Query 014705
Match_columns 420
No_of_seqs 228 out of 606
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 07:43:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014705.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014705hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2297 Predicted translation 100.0 8E-129 2E-133 934.2 34.0 408 1-412 2-412 (412)
2 KOG1461 Translation initiation 99.9 7.2E-25 1.6E-29 229.1 17.2 167 249-415 505-673 (673)
3 PF02020 W2: eIF4-gamma/eIF5/e 99.9 7.1E-23 1.5E-27 167.1 7.9 80 336-415 2-84 (84)
4 smart00515 eIF5C Domain at the 99.9 1.1E-21 2.4E-26 159.5 8.7 83 325-407 1-83 (83)
5 KOG2767 Translation initiation 99.7 7.5E-16 1.6E-20 151.8 15.2 101 316-416 292-398 (400)
6 PF09090 MIF4G_like_2: MIF4G l 97.2 0.0048 1E-07 60.3 13.0 121 254-384 11-136 (253)
7 KOG1104 Nuclear cap-binding co 94.8 0.58 1.3E-05 51.8 14.1 174 182-385 448-623 (759)
8 KOG2140 Uncharacterized conser 94.1 0.3 6.5E-06 52.2 9.7 134 104-242 504-640 (739)
9 KOG0401 Translation initiation 85.5 0.98 2.1E-05 52.4 4.7 75 144-223 871-945 (970)
10 smart00544 MA3 Domain in DAP-5 80.6 4.8 0.0001 33.8 6.0 59 102-163 52-113 (113)
11 PF02847 MA3: MA3 domain; Int 78.9 6.2 0.00013 33.0 6.1 59 102-163 52-113 (113)
12 PF02847 MA3: MA3 domain; Int 68.8 66 0.0014 26.6 11.8 103 253-372 2-112 (113)
13 KOG1991 Nuclear transport rece 54.8 2.9E+02 0.0063 32.4 14.3 94 322-415 502-609 (1010)
14 KOG2141 Protein involved in hi 48.7 90 0.0019 35.2 8.9 97 106-207 672-768 (822)
15 PF02583 Trns_repr_metal: Meta 47.8 38 0.00083 27.5 4.7 43 257-303 18-60 (85)
16 PRK11352 regulator protein Frm 42.3 1.1E+02 0.0024 25.4 6.7 29 257-285 22-50 (91)
17 PF13972 TetR: Bacterial trans 39.5 1.1E+02 0.0024 26.7 6.8 64 99-165 20-86 (146)
18 PF11517 Nab2: Nuclear abundan 39.3 1.3E+02 0.0028 25.6 6.6 70 129-205 17-90 (107)
19 PF08362 TetR_C_3: YcdC-like p 36.1 1E+02 0.0022 27.7 6.0 65 97-164 19-87 (143)
20 PF04286 DUF445: Protein of un 34.9 4.6E+02 0.01 26.0 15.1 32 136-170 32-63 (367)
21 PRK15039 transcriptional repre 34.5 1.5E+02 0.0032 24.6 6.2 29 257-285 22-50 (90)
22 PF07528 DZF: DZF domain; Int 34.3 40 0.00086 33.1 3.3 49 67-116 182-233 (248)
23 cd01051 Mn_catalase Manganese 34.2 2.2E+02 0.0047 25.8 7.9 102 29-137 20-139 (156)
24 PF14821 Thr_synth_N: Threonin 33.0 43 0.00092 26.8 2.8 46 26-71 10-62 (79)
25 PF10193 Telomere_reg-2: Telom 32.6 1.4E+02 0.0031 25.6 6.1 66 99-171 18-90 (114)
26 PF08337 Plexin_cytopl: Plexin 30.9 2.5E+02 0.0055 30.8 8.9 52 99-155 35-86 (539)
27 KOG2213 Apoptosis inhibitor 5/ 30.8 6.8E+02 0.015 26.6 12.8 118 175-304 87-226 (460)
28 PF15039 DUF4530: Domain of un 30.6 25 0.00054 29.6 1.0 21 399-419 85-105 (111)
29 PHA02690 hypothetical protein; 29.1 53 0.0011 26.7 2.6 31 42-72 21-51 (90)
30 PF12825 DUF3818: Domain of un 27.9 6E+02 0.013 26.2 10.7 111 146-264 156-282 (341)
31 PF08542 Rep_fac_C: Replicatio 26.5 2.8E+02 0.0061 21.8 6.6 46 253-298 20-65 (89)
32 COG1937 Uncharacterized protei 26.3 3.1E+02 0.0067 22.8 6.7 32 257-288 22-53 (89)
33 PF09733 VEFS-Box: VEFS-Box of 26.1 2.7E+02 0.0058 25.0 6.9 61 316-378 67-134 (140)
34 COG5656 SXM1 Importin, protein 24.8 1.1E+03 0.024 27.2 18.1 91 321-411 498-600 (970)
35 PF14026 DUF4242: Protein of u 24.4 43 0.00094 26.8 1.4 27 81-108 39-65 (77)
36 PRK10167 hypothetical protein; 23.7 1.9E+02 0.004 26.8 5.6 74 101-179 70-144 (169)
37 TIGR03652 FeS_repair_RIC iron- 22.7 3.9E+02 0.0085 25.3 7.8 62 229-303 12-75 (216)
38 cd00620 Methyltransferase_Sun 22.4 3.5E+02 0.0076 23.0 6.8 85 103-195 37-125 (126)
39 TIGR02100 glgX_debranch glycog 21.4 2.1E+02 0.0045 32.3 6.4 95 29-123 401-575 (688)
40 PF11838 ERAP1_C: ERAP1-like C 20.5 7.9E+02 0.017 23.8 18.4 44 128-174 21-66 (324)
41 PF03997 VPS28: VPS28 protein; 20.1 7.4E+02 0.016 23.3 10.9 82 104-196 26-108 (188)
42 PF13551 HTH_29: Winged helix- 20.0 2.7E+02 0.0058 22.5 5.4 74 221-294 25-107 (112)
No 1
>KOG2297 consensus Predicted translation factor, contains W2 domain [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=8.4e-129 Score=934.19 Aligned_cols=408 Identities=49% Similarity=0.832 Sum_probs=401.9
Q ss_pred CCCCCCCCCCCcccccccccccCCCCchhhHHHHHHHhhcCCCCHHHHHHHh--hcCCccchhhhhhhHHhhhhcCCCCC
Q 014705 1 MSSKEKPTLGGTRIKPRKRNIAAPLDPAAFSDAVVQIYLDNAGDLELIAKCI--ESSDLNFSRYGDTFFEVVFTGGRTQP 78 (420)
Q Consensus 1 ~~~~~kp~l~g~riktrkr~~~~~~dp~~frd~~~~~~~~~~~dle~~~~~l--~g~~ldy~ry~~~lf~i~~~Gg~l~p 78 (420)
|++.+||+|+|+||||||||++++|||++|||++||||++++||||+|||+| .|++||||||||+||||+|+||+++|
T Consensus 2 ~~k~~kp~lsg~riktrKr~~~e~~dp~~f~da~vq~~~~~~gdle~vak~ldssg~~l~~~rYgd~~fdil~~gg~~~p 81 (412)
T KOG2297|consen 2 SQKTEKPVLSGQRIKTRKRDEAEKLDPTAFRDAVVQGLEDNAGDLELVAKSLDSSGNDLDYRRYGDILFDILFAGGRLQP 81 (412)
T ss_pred CccccCCCCCCccchhhhccccccCCCccHHHHHHHHHHhcCccHHHHHHHHHhccccccHHHHHHHHHHHHHHhcccCC
Confidence 6899999999999999999999999999999999999999999999999999 68899999999999999999999999
Q ss_pred CCcCcCCCC-CCCceeeccCcchhhhhhHHHHHHHHHhhhhhhHHHhHHHHHHHHHHhhccChhhhHHHHHHHHHHHhhh
Q 014705 79 GTTKPDEGE-RHSYSIIDCEPQREAILPSVIYIQKILRRRPFLIKNLENVTRRFMQSLELFEENERKKLAIFTALAFSQK 157 (420)
Q Consensus 79 gg~~~~~~~-~~~~~i~~~~~~~~~~~~~~~~~~kl~rr~kyl~k~~e~~~~~~l~~l~~f~~~~r~klA~~~a~~~~~~ 157 (420)
||+.+|||+ +++||||+|++++|+|++|+|||||||||||||+|+|||+|+|+|+||++|++++|+|||++||++++
T Consensus 82 g~~~sddge~~t~~cvfda~e~~E~i~~~~qvf~KliRRykyLeK~fE~e~~k~Llflk~F~e~Er~KLA~~Tal~l~-- 159 (412)
T KOG2297|consen 82 GGVKSDDGERHTSYCVFDAEEKREAIRNSVQVFQKLIRRYKYLEKNFENEMRKFLLFLKLFEENERKKLAMLTALLLS-- 159 (412)
T ss_pred CCccccccCccCceeEeecCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHh--
Confidence 999999997 56799999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCccchhhhhhccccCCCchHHHHHHHHHHHHHhCChhHHHHHHHhCCCchhhhhhCCCCCCChhHHHHHHHhcCC
Q 014705 158 LSGLPPETVFQPLLKDNLVGKGLVLSFITDFFKEYLVDNSLDDLIAILKRGKMEDNLLDFFPSSKRSAEGFSEHFTKEGL 237 (420)
Q Consensus 158 ~~g~~~~~~l~~l~~~~Lv~~G~al~fl~~i~~~~~~~~~~~~l~~~lrksgl~~~l~~f~P~~kr~~e~f~~~f~~~~L 237 (420)
+|++|+++|++|++||||++|++++|++.+|+.|+.|+|++.|+++||+++|++||++|||||+||.++|.+||.++||
T Consensus 160 -nGt~~~tvl~~L~~d~LVkeGi~l~F~~~lFk~~~~Ek~i~~lis~Lrkg~md~rLmeffPpnkrs~E~Fak~Ft~agL 238 (412)
T KOG2297|consen 160 -NGTLPATVLQSLLNDNLVKEGIALSFAVKLFKEWLVEKDINDLISSLRKGKMDDRLMEFFPPNKRSVEHFAKYFTDAGL 238 (412)
T ss_pred -CCCCCHHHHHHHHHhhHHHHhHHHHHHHHHHHHHHhhccHHHHHHHHHhcChHhHHHHhcCCcchhHHHHHHHHhHhhH
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CccccchhhhhHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHhHhhhcCCChHHHHHHHHHHHHHHhhhcccchhhhHHHH
Q 014705 238 IPLVEYNEKKIFEVKLKDMKSTLTTQIAEETEMSEVIESVKQRVKDAKLPDIEVVRILWDILMDAVQWSGKNQQQNANAA 317 (420)
Q Consensus 238 ~~l~~~~~~~~~~~~~~El~~~L~~~l~e~~~~~~ii~eIk~~~~~~n~s~~evi~~v~~alm~~v~~s~k~~~~~~~~~ 317 (420)
.++++|++.|+++..++|+++.|++.+.++.|.++|+..||..+..+|+|+++||++||+++|+.++|+++ ++++++++
T Consensus 239 ~elvey~~~q~~~~a~kElq~~L~~q~s~e~p~~evi~~VKee~k~~nlPe~eVi~ivWs~iMsaveWnKk-eelva~qa 317 (412)
T KOG2297|consen 239 KELVEYHRNQQSEGARKELQKELQEQVSEEDPVKEVILYVKEEMKRNNLPETEVIGIVWSGIMSAVEWNKK-EELVAEQA 317 (412)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhcCCCCceEEeeeHhhhhHHHhhchH-HHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999955 88999999
Q ss_pred HHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHhhchHHHhHHHHHHHHhhhccccchhhHHHhhhcCCCcchHHHHHHhH
Q 014705 318 LRQVKTWAQLLNTFCTNAKLELELMYKVQMQCYEDAKLMKLFPEIVRSLYDQDVLAEDTILYWFRKGTNPKGRQTFVKAL 397 (420)
Q Consensus 318 ~~~lk~~~pLL~~f~~~~~~Ql~lL~ALQ~~c~e~~~~~k~f~~IL~~LYd~DVlsEeaIl~W~~~~~~~~Gk~~~lk~~ 397 (420)
++++++|+|||.+||+++++++.+|+.+|.|||+|.++|+.|+.|+..||..||++||+|++||.+++.++||++|++++
T Consensus 318 lrhlK~yaPLL~af~s~g~sEL~Ll~KvQe~CYen~~fMKaFqkiV~lfYk~dVLsEe~IL~Wyk~gh~~KGk~~Fleqm 397 (412)
T KOG2297|consen 318 LRHLKQYAPLLAAFCSQGQSELELLLKVQEYCYENIHFMKAFQKIVVLFYKADVLSEETILKWYKEGHVAKGKSVFLEQM 397 (412)
T ss_pred HHHHHhhhHHHHHHhcCChHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHhccccccHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHcccccCcc
Q 014705 398 EPFVKWLEEAEEEDY 412 (420)
Q Consensus 398 ~~FV~WLeEAEEEsd 412 (420)
++||+||++|||||+
T Consensus 398 kkFVeWL~~AEEEsE 412 (412)
T KOG2297|consen 398 KKFVEWLQNAEEESE 412 (412)
T ss_pred HHHHHHHHhhhhccC
Confidence 999999999999985
No 2
>KOG1461 consensus Translation initiation factor 2B, epsilon subunit (eIF-2Bepsilon/GCD6) [Translation, ribosomal structure and biogenesis]
Probab=99.92 E-value=7.2e-25 Score=229.06 Aligned_cols=167 Identities=22% Similarity=0.396 Sum_probs=148.4
Q ss_pred HHHHHHHHHHHHHHHHHhcCcHHHHHHHHHhHhhhcCCChHHHHHHHHHHHHHHhhhcccc-hhhhHHHHHHHHHHHHHH
Q 014705 249 FEVKLKDMKSTLTTQIAEETEMSEVIESVKQRVKDAKLPDIEVVRILWDILMDAVQWSGKN-QQQNANAALRQVKTWAQL 327 (420)
Q Consensus 249 ~~~~~~El~~~L~~~l~e~~~~~~ii~eIk~~~~~~n~s~~evi~~v~~alm~~v~~s~k~-~~~~~~~~~~~lk~~~pL 327 (420)
...|.+|+..+|+|++++++.++++++|||++++++|++.++|+++++.|+|+.+.....+ ...+..++.+.+++|+|+
T Consensus 505 ~~~F~~Ev~~s~~ra~Een~~~D~~vlEINslRla~N~s~~ev~~av~~all~~~~~~~~~~~~~~~~~~~~~~~~w~~l 584 (673)
T KOG1461|consen 505 TKDFEKEVLGSLQRAFEENSDMDNLVLEINSLRLAYNVSLKEVAGAVFMALLKLILHQDHSSMNEVKRAALKVFTQWGPL 584 (673)
T ss_pred hHHHHHHHHHHHHHHHHhccchHHHHHHHhhhHHhhcCCHHHHHHHHHHHHHHHHhcCCCccchhHHHHHHHHHHHhhHH
Confidence 3578999999999999999999999999999999999999999999999999998643321 112566888999999999
Q ss_pred HHHHhcChHHHHHHHHHHHHHHhhchHHHhHHHHHHHHhhhccccchhhHHHhhhcCCCcch-HHHHHHhHHHHHHHHcc
Q 014705 328 LNTFCTNAKLELELMYKVQMQCYEDAKLMKLFPEIVRSLYDQDVLAEDTILYWFRKGTNPKG-RQTFVKALEPFVKWLEE 406 (420)
Q Consensus 328 L~~f~~~~~~Ql~lL~ALQ~~c~e~~~~~k~f~~IL~~LYd~DVlsEeaIl~W~~~~~~~~G-k~~~lk~~~~FV~WLeE 406 (420)
+.+|+.+.+.|+++|.+|+.+|.++..+...+..+++.||+.||++|++|++|+...+...+ ..+.+.++++||+||+|
T Consensus 585 ~~~y~ks~deqid~l~~led~~~e~~~~~~~~~~~v~~lY~~dil~EdaI~~W~~~~~~~~~~~~~~~~~~k~fv~WL~e 664 (673)
T KOG1461|consen 585 LGNYIKSEDEQIDLLLALEDKCVESEELGPKAAKLVHYLYDYDILQEDAILSWSSQKAGDDEEDAVYNQQLKKFVDWLKE 664 (673)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHhHhhHHHHHHhhhccccchHHHHHHHHHHHHHHHHHhh
Confidence 99999999999999999999999987777789999999999999999999999998444333 36788999999999999
Q ss_pred cccCccCCC
Q 014705 407 AEEEDYQLH 415 (420)
Q Consensus 407 AEEEsdeee 415 (420)
|+||||+||
T Consensus 665 aseE~~~ee 673 (673)
T KOG1461|consen 665 ASEEEESEE 673 (673)
T ss_pred cccccccCC
Confidence 999999886
No 3
>PF02020 W2: eIF4-gamma/eIF5/eIF2-epsilon; InterPro: IPR003307 This entry represents the W2 domain (two invariant tryptophans) and is a region of ~165 amino acids which is found in the C terminus of the following eIFs [, , , ]: Eukaryotic translation initiation factor 2B epsilon (eIF-2B-epsilon) Eukaryotic translation initiation factor 4 gamma (eIF-4-gamma) Eukaryotic translation initiation factor 5 (eIF-5), a GTPase-activating protein (GAP) specific for eIF2 Translation initiation is a sophisticated, well regulated and highly coordinated cellular process in eukaryotes, in which at least 11 eukayrotic initiation factors (eIFs) are included []. The W2 domain has a globular fold and is exclusively composed out of alpha-helices [, , ]. The structure can be divided into a structural C-terminal core onto which the two N-terminal helices are attached. The core contains two aromatic/acidic residue-rich regions (AA boxes), which are important for mediating protein-protein interactions. For example, the W2 domain of H. sapiens eIF5 binds eIF2-beta, eIF3 and eIF1 [], and therefore plays an important role in multifactor complex assembly. The entry covers the entire W2 domain.; GO: 0005488 binding; PDB: 3D3M_A 3L6A_A 1PAQ_A 2FUL_D 2IU1_A 1UG3_B 3JUI_A.
Probab=99.88 E-value=7.1e-23 Score=167.11 Aligned_cols=80 Identities=39% Similarity=0.791 Sum_probs=65.8
Q ss_pred HHHHHHHHHHHHHHhhchHHHhHHHHHHHHhhhccccchhhHHHhhhcCC---CcchHHHHHHhHHHHHHHHcccccCcc
Q 014705 336 KLELELMYKVQMQCYEDAKLMKLFPEIVRSLYDQDVLAEDTILYWFRKGT---NPKGRQTFVKALEPFVKWLEEAEEEDY 412 (420)
Q Consensus 336 ~~Ql~lL~ALQ~~c~e~~~~~k~f~~IL~~LYd~DVlsEeaIl~W~~~~~---~~~Gk~~~lk~~~~FV~WLeEAEEEsd 412 (420)
+.|+++|.|||.||.+++++++.|+.||+.|||.|||+|++|++||++.. +..|+.+++++++|||+||++||||||
T Consensus 2 ~~Q~~~L~ale~~~~~~~~~~~~~~~il~~LYd~Dil~Eeail~W~~~~~~~~~~~~~~~~r~~~~~fi~WL~eaeeE~~ 81 (84)
T PF02020_consen 2 DDQVDLLNALEEFCAENPNLMPLFPKILQQLYDEDILEEEAILEWYEDSKPAVDGEGRAKVRKQAQPFIEWLEEAEEESD 81 (84)
T ss_dssp HHHHHHHHHHHHHHHHTCGHGGHHHHHHHHHHHTTSS-HHHHHHHHHC-SSSSCHHHHHHHHHHHHHHHHHHHHCC----
T ss_pred HHHHHHHHHHHHHHHhCccHHHHHHHHHHHHhhhhhccHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhccCccCC
Confidence 57999999999999999999999999999999999999999999999922 234678899999999999999999999
Q ss_pred CCC
Q 014705 413 QLH 415 (420)
Q Consensus 413 eee 415 (420)
+||
T Consensus 82 eed 84 (84)
T PF02020_consen 82 EED 84 (84)
T ss_dssp ---
T ss_pred CCC
Confidence 886
No 4
>smart00515 eIF5C Domain at the C-termini of GCD6, eIF-2B epsilon, eIF-4 gamma and eIF-5.
Probab=99.86 E-value=1.1e-21 Score=159.54 Aligned_cols=83 Identities=39% Similarity=0.814 Sum_probs=77.8
Q ss_pred HHHHHHHhcChHHHHHHHHHHHHHHhhchHHHhHHHHHHHHhhhccccchhhHHHhhhcCCCcchHHHHHHhHHHHHHHH
Q 014705 325 AQLLNTFCTNAKLELELMYKVQMQCYEDAKLMKLFPEIVRSLYDQDVLAEDTILYWFRKGTNPKGRQTFVKALEPFVKWL 404 (420)
Q Consensus 325 ~pLL~~f~~~~~~Ql~lL~ALQ~~c~e~~~~~k~f~~IL~~LYd~DVlsEeaIl~W~~~~~~~~Gk~~~lk~~~~FV~WL 404 (420)
+|+|.+|+++.+.|+++|+++|.||+++....+.|+.|++.|||+|||+||+|++||+++++..|+++++++++|||+||
T Consensus 1 ~~ll~~~~~~~~~q~~~L~ale~~~~~~~~~~~~~~~il~~LYd~dileEe~il~W~~~~~~~~~~~~~~~~~~~fv~WL 80 (83)
T smart00515 1 GPLLKFLAKDEEEQIDLLYAIEEFCVELEKLIKLLPKILKSLYDADILEEEAILKWYEKAVSAEGKKKVRKNAKPFVTWL 80 (83)
T ss_pred ChHHHHHHCChHHHHHHHHHHHHHHHHcchHHHHHHHHHHHHhhhccccHHHHHHHHHcCCChHHHHHHHHHHhHHHHHH
Confidence 47899999999999999999999999866688999999999999999999999999999877678899999999999999
Q ss_pred ccc
Q 014705 405 EEA 407 (420)
Q Consensus 405 eEA 407 (420)
+||
T Consensus 81 ~eA 83 (83)
T smart00515 81 QEA 83 (83)
T ss_pred HcC
Confidence 987
No 5
>KOG2767 consensus Translation initiation factor 5 (eIF-5) [Translation, ribosomal structure and biogenesis]
Probab=99.67 E-value=7.5e-16 Score=151.83 Aligned_cols=101 Identities=28% Similarity=0.519 Sum_probs=89.1
Q ss_pred HHHHHHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHhh-chHHHhHHHHHHHHhhhccccchhhHHHhhhcCCCcc-h---
Q 014705 316 AALRQVKTWAQLLNTFCTN-AKLELELMYKVQMQCYE-DAKLMKLFPEIVRSLYDQDVLAEDTILYWFRKGTNPK-G--- 389 (420)
Q Consensus 316 ~~~~~lk~~~pLL~~f~~~-~~~Ql~lL~ALQ~~c~e-~~~~~k~f~~IL~~LYd~DVlsEeaIl~W~~~~~~~~-G--- 389 (420)
.+.+.|.++.++|.+||.+ ...|..+|..|+.+|.. +..+++..+.||+.|||+||++|+.|++|+++++..+ +
T Consensus 292 ~ivkei~k~~~~l~k~~~~~~k~qr~LLggiE~~~~~~~~el~~kva~ilk~lYd~DI~~e~vi~~w~~K~skk~vsk~~ 371 (400)
T KOG2767|consen 292 KIVKEILKHRALLLKFCTNNEKAQRYLLGGIERFVEKHEAELISKVAGILKELYDEDILEEEVIIKWGEKPSKKYVSKEK 371 (400)
T ss_pred HHHHHHHHHHHHHHHHHhccHHHHHHHHhHHHHHHHhhHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHhcccccccchhh
Confidence 5668899999999999987 68999999999999996 5777899999999999999999999999999998743 2
Q ss_pred HHHHHHhHHHHHHHHcccccCccCCCC
Q 014705 390 RQTFVKALEPFVKWLEEAEEEDYQLHK 416 (420)
Q Consensus 390 k~~~lk~~~~FV~WLeEAEEEsdeee~ 416 (420)
.+.+++.++|||+||++||+|++||||
T Consensus 372 sk~i~e~a~Pfi~WL~~AESe~eeEed 398 (400)
T KOG2767|consen 372 SKKIRENAKPFIEWLKNAESEDEEEED 398 (400)
T ss_pred hhhhHhhhhHHHHHHHhcccccccccc
Confidence 367899999999999999777776663
No 6
>PF09090 MIF4G_like_2: MIF4G like; InterPro: IPR015174 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 2", and is found in nuclear cap-binding proteins and eIF4G. The MIF4G domain is a structural motif with an ARM (Armadillo) repeat-type fold, consisting of a 2-layer alpha/alpha right-handed superhelix. Proteins usually contain two or more structurally similar MIF4G domains connected by unstructured linkers. MIF4G domains are found in several proteins involved in RNA metabolism, including eIF4G (eukaryotic initiation factor 4-gamma), eIF-2b (translation initiation factor), UPF2 (regulator of nonsense transcripts 2), and nuclear cap-binding proteins (CBP80, CBC1, NCBP1), although the sequence identity between them may be low []. The nuclear cap-binding complex (CBC) is a heterodimer. Human CBC consists of a large CBP80 subunit and a small CBP20 subunit, the latter being critical for cap binding. CBP80 contains three MIF4G domains connected with long linkers, while CBP20 has an RNP (ribonucleoprotein)-type domain that associates with domains 2 and 3 of CBP80 []. The complex binds to 5'-cap of eukaryotic RNA polymerase II transcripts, such as mRNA and U snRNA. The binding is important for several mRNA nuclear maturation steps and for nonsense-mediated decay. It is also essential for nuclear export of U snRNAs in metazoans []. Eukaryotic translation initiation factor 4 gamma (eIF4G) plays a critical role in protein expression, and is at the centre of a complex regulatory network. Together with the cap-binding protein eIF4E, it recruits the small ribosomal subunit to the 5'-end of mRNA and promotes the assembly of a functional translation initiation complex, which scans along the mRNA to the translation start codon. The activity of eIF4G in translation initiation could be regulated through intra- and inter-protein interactions involving the ARM repeats []. In eIF4G, the MIF4G domain binds eIF4A, eIF3, RNA and DNA.; GO: 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A.
Probab=97.25 E-value=0.0048 Score=60.28 Aligned_cols=121 Identities=12% Similarity=0.186 Sum_probs=86.5
Q ss_pred HHHHHHHHHHHHhcCcHHHHHHHHHhHhhhcCCCh----HHHHHHHHHHHHHHhhhcccchhhhHHHHHHHHHHHHHHHH
Q 014705 254 KDMKSTLTTQIAEETEMSEVIESVKQRVKDAKLPD----IEVVRILWDILMDAVQWSGKNQQQNANAALRQVKTWAQLLN 329 (420)
Q Consensus 254 ~El~~~L~~~l~e~~~~~~ii~eIk~~~~~~n~s~----~evi~~v~~alm~~v~~s~k~~~~~~~~~~~~lk~~~pLL~ 329 (420)
.++.+.|.+.+....+++++..+++......+-.. .-.+.++++|++.... + + ..-....|.+|...|+
T Consensus 11 ~~~a~~l~~~ir~k~~~eei~~~l~~i~~~~~~~~~~~~~~~i~v~~q~ll~~GS---k---S-~SH~~~~lery~~~Lk 83 (253)
T PF09090_consen 11 HALAQKLLDLIRKKAPPEEISELLEEIEEPAEEHGSDFDKFVIDVFVQCLLHIGS---K---S-FSHVLSALERYKEVLK 83 (253)
T ss_dssp HHHHHHHHHHHHTT--HHHHHHHHTTS------------HHHHHHHHHHHHHHTT---T---S-HHHHHHHHHHTHHHHH
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHhccccccccccchhhHHHHHHHHHHHHhcC---c---h-HHHHHHHHHHHHHHHH
Confidence 36778899999999999999999888766655332 2355566666665531 2 1 1134568999999999
Q ss_pred HH-hcChHHHHHHHHHHHHHHhhchHHHhHHHHHHHHhhhccccchhhHHHhhhcC
Q 014705 330 TF-CTNAKLELELMYKVQMQCYEDAKLMKLFPEIVRSLYDQDVLAEDTILYWFRKG 384 (420)
Q Consensus 330 ~f-~~~~~~Ql~lL~ALQ~~c~e~~~~~k~f~~IL~~LYd~DVlsEeaIl~W~~~~ 384 (420)
.+ +.+...|..+|.++-.|...+|.. ..-|+..|=+.+||+-.+|+.|-=+.
T Consensus 84 ~l~~~~~~~q~~il~~v~~~W~~~~q~---~~li~dkll~~~ii~~~~Vv~w~f~~ 136 (253)
T PF09090_consen 84 ELEAESEEAQFWILDAVFRFWKNNPQM---GFLIIDKLLNYGIISPSAVVNWVFSP 136 (253)
T ss_dssp HH-TSSHHHHHHHHHHHHHHHTT-HHH---HHHHHHHHHHTTSS-HHHHHHHHTSG
T ss_pred HhccCChHHHHHHHHHHHHHHhcCCce---ehHHHHHHHhcCCCCHHHHHHHHcCc
Confidence 99 788899999999999999988876 45677999999999999999998543
No 7
>KOG1104 consensus Nuclear cap-binding complex, subunit NCBP1/CBP80 [RNA processing and modification]
Probab=94.79 E-value=0.58 Score=51.78 Aligned_cols=174 Identities=9% Similarity=0.131 Sum_probs=113.9
Q ss_pred HHHHHHHHHHHHHhCChhHHHHHHHhCCCchhhhhhCCCCCCChhHHHHHHHhcCCCccccchhhhhHHHHHHHHHHHHH
Q 014705 182 LSFITDFFKEYLVDNSLDDLIAILKRGKMEDNLLDFFPSSKRSAEGFSEHFTKEGLIPLVEYNEKKIFEVKLKDMKSTLT 261 (420)
Q Consensus 182 l~fl~~i~~~~~~~~~~~~l~~~lrksgl~~~l~~f~P~~kr~~e~f~~~f~~~~L~~l~~~~~~~~~~~~~~El~~~L~ 261 (420)
-.|+-++++.=+.......+..++- . -+.+++|+.. .+ +|. +..++-..+. .+.+..+|.
T Consensus 448 ~~FvreviqkelrLsy~~rI~dslP----~-~~~~l~P~~~-~p-ny~-----y~~Ee~~~~~--------~~~~~~~l~ 507 (759)
T KOG1104|consen 448 PNFVREVIQKELRLSYYQRIKDSLP----T-LLAKLLPPPP-LP-NYK-----YTDEEDPVLP--------QSLVAVQLI 507 (759)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHhhh----H-HHHHhCCCCC-CC-cee-----eecccCcccc--------chHHHHHHH
Confidence 3567777776666666666666654 1 1566666653 22 121 1111111111 112567888
Q ss_pred HHHHhcCcHHHHHHHHHhHhhhcCCChH-HHHHHHHHHHHHHhhhcccchhhhHHHHHHHHHHHHHHHHHHhcChH-HHH
Q 014705 262 TQIAEETEMSEVIESVKQRVKDAKLPDI-EVVRILWDILMDAVQWSGKNQQQNANAALRQVKTWAQLLNTFCTNAK-LEL 339 (420)
Q Consensus 262 ~~l~e~~~~~~ii~eIk~~~~~~n~s~~-evi~~v~~alm~~v~~s~k~~~~~~~~~~~~lk~~~pLL~~f~~~~~-~Ql 339 (420)
.++++..++++++.||++.-.+...+.. =.+.++++++++... |..+ -+...+.+|..+|+++|.+.. .|.
T Consensus 508 ~~~~~k~~~e~~~~iLk~~~~~~~~~~n~~~i~lfvq~~l~lGS---KSfS----H~f~~lek~~~vfk~l~~~~e~~q~ 580 (759)
T KOG1104|consen 508 VAFREKATAEEIVNILKSEDESEIGSFNRLKIILFVQTLLDLGS---KSFS----HAFSALEKYHTVFKKLCEDSETKQI 580 (759)
T ss_pred HHHhccCCHHHHHHHHhcCccccccCCcceehhhHHHHHHHhcc---chhh----hHHHHHHHHHHHHHHHhcCCchhHH
Confidence 9999999999999999933222222222 356667778777642 2122 235678999999999998765 599
Q ss_pred HHHHHHHHHHhhchHHHhHHHHHHHHhhhccccchhhHHHhhhcCC
Q 014705 340 ELMYKVQMQCYEDAKLMKLFPEIVRSLYDQDVLAEDTILYWFRKGT 385 (420)
Q Consensus 340 ~lL~ALQ~~c~e~~~~~k~f~~IL~~LYd~DVlsEeaIl~W~~~~~ 385 (420)
.+|.++=.|...||..+ ..+...|-..-||+=.+|..|-=+..
T Consensus 581 ~vl~~vft~Wk~n~Qm~---~v~~Dkml~~~ii~~~aVv~WiF~~~ 623 (759)
T KOG1104|consen 581 IVLEAVFTFWKANPQMG---FVLTDKMLKYQIIDCSAVVRWIFSEE 623 (759)
T ss_pred HHHHHHHHHHhcCchhh---HHHHHHHhccccccHHHHHHHhcCHH
Confidence 99999999998877653 45568888899999999999985544
No 8
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=94.13 E-value=0.3 Score=52.24 Aligned_cols=134 Identities=22% Similarity=0.274 Sum_probs=105.5
Q ss_pred hhHHHHHHHHHhhhhhhHHHhHHHHHHHHHHhhccChhhhHHHHHHHHHHHhhhcCCCCCccchhh--hhhccccCCCch
Q 014705 104 LPSVIYIQKILRRRPFLIKNLENVTRRFMQSLELFEENERKKLAIFTALAFSQKLSGLPPETVFQP--LLKDNLVGKGLV 181 (420)
Q Consensus 104 ~~~~~~~~kl~rr~kyl~k~~e~~~~~~l~~l~~f~~~~r~klA~~~a~~~~~~~~g~~~~~~l~~--l~~~~Lv~~G~a 181 (420)
|=|--+-.++++=++-.+-.||+..+.--..|+.++-+.-.-||.|.|.+++ ..-+|..||.- |.-+.-...|.-
T Consensus 504 kFYglL~eRfc~l~r~~q~~fe~~f~q~YstIhr~EtnkLRnlakffahLls---td~lpw~vl~~ikLTEEdTtsssRI 580 (739)
T KOG2140|consen 504 KFYGLLGERFCMLHREWQEAFEKCFKQQYSTIHRYETNKLRNLAKFFAHLLS---TDALPWDVLACIKLTEEDTTSSSRI 580 (739)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhc---ccccchHHHHHhhcccccCCcccee
Confidence 3444455666666677777888876666666999998888999999999999 99999999975 333444445544
Q ss_pred HHHHHHHHHHHHHhCChhHHHHHHHhCCCchhhhhhCCCCCCChhHHH-HHHHhcCCCcccc
Q 014705 182 LSFITDFFKEYLVDNSLDDLIAILKRGKMEDNLLDFFPSSKRSAEGFS-EHFTKEGLIPLVE 242 (420)
Q Consensus 182 l~fl~~i~~~~~~~~~~~~l~~~lrksgl~~~l~~f~P~~kr~~e~f~-~~f~~~~L~~l~~ 242 (420)
|+--+||.++..+|.+.|..-+....|...+..+||-.....-+|. .+|+.-||+-|.+
T Consensus 581 --fiKilFqELve~lGl~~L~~RL~dptl~~~l~glFP~dnp~n~RfsINfFTsIGLGgLTe 640 (739)
T KOG2140|consen 581 --FIKILFQELVEALGLDKLNERLNDPTLQPKLEGLFPRDNPRNTRFSINFFTSIGLGGLTE 640 (739)
T ss_pred --hHHHHHHHHHHHhChHHHHHHhcCcchhhhhhccCcCCCcccceeeeehhhhhccccchH
Confidence 8899999999999999999999999998889999998644333443 5889999987764
No 9
>KOG0401 consensus Translation initiation factor 4F, ribosome/mRNA-bridging subunit (eIF-4G) [Translation, ribosomal structure and biogenesis]
Probab=85.50 E-value=0.98 Score=52.39 Aligned_cols=75 Identities=9% Similarity=0.062 Sum_probs=71.4
Q ss_pred HHHHHHHHHHHhhhcCCCCCccchhhhhhccccCCCchHHHHHHHHHHHHHhCChhHHHHHHHhCCCchhhhhhCCCCCC
Q 014705 144 KKLAIFTALAFSQKLSGLPPETVFQPLLKDNLVGKGLVLSFITDFFKEYLVDNSLDDLIAILKRGKMEDNLLDFFPSSKR 223 (420)
Q Consensus 144 ~klA~~~a~~~~~~~~g~~~~~~l~~l~~~~Lv~~G~al~fl~~i~~~~~~~~~~~~l~~~lrksgl~~~l~~f~P~~kr 223 (420)
..++.+.+.++. .|.+..+.+.+.+..+.-+.|.+..++-.++..++++.+..++..+|+++++. |..|+|++..
T Consensus 871 ~~~~e~~gp~~~---~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s--~~~~~~~~~~ 945 (970)
T KOG0401|consen 871 NYIKEFLGPLIH---QKILDESELVREILKNMRPNGRRSNVLFSVLEIVEKELGRADLGDIQRESFLS--TKTLLQENSQ 945 (970)
T ss_pred hHHHHhhhhHhh---hccccHHHHHHHHhhcCCccccccchHHHHHHHHHHhhhHHHHHHHHHHhccc--chhcccccch
Confidence 678899999999 89999999999999999999999999999999999999999999999999999 9999999873
No 10
>smart00544 MA3 Domain in DAP-5, eIF4G, MA-3 and other proteins. Highly alpha-helical. May contain repeats and/or regions similar to MIF4G domains Ponting (TIBS) "Novel eIF4G domain homologues" in press
Probab=80.56 E-value=4.8 Score=33.78 Aligned_cols=59 Identities=22% Similarity=0.278 Sum_probs=52.2
Q ss_pred hhhhHHHHHHHHHhhhhhhHHHhHHHHHHHHHHhhccCh---hhhHHHHHHHHHHHhhhcCCCCC
Q 014705 102 AILPSVIYIQKILRRRPFLIKNLENVTRRFMQSLELFEE---NERKKLAIFTALAFSQKLSGLPP 163 (420)
Q Consensus 102 ~~~~~~~~~~kl~rr~kyl~k~~e~~~~~~l~~l~~f~~---~~r~klA~~~a~~~~~~~~g~~~ 163 (420)
.-..|..++..|..+...-...|+.-+.+++..++-.+- .....+|.++|.+++ +|.+|
T Consensus 52 ~~~~~~~Ll~~L~~~~~~~~~~~~~~f~~~~~~l~dl~~D~P~a~~~la~~~a~~v~---~~~l~ 113 (113)
T smart00544 52 YREMYSVLLSRLCQANVISTKQFEKGFWRLLEDIEDLELDIPNAWRNLAEFVARLIS---DGILP 113 (113)
T ss_pred HHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHhhChhhhcccccHHHHHHHHHHHHHH---cCCCC
Confidence 456788899999989999999999999999999998855 688999999999999 99886
No 11
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=78.88 E-value=6.2 Score=32.97 Aligned_cols=59 Identities=19% Similarity=0.210 Sum_probs=49.8
Q ss_pred hhhhHHHHHHHHHhhhhhhHHHhHHHHHHHHHHhhccChh---hhHHHHHHHHHHHhhhcCCCCC
Q 014705 102 AILPSVIYIQKILRRRPFLIKNLENVTRRFMQSLELFEEN---ERKKLAIFTALAFSQKLSGLPP 163 (420)
Q Consensus 102 ~~~~~~~~~~kl~rr~kyl~k~~e~~~~~~l~~l~~f~~~---~r~klA~~~a~~~~~~~~g~~~ 163 (420)
.-..|..++..|+.+...-...++.-+.+++..+.-..-. .-..+|.++|.+++ .|.+|
T Consensus 52 ~r~~~~~Ll~~L~~~~~~~~~~~~~gf~~~l~~l~Dl~~D~P~~~~~la~~~~~~i~---~~~lp 113 (113)
T PF02847_consen 52 YREYYSKLLSHLCKRKLISKEQFQEGFEDLLESLEDLELDIPKAPEYLAKFLARLIA---DGILP 113 (113)
T ss_dssp HHHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHH---TTSS-
T ss_pred HHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhHhhhccccchHHHHHHHHHHHHHHH---cCCcC
Confidence 4567888999999999988888999888999998877554 78999999999999 99887
No 12
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=68.81 E-value=66 Score=26.63 Aligned_cols=103 Identities=16% Similarity=0.233 Sum_probs=62.7
Q ss_pred HHHHHHHHHHHHHhcCcHHHHHHHHHhHhhhcCCChHHHHHHHHHHHHHHhhhcccchhhhHHHHHHHHHHHHHHHHHHh
Q 014705 253 LKDMKSTLTTQIAEETEMSEVIESVKQRVKDAKLPDIEVVRILWDILMDAVQWSGKNQQQNANAALRQVKTWAQLLNTFC 332 (420)
Q Consensus 253 ~~El~~~L~~~l~e~~~~~~ii~eIk~~~~~~n~s~~evi~~v~~alm~~v~~s~k~~~~~~~~~~~~lk~~~pLL~~f~ 332 (420)
++.+...|.+.+.. .+.++++..|+++..+ --.+++++.++...++.- + ..-..+..|+..++
T Consensus 2 rk~i~~~l~ey~~~-~d~~ea~~~l~el~~~--~~~~~vv~~~l~~~le~~----~----------~~r~~~~~Ll~~L~ 64 (113)
T PF02847_consen 2 RKKIFSILMEYFSS-GDVDEAVECLKELKLP--SQHHEVVKVILECALEEK----K----------SYREYYSKLLSHLC 64 (113)
T ss_dssp HHHHHHHHHHHHHH-T-HHHHHHHHHHTT-G--GGHHHHHHHHHHHHHTSS----H----------HHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHhcC-CCHHHHHHHHHHhCCC--ccHHHHHHHHHHHHhhcc----H----------HHHHHHHHHHHHHH
Confidence 34555566666644 4888888889887555 345677777777666651 0 11245566677777
Q ss_pred cCh-HHHHHHHHHHHHHH-------hhchHHHhHHHHHHHHhhhcccc
Q 014705 333 TNA-KLELELMYKVQMQC-------YEDAKLMKLFPEIVRSLYDQDVL 372 (420)
Q Consensus 333 ~~~-~~Ql~lL~ALQ~~c-------~e~~~~~k~f~~IL~~LYd~DVl 372 (420)
... -.+-++..+++.+. .+-|+....+..++-.+...|+|
T Consensus 65 ~~~~~~~~~~~~gf~~~l~~l~Dl~~D~P~~~~~la~~~~~~i~~~~l 112 (113)
T PF02847_consen 65 KRKLISKEQFQEGFEDLLESLEDLELDIPKAPEYLAKFLARLIADGIL 112 (113)
T ss_dssp HTTSS-HHHHHHHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTSS
T ss_pred hcCCCCHHHHHHHHHHHHhHhhhccccchHHHHHHHHHHHHHHHcCCc
Confidence 543 33334444444443 44577888888999998888876
No 13
>KOG1991 consensus Nuclear transport receptor RANBP7/RANBP8 (importin beta superfamily) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=54.76 E-value=2.9e+02 Score=32.37 Aligned_cols=94 Identities=20% Similarity=0.267 Sum_probs=59.7
Q ss_pred HHHHHHHHHHhcCh--HHHHHHHHHHHHHHhhc----hHHHhHHHHHHHHh------hhccccch--hhHHHhhhcCCCc
Q 014705 322 KTWAQLLNTFCTNA--KLELELMYKVQMQCYED----AKLMKLFPEIVRSL------YDQDVLAE--DTILYWFRKGTNP 387 (420)
Q Consensus 322 k~~~pLL~~f~~~~--~~Ql~lL~ALQ~~c~e~----~~~~k~f~~IL~~L------Yd~DVlsE--eaIl~W~~~~~~~ 387 (420)
+.+.-....++++. .-++++-.|+|.|+... +.+....+.+++.| |+.|.++. +.|..-|...-++
T Consensus 502 ~ale~t~~~l~~d~~lPV~VeAalALq~fI~~~~~~~e~~~~hvp~~mq~lL~L~ne~End~Lt~vme~iV~~fseElsP 581 (1010)
T KOG1991|consen 502 EALELTHNCLLNDNELPVRVEAALALQSFISNQEQADEKVSAHVPPIMQELLKLSNEVENDDLTNVMEKIVCKFSEELSP 581 (1010)
T ss_pred HHHHHHHHHhccCCcCchhhHHHHHHHHHHhcchhhhhhHhhhhhHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHhhch
Confidence 34444555666443 57889999999999852 33333344443333 56666664 5666666666666
Q ss_pred chHHHHHHhHHHHHHHHcccccCccCCC
Q 014705 388 KGRQTFVKALEPFVKWLEEAEEEDYQLH 415 (420)
Q Consensus 388 ~Gk~~~lk~~~~FV~WLeEAEEEsdeee 415 (420)
.+.+-+..-++.|..=|++.+.+++++|
T Consensus 582 fA~eL~q~La~~F~k~l~~~~~~~~~~d 609 (1010)
T KOG1991|consen 582 FAVELCQNLAETFLKVLQTSEDEDESDD 609 (1010)
T ss_pred hHHHHHHHHHHHHHHHHhccCCCCccch
Confidence 6667777788899999997444444443
No 14
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=48.67 E-value=90 Score=35.24 Aligned_cols=97 Identities=15% Similarity=0.142 Sum_probs=63.3
Q ss_pred HHHHHHHHHhhhhhhHHHhHHHHHHHHHHhhccChhhhHHHHHHHHHHHhhhcCCCCCccchhhhhhccccCCCchHHHH
Q 014705 106 SVIYIQKILRRRPFLIKNLENVTRRFMQSLELFEENERKKLAIFTALAFSQKLSGLPPETVFQPLLKDNLVGKGLVLSFI 185 (420)
Q Consensus 106 ~~~~~~kl~rr~kyl~k~~e~~~~~~l~~l~~f~~~~r~klA~~~a~~~~~~~~g~~~~~~l~~l~~~~Lv~~G~al~fl 185 (420)
|.-+-+|+--+++-+++.|.=.+=-.+.=++.-+..++.-||.++|-+|+ +-..|++||.+.==-.|-+. ..-|+
T Consensus 672 Ya~lA~KfCe~~~~~~~tfQF~~WD~f~ele~ls~~ri~nLa~l~a~Li~---~~~lsLtVLK~Vdfm~l~~~--~~~fl 746 (822)
T KOG2141|consen 672 YALLALKFCEFNKNLKKTFQFALWDRFKELEQLSLFRISNLAKLLASLIS---NAVLSLTVLKHVDFMELNAR--RTTFL 746 (822)
T ss_pred HHHHHHHHHHHhhhhHHHHHHHHHHHHHHhhhcchhhHhHHHHHHHHHHH---hcccceeeeeeccHhhcChH--HHHHH
Confidence 45556666677777777776555444444555677888999999999999 99999999986211122222 23366
Q ss_pred HHHHHHHHHhCChhHHHHHHHh
Q 014705 186 TDFFKEYLVDNSLDDLIAILKR 207 (420)
Q Consensus 186 ~~i~~~~~~~~~~~~l~~~lrk 207 (420)
..+|-.++-+...+.+..++.+
T Consensus 747 ~~~l~~l~l~~~~~~v~~~ftr 768 (822)
T KOG2141|consen 747 KKLLFGLILEPEEKDVFQLFTR 768 (822)
T ss_pred HHHHHHHHhcchHHHHHHHHHH
Confidence 6666666666555555555543
No 15
>PF02583 Trns_repr_metal: Metal-sensitive transcriptional repressor; InterPro: IPR003735 This entry describes proteins of unknown function.; PDB: 2HH7_A 3AAI_A 4ADZ_B.
Probab=47.75 E-value=38 Score=27.54 Aligned_cols=43 Identities=7% Similarity=0.221 Sum_probs=31.1
Q ss_pred HHHHHHHHHhcCcHHHHHHHHHhHhhhcCCChHHHHHHHHHHHHHHh
Q 014705 257 KSTLTTQIAEETEMSEVIESVKQRVKDAKLPDIEVVRILWDILMDAV 303 (420)
Q Consensus 257 ~~~L~~~l~e~~~~~~ii~eIk~~~~~~n~s~~evi~~v~~alm~~v 303 (420)
...+.++++++.++.+|+.-|.+.+.+-+ .+...++..-+..+
T Consensus 18 v~gI~~Miee~~~C~dIl~Qi~Av~~Al~----~~~~~vl~~hl~~c 60 (85)
T PF02583_consen 18 VRGIERMIEEDRDCEDILQQIAAVRSALD----KVGKLVLEDHLEHC 60 (85)
T ss_dssp HHHHHHHHHTTE-HHHHHHHHHHHHHHHH----HHHHHHHHHHHHHH
T ss_pred HHHHHHHHhCCCCHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHH
Confidence 46678889999999999999999888754 55555555555443
No 16
>PRK11352 regulator protein FrmR; Provisional
Probab=42.33 E-value=1.1e+02 Score=25.38 Aligned_cols=29 Identities=10% Similarity=0.218 Sum_probs=24.8
Q ss_pred HHHHHHHHHhcCcHHHHHHHHHhHhhhcC
Q 014705 257 KSTLTTQIAEETEMSEVIESVKQRVKDAK 285 (420)
Q Consensus 257 ~~~L~~~l~e~~~~~~ii~eIk~~~~~~n 285 (420)
++.+.++++++.++.+|+.-|.+-+.+-+
T Consensus 22 v~gi~~Mie~~~~C~dil~Ql~Avr~Al~ 50 (91)
T PRK11352 22 IDALERSLEGDAECRAILQQIAAVRGAAN 50 (91)
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHH
Confidence 45678889999999999999999888755
No 17
>PF13972 TetR: Bacterial transcriptional repressor; PDB: 3RH2_A 3NNR_A.
Probab=39.52 E-value=1.1e+02 Score=26.72 Aligned_cols=64 Identities=11% Similarity=0.221 Sum_probs=43.7
Q ss_pred chhhhhhHHHHHHHHHhhhhhhHHHhHHHH---HHHHHHhhccChhhhHHHHHHHHHHHhhhcCCCCCcc
Q 014705 99 QREAILPSVIYIQKILRRRPFLIKNLENVT---RRFMQSLELFEENERKKLAIFTALAFSQKLSGLPPET 165 (420)
Q Consensus 99 ~~~~~~~~~~~~~kl~rr~kyl~k~~e~~~---~~~l~~l~~f~~~~r~klA~~~a~~~~~~~~g~~~~~ 165 (420)
+.+.+-.|....-.+|.||+|+-+.+-+-+ +.+-.-...+...-+..+..+...++. +|.+.++
T Consensus 20 ~le~~~~~l~~~f~~~w~YRF~~~dl~~Ll~~~p~L~~~~~~~~~~~~~~~~~l~~~l~~---~g~l~~~ 86 (146)
T PF13972_consen 20 SLEDLWNYLDSVFELMWRYRFFYRDLPDLLRRDPELKKRYRQLQQRRREQLRQLLQSLIE---AGILRID 86 (146)
T ss_dssp SHHHHHHHHHHHHHHHHHTHHHHHSHHHHHHC-HHHHHHHHHHHHHHHHHHHHHHHHHHH---TTSB---
T ss_pred CHHHHHHHHHHHHHHHHHhhhHHccHHHHHHhCHHHHHHHHHHHHHHHHHHHHHHHHHHH---CCCCCCC
Confidence 788999999999999999999999988855 334333333444445555556666666 7777533
No 18
>PF11517 Nab2: Nuclear abundant poly(A) RNA-bind protein 2 (Nab2); InterPro: IPR021083 Nab2 is a yeast heterogeneous nuclear ribonucleoprotein that modulates poly(A) tail length and mRNA. This is the N-terminal domain of the protein which mediates interactions with the C-terminal globular domain, Myosin-like protein 1 and the mRNA export factor, Gfd1 []. The N-terminal domain of Nab2 shows a structure of a helical fold. The N-terminal domain of Nab2 is thought to mediate protein:protein interactions that facilitate the nuclear export of mRNA []. An essential hydrophobic Phe73 patch on the N-terminal domain is thought to be an important component of the interface between Nab2 and Mlp1 [].; PDB: 3LCN_B 2V75_A 2JPS_A.
Probab=39.34 E-value=1.3e+02 Score=25.59 Aligned_cols=70 Identities=21% Similarity=0.248 Sum_probs=44.0
Q ss_pred HHHHHHhhccChhhhHHHHHHHHHHHhhhcCCCCCccchhhhhhccccCCCchHHHHHH----HHHHHHHhCChhHHHHH
Q 014705 129 RRFMQSLELFEENERKKLAIFTALAFSQKLSGLPPETVFQPLLKDNLVGKGLVLSFITD----FFKEYLVDNSLDDLIAI 204 (420)
Q Consensus 129 ~~~l~~l~~f~~~~r~klA~~~a~~~~~~~~g~~~~~~l~~l~~~~Lv~~G~al~fl~~----i~~~~~~~~~~~~l~~~ 204 (420)
-.=|..|.+|++ +-+..|.++-++|+ ||.-+.++++.|. .|- |+++-..++. .|..+-..++-+.+..+
T Consensus 17 aEkL~~l~NFnE-Dv~YVAEyIvlLis---Nggs~esivqELs--sLF-D~vs~~~l~~VVQtaF~ale~Lq~Ge~~e~i 89 (107)
T PF11517_consen 17 AEKLKTLPNFNE-DVNYVAEYIVLLIS---NGGSVESIVQELS--SLF-DSVSTEALTDVVQTAFFALEALQQGETVENI 89 (107)
T ss_dssp HHHHTTSTT--S-SHHHHHHHHHHHHH---TT--HHHHHHHHH--HH--TTS-HHHHHHHHHHHHHHHHHHHTT--HHHH
T ss_pred HHHHccccCccc-cHHHHHHHhheeee---CCCCHHHHHHHHH--HHH-hccCHHHHHHHHHHHHHHHHHHhCCCcHHHH
Confidence 344678888876 46899999999999 9999999998765 233 7777777766 45555544544444444
Q ss_pred H
Q 014705 205 L 205 (420)
Q Consensus 205 l 205 (420)
.
T Consensus 90 v 90 (107)
T PF11517_consen 90 V 90 (107)
T ss_dssp H
T ss_pred H
Confidence 3
No 19
>PF08362 TetR_C_3: YcdC-like protein, C-terminal region; InterPro: IPR013573 This entry represents the C-terminal domain found in the hypothetical transcriptional regulators RutR and YcdC (P75899 from SWISSPROT) from Escherichia coli. Both of these proteins are member of the TetR (tetracycline resistance) transcriptional regulator family of proteins. RutR negatively controls the transcription of the rut operon involved in pyrimidine utilization. The C-terminal domains of RutR, YsiA and TetR share a multi-helical, interlocking structure. These proteins also contain helix-turn-helix (HTH) DNA-binding domains.; GO: 0045892 negative regulation of transcription, DNA-dependent; PDB: 3LOC_B.
Probab=36.07 E-value=1e+02 Score=27.68 Aligned_cols=65 Identities=11% Similarity=-0.024 Sum_probs=47.4
Q ss_pred CcchhhhhhHHHHHHHHHhhhhhhHHHhHHHH----HHHHHHhhccChhhhHHHHHHHHHHHhhhcCCCCCc
Q 014705 97 EPQREAILPSVIYIQKILRRRPFLIKNLENVT----RRFMQSLELFEENERKKLAIFTALAFSQKLSGLPPE 164 (420)
Q Consensus 97 ~~~~~~~~~~~~~~~kl~rr~kyl~k~~e~~~----~~~l~~l~~f~~~~r~klA~~~a~~~~~~~~g~~~~ 164 (420)
.++.++++.|+.-.-.+-|.||..-|.|=.|+ +.+-.|++..--..-++.+..+..|+. .|.+.+
T Consensus 19 ~dP~~aL~~YI~~k~~~s~~~P~~Srlfa~Eii~Gap~L~~~l~~~l~~~~~~~~~~I~~Wi~---~G~i~~ 87 (143)
T PF08362_consen 19 DDPAEALRAYIRAKMEYSRDHPEASRLFANEIIQGAPHLKDYLRERLRPWVDRKVAVIERWIA---QGKIAP 87 (143)
T ss_dssp S-HHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHTTSTTTHHHHHTHHHHHHHHHHHHHHHHHH---TTSS-S
T ss_pred CCHHHHHHHHHHHHHHHHHHCchhhHHHHHHHHcCchhhHHHHHHHHHHHHHHHHHHHHHHHH---CCCCCC
Confidence 34566999999999999999999999999874 667777754433333344557788999 898854
No 20
>PF04286 DUF445: Protein of unknown function (DUF445); InterPro: IPR007383 This entry contains proteins of unknown function. They are predicted to be transmembrane proteins with 2 or 3 TM domains.
Probab=34.94 E-value=4.6e+02 Score=25.98 Aligned_cols=32 Identities=9% Similarity=0.011 Sum_probs=26.5
Q ss_pred hccChhhhHHHHHHHHHHHhhhcCCCCCccchhhh
Q 014705 136 ELFEENERKKLAIFTALAFSQKLSGLPPETVFQPL 170 (420)
Q Consensus 136 ~~f~~~~r~klA~~~a~~~~~~~~g~~~~~~l~~l 170 (420)
-+--|..|+++|..+|-++. +.++++..+..-
T Consensus 32 ~giip~~r~~~~~~~~~~v~---~~ll~~~~i~~~ 63 (367)
T PF04286_consen 32 TGIIPKNRERIAESIGEMVE---NELLTPETIRRK 63 (367)
T ss_pred cccccccHHHHHHHHHHHHH---HHCCCHHHHHHH
Confidence 35668899999999999999 888977777653
No 21
>PRK15039 transcriptional repressor RcnR to maintain nickel and cobalt homeostasis; Provisional
Probab=34.46 E-value=1.5e+02 Score=24.65 Aligned_cols=29 Identities=14% Similarity=0.185 Sum_probs=24.8
Q ss_pred HHHHHHHHHhcCcHHHHHHHHHhHhhhcC
Q 014705 257 KSTLTTQIAEETEMSEVIESVKQRVKDAK 285 (420)
Q Consensus 257 ~~~L~~~l~e~~~~~~ii~eIk~~~~~~n 285 (420)
++.+.++++++.++.+|+.-|.+-+.+-+
T Consensus 22 v~gI~~Miee~~~C~dIl~Ql~Avr~Al~ 50 (90)
T PRK15039 22 VVALKKMLDEPHECAAVLQQIAAIRGAVN 50 (90)
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHH
Confidence 46778899999999999999998887755
No 22
>PF07528 DZF: DZF domain; InterPro: IPR006561 This domain is found in proteins containing the double-stranded RNA-binding motif, DSRM (IPR001159 from INTERPRO), or the zinc finger domain C2H2 (IPR007087 from INTERPRO). This domain is found exclusively in the metazoa.
Probab=34.33 E-value=40 Score=33.13 Aligned_cols=49 Identities=24% Similarity=0.357 Sum_probs=37.9
Q ss_pred HHhhhhcCCCCCCCcCcCCC-CCCCceeecc--CcchhhhhhHHHHHHHHHhh
Q 014705 67 FEVVFTGGRTQPGTTKPDEG-ERHSYSIIDC--EPQREAILPSVIYIQKILRR 116 (420)
Q Consensus 67 f~i~~~Gg~l~pgg~~~~~~-~~~~~~i~~~--~~~~~~~~~~~~~~~kl~rr 116 (420)
|| ++|+|+|-|||.-+.|- ++.++.+.++ ..++|.|-..+|-+-|+|--
T Consensus 182 le-~lasGillp~~~gl~DPcE~~~~~~~~~lt~qq~e~it~sAQ~~LRllaf 233 (248)
T PF07528_consen 182 LE-CLASGILLPGSPGLRDPCEKDPVDVLDTLTLQQREDITSSAQTALRLLAF 233 (248)
T ss_pred HH-HHhCceecCCCCCCcCCCCCCCceeeccCCHHHHHHHHHHHHHHHHHHHh
Confidence 44 47999999999877753 4568888885 66888999999988887743
No 23
>cd01051 Mn_catalase Manganese catalase, ferritin-like diiron-binding domain. Manganese (Mn) catalase is a member of a broad superfamily of ferritin-like diiron enzymes. While many diiron enzymes catalyze dioxygen-dependent reactions, manganese catalase performs peroxide-dependent oxidation-reduction. Catalases are important antioxidant metalloenzymes that catalyze disproportionation of hydrogen peroxide, forming dioxygen and water. Manganese catalase, a nonheme type II catalase, contains a binuclear manganese cluster that catalyzes the redox dismutation of hydrogen peroxide, interconverting between dimanganese(II) [(2,2)] and dimanganese(III) [(3,3)] oxidation states during turnover. Mn catalases are found in a broad range of microorganisms in microaerophilic environments, including the mesophilic lactic acid bacteria (e.g., Lactobacillus plantarum) and bacterial and archaeal thermophiles (e.g., Thermus thermophilus and Pyrobaculum caldifontis). L. plantarum and T. thermophilus holoenz
Probab=34.15 E-value=2.2e+02 Score=25.84 Aligned_cols=102 Identities=10% Similarity=0.077 Sum_probs=72.1
Q ss_pred hhHHHHHHHhhcCCCCHHHHHHHh-hcCCc-cchhhhhhhHHhhh---------------hcCCCCCCCcCcCCCCCCCc
Q 014705 29 AFSDAVVQIYLDNAGDLELIAKCI-ESSDL-NFSRYGDTFFEVVF---------------TGGRTQPGTTKPDEGERHSY 91 (420)
Q Consensus 29 ~frd~~~~~~~~~~~dle~~~~~l-~g~~l-dy~ry~~~lf~i~~---------------~Gg~l~pgg~~~~~~~~~~~ 91 (420)
.|+..|.+.+-.+.|-+.++..|| .+-.. .+..+.+.|-+|-. -|| .|+|.. - ..+|
T Consensus 20 ~~A~~l~~~~gG~~gEl~ai~qYl~q~~~~~~~~~~~d~l~~ia~eEm~H~e~la~~I~~Lg~--~~~g~p-w---~~~y 93 (156)
T cd01051 20 RFAKLLQEQLGGAFGELSAAMQYLFQSFNFREDPKYRDLLLDIGTEELSHLEMVATLIAMLLK--DSQGVP-W---TAAY 93 (156)
T ss_pred HHHHHHHHHhCCccHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC--CCCCCc-C---CCcc
Confidence 688999999988889999999999 44455 88999999988743 133 566632 2 2344
Q ss_pred eeeccCcchhhhhhHHHHHHHHHhhhhhhHHHhHH-HHHHHHHHhhc
Q 014705 92 SIIDCEPQREAILPSVIYIQKILRRRPFLIKNLEN-VTRRFMQSLEL 137 (420)
Q Consensus 92 ~i~~~~~~~~~~~~~~~~~~kl~rr~kyl~k~~e~-~~~~~l~~l~~ 137 (420)
|-.+.+-.+.|+.=+.-=++-+.+|..+.+..++ .++.+|.+|-.
T Consensus 94 -v~~~~d~~~~L~~ni~aE~~Ai~~Y~~l~~~~~Dp~v~~~l~~I~~ 139 (156)
T cd01051 94 -IQSSGNLVADLRSNIAAESRARLTYERLYEMTDDPGVKDTLSFLLV 139 (156)
T ss_pred -cCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 2223333445555555567788889999988888 58888888765
No 24
>PF14821 Thr_synth_N: Threonine synthase N terminus; PDB: 3V7N_A 1VB3_A 1KL7_A.
Probab=33.02 E-value=43 Score=26.85 Aligned_cols=46 Identities=17% Similarity=0.402 Sum_probs=28.2
Q ss_pred CchhhHHHHHHHhhcCCC-----CHHHHHHH-h-hcCCccchhhhhhhHHhhh
Q 014705 26 DPAAFSDAVVQIYLDNAG-----DLELIAKC-I-ESSDLNFSRYGDTFFEVVF 71 (420)
Q Consensus 26 dp~~frd~~~~~~~~~~~-----dle~~~~~-l-~g~~ldy~ry~~~lf~i~~ 71 (420)
.+.+|.+||++||...|| .+-.+.+. | .-..++|.--+-.++..++
T Consensus 10 ~~vsf~eAil~GlA~DGGLyvP~~iP~l~~~~l~~l~~~sy~elA~~il~~f~ 62 (79)
T PF14821_consen 10 PPVSFKEAILQGLAPDGGLYVPEEIPKLSKEELEELKNLSYAELAFEILSPFL 62 (79)
T ss_dssp CEE-HHHHHHH-SBTTSB-EEESS-----HHHHHHHTTS-HHHHHHHHHHHHC
T ss_pred CCcCHHHHHHhCCCCCCeeEecCcCCCCCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 789999999999998887 55555544 4 3456777766666666666
No 25
>PF10193 Telomere_reg-2: Telomere length regulation protein; InterPro: IPR019337 This entry represents a conserved domain found in a group of proteins called telomere-length regulation, or clock abnormal protein-2, which are conserved from plants to humans. These proteins regulate telomere length and contribute to silencing of sub-telomeric regions []. In vitro the protein binds to telomeric DNA repeats. ; PDB: 3O4Z_B.
Probab=32.58 E-value=1.4e+02 Score=25.57 Aligned_cols=66 Identities=24% Similarity=0.340 Sum_probs=38.6
Q ss_pred chhhhhhHHHHHHHHHhhhhh----hHHHhHHHHHHHHHHhh-ccChh--hhHHHHHHHHHHHhhhcCCCCCccchhhhh
Q 014705 99 QREAILPSVIYIQKILRRRPF----LIKNLENVTRRFMQSLE-LFEEN--ERKKLAIFTALAFSQKLSGLPPETVFQPLL 171 (420)
Q Consensus 99 ~~~~~~~~~~~~~kl~rr~ky----l~k~~e~~~~~~l~~l~-~f~~~--~r~klA~~~a~~~~~~~~g~~~~~~l~~l~ 171 (420)
+.+.+..-.....+||||.+= +...-++-+ +.|..|+ .|+.+ +..++..++|++++ .|..+..-|+
T Consensus 18 ~~e~~e~aL~~a~~LIR~k~~fg~el~~~a~eL~-~~Ll~L~~~f~~~~Fe~~R~~alval~v~------~P~~~~~~L~ 90 (114)
T PF10193_consen 18 DYEKFEAALKSAEKLIRRKPDFGTELSEYAEELL-KALLHLQNKFDIENFEELRQNALVALVVA------APEKVAPYLT 90 (114)
T ss_dssp --S-SHHHHHHHHHHHHS-----SSHHHHHHHHH-HHHHH---TT--TTTTHHHHHHHHHHHHH------SGGGHHH-HH
T ss_pred CHHHHHHHHHHHHHHHhcCCCCcchHHHHHHHHH-HHHhhccccCCccCHHHHHHHHHHHHHHH------hhHHHHHHHH
Confidence 567778888899999999998 444444444 4444554 46655 47899999999999 4656555433
No 26
>PF08337 Plexin_cytopl: Plexin cytoplasmic RasGAP domain; InterPro: IPR013548 This domain is found at C terminus of various plexins (e.g. P51805 from SWISSPROT). Plexins are receptors for semaphorins, and plexin signalling is important in pathfinding and patterning of both neurons and developing blood vessels [, ]. The cytoplasmic region, which has been called a SEX domain [], and is involved in downstream signalling pathways, by interaction with proteins such as Rac1, RhoD, Rnd1 and other plexins []. ; PDB: 3H6N_A 4E71_A 4E74_A 3IG3_A 2REX_C 2JPH_A 2R2O_A 3HM6_X 3SU8_X 3SUA_E ....
Probab=30.90 E-value=2.5e+02 Score=30.81 Aligned_cols=52 Identities=17% Similarity=0.301 Sum_probs=38.3
Q ss_pred chhhhhhHHHHHHHHHhhhhhhHHHhHHHHHHHHHHhhccChhhhHHHHHHHHHHHh
Q 014705 99 QREAILPSVIYIQKILRRRPFLIKNLENVTRRFMQSLELFEENERKKLAIFTALAFS 155 (420)
Q Consensus 99 ~~~~~~~~~~~~~kl~rr~kyl~k~~e~~~~~~l~~l~~f~~~~r~klA~~~a~~~~ 155 (420)
....+..=...|.+|+....||..- -+.|-.=+.|+..+|-.+|-++-.++.
T Consensus 35 ~~~~~~~~l~~f~~LL~nk~Fl~~f-----i~tlE~q~~fs~rDr~~vASLL~vaL~ 86 (539)
T PF08337_consen 35 RRSTVEQGLRQFSQLLNNKHFLLTF-----IHTLESQRSFSMRDRCNVASLLMVALQ 86 (539)
T ss_dssp THHHHHHHHHHHHHHHTSHHHHHHH-----HHHHHCSSSS-HHHHHHHHHHHHHHTG
T ss_pred cchhHhHHHHHHHHHhcCchHHHHH-----HHHHHhCCCcccccchhhhhHHHHHHc
Confidence 4446667777899999999998754 344555578999999999988776666
No 27
>KOG2213 consensus Apoptosis inhibitor 5/fibroblast growth factor 2-interacting factor 2, and related proteins [Signal transduction mechanisms]
Probab=30.76 E-value=6.8e+02 Score=26.64 Aligned_cols=118 Identities=18% Similarity=0.170 Sum_probs=61.5
Q ss_pred ccCCCchHHHHHHHHHHHHHhCChhHHHHHHHhCCCchhhhhhCCCCCCChhHHHHHHHhcCCCccccchhhhhHHHHHH
Q 014705 175 LVGKGLVLSFITDFFKEYLVDNSLDDLIAILKRGKMEDNLLDFFPSSKRSAEGFSEHFTKEGLIPLVEYNEKKIFEVKLK 254 (420)
Q Consensus 175 Lv~~G~al~fl~~i~~~~~~~~~~~~l~~~lrksgl~~~l~~f~P~~kr~~e~f~~~f~~~~L~~l~~~~~~~~~~~~~~ 254 (420)
+.-.|-+++-+..++.+++. ...++.+|.+++.- +...-++-...+..+=++-..++..+........
T Consensus 87 ~fc~~d~~~rv~d~l~qLLn---k~sl~~Lf~~~~~~---------D~~irek~l~fi~tKl~~l~~e~L~kevE~~iv~ 154 (460)
T KOG2213|consen 87 LFCKGDALSRVNDVLVQLLN---KASLTGLFGQIEVG---------DEQIREKVLKFIRTKLITLKGEVLTKEVERHIVD 154 (460)
T ss_pred hhccCchhhhhHHHHHHHHH---HHHHHHHHhhhhhh---------hHHHHHHHHHHHHHHhhcccHHHhhhHHHHHHHH
Confidence 33455777777888888887 45666777666652 1112222222233333333334444333334444
Q ss_pred HHHHHHHHHHHh-----------------cCcH---HHHHHHHHhHh--hhcCCChHHHHHHHHHHHHHHhh
Q 014705 255 DMKSTLTTQIAE-----------------ETEM---SEVIESVKQRV--KDAKLPDIEVVRILWDILMDAVQ 304 (420)
Q Consensus 255 El~~~L~~~l~e-----------------~~~~---~~ii~eIk~~~--~~~n~s~~evi~~v~~alm~~v~ 304 (420)
|+.+.|.+.-.+ ..+. .+++.++.++. .+-|.++.++|-=.++|+.-++.
T Consensus 155 eikkal~dVtgeef~lfm~~L~~lk~~~~k~~~a~lqeLa~~~e~~a~ldaf~~sD~d~VdRfisCl~~AvP 226 (460)
T KOG2213|consen 155 EIKKALEDVTGEEFTLFMDILASLKSLQTKAGEARLQELAEEQEGLADLDAFNVSDADYVDRFISCLLMAVP 226 (460)
T ss_pred HHHHHHHhccHHHHHHHHHHHHhhhcccCCCCHHHHHHHHHHHhhhhccCcccCCChHHHHHHHHHHHHhhh
Confidence 444444432111 1122 24444444433 33788899988888888877764
No 28
>PF15039 DUF4530: Domain of unknown function (DUF4530)
Probab=30.62 E-value=25 Score=29.59 Aligned_cols=21 Identities=33% Similarity=0.338 Sum_probs=14.8
Q ss_pred HHHHHHcccccCccCCCCCCC
Q 014705 399 PFVKWLEEAEEEDYQLHKFPD 419 (420)
Q Consensus 399 ~FV~WLeEAEEEsdeee~~~~ 419 (420)
..++-|+|.||+|+++||...
T Consensus 85 Elvt~lEEEee~s~e~ee~~e 105 (111)
T PF15039_consen 85 ELVTILEEEEEESEEEEEDEE 105 (111)
T ss_pred HHHHHhHHhhccccchhhhcc
Confidence 467788888877777766543
No 29
>PHA02690 hypothetical protein; Provisional
Probab=29.07 E-value=53 Score=26.74 Aligned_cols=31 Identities=23% Similarity=0.305 Sum_probs=27.6
Q ss_pred CCCHHHHHHHhhcCCccchhhhhhhHHhhhh
Q 014705 42 AGDLELIAKCIESSDLNFSRYGDTFFEVVFT 72 (420)
Q Consensus 42 ~~dle~~~~~l~g~~ldy~ry~~~lf~i~~~ 72 (420)
.+=|||+-..|+||+.=-|+----|||.+++
T Consensus 21 rrYLeAIqrhlEgs~plLR~~~RlLfDL~lT 51 (90)
T PHA02690 21 RRYLEAIQRHLEGSTPLLRQMWRLLFDLLLT 51 (90)
T ss_pred hHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Confidence 3679999999999999999999999998875
No 30
>PF12825 DUF3818: Domain of unknown function in PX-proteins (DUF3818); InterPro: IPR024554 The function of this domain is not known, but it is almost always found C-terminal to a PX-domain (IPR001683 from INTERPRO).
Probab=27.91 E-value=6e+02 Score=26.15 Aligned_cols=111 Identities=14% Similarity=0.154 Sum_probs=63.7
Q ss_pred HHHHHHHHHhhhcCCCCCccchhhhhh----------------ccccCCCchHHHHHHHHHHHHHhCChhHHHHHHHhCC
Q 014705 146 LAIFTALAFSQKLSGLPPETVFQPLLK----------------DNLVGKGLVLSFITDFFKEYLVDNSLDDLIAILKRGK 209 (420)
Q Consensus 146 lA~~~a~~~~~~~~g~~~~~~l~~l~~----------------~~Lv~~G~al~fl~~i~~~~~~~~~~~~l~~~lrksg 209 (420)
.-+.++.+-+.-+.+.++...+....+ .....++.-..-+-+.++.+++.++.+.+.++|.+.-
T Consensus 156 ~~iv~~IL~~~~~~p~L~~~~~~~v~~sy~~~~~~~~~~~~~~~~~~~~a~lf~~lk~yl~l~~r~RDk~~~~~l~~e~~ 235 (341)
T PF12825_consen 156 EDIVVAILRSSDIEPKLSPEQLQRVLESYKAWKNAVESVPDDDGEENEDAWLFSDLKEYLKLYLRKRDKEQMIQLWCEPE 235 (341)
T ss_pred CCchHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHhhhccccCCCccchhhHHHHHHHHHHHHHHHHhhHHHHHHHHcChh
Confidence 445666666622233445555655432 1233556667778899999999999999999998865
Q ss_pred CchhhhhhCCCCCCChhHHHHHHHhcCCCccccchhhhhHHHHHHHHHHHHHHHH
Q 014705 210 MEDNLLDFFPSSKRSAEGFSEHFTKEGLIPLVEYNEKKIFEVKLKDMKSTLTTQI 264 (420)
Q Consensus 210 l~~~l~~f~P~~kr~~e~f~~~f~~~~L~~l~~~~~~~~~~~~~~El~~~L~~~l 264 (420)
+-+-+.+++..= .+-+..+++..++..-+ ...+.|..++++.+.+.-
T Consensus 236 ~~qllkd~v~if---Yepl~rv~k~a~l~~~l-----~d~q~Fi~DlI~~~~~~~ 282 (341)
T PF12825_consen 236 LTQLLKDLVTIF---YEPLVRVHKAADLSEAL-----SDFQKFIDDLIKLVEKLR 282 (341)
T ss_pred HHHHHHHHHHHH---HHHHHHHHHhcCHHHHH-----HHHHHHHHHHHHHHHHhh
Confidence 543344443210 11244555555554322 123456666665555443
No 31
>PF08542 Rep_fac_C: Replication factor C C-terminal domain; InterPro: IPR013748 Replication factor C (RFC) is a multimeric AAA+ protein complex that loads the DNA polymerase processivity clamp PCNA (Proliferating Cell Nuclear Antigen) onto DNA using ATP to drive the reaction []. PCNA functions at multiple levels in directing DNA metabolic pathways []. When bound to DNA, PCNA organises various proteins involved in DNA replication, DNA repair, DNA modification, and chromatin modelling. Replication factor C consists of five subunits in a spiral arrangement: Rfc1, Rfc2, Rfc3, Rfc4, and Rfc5 subunits. Rfc1 and Rfc2 load the PCNA sliding clamp onto DNA, while Rfc3 binds ATP and also acts as a checkpoint sensor. The RFC complex contains four ATP sites (sites A, B, C, and D) located at subunit interfaces. In each ATP site, an arginine residue from one subunit is located near the gamma-phosphate of ATP bound in the adjacent subunit. These arginine residues act as "arginine fingers" that can potentially perform two functions: sensing that ATP is bound and catalyzing ATP hydrolysis []. This entry represents the core domain found in Rfc1-5.; GO: 0003689 DNA clamp loader activity, 0005524 ATP binding, 0006260 DNA replication, 0005663 DNA replication factor C complex; PDB: 1SXJ_B 2CHG_B 2CHV_F 2CHQ_C 1IQP_A.
Probab=26.53 E-value=2.8e+02 Score=21.81 Aligned_cols=46 Identities=17% Similarity=0.362 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHhcCcHHHHHHHHHhHhhhcCCChHHHHHHHHHH
Q 014705 253 LKDMKSTLTTQIAEETEMSEVIESVKQRVKDAKLPDIEVVRILWDI 298 (420)
Q Consensus 253 ~~El~~~L~~~l~e~~~~~~ii~eIk~~~~~~n~s~~evi~~v~~a 298 (420)
..++...+.+.+.+|-++.+|+..+........+++.....++...
T Consensus 20 ~~~~~~~~~~l~~~G~s~~~Il~~l~~~l~~~~~~~~~k~~i~~~l 65 (89)
T PF08542_consen 20 FKEARKKLYELLVEGYSASDILKQLHEVLVESDIPDSQKAEILKIL 65 (89)
T ss_dssp HHHHHHHHHHHHHTT--HHHHHHHHHHHHHTSTSSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhhccHHHHHHHHHHH
No 32
>COG1937 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.25 E-value=3.1e+02 Score=22.80 Aligned_cols=32 Identities=6% Similarity=0.057 Sum_probs=25.7
Q ss_pred HHHHHHHHHhcCcHHHHHHHHHhHhhhcCCCh
Q 014705 257 KSTLTTQIAEETEMSEVIESVKQRVKDAKLPD 288 (420)
Q Consensus 257 ~~~L~~~l~e~~~~~~ii~eIk~~~~~~n~s~ 288 (420)
...+.+++++|.++.+|..-|-+-+.+-|--.
T Consensus 22 v~gI~rMlEe~~~C~dVl~QIaAVr~Al~~~~ 53 (89)
T COG1937 22 VRGIERMLEEDRDCIDVLQQIAAVRGALNGLM 53 (89)
T ss_pred HHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHH
Confidence 46778899999999999999988877755333
No 33
>PF09733 VEFS-Box: VEFS-Box of polycomb protein; InterPro: IPR019135 The VEFS-Box is found in the the C-terminal region of the VRN2, EMF2, FIS2, and Su(z)12 polycomb proteins. This domain is characterised by an acidic cluster and a tryptophan/methionine-rich sequence, the acidic-W/M domain []. In some proteins the VEFS-Box is associated with a zinc-finger domain located roughly 100 residues towards the N terminus. These proteins are part of the polycomb cluster of proteins which control HOX gene transcription as it functions in heterochromatin-mediated repression [].
Probab=26.13 E-value=2.7e+02 Score=25.00 Aligned_cols=61 Identities=18% Similarity=0.179 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHhh-------chHHHhHHHHHHHHhhhccccchhhHH
Q 014705 316 AALRQVKTWAQLLNTFCTNAKLELELMYKVQMQCYE-------DAKLMKLFPEIVRSLYDQDVLAEDTIL 378 (420)
Q Consensus 316 ~~~~~lk~~~pLL~~f~~~~~~Ql~lL~ALQ~~c~e-------~~~~~k~f~~IL~~LYd~DVlsEeaIl 378 (420)
..++.++.|-..+.+.--.++.| +=.|++.|+.. ++++...|..-+-.||+.++|+..+|.
T Consensus 67 ~EKefM~lWN~fv~k~r~~aD~~--ip~ac~~Fv~~~~~~L~~~~~l~~~f~lHl~~L~d~glLd~~~i~ 134 (140)
T PF09733_consen 67 EEKEFMKLWNSFVMKQRVIADGH--IPWACEAFVREHGQWLVEKPNLRREFLLHLINLWDFGLLDARTID 134 (140)
T ss_pred HHHHHHHHHHHHHHHccCcchHH--HHHHHHHHHHHhHHHHhhChhHHHHHHHHHHHHHHcCCCCHHHHH
Confidence 45566777777775443333333 33455555542 467888898889999999999999885
No 34
>COG5656 SXM1 Importin, protein involved in nuclear import [Posttranslational modification, protein turnover, chaperones]
Probab=24.82 E-value=1.1e+03 Score=27.24 Aligned_cols=91 Identities=15% Similarity=0.276 Sum_probs=62.6
Q ss_pred HHHHHHHHHHHhcCh-HHHHHHHHHHHHHHhh---chHHHhHHHHHHHH------hhhccccch--hhHHHhhhcCCCcc
Q 014705 321 VKTWAQLLNTFCTNA-KLELELMYKVQMQCYE---DAKLMKLFPEIVRS------LYDQDVLAE--DTILYWFRKGTNPK 388 (420)
Q Consensus 321 lk~~~pLL~~f~~~~-~~Ql~lL~ALQ~~c~e---~~~~~k~f~~IL~~------LYd~DVlsE--eaIl~W~~~~~~~~ 388 (420)
++.|......+-++. .-|+++-.|+|-|..+ |+++....|-+++. -|+-|++++ |+|...|.+.-++.
T Consensus 498 l~aye~t~ncl~nn~lpv~ieAalAlq~fi~~~q~h~k~sahVp~tmekLLsLSn~feiD~LS~vMe~fVe~fseELspf 577 (970)
T COG5656 498 LEAYENTHNCLKNNHLPVMIEAALALQFFIFNEQSHEKFSAHVPETMEKLLSLSNTFEIDPLSMVMESFVEYFSEELSPF 577 (970)
T ss_pred HHHHHHHHHHHhcCCcchhhhHHHHHHHHHhchhhhHHHHhhhhHHHHHHHHhcccccchHHHHHHHHHHHHhHHhhchh
Confidence 445555555555443 6889999999999985 45555455544444 378899987 78888888877777
Q ss_pred hHHHHHHhHHHHHHHHcccccCc
Q 014705 389 GRQTFVKALEPFVKWLEEAEEED 411 (420)
Q Consensus 389 Gk~~~lk~~~~FV~WLeEAEEEs 411 (420)
+..-+-.-+++|++--++-=|+|
T Consensus 578 a~eLa~~Lv~qFlkiaq~l~ens 600 (970)
T COG5656 578 APELAGSLVRQFLKIAQSLLENS 600 (970)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCC
Confidence 76666667777877655544444
No 35
>PF14026 DUF4242: Protein of unknown function (DUF4242)
Probab=24.39 E-value=43 Score=26.77 Aligned_cols=27 Identities=11% Similarity=0.218 Sum_probs=19.5
Q ss_pred cCcCCCCCCCceeeccCcchhhhhhHHH
Q 014705 81 TKPDEGERHSYSIIDCEPQREAILPSVI 108 (420)
Q Consensus 81 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~ 108 (420)
|++.+++..-|||+.|| +.|+|+...+
T Consensus 39 s~v~~d~~k~~Cly~Ap-~~eaV~~~~~ 65 (77)
T PF14026_consen 39 SYVSEDDGKIFCLYEAP-DEEAVREHAR 65 (77)
T ss_pred EEEecCCCeEEEEEECC-CHHHHHHHHH
Confidence 46665556789999999 5577776544
No 36
>PRK10167 hypothetical protein; Provisional
Probab=23.71 E-value=1.9e+02 Score=26.85 Aligned_cols=74 Identities=14% Similarity=0.046 Sum_probs=55.1
Q ss_pred hhhhhHHHHHHHHHhhhhhhHHHhHHHHHHHHHHhhcc-ChhhhHHHHHHHHHHHhhhcCCCCCccchhhhhhccccCCC
Q 014705 101 EAILPSVIYIQKILRRRPFLIKNLENVTRRFMQSLELF-EENERKKLAIFTALAFSQKLSGLPPETVFQPLLKDNLVGKG 179 (420)
Q Consensus 101 ~~~~~~~~~~~kl~rr~kyl~k~~e~~~~~~l~~l~~f-~~~~r~klA~~~a~~~~~~~~g~~~~~~l~~l~~~~Lv~~G 179 (420)
+-+..|.+.|.+.+++.+= .+..=|++..+..|+|.. +..||.-+..++.-.- .|.+|..+.-.+++-++.+-+
T Consensus 70 ~~~~~Y~~~lm~al~~~~t-~~~~~NvL~Hi~GYFKk~Ls~~EKq~l~~lI~~Yr----~g~vpl~vpltlL~h~~~~y~ 144 (169)
T PRK10167 70 DFYNQYRQRVIVLLSHPAN-VRDHTNVLMHVQGYFRPHIDSTERQQLAALIDSYR----RGEQPLLAPLMRIKHYMALYP 144 (169)
T ss_pred HHHHHHHHHHHHHHcCCCC-cchhHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHH----cCCCCHHHHHHHHHHHHHHCC
Confidence 3577899999998887653 455667889999999875 8888888877776664 599998877765555544444
No 37
>TIGR03652 FeS_repair_RIC iron-sulfur cluster repair di-iron protein. Members of this protein family, designated variously as YftE, NorA, DrnN, and NipC, are di-iron proteins involved in the repair of iron-sulfur clusters. Previously assigned names reflect pleiotropic effects of damage from NO or other oxidative stress when this protein is mutated. The suggested name now is RIC, for Repair of Iron Centers.
Probab=22.67 E-value=3.9e+02 Score=25.25 Aligned_cols=62 Identities=13% Similarity=0.126 Sum_probs=33.6
Q ss_pred HHHHHhcCCCccccchhhhhHHHHHHHHHHHHHHHH-HhcCcHHHHHHHHHhHhhhc-CCChHHHHHHHHHHHHHHh
Q 014705 229 SEHFTKEGLIPLVEYNEKKIFEVKLKDMKSTLTTQI-AEETEMSEVIESVKQRVKDA-KLPDIEVVRILWDILMDAV 303 (420)
Q Consensus 229 ~~~f~~~~L~~l~~~~~~~~~~~~~~El~~~L~~~l-~e~~~~~~ii~eIk~~~~~~-n~s~~evi~~v~~alm~~v 303 (420)
..+|...|+++=+... .+|.++. ..|.+++.++.+++...... +.+..++...-..++++++
T Consensus 12 ~~vf~~~gid~cc~g~-------------~~l~~a~~~~g~d~~~~l~~ln~~~~~~~~~~~~~~~~~~~~~Lid~i 75 (216)
T TIGR03652 12 ARIFRKYGIDFCCGGN-------------VSLAEACKEKGLDPDEILAELNALQQEPENSGAKDWREAPLSELIDHI 75 (216)
T ss_pred HHHHHHcCCCccCCCc-------------chHHHHHHHcCCCHHHHHHHHHHHHhccccccccChhhCCHHHHHHHH
Confidence 3567777776433321 3444444 34678888888888775322 1122334444445666665
No 38
>cd00620 Methyltransferase_Sun N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological role of this domain in Sun is unknown, although it is likely to be involved in sequence-specific RNA binding. The C-terminal methyltransferase domain of Sun has been shown to catalyze formation of m5C at position 967 of 16S rRNA in Escherichia coli.
Probab=22.40 E-value=3.5e+02 Score=23.00 Aligned_cols=85 Identities=7% Similarity=-0.097 Sum_probs=52.9
Q ss_pred hhhHHH-HHHHHHhhhhhhHHHhHHHHHHHHHHhhccChhhhHHHHHHHHHHHhhhcCCCCCccchhhhh---hccccCC
Q 014705 103 ILPSVI-YIQKILRRRPFLIKNLENVTRRFMQSLELFEENERKKLAIFTALAFSQKLSGLPPETVFQPLL---KDNLVGK 178 (420)
Q Consensus 103 ~~~~~~-~~~kl~rr~kyl~k~~e~~~~~~l~~l~~f~~~~r~klA~~~a~~~~~~~~g~~~~~~l~~l~---~~~Lv~~ 178 (420)
-+.|++ ++.-.+|++.+|...++..+++-+ ..-.+..|.-|-+.++-++- .. +|+...-... .+.. ..
T Consensus 37 d~~~~~~lv~g~~r~~~~ld~~i~~~l~~~~---~~~~~~~~~iLr~a~~el~~---~~-~p~~avvneaVelak~~-~~ 108 (126)
T cd00620 37 DRGLATELVYGTLRWLALLDWIINPLLKKPD---VGKDPDVRNLLRLGLYQLLY---LD-VPPHAAVDETVEIAKIR-KD 108 (126)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHhCCCc---cccCHHHHHHHHHHHHHHHh---cC-CCchHHHHHHHHHHHHh-CC
Confidence 466666 999999999999999988765521 22345677777777777766 45 4544432211 1111 23
Q ss_pred CchHHHHHHHHHHHHHh
Q 014705 179 GLVLSFITDFFKEYLVD 195 (420)
Q Consensus 179 G~al~fl~~i~~~~~~~ 195 (420)
..+..|+-.||+.+.++
T Consensus 109 ~~~~~fVNaVLr~i~r~ 125 (126)
T cd00620 109 LGRAGLVNAVLRRFERE 125 (126)
T ss_pred CchhhHHHHHHHHHhcc
Confidence 34566777777766553
No 39
>TIGR02100 glgX_debranch glycogen debranching enzyme GlgX. This family consists of the GlgX protein from the E. coli glycogen operon and probable equivalogs from other prokaryotic species. GlgX is not required for glycogen biosynthesis, but instead acts as a debranching enzyme for glycogen catabolism. This model distinguishes GlgX from pullanases and other related proteins that also operate on alpha-1,6-glycosidic linkages. In the wide band between the trusted and noise cutoffs are functionally similar enzymes, mostly from plants, that act similarly but usually are termed isoamylase.
Probab=21.40 E-value=2.1e+02 Score=32.35 Aligned_cols=95 Identities=18% Similarity=0.294 Sum_probs=63.4
Q ss_pred hhHHHHHHHhhcCCCCHHHHHHHhhcCCccchhh-------------hhh--hHHhhh-------hcC------------
Q 014705 29 AFSDAVVQIYLDNAGDLELIAKCIESSDLNFSRY-------------GDT--FFEVVF-------TGG------------ 74 (420)
Q Consensus 29 ~frd~~~~~~~~~~~dle~~~~~l~g~~ldy~ry-------------~~~--lf~i~~-------~Gg------------ 74 (420)
.|||+|..-+....++.+.++..|.||.--|+++ .|. |+|.+- +.|
T Consensus 401 ~frd~ir~f~~g~~~~~~~~~~~l~gs~~~~~~~~~~~~~~iNyv~~HD~~tl~D~~~~~~khn~~nge~n~dg~~~N~S 480 (688)
T TIGR02100 401 RYRDDMRRFWRGDAGMIGELANRLTGSSDLFEHNGRRPWASINFVTAHDGFTLRDLVSYNEKHNEANGENNRDGHNDNYS 480 (688)
T ss_pred HHHHHHHHHHcCCCCcHHHHHHHHhCCHhhccccCCCcCEEEEEEeCCCCchHHHHHHhhccchhhcccccccccccccc
Confidence 3999999888877789999999998875445444 443 888754 222
Q ss_pred -----------------------------CCCCCCcCcCCCC---------CCCcee------eccC--cchhhhhhHHH
Q 014705 75 -----------------------------RTQPGTTKPDEGE---------RHSYSI------IDCE--PQREAILPSVI 108 (420)
Q Consensus 75 -----------------------------~l~pgg~~~~~~~---------~~~~~i------~~~~--~~~~~~~~~~~ 108 (420)
++.||--.+--|+ ..+||- |.=. .....|..|++
T Consensus 481 ~n~g~eG~~~~~~~~~~r~~~~r~~~a~l~~s~GiP~i~~GdE~g~t~~G~~n~y~~~~~~~~~dW~~~~~~~~l~~~~k 560 (688)
T TIGR02100 481 WNCGVEGPTDDPAINALRRRQQRNLLATLLLSQGTPMLLAGDEFGRTQQGNNNAYCQDNEIGWVDWSLDEGDDELLAFTK 560 (688)
T ss_pred ccccccCCCCCHHHHHHHHHHHHHHHHHHHHcCCCceeeecHhhccCCCCCCCCccCCCcccccCcccccccHHHHHHHH
Confidence 4567755554332 236664 2211 22336888888
Q ss_pred HHHHHHhhhhhhHHH
Q 014705 109 YIQKILRRRPFLIKN 123 (420)
Q Consensus 109 ~~~kl~rr~kyl~k~ 123 (420)
-+.+|.|+|+-|...
T Consensus 561 ~Li~lRk~~~~l~~~ 575 (688)
T TIGR02100 561 KLIALRKAHPVLRRE 575 (688)
T ss_pred HHHHHHHhCchhccc
Confidence 888888888876654
No 40
>PF11838 ERAP1_C: ERAP1-like C-terminal domain; InterPro: IPR024571 This entry represents the uncharacterised C-terminal domain of zinc metallopeptidases belonging to MEROPS peptidase family M1 (aminopeptidase N, clan MA), with a single member characterised in Streptomyces lividans: aminopeptidase G []. The rest of the members of this family are identified as aminopeptidase N of the actinomycete-type. The spectrum of activity may differ somewhat from the aminopeptidase N clade of Escherichia coli and most other proteobacteria, which are well separated phylogenetically within the M1 family. ; PDB: 3MDJ_A 2YD0_A 3QNF_C 3RJO_A 1Z5H_A 3Q7J_A 1Z1W_A 3SE6_B.
Probab=20.47 E-value=7.9e+02 Score=23.80 Aligned_cols=44 Identities=16% Similarity=0.049 Sum_probs=27.0
Q ss_pred HHHHHHHhhc--cChhhhHHHHHHHHHHHhhhcCCCCCccchhhhhhcc
Q 014705 128 TRRFMQSLEL--FEENERKKLAIFTALAFSQKLSGLPPETVFQPLLKDN 174 (420)
Q Consensus 128 ~~~~l~~l~~--f~~~~r~klA~~~a~~~~~~~~g~~~~~~l~~l~~~~ 174 (420)
+.+++..|+. +++.+|-.|-.=+.-++. .|.+|.+.+..++.-.
T Consensus 21 ~~~l~~~L~~~~l~~~~R~~ll~D~~al~~---~g~~~~~~~l~l~~~~ 66 (324)
T PF11838_consen 21 WDALIKQLQSNHLSPLDRAQLLDDLFALAR---AGRLSYSDFLDLLEYL 66 (324)
T ss_dssp HHHHHHHHHHHGS-HHHHHHHHHHHHHHHH---TTSS-HHHHHHHHGGG
T ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHHHHHH---cCCCCHHHHHHHHHHh
Confidence 4555555543 789999775543333444 5999998888766544
No 41
>PF03997 VPS28: VPS28 protein; InterPro: IPR007143 The Endosomal Sorting Complex Required for Transport (ESCRT) complexes form the machinery driving protein sorting from endosomes to lysosomes. ESCRT complexes are central to receptor down-regulation, lysosome biogenesis, and budding of HIV. Yeast ESCRT-I consists of three protein subunits, VPS23, VPS28, and VPS37. In humans, ESCRT-I comprises TSG101, VPS28, and one of four potential human VPS37 homologues. The main role of ESCRT-I is to recognise ubiquitinated cargo via the UEV domain of the VPS23/TSG101 subunit. The assembly of the ESCRT-I complex is directed by the C-terminal steadiness box (SB) of VPS23, the N-terminal half of VPS28, and the C-terminal half of VPS37. The structure is primarily composed of three long, parallel helical hairpins, each corresponding to a different subunit. The additional domains and motifs extending beyond the core serve as gripping tools for ESCRT-I critical functions [, ].; PDB: 2J9W_B 2J9U_C 2G3K_A 2F66_E 2F6M_D 2J9V_A 2CAZ_E 2P22_B.
Probab=20.08 E-value=7.4e+02 Score=23.35 Aligned_cols=82 Identities=11% Similarity=0.134 Sum_probs=46.8
Q ss_pred hhHHHHHHHHHhhhhhhHHHhHH-HHHHHHHHhhccChhhhHHHHHHHHHHHhhhcCCCCCccchhhhhhccccCCCchH
Q 014705 104 LPSVIYIQKILRRRPFLIKNLEN-VTRRFMQSLELFEENERKKLAIFTALAFSQKLSGLPPETVFQPLLKDNLVGKGLVL 182 (420)
Q Consensus 104 ~~~~~~~~kl~rr~kyl~k~~e~-~~~~~l~~l~~f~~~~r~klA~~~a~~~~~~~~g~~~~~~l~~l~~~~Lv~~G~al 182 (420)
+.|..--+|||-+||=+.+.+.. ..+-+=.|.+.|.-.--..+..+ .-.+|.|+-..- .+-...|...
T Consensus 26 ~eYt~~c~kLl~Qyk~~~~~~~~~~~~~le~F~~~y~l~cp~A~~Rl---------~~G~P~Tie~~~--~~~~~~~~~a 94 (188)
T PF03997_consen 26 KEYTTACNKLLNQYKTILKQLKDDEFPDLEEFMKKYNLDCPAALERL---------REGVPATIEHRI--SSSSDKGNSA 94 (188)
T ss_dssp HHHHHHHHHHHHHHHHHHTSTTHHHHHHHHHHHHHTTS-HHHHHHHH---------HCTSS----------------CHH
T ss_pred HHHHHHHHHHHHHHHHHHHHcccccCCCHHHHHHHhcccCChHHHHH---------HcCCCCchhhhc--ccccCCchHH
Confidence 56999999999999999999988 77888888888875432222222 355776665421 1122344555
Q ss_pred HHHHHHHHHHHHhC
Q 014705 183 SFITDFFKEYLVDN 196 (420)
Q Consensus 183 ~fl~~i~~~~~~~~ 196 (420)
..+.++-+-++.-|
T Consensus 95 k~Vae~t~~FIT~m 108 (188)
T PF03997_consen 95 KLVAEATQNFITLM 108 (188)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHhChhhhhh
Confidence 55555555554433
No 42
>PF13551 HTH_29: Winged helix-turn helix
Probab=20.04 E-value=2.7e+02 Score=22.48 Aligned_cols=74 Identities=14% Similarity=0.181 Sum_probs=40.1
Q ss_pred CCCChhHHHHHHHhcCCCcccc-chhhh-hHHHHHHHHHHHHHHHHHhcC-------cHHHHHHHHHhHhhhcCCChHHH
Q 014705 221 SKRSAEGFSEHFTKEGLIPLVE-YNEKK-IFEVKLKDMKSTLTTQIAEET-------EMSEVIESVKQRVKDAKLPDIEV 291 (420)
Q Consensus 221 ~kr~~e~f~~~f~~~~L~~l~~-~~~~~-~~~~~~~El~~~L~~~l~e~~-------~~~~ii~eIk~~~~~~n~s~~ev 291 (420)
+.++.......|.+.|+..+.+ -.... +....-.+..+.|.+.+.++. +...+..|+-.......++...+
T Consensus 25 s~~Tv~r~~~~~~~~G~~~l~~~~~~~g~~~~~l~~~~~~~l~~~~~~~p~~g~~~~t~~~l~~~l~~~~~~~~~s~~ti 104 (112)
T PF13551_consen 25 SRRTVYRWLKRYREGGIEGLLPRKPRGGRPRKRLSEEQRAQLIELLRENPPEGRSRWTLEELAEWLIEEEFGIDVSPSTI 104 (112)
T ss_pred CHHHHHHHHHHHHcccHHHHHhccccCCCCCCCCCHHHHHHHHHHHHHCCCCCCCcccHHHHHHHHHHhccCccCCHHHH
Confidence 3467777777788888777666 33221 111133455556666665543 45666666633344445555444
Q ss_pred HHH
Q 014705 292 VRI 294 (420)
Q Consensus 292 i~~ 294 (420)
.++
T Consensus 105 ~r~ 107 (112)
T PF13551_consen 105 RRI 107 (112)
T ss_pred HHH
Confidence 443
Done!