc---------cccccccchhHHHHHHhhhCCeEeecccccCCCCCCCCCCCeEEeeecccchhh
Q 007659 99 QDELIIAREIVINDSES---------SVRYKLTKRHTQEEIQKCTGAVVITRGKYRLPNAPPDGEKPLYLHISAGAHLKE 169 (594)
Q Consensus 99 ~de~~f~aEIEINDlPq---------~vRy~LTKg~Tq~eIqe~TGAsVtTRGrYyPPgk~~~gEpPLYL~IeG~Te~ke 169 (594)
.|++ +-.-|+|-|+-. ..|.+=++|-|..-|++.|||.|++-|.++ +|=|.-+
T Consensus 88 ~d~~-~levIdi~~~~~~~~~~l~R~kgRIIG~~GkTr~~IE~lt~~~I~V~g~tV--------------aiiG~~~--- 149 (194)
T COG1094 88 EDDY-YLEVIDLKDVVTLSGDHLRRIKGRIIGREGKTRRAIEELTGVYISVYGKTV--------------AIIGGFE--- 149 (194)
T ss_pred cCCc-EEEEEEHHHhccCchhhhhHhhceeeCCCchHHHHHHHHhCCeEEEeCcEE--------------EEecChh---
Confidence 3544 577788877643 346677889999999999999999999965 4445432
Q ss_pred HHHHHHHHHHHHHHHHHHHHcCC
Q 007659 170 TAERILAVDHAAAMVEEMLKQGH 192 (594)
Q Consensus 170 t~eR~kaVDrAIalIeEIIKe~P 192 (594)
.|+.|..-|+.+|...+
T Consensus 150 ------~v~iAr~AVemli~G~~ 166 (194)
T COG1094 150 ------QVEIAREAVEMLINGAP 166 (194)
T ss_pred ------hhHHHHHHHHHHHcCCC
Confidence 46777777777765543
No 56
>PF13014 KH_3: KH domain
Probab=51.19 E-value=14 Score=27.55 Aligned_cols=24 Identities=29% Similarity=0.260 Sum_probs=19.3
Q ss_pred ccccc-cchhHHHHHHhhhCCeEee
Q 007659 117 VRYKL-TKRHTQEEIQKCTGAVVIT 140 (594)
Q Consensus 117 vRy~L-TKg~Tq~eIqe~TGAsVtT 140 (594)
+++++ .+|.++++|+++|||.|.+
T Consensus 2 vg~iIG~~G~~I~~I~~~tg~~I~i 26 (43)
T PF13014_consen 2 VGRIIGKGGSTIKEIREETGAKIQI 26 (43)
T ss_pred cCeEECCCChHHHHHHHHhCcEEEE
Confidence 34555 4599999999999999964
No 57
>COG1097 RRP4 RNA-binding protein Rrp4 and related proteins (contain S1 domain and KH domain) [Translation, ribosomal structure and biogenesis]
Probab=46.61 E-value=54 Score=34.23 Aligned_cols=28 Identities=18% Similarity=0.436 Sum_probs=25.2
Q ss_pred ceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEEe
Q 007659 224 NIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLLR 274 (594)
Q Consensus 224 N~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~LR 274 (594)
..+.|+||.+ |+.+|-+..+|+|+|.+=
T Consensus 155 ~kVpRvig~~-----------------------~sm~~~l~~~~~~~I~VG 182 (239)
T COG1097 155 SKVPRVIGKK-----------------------GSMLNMLKEKTGCEIIVG 182 (239)
T ss_pred hhcceEecCC-----------------------CcHHHHhhhhcCeEEEEe
Confidence 4667799999 999999999999999984
No 58
>KOG1925 consensus Rac1 GTPase effector FHOS [Signal transduction mechanisms; Cytoskeleton]
Probab=43.40 E-value=17 Score=41.70 Aligned_cols=19 Identities=53% Similarity=1.263 Sum_probs=13.7
Q ss_pred CCCCCCCCCCC-CCCCCCCC
Q 007659 533 NGMPHPPPRNM-PPPPPPKF 551 (594)
Q Consensus 533 ~~mpppp~~~m-ppp~ppkf 551 (594)
.|.|||||+.. ||||||--
T Consensus 247 ~GvPPPPP~G~~PPPPP~~~ 266 (817)
T KOG1925|consen 247 SGVPPPPPKGPFPPPPPLAA 266 (817)
T ss_pred cCCCCCCCCCCCCCCCCCcc
Confidence 58889999987 66655543
No 59
>KOG2192 consensus PolyC-binding hnRNP-K protein HRB57A/hnRNP, contains KH domain [RNA processing and modification; General function prediction only]
Probab=42.19 E-value=61 Score=34.89 Aligned_cols=63 Identities=13% Similarity=0.260 Sum_probs=45.1
Q ss_pred chhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHHHHHHHHHHHHHHHHHHHHHhccccccccccccc
Q 007659 257 DQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPKSLEEAKRLAENLLDTISAECGASRVSSCKVYNA 336 (594)
Q Consensus 257 Gs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe~l~~Ak~L~EnLL~tV~eEy~~~r~s~~k~y~~ 336 (594)
|.+||.+..|.+|.|++- +++-|-|+|-.+-|.+-+- ++..++|-++.+-|. ..+.|.+-+.
T Consensus 67 g~nik~lr~d~na~v~vp-------------ds~~peri~tisad~~ti~---~ilk~iip~lee~f~--~~~pce~rll 128 (390)
T KOG2192|consen 67 GKNIKALRTDYNASVSVP-------------DSSGPERILTISADIETIG---EILKKIIPTLEEGFQ--LPSPCELRLL 128 (390)
T ss_pred cccHHHHhhhccceeecc-------------CCCCCceeEEEeccHHHHH---HHHHHHhhhhhhCCC--CCCchhhhhh
Confidence 999999999999999876 7788889887766665443 234455555555553 3467888776
Q ss_pred C
Q 007659 337 V 337 (594)
Q Consensus 337 ~ 337 (594)
+
T Consensus 129 i 129 (390)
T KOG2192|consen 129 I 129 (390)
T ss_pred h
Confidence 5
No 60
>PHA01732 proline-rich protein
Probab=39.62 E-value=28 Score=31.58 Aligned_cols=13 Identities=38% Similarity=0.633 Sum_probs=5.5
Q ss_pred CCCCCCCCCCCCC
Q 007659 534 GMPHPPPRNMPPP 546 (594)
Q Consensus 534 ~mpppp~~~mppp 546 (594)
.+|+|+|..||+|
T Consensus 16 PpP~P~PpPpPpp 28 (94)
T PHA01732 16 LPPAPVPPPPPAP 28 (94)
T ss_pred CCCCCCCCCCCCC
Confidence 3344444444444
No 61
>PF13184 KH_5: NusA-like KH domain; PDB: 1HH2_P 1L2F_A 2ATW_A 1K0R_B 2ASB_A.
Probab=35.99 E-value=21 Score=30.12 Aligned_cols=33 Identities=18% Similarity=0.264 Sum_probs=25.5
Q ss_pred CCCCCceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhc-CcEEEEe
Q 007659 219 ADASLNIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNET-GATVLLR 274 (594)
Q Consensus 219 ~~P~fN~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ET-GaKV~LR 274 (594)
.++.++.+|..||.+ |..+|.|.+|. |-||.+=
T Consensus 12 ~~~~~d~vG~~iG~~-----------------------G~rik~i~~~L~gekIdvV 45 (69)
T PF13184_consen 12 GDPNIDPVGACIGKK-----------------------GSRIKAISEELNGEKIDVV 45 (69)
T ss_dssp SSTTS-HHHHHH-CC-----------------------CCCHHHHHHHTTT-EEEEE
T ss_pred CCCCcCcceecCccc-----------------------cHHHHHHHHHhCCCeEEEE
Confidence 458999999999999 99999999999 6555543
No 62
>PF01371 Trp_repressor: Trp repressor protein; InterPro: IPR000831 The Trp repressor (TrpR) binds to at least five operators in the Escherichia coli genome, repressing gene expression. The operators at which it binds vary considerably in DNA sequence and location within the promoter; when bound to the Trp operon it recognises the sequence 5'-ACTAGT-3' and acts to prevent the initiation of transcription. The TrpR controls the trpEDCBA (trpO) operon and the genes for trpR, aroH, mtr and aroL, which are involved in the biosynthesis and uptake of the amino acid tryptophan []. The repressor binds to the operators only in the presence of L-tryptophan, thereby controlling the intracellular level of its effector; the complex also regulates Trp repressor biosynthesis by binding to its own regulatory region. TrpR acts as a dimer that is composed of identical 6-helical subunits, where four of the helices form the core of the protein and intertwine with the corresponding helices from the other subunit.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3FRW_H 3KOR_A 3SSW_N 1P6Z_N 1CO0_B 1JHG_A 1WRT_S 1WRS_R 1WRP_R 1RCS_B ....
Probab=35.54 E-value=3.1 Score=36.81 Aligned_cols=33 Identities=21% Similarity=0.322 Sum_probs=24.5
Q ss_pred EeCCCCcccccccc-----chhHHHHHHhhhCCeEee--ccc
Q 007659 109 VINDSESSVRYKLT-----KRHTQEEIQKCTGAVVIT--RGK 143 (594)
Q Consensus 109 EINDlPq~vRy~LT-----Kg~Tq~eIqe~TGAsVtT--RGr 143 (594)
||+++- .||.|- +|.+|.+|.+.||+++.| ||.
T Consensus 31 E~~~l~--~R~~va~~lL~~g~syreIa~~tgvS~aTItRvs 70 (87)
T PF01371_consen 31 ELEALA--QRWQVAKELLDEGKSYREIAEETGVSIATITRVS 70 (87)
T ss_dssp HHHHHH--HHHHHHHHHHHTTSSHHHHHHHHTSTHHHHHHHH
T ss_pred HHHHHH--HHHHHHHHHHHCCCCHHHHHHHhCCCHHHHHHHH
Confidence 445554 577654 589999999999999854 664
No 63
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=35.23 E-value=44 Score=39.91 Aligned_cols=14 Identities=36% Similarity=0.382 Sum_probs=7.8
Q ss_pred cCCcccccCCCCCC
Q 007659 563 KNNSLNKTKSDNIP 576 (594)
Q Consensus 563 k~~~~~k~~~~~vp 576 (594)
|.+...|+++...|
T Consensus 362 k~~~~tk~~~p~ln 375 (830)
T KOG1923|consen 362 KKPTPTKTKSPSLN 375 (830)
T ss_pred cCCCcccccCCCcc
Confidence 44455566666555
No 64
>cd02134 NusA_KH NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of ribosomal rrn operons. During transcription of many other genes, NusA-induced RNAP pausing provides a mechanism for synchronizing transcription and translation . The N-terminal RNAP-binding domain (NTD) is connected through a flexible hinge helix to three globular domains, S1, KH1 and KH2. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices.
Probab=34.72 E-value=40 Score=27.36 Aligned_cols=27 Identities=11% Similarity=0.084 Sum_probs=23.4
Q ss_pred ceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEE
Q 007659 224 NIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLL 273 (594)
Q Consensus 224 N~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~L 273 (594)
.-++++||.+ |.+++.+...+|-+|-+
T Consensus 34 ~~~~~aIGk~-----------------------G~nI~~~~~l~~~~I~v 60 (61)
T cd02134 34 DQLGLAIGKG-----------------------GQNVRLASKLLGEKIDI 60 (61)
T ss_pred ccceeeECCC-----------------------CHHHHHHHHHHCCCeEE
Confidence 4578999999 99999999999977755
No 65
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=33.88 E-value=3.3e+02 Score=33.04 Aligned_cols=26 Identities=27% Similarity=0.414 Sum_probs=16.9
Q ss_pred ccccccccccCCCCCCCccCCCCCCC
Q 007659 479 PQKRKFQELPVGSKGPAKHNQGSEIP 504 (594)
Q Consensus 479 ~q~rkfqelp~~~~~~~~~~q~~~~~ 504 (594)
.|+|||...=-+.-.+-+.+|.-.+.
T Consensus 171 ~~~~~lk~~~gg~a~p~~~~qpPplP 196 (944)
T KOG4307|consen 171 ENSVKLKDPFGGDAGPYKFQQPPPLP 196 (944)
T ss_pred CCceeecccCCCCCCCCccCCCCCCC
Confidence 67788876555555666777755533
No 66
>PRK01381 Trp operon repressor; Provisional
Probab=33.03 E-value=17 Score=33.22 Aligned_cols=27 Identities=30% Similarity=0.486 Sum_probs=21.6
Q ss_pred ccccccc-----hhHHHHHHhhhCCeEee--ccc
Q 007659 117 VRYKLTK-----RHTQEEIQKCTGAVVIT--RGK 143 (594)
Q Consensus 117 vRy~LTK-----g~Tq~eIqe~TGAsVtT--RGr 143 (594)
.||.|-+ +.+|.||.+++|++|+| ||.
T Consensus 43 ~R~~I~~~L~~g~~sQREIa~~lGvSiaTITRgs 76 (99)
T PRK01381 43 TRVRIVEELLRGELSQREIKQELGVGIATITRGS 76 (99)
T ss_pred HHHHHHHHHHcCCcCHHHHHHHhCCceeeehhhH
Confidence 5887754 47999999999999854 775
No 67
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=28.76 E-value=1.1e+02 Score=33.71 Aligned_cols=109 Identities=16% Similarity=0.232 Sum_probs=65.9
Q ss_pred cccccchhHHHHHHhhhCCeEeecccccCCCCCCCCCCCeEEeeecccchhhHHHHHHHHHHHHHHHHHHHHcCCCCCCC
Q 007659 118 RYKLTKRHTQEEIQKCTGAVVITRGKYRLPNAPPDGEKPLYLHISAGAHLKETAERILAVDHAAAMVEEMLKQGHAGFPT 197 (594)
Q Consensus 118 Ry~LTKg~Tq~eIqe~TGAsVtTRGrYyPPgk~~~gEpPLYL~IeG~Te~ket~eR~kaVDrAIalIeEIIKe~P~~~pt 197 (594)
-..+-+|.+++.|+.+|.+-|.|-- .++.|.|. ++|.- ..|++|+..|.-.-.. ...+.
T Consensus 39 ~ivg~qg~kikalr~KTqtyi~tPs---------r~eePiF~-vTg~~---------edv~~aRrei~saaeH--~~l~~ 97 (394)
T KOG2113|consen 39 EIVGRQGCKIKALRAKTQTYIKTPS---------RGEEPIFP-VTGRH---------EDVRRARREIPSAAEH--FGLIR 97 (394)
T ss_pred eecccCccccchhhhhhcceeccCC---------CCCCCcce-eccCc---------hhHHHHhhcCccccce--eeeee
Confidence 3345678899999999998875421 23447654 35543 4788888888763111 01111
Q ss_pred ccccc---CCCCC-cceeEEEecCCCCCCCceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHhhcCcEEEE
Q 007659 198 LQTVM---GNGVQ-AMSTSVFLGFDADASLNIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMNETGATVLL 273 (594)
Q Consensus 198 ~~~~~---~~G~~-~~s~kV~Igid~~P~fN~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ETGaKV~L 273 (594)
....- -+|.. --+.+.|+-+ | +.+++.++||. |..++.||+-+..-|.-
T Consensus 98 ~s~s~Sgg~~~~s~s~qt~sy~sv---P-~rvvglvv~~~-----------------------~~ti~~iqq~tnt~I~T 150 (394)
T KOG2113|consen 98 ASRSFSGGTNGASASGQTTSYVSV---P-LRVVGLVVGPK-----------------------GATIKRIQQFTNTYIAT 150 (394)
T ss_pred ecccccCCCccccccCCCceeeec---c-ceeeeeccccc-----------------------cCccchheecccceEee
Confidence 11110 01111 1234555553 3 78999999999 99999999999865544
Q ss_pred e
Q 007659 274 R 274 (594)
Q Consensus 274 R 274 (594)
-
T Consensus 151 ~ 151 (394)
T KOG2113|consen 151 P 151 (394)
T ss_pred e
Confidence 3
No 68
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=27.87 E-value=1.3e+02 Score=33.05 Aligned_cols=48 Identities=19% Similarity=0.333 Sum_probs=38.7
Q ss_pred chhHHHHHhhcCcEEEEeecCCCCCCCCCCCCCCCCcEEEEEeCCHHHHHHHHHHHH--HHHHHHHHH
Q 007659 257 DQYINHIMNETGATVLLRGRGSGNSEGLQGEEVHQPLHLFLSSNNPKSLEEAKRLAE--NLLDTISAE 322 (594)
Q Consensus 257 Gs~lk~Iq~ETGaKV~LRGKGSG~~E~~~gqEs~EPLHl~IS~~~pe~l~~Ak~L~E--nLL~tV~eE 322 (594)
|.+++.|+...|+.+.-||. ++.|.+..+ .++.|+.+.. .|+..+++.
T Consensus 34 ~~~l~l~e~~~gv~i~~rG~-----------------~~~i~g~~~-~v~~A~~~l~~l~~~~~~~~g 83 (348)
T COG1702 34 DTNLSLLEIALGVSIVARGE-----------------AVRIIGARP-LVDVATRVLLTLELLAEVRRG 83 (348)
T ss_pred CccHHHHHHHhCcEEEeCCc-----------------eEEEEechH-HHHHHHHHHhHHHHHHHHhcc
Confidence 99999999999999999974 566777766 7788887777 777766555
No 69
>PF07885 Ion_trans_2: Ion channel; InterPro: IPR013099 This entry includes the two membrane helix type ion channels found in bacteria []. ; PDB: 1KKD_A 2A0L_A 1ORQ_C 3UKM_C 1LNQ_E 3OUS_A 3LDC_A 3LDD_A 3RBZ_A 3LDE_A ....
Probab=25.43 E-value=56 Score=26.83 Aligned_cols=16 Identities=44% Similarity=0.752 Sum_probs=10.5
Q ss_pred ccCCCCCcCCChHHHHH
Q 007659 422 SGYEGIYPQATPLQQVA 438 (594)
Q Consensus 422 ~gy~~iypqatplqqva 438 (594)
.|||+++|+ |+.-++.
T Consensus 39 vGyGDi~p~-t~~gr~~ 54 (79)
T PF07885_consen 39 VGYGDIVPQ-TPAGRIF 54 (79)
T ss_dssp ---SSSSTS-SHHHHHH
T ss_pred ccCCCccCC-ccchHHH
Confidence 599999999 8885543
No 70
>KOG2675 consensus Adenylate cyclase-associated protein (CAP/Srv2p) [Cytoskeleton; Signal transduction mechanisms]
Probab=23.38 E-value=99 Score=35.07 Aligned_cols=14 Identities=14% Similarity=0.230 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHc
Q 007659 177 VDHAAAMVEEMLKQ 190 (594)
Q Consensus 177 VDrAIalIeEIIKe 190 (594)
+++|..+++.++..
T Consensus 11 LE~a~~RLE~Isi~ 24 (480)
T KOG2675|consen 11 LESATSRLEGISIT 24 (480)
T ss_pred HHHHHHHhhhhhcC
Confidence 57777888887644
No 71
>KOG2208 consensus Vigilin [Lipid transport and metabolism]
Probab=22.39 E-value=2.2e+02 Score=33.99 Aligned_cols=108 Identities=17% Similarity=0.178 Sum_probs=0.0
Q ss_pred eEEeCCCCccccccccchhH-HHHHHhhhCCeEeecccccCCCCCCCCCCCeEEeeecccchhhHHHHHHHHHHHHHHHH
Q 007659 107 EIVINDSESSVRYKLTKRHT-QEEIQKCTGAVVITRGKYRLPNAPPDGEKPLYLHISAGAHLKETAERILAVDHAAAMVE 185 (594)
Q Consensus 107 EIEINDlPq~vRy~LTKg~T-q~eIqe~TGAsVtTRGrYyPPgk~~~gEpPLYL~IeG~Te~ket~eR~kaVDrAIalIe 185 (594)
.|..+=+++..++.+-|+.. +..|.+++++.+ -=.+....+++.+++-...+ ++.|++.|+
T Consensus 348 ~i~~~i~~~~~~~v~GK~~~ni~ki~e~~~~~i-------~~~~~~~~~~~v~~~~~~~~-----------~~ka~~~v~ 409 (753)
T KOG2208|consen 348 NIKREIFPEELKFVIGKKGANIEKIREESQVKI-------DLPKQGSNNKKVVITGVSAN-----------DEKAVEDVE 409 (753)
T ss_pred eeEEeecHHhhhhhcCCCCccHHHHHHhhhhce-------ecccccCCCCCeEEeccccc-----------hhHHHHHHH
Q ss_pred HHHHcCCCCCCCcccccCCCCCcceeEEEecCCCCCCCceeeeEeCCCCCCCCccccchhhhhhcccccccchhHHHHHh
Q 007659 186 EMLKQGHAGFPTLQTVMGNGVQAMSTSVFLGFDADASLNIAARIRGPNLSLTSPYNWERLFFCWCFRLYMQDQYINHIMN 265 (594)
Q Consensus 186 EIIKe~P~~~pt~~~~~~~G~~~~s~kV~Igid~~P~fN~~~rIIGP~~~~~~~~~~~ki~~~~~~~~~~qGs~lk~Iq~ 265 (594)
.+..+.++. -....++|+- ....+|+|.+ |..+++|+.
T Consensus 410 ~~~~ei~n~-------------~~~~~~~iP~------k~~~~iig~~-----------------------g~~i~~I~~ 447 (753)
T KOG2208|consen 410 KIIAEILNS-------------IVKEEVQIPT------KSHKRIIGTK-----------------------GALINYIMG 447 (753)
T ss_pred HHHHhhhcc-------------cccceeecCc------cchhhhhccc-----------------------cccHHHHHh
Q ss_pred hcCcEEEEee
Q 007659 266 ETGATVLLRG 275 (594)
Q Consensus 266 ETGaKV~LRG 275 (594)
++|+ |.++.
T Consensus 448 k~~~-v~i~f 456 (753)
T KOG2208|consen 448 KHGG-VHIKF 456 (753)
T ss_pred hcCc-EEEec
No 72
>PRK02114 formylmethanofuran--tetrahydromethanopterin formyltransferase; Provisional
Probab=22.03 E-value=2.9e+02 Score=29.96 Aligned_cols=149 Identities=20% Similarity=0.381 Sum_probs=82.5
Q ss_pred hHHHHHHhhhCCeEeecc--------cccCCCCCCCCCCCeEEeeecccchhhHHHHHHHHHHHHHHHHHHHHcCCCCCC
Q 007659 125 HTQEEIQKCTGAVVITRG--------KYRLPNAPPDGEKPLYLHISAGAHLKETAERILAVDHAAAMVEEMLKQGHAGFP 196 (594)
Q Consensus 125 ~Tq~eIqe~TGAsVtTRG--------rYyPPgk~~~gEpPLYL~IeG~Te~ket~eR~kaVDrAIalIeEIIKe~P~~~p 196 (594)
-...--.+.||-.-++=| +|.+|++-+++.|-..++|-+.+. + .++ +++.+| +-|+---.|
T Consensus 32 wa~~AA~~~TGfatSVIgC~~EAGIEr~l~p~eTPDGRPGv~il~f~~~~-~-------~L~--kql~~R-igQcVLT~P 100 (297)
T PRK02114 32 WAKIAATEATGFATSVIGCPAEAGIERFLSPEETPDGRPGVIILIFAMSK-K-------ELE--KQLLER-IGQCVLTAP 100 (297)
T ss_pred HHHHHHHHhhcCccceeccCccceeccccCcccCCCCCCcEEEEEEeCCH-H-------HHH--HHHHHH-ccCcccCCc
Confidence 334455678887766666 788988888999999999998874 2 122 223333 344321122
Q ss_pred CcccccCCCCCcceeEEEecC-CCCCCCceeeeEeCCCCCCCCccccchhhh-hhcccc-cccchhHHHHHhhcCcEEEE
Q 007659 197 TLQTVMGNGVQAMSTSVFLGF-DADASLNIAARIRGPNLSLTSPYNWERLFF-CWCFRL-YMQDQYINHIMNETGATVLL 273 (594)
Q Consensus 197 t~~~~~~~G~~~~s~kV~Igi-d~~P~fN~~~rIIGP~~~~~~~~~~~ki~~-~~~~~~-~~qGs~lk~Iq~ETGaKV~L 273 (594)
.+.+|=++ +....+++-.+|+ +.+.||-|.|.+- ..+++. .|.|.|| +|+.+|++
T Consensus 101 -------------TtA~f~gl~~~~~~i~~g~~lr----~FGDG~q~sk~~~grr~wriPVMdGEFl--~Ee~~G~~--- 158 (297)
T PRK02114 101 -------------TTAVFNGLEDAEEKIKLGKKLR----FFGDGYEISKEIGGRRYWRIPIMDGEFL--IEETVGYV--- 158 (297)
T ss_pred -------------cHHHhcCCCCcCceeccccccc----CccCCceEEEEECCEEEEEeeeccccEE--EEEecccc---
Confidence 22233333 2222332222221 2344555554322 223343 3468886 77778753
Q ss_pred eecCCCCCCCCCCCCCCCCcEEEEEeCCHHHHHHHHHHHHHHHHHHH
Q 007659 274 RGRGSGNSEGLQGEEVHQPLHLFLSSNNPKSLEEAKRLAENLLDTIS 320 (594)
Q Consensus 274 RGKGSG~~E~~~gqEs~EPLHl~IS~~~pe~l~~Ak~L~EnLL~tV~ 320 (594)
+|-|=| -|+|-+.+...--.|.+.+-+-|..|.
T Consensus 159 kgV~GG--------------Nflil~~~~~~aL~AaeaAV~Ai~~v~ 191 (297)
T PRK02114 159 KGVAGG--------------NFLILAESQAAALEAAEAAVDAIKEVP 191 (297)
T ss_pred ceeecc--------------eEEEEECCHHHHHHHHHHHHHHHhcCC
Confidence 354444 378888888887777666666555543
No 73
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=21.53 E-value=89 Score=35.97 Aligned_cols=15 Identities=13% Similarity=0.129 Sum_probs=10.9
Q ss_pred CceeEEeeEEeCCCC
Q 007659 100 DELIIAREIVINDSE 114 (594)
Q Consensus 100 de~~f~aEIEINDlP 114 (594)
...||.+-++|++=+
T Consensus 74 ~rsyFlrl~di~~~r 88 (569)
T KOG3671|consen 74 QRSYFLRLVDIVNNR 88 (569)
T ss_pred cceeeeEEeeecCce
Confidence 357788888888754
Done!