Query 013803
Match_columns 436
No_of_seqs 189 out of 672
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 07:33:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013803.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013803hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0401 Translation initiation 100.0 2.9E-39 6.3E-44 363.5 14.3 272 103-383 323-599 (970)
2 PF02854 MIF4G: MIF4G domain; 100.0 3.1E-33 6.7E-38 258.3 21.3 198 136-358 2-209 (209)
3 smart00543 MIF4G Middle domain 100.0 5.2E-29 1.1E-33 230.4 21.6 192 136-358 2-200 (200)
4 KOG2140 Uncharacterized conser 99.8 1E-20 2.2E-25 195.6 15.3 220 101-363 133-353 (739)
5 KOG2141 Protein involved in hi 99.7 6.3E-16 1.4E-20 165.0 22.4 200 131-362 316-524 (822)
6 KOG3942 MIF4G domain-containin 99.2 3.4E-10 7.4E-15 111.7 14.0 170 164-364 163-338 (348)
7 KOG2051 Nonsense-mediated mRNA 98.8 4.1E-08 8.8E-13 109.6 14.4 172 149-355 442-614 (1128)
8 KOG0401 Translation initiation 98.6 9.7E-09 2.1E-13 117.3 -0.5 285 89-383 586-894 (970)
9 KOG2051 Nonsense-mediated mRNA 97.9 0.00039 8.6E-09 78.6 17.8 190 135-355 631-834 (1128)
10 KOG1104 Nuclear cap-binding co 96.0 0.41 8.9E-06 53.3 17.8 193 133-363 26-248 (759)
11 PF05918 API5: Apoptosis inhib 93.9 0.83 1.8E-05 50.0 13.0 158 128-314 173-346 (556)
12 PF02847 MA3: MA3 domain; Int 92.7 1.2 2.7E-05 37.6 9.8 63 135-199 2-66 (113)
13 smart00544 MA3 Domain in DAP-5 91.0 1.7 3.7E-05 36.8 8.7 62 136-199 3-66 (113)
14 KOG2140 Uncharacterized conser 89.4 4.4 9.6E-05 44.1 11.9 115 134-287 454-568 (739)
15 PF07817 GLE1: GLE1-like prote 83.0 29 0.00062 34.3 13.3 173 131-317 26-240 (256)
16 KOG2141 Protein involved in hi 76.1 7.9 0.00017 43.5 7.3 107 141-283 625-731 (822)
17 PF04147 Nop14: Nop14-like fam 69.4 1.1E+02 0.0024 35.5 14.9 135 135-293 428-577 (840)
18 cd03561 VHS VHS domain family; 54.9 1.5E+02 0.0032 26.0 10.8 90 262-357 18-112 (133)
19 cd03567 VHS_GGA VHS domain fam 47.5 2.1E+02 0.0046 25.7 10.5 96 262-360 19-119 (139)
20 cd03569 VHS_Hrs_Vps27p VHS dom 41.0 2.6E+02 0.0056 25.1 9.5 93 262-359 22-116 (142)
21 PF09733 VEFS-Box: VEFS-Box of 36.3 46 0.00099 30.2 3.8 30 260-289 111-140 (140)
22 PF08149 BING4CT: BING4CT (NUC 35.5 23 0.00049 29.2 1.5 18 133-150 59-76 (80)
23 smart00288 VHS Domain present 32.8 3.4E+02 0.0074 23.8 11.8 109 262-379 18-130 (133)
24 KOG2213 Apoptosis inhibitor 5/ 31.5 6.8E+02 0.015 26.9 15.4 83 133-215 151-240 (460)
25 PF04129 Vps52: Vps52 / Sac2 f 31.2 7.2E+02 0.016 27.0 13.0 84 264-358 71-160 (508)
26 PF01602 Adaptin_N: Adaptin N 31.0 3.1E+02 0.0068 28.9 9.8 61 138-198 325-387 (526)
27 cd03568 VHS_STAM VHS domain fa 30.7 4E+02 0.0087 24.0 11.0 107 262-378 18-128 (144)
28 KOG1831 Negative regulator of 26.7 94 0.002 37.8 5.0 67 131-199 376-443 (1591)
29 KOG4728 Anti-apoptotic Bcl-2 f 25.6 1.4E+02 0.0031 28.1 5.2 66 134-199 62-130 (176)
30 TIGR02132 phaR_Bmeg polyhydrox 25.2 6E+02 0.013 24.2 9.1 53 278-332 51-103 (189)
31 PF06716 DUF1201: Protein of u 25.0 63 0.0014 24.0 2.1 13 422-434 20-32 (54)
32 PF14676 FANCI_S2: FANCI solen 23.0 1.4E+02 0.0029 27.6 4.5 55 262-317 37-92 (158)
33 PHA01513 mnt Mnt 22.9 3.4E+02 0.0074 22.5 6.3 67 152-226 15-81 (82)
34 KOG2171 Karyopherin (importin) 22.5 1.4E+03 0.031 27.6 16.1 201 130-354 57-275 (1075)
35 PF07055 Eno-Rase_FAD_bd: Enoy 21.3 83 0.0018 24.9 2.3 23 133-155 18-40 (65)
No 1
>KOG0401 consensus Translation initiation factor 4F, ribosome/mRNA-bridging subunit (eIF-4G) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.9e-39 Score=363.47 Aligned_cols=272 Identities=38% Similarity=0.663 Sum_probs=231.2
Q ss_pred CCcccccchhhhhhhcccccccccHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhccccChHHHHHHHHHHHHHhhcC
Q 013803 103 NDKKHRNSRDKEIRSDNRGKRRLSKRMRNLKWHIECRGDIGRLNAPNFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALME 182 (436)
Q Consensus 103 ~~~~~~~~r~~~~r~~~~g~~~~s~~~~~~kl~r~Vk~ILNKLTpenFd~i~~qL~~l~i~~~e~L~~VI~lIfeKAi~E 182 (436)
|.|.++.......+.+.++.... ...+.+.|++|||||||.+|+.+..+++.+.+++.+.++.+|.+||+||+.|
T Consensus 323 ~~ps~k~a~~~~~~~~~~~~~~~-----~~el~~~vrsilnkltp~~~~~l~~q~~~~~i~t~~~l~~vi~~vfdkAi~E 397 (970)
T KOG0401|consen 323 PSPSPKRAKSKSDQGAERKDVEL-----KEELAKRVRSLLNKLTPERKELLIEQLIELNVDTDDALKEVIELVFDKAINE 397 (970)
T ss_pred CCCcchhhccccccccccchhHH-----HHHHHHHHhhhcCCCchHHHHHHHHHHHhhccCcHHHHhHHHHHHHHhhhcc
Confidence 66777766655556666665533 3358999999999999999999999999999999999999999999999999
Q ss_pred CchhhHHHHHHHHHHh--cCCCCCCchhhhHHHHHHHHHHHHHHHhhH-HHHHHhhhhcchhhhhccHHHHHHHHHHHhh
Q 013803 183 PTFCEMYANFFYFLAG--ELPDFSEDNEKITFKRLLLNKCQEEFERGE-REQEEANKADKEGEIKQTEEEREEKRIKARR 259 (436)
Q Consensus 183 p~fs~mYA~LC~~L~~--~lp~~~~~~~~~~FR~~LL~rcQ~eFe~~~-~~~~e~~k~~ee~e~~~s~eE~e~~~~k~Kr 259 (436)
|.||.|||+||..|.. ..|....++..++||+.||++||.+|+... ....+.....+.. ..++++++.+..+++
T Consensus 398 P~f~~~yA~lc~~l~~~~~~~~~~~~~~~~~fr~~lL~rcq~~fe~~~~~~~~~~~~~~~~~---~~e~~le~~k~~~~~ 474 (970)
T KOG0401|consen 398 PTFCAMYARLCFDLEGPPSEPELDMGGDEINFRRLLLNRCQKEFEGEDDKIADEYSEAEEPD---ELEEELEEEKYILRR 474 (970)
T ss_pred cccchhcchhcccccCCccCCCcCCCCCcccHHHHHHHHhHHHhhcccHHHHHHhhhhcCch---hHHHHHHhccceecC
Confidence 9999999999999987 223333455788999999999999999876 2222222221111 246677788889999
Q ss_pred hHHHHHHHHHHHHhccCCcHHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhhhccCccchHH-HHHHHHHHHHHhhCC
Q 013803 260 RWLGNIRLIGELYKKKMLTERIMHECIKKLLGQYENPDEEDVEALCILMSTIGEMIDHPKAKEH-MDAYFDRMEKLSNNM 338 (436)
Q Consensus 260 r~lG~IrFIGELFk~~vLs~kII~~cI~~LL~~~~~p~Ee~IE~Lc~LL~tiG~~Ld~~k~k~~-md~~f~~L~~l~~~~ 338 (436)
+.+|+++|||+||+..|++++|||.|+..||...+ ++|++|||+|.|++|+|..+|..+.+.. ||.||..++.+....
T Consensus 475 rtlgn~~~ig~l~~~~ml~e~i~~~~v~~Ll~~~~-~~ee~ie~lc~f~~tig~~lD~~~~s~r~md~~~~~~k~~~~~~ 553 (970)
T KOG0401|consen 475 RTLGNFRFIGELFKLKMLTEKIVHACVQKLLSDDQ-PSEESIECLCRFLTTIGKKLDFSKESPRNMDEYFNSMKNLKRKP 553 (970)
T ss_pred CccchHHHHHHHHHHHHHHHHHHHHHHHHhhcccc-ccchhhhhHHhhhhcccccccccCcccchhHHHHHHHHHhhhhh
Confidence 99999999999999999999999999999998533 7999999999999999999997555555 999999999999999
Q ss_pred CCChHHHHHHHHHHHHHHcCCccccccCCCC-ChHHHHHHHHHHHH
Q 013803 339 KLSSRVRLMLKDSIELRKNKWQQRRKVEGPK-KIEEVHRDAAQERQ 383 (436)
Q Consensus 339 ~lS~RIRFmI~dLiDLR~nnW~~r~~~~~pk-ti~eih~ea~~e~~ 383 (436)
.+++|+|||+++++|||.++|++++...++. +|++||.++..+.+
T Consensus 554 ~~s~r~RfM~~~~idlR~~~w~~rr~~~~~~~~ieei~~~~~~~~~ 599 (970)
T KOG0401|consen 554 QRSNRIRFMLQSVIDLRKSGWGPRRAEETNDKPIEEIAPEAPSANR 599 (970)
T ss_pred hhccchhhhhccccccccccccchhcccCCCCchhhcchhhhhhcc
Confidence 9999999999999999999999999988887 99999999987766
No 2
>PF02854 MIF4G: MIF4G domain; InterPro: IPR003890 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 3", and is found in nuclear cap-binding proteins, eIF4G, and UPF2. 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. Nonsense-mediated mRNA decay (NMD) in eukaryotes involves UPF1, UPF2 and UPF3 to accelerate the decay rate of two unique classes of transcripts: (1) nonsense mRNAs that arise through errors in gene expression, and (2) naturally occurring transcripts that lack coding errors but have built-in features that target them for accelerated decay (error-free mRNAs). NMD can trigger decay during any round of translation and can target CBC-bound or eIF-4E-bound transcripts []. UPF2 contains MIF4G domains, while UPF3 contains an RNP domain []. ; GO: 0005515 protein binding, 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A 1HU3_A 3RK6_A ....
Probab=100.00 E-value=3.1e-33 Score=258.31 Aligned_cols=198 Identities=38% Similarity=0.695 Sum_probs=174.9
Q ss_pred HHHHHhhcCCCCCCHHHHHHHHHhccccC-hHHHHHHHHHHHHHhhcCCchhhHHHHHHHHHHhcCCCCCCchhhhHHHH
Q 013803 136 IECRGDIGRLNAPNFKKLFEQVKAVNIDN-AVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPDFSEDNEKITFKR 214 (436)
Q Consensus 136 r~Vk~ILNKLTpenFd~i~~qL~~l~i~~-~e~L~~VI~lIfeKAi~Ep~fs~mYA~LC~~L~~~lp~~~~~~~~~~FR~ 214 (436)
++|+++|||||++||+.++++|..+...+ .+.++.+++.||++|+.+|+|+.+||+||..|+...+ ..|+.
T Consensus 2 r~v~~~lnklt~~n~~~~~~~l~~~~~~~~~~~~~~i~~~i~~~a~~~~~~~~~~a~l~~~l~~~~~--------~~f~~ 73 (209)
T PF02854_consen 2 RKVRGILNKLTPSNFESIIDELIKLNWSDDPETLKEIVKLIFEKAVEEPNFSPLYARLCAALNSRFP--------SEFRS 73 (209)
T ss_dssp HHHHHHHHHCSSTTHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHSGGGHHHHHHHHHHHHHHCH--------HHHHH
T ss_pred chHHHHHHHCCHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhhhhhcCchHHHHHHHHHHHHhccch--------hhHHH
Confidence 78999999999999999999999987764 8999999999999999999999999999999998753 68999
Q ss_pred HHHHHHHHHHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhccCCcHHHHHHHHHHHhcCCC
Q 013803 215 LLLNKCQEEFERGEREQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKKMLTERIMHECIKKLLGQYE 294 (436)
Q Consensus 215 ~LL~rcQ~eFe~~~~~~~e~~k~~ee~e~~~s~eE~e~~~~k~Krr~lG~IrFIGELFk~~vLs~kII~~cI~~LL~~~~ 294 (436)
.|++.||++|+.... .++.+......+++..|+++||||||+.++++.++|++|+..|+....
T Consensus 74 ~ll~~~~~~f~~~~~-----------------~~~~~~~~~~~~~~~~~~~~fl~eL~~~~vv~~~~i~~~l~~ll~~~~ 136 (209)
T PF02854_consen 74 LLLNRCQEEFEERYS-----------------NEELEENRQSSKQRRRGNIRFLAELFNFGVVSEKIIFDILRELLSDGT 136 (209)
T ss_dssp HHHHHHHHHHHHHT------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHTS
T ss_pred HHHHHHHHHHHHhhh-----------------hhhHHHHHHHHHHHHhhhhhHHHhhHhhccccchhHHHHHHHHHhccc
Confidence 999999999998541 111223445677889999999999999999999999999999998532
Q ss_pred -----CCChhhHHHHHHHHHHHhhhcc-CccchHHHHHHHHHHHHHhhC---CCCChHHHHHHHHHHHHHHcC
Q 013803 295 -----NPDEEDVEALCILMSTIGEMID-HPKAKEHMDAYFDRMEKLSNN---MKLSSRVRLMLKDSIELRKNK 358 (436)
Q Consensus 295 -----~p~Ee~IE~Lc~LL~tiG~~Ld-~~k~k~~md~~f~~L~~l~~~---~~lS~RIRFmI~dLiDLR~nn 358 (436)
.+++++|||+|.+|.++|+.|+ .+..+..|+.+|..++....+ ..+++|+||||++++|+|++|
T Consensus 137 ~~~~~~~~~~~ie~~~~lL~~~G~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~r~~~~l~~l~~lr~~~ 209 (209)
T PF02854_consen 137 DECQPPPDEENIECLCTLLKTCGKKLENSEESPKALDEIFERLQKYANSKKDPNLSSRIRFMLEDLIELRNNK 209 (209)
T ss_dssp HHCCHHTCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCHSSSSSHHHHHHHHHHHHHHHTC
T ss_pred ccccCCCcHhHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHHHhhcccCCCHHHHHHHHHHHHHhcCC
Confidence 2567999999999999999999 445678999999999999887 789999999999999999986
No 3
>smart00543 MIF4G Middle domain of eukaryotic initiation factor 4G (eIF4G). Also occurs in NMD2p and CBP80. The domain is rich in alpha-helices and may contain multiple alpha-helical repeats. In eIF4G, this domain binds eIF4A, eIF3, RNA and DNA. Ponting (TiBS) "Novel eIF4G domain homologues (in press)
Probab=99.97 E-value=5.2e-29 Score=230.36 Aligned_cols=192 Identities=33% Similarity=0.534 Sum_probs=169.7
Q ss_pred HHHHHhhcCCCCCCHHHHHHHHHhccccChHHHHHHHHHHHHHhhcCCchhhHHHHHHHHHHhcCCCCCCchhhhHHHHH
Q 013803 136 IECRGDIGRLNAPNFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPDFSEDNEKITFKRL 215 (436)
Q Consensus 136 r~Vk~ILNKLTpenFd~i~~qL~~l~i~~~e~L~~VI~lIfeKAi~Ep~fs~mYA~LC~~L~~~lp~~~~~~~~~~FR~~ 215 (436)
++|+++|||||++||+.++++|..++..+++..+.+++.||++|+.+|.|+.+||+||..|+... ..|+..
T Consensus 2 ~~v~~~lnkLs~~n~~~~~~~l~~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~ya~L~~~l~~~~---------~~f~~~ 72 (200)
T smart00543 2 KKVKGLINKLSPSNFESIIKELLKLNNSDKNLRKYILELIFEKAVEEPNFIPAYARLCALLNAKN---------PDFGSL 72 (200)
T ss_pred hHHHHHHhhCCHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHHH---------HHHHHH
Confidence 57899999999999999999999998888889999999999999999999999999999998764 279999
Q ss_pred HHHHHHHHHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhccCCcHHHHHHHHHHHhcCCCC
Q 013803 216 LLNKCQEEFERGEREQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKKMLTERIMHECIKKLLGQYEN 295 (436)
Q Consensus 216 LL~rcQ~eFe~~~~~~~e~~k~~ee~e~~~s~eE~e~~~~k~Krr~lG~IrFIGELFk~~vLs~kII~~cI~~LL~~~~~ 295 (436)
+++.|+++|+..... .+...++++.|+++||||||+.++++..++++|+..|+.....
T Consensus 73 ll~~~~~~f~~~~e~----------------------~~~~~~~~~~~~i~fl~eL~~~~~i~~~~i~~~l~~ll~~~~~ 130 (200)
T smart00543 73 LLERLQEEFEKGLES----------------------EEESDKQRRLGLVRFLGELYNFQVLTSKIILELLKELLNDLTK 130 (200)
T ss_pred HHHHHHHHHHHHHHH----------------------HHHHhhhhHHhHHHHHHHHHHcccCcHHHHHHHHHHHHhccCC
Confidence 999999999875211 1123457789999999999999999999999999999986433
Q ss_pred ----CChhhHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHHhhCC---CCChHHHHHHHHHHHHHHcC
Q 013803 296 ----PDEEDVEALCILMSTIGEMIDHPKAKEHMDAYFDRMEKLSNNM---KLSSRVRLMLKDSIELRKNK 358 (436)
Q Consensus 296 ----p~Ee~IE~Lc~LL~tiG~~Ld~~k~k~~md~~f~~L~~l~~~~---~lS~RIRFmI~dLiDLR~nn 358 (436)
+++.++||+|.+|.++|+.|+.+..+..|+.+|+.++....+. .+++|++||+++++++|++.
T Consensus 131 ~~~~~~~~~ve~l~~lL~~~G~~l~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~r~~~~l~~l~~l~~~~ 200 (200)
T smart00543 131 LDPPRSDFSVECLLSLLPTCGKDLEREKSPKLLDEILERLQDYLLKKDKTELSSRLRFMLELLIELRKNK 200 (200)
T ss_pred CCCCCcHHHHHHHHHHHHHhhHHHcCcccHHHHHHHHHHHHHHHhcccccCCChHHHHHHHHHHHHhhCc
Confidence 3468999999999999999995456789999999999998776 78999999999999999863
No 4
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=99.85 E-value=1e-20 Score=195.56 Aligned_cols=220 Identities=20% Similarity=0.337 Sum_probs=187.7
Q ss_pred cCCCcccccchh-hhhhhcccccccccHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhccccChHHHHHHHHHHHHHh
Q 013803 101 ERNDKKHRNSRD-KEIRSDNRGKRRLSKRMRNLKWHIECRGDIGRLNAPNFKKLFEQVKAVNIDNAVTLAGVVSQIFDKA 179 (436)
Q Consensus 101 ~r~~~~~~~~r~-~~~r~~~~g~~~~s~~~~~~kl~r~Vk~ILNKLTpenFd~i~~qL~~l~i~~~e~L~~VI~lIfeKA 179 (436)
|=|.|+-++++- .+|.-.+.. .+ ||+-|..|+++|.+|+|||+.+|+..|+.+|++.+|-.+..| ++..|++..
T Consensus 133 G~YIPPaKL~~mq~qi~Dk~s~--~y-QRmnWEalkksInglInkvn~sNi~~ii~eLfqeNiirgRgl--~crsv~~aq 207 (739)
T KOG2140|consen 133 GAYIPPAKLRMMQAQITDKNSI--EY-QRMNWEALKKSINGLINKVNASNIQEIIRELFQENIIRGRGL--LCRSVMQAQ 207 (739)
T ss_pred CeecCHHHHHHHHHHhcccchH--HH-HHHHHHHHHHHhHHHHhhhhHHHHHHHHHHHHHHHHHhccch--hHHHHHHHH
Confidence 338999888853 334333322 23 677777999999999999999999999999999999888888 999999999
Q ss_pred hcCCchhhHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhh
Q 013803 180 LMEPTFCEMYANFFYFLAGELPDFSEDNEKITFKRLLLNKCQEEFERGEREQEEANKADKEGEIKQTEEEREEKRIKARR 259 (436)
Q Consensus 180 i~Ep~fs~mYA~LC~~L~~~lp~~~~~~~~~~FR~~LL~rcQ~eFe~~~~~~~e~~k~~ee~e~~~s~eE~e~~~~k~Kr 259 (436)
...|.|+++||.|.+.|...+|.+. .+||.+..-.|.+.+..+ .|.
T Consensus 208 ~asp~ft~vyaALvAviNskfP~Ig---------ElLlkrLilqf~r~f~Rn-------------------------Dk~ 253 (739)
T KOG2140|consen 208 AASPGFTPVYAALVAVINSKFPQIG---------ELLLKRLILQFKRSFRRN-------------------------DKV 253 (739)
T ss_pred hcCCCCcHHHHHHHHHHccCCchHH---------HHHHHHHHHHHHHHhccc-------------------------chH
Confidence 9999999999999999999998764 466666666777766432 124
Q ss_pred hHHHHHHHHHHHHhccCCcHHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHHhhCCC
Q 013803 260 RWLGNIRLIGELYKKKMLTERIMHECIKKLLGQYENPDEEDVEALCILMSTIGEMIDHPKAKEHMDAYFDRMEKLSNNMK 339 (436)
Q Consensus 260 r~lG~IrFIGELFk~~vLs~kII~~cI~~LL~~~~~p~Ee~IE~Lc~LL~tiG~~Ld~~k~k~~md~~f~~L~~l~~~~~ 339 (436)
.|++.++||++||+++|..+-++.+++.-||. .|++++||.++.+|+.||..|-. .++..++.+|++++.|+....
T Consensus 254 ~c~~~~kfiahLinq~VahEIv~Leil~lLLe---~PTddSvevaI~flkecGakL~~-VSpr~~n~IfErlR~ILhe~E 329 (739)
T KOG2140|consen 254 SCLNASKFIAHLINQQVAHEIVALEILTLLLE---RPTDDSVEVAIAFLKECGAKLAE-VSPRALNGIFERLRYILHEGE 329 (739)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc---CCCCchHHHHHHHHHHHHHHHHH-hChHHHhHHHHHHHHHHhHhh
Confidence 58999999999999999999999999999998 59999999999999999999974 456789999999999999999
Q ss_pred CChHHHHHHHHHHHHHHcCCcccc
Q 013803 340 LSSRVRLMLKDSIELRKNKWQQRR 363 (436)
Q Consensus 340 lS~RIRFmI~dLiDLR~nnW~~r~ 363 (436)
++.|++|||+.++..|+.+++...
T Consensus 330 ld~rvqy~iEtlf~iRkdkfk~~p 353 (739)
T KOG2140|consen 330 LDRRVQYMIETLFQIRKDKFKSHP 353 (739)
T ss_pred HHHHHHHHHHHHHHHHHHhhccCC
Confidence 999999999999999999988763
No 5
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=99.72 E-value=6.3e-16 Score=164.96 Aligned_cols=200 Identities=20% Similarity=0.338 Sum_probs=149.9
Q ss_pred HHHHHHHHHHhhcCCCCCCHHHHHHHHHhccccCh-HHHHHHHHHHHHHhhcCC-----chhhHHHHHHHHHHhcCCCCC
Q 013803 131 NLKWHIECRGDIGRLNAPNFKKLFEQVKAVNIDNA-VTLAGVVSQIFDKALMEP-----TFCEMYANFFYFLAGELPDFS 204 (436)
Q Consensus 131 ~~kl~r~Vk~ILNKLTpenFd~i~~qL~~l~i~~~-e~L~~VI~lIfeKAi~Ep-----~fs~mYA~LC~~L~~~lp~~~ 204 (436)
..+++++|+|+||||+..|+.+|+..|..++..+. ...+.-+.-...+|+.-| .++..||.|...|+...
T Consensus 316 l~rl~rkv~g~LNKLSdaNi~~I~~~i~~Ly~~~sr~~v~~sLtk~l~~~~~~~~~~ld~~~~~y~AL~~~l~~~v---- 391 (822)
T KOG2141|consen 316 LQRLRRKVNGSLNKLSDANIIKIIAGIAELYMNNSRYDVTSSLTKLLLKALLGPFRLLDSLLTTYAALAAMLHTMV---- 391 (822)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHH----
Confidence 45799999999999999999999999999987542 233333444444555544 58899999999998754
Q ss_pred CchhhhHHHHHHHHHHHHHHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhccCCcHHHHHH
Q 013803 205 EDNEKITFKRLLLNKCQEEFERGEREQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKKMLTERIMHE 284 (436)
Q Consensus 205 ~~~~~~~FR~~LL~rcQ~eFe~~~~~~~e~~k~~ee~e~~~s~eE~e~~~~k~Krr~lG~IrFIGELFk~~vLs~kII~~ 284 (436)
+..|--.++....+.|-...+..++ +... -+.+.|++.|+++||+++++.+.+|++
T Consensus 392 ----g~eigahf~q~~ve~f~~~~~~~~~---------~~~~-----------~K~~~Nl~~~l~ylynF~ivs~~Liyd 447 (822)
T KOG2141|consen 392 ----GNEIGAHFLQTFVEDFLKSYKEEEE---------MDLK-----------DKSLNNIVLFLSYLYNFGIVSCSLIYD 447 (822)
T ss_pred ----hhHHHHHHHHHHHHHHHHHHHHHHh---------cccc-----------cchhhhHHHHHHHHHHhhcccHHHHHH
Confidence 2223334444444455544432110 0000 245889999999999999999999999
Q ss_pred HHHHHhcCCCCCChhhHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHHhhCCC---CChHHHHHHHHHHHHHHcCCcc
Q 013803 285 CIKKLLGQYENPDEEDVEALCILMSTIGEMIDHPKAKEHMDAYFDRMEKLSNNMK---LSSRVRLMLKDSIELRKNKWQQ 361 (436)
Q Consensus 285 cI~~LL~~~~~p~Ee~IE~Lc~LL~tiG~~Ld~~k~k~~md~~f~~L~~l~~~~~---lS~RIRFmI~dLiDLR~nnW~~ 361 (436)
+|..|.. +++|-++||+..++..||..|..+. ...|..++..|+..+.+.. .++|+|||++.++.|++|+-++
T Consensus 448 iI~kl~~---~l~e~~ve~ll~ii~~~G~~LRkDD-p~alk~~i~eiq~~a~~a~~s~~~pR~rFmleti~aLKnN~~kk 523 (822)
T KOG2141|consen 448 IIRKLAE---NLNETNVEALLTIIANCGFSLRKDD-PLALKDIITEIQSKAASAKISAISPRLRFMLETISALKNNKLKK 523 (822)
T ss_pred HHHHHHh---chhhhhHHHHHHHHHHccchhcCCC-hHHHHHHHHHHHHHhhcCCccccchHHHHHHHHHHHHhcCCCcC
Confidence 9999998 5999999999999999999998653 3667788888877665433 4799999999999999988766
Q ss_pred c
Q 013803 362 R 362 (436)
Q Consensus 362 r 362 (436)
.
T Consensus 524 i 524 (822)
T KOG2141|consen 524 I 524 (822)
T ss_pred C
Confidence 5
No 6
>KOG3942 consensus MIF4G domain-containing protein [Translation, ribosomal structure and biogenesis]
Probab=99.18 E-value=3.4e-10 Score=111.66 Aligned_cols=170 Identities=18% Similarity=0.154 Sum_probs=137.7
Q ss_pred ChHHHHHHHHHHHHHhhcCCchhhHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHHhhHHHHHHhhhhcchhhh
Q 013803 164 NAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPDFSEDNEKITFKRLLLNKCQEEFERGEREQEEANKADKEGEI 243 (436)
Q Consensus 164 ~~e~L~~VI~lIfeKAi~Ep~fs~mYA~LC~~L~~~lp~~~~~~~~~~FR~~LL~rcQ~eFe~~~~~~~e~~k~~ee~e~ 243 (436)
+.+.|-.++-.|..+|++.-.|.-.-++||..|..... .++.|+..||+.|++.|+-...-
T Consensus 163 ~de~l~rc~~~~~r~avegg~ggl~v~klC~n~~~~~~------~gt~f~~~Lln~lrq~f~~r~gl------------- 223 (348)
T KOG3942|consen 163 DDEMLFRCGPTIARQAVEGGGGGLFVCKLCTNLGSSWR------NGTQFMDELLNLLRQGFLLRTGL------------- 223 (348)
T ss_pred hHHHHHHHHHHHHHHHHhcCCCchhHHHHhhhhhhhhh------ccchHHHHHHHHHHHhhccchhc-------------
Confidence 34778888999999999999999999999999976542 25679999999999999876321
Q ss_pred hccHHHHHHHHHHHhhhHHHHHHHHHHHHhcc-----CCcHHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhhhccCc
Q 013803 244 KQTEEEREEKRIKARRRWLGNIRLIGELYKKK-----MLTERIMHECIKKLLGQYENPDEEDVEALCILMSTIGEMIDHP 318 (436)
Q Consensus 244 ~~s~eE~e~~~~k~Krr~lG~IrFIGELFk~~-----vLs~kII~~cI~~LL~~~~~p~Ee~IE~Lc~LL~tiG~~Ld~~ 318 (436)
......+++++|.|++|||..- ++=..+++.|++.|+.. ++-.+..+|||.-.|...|..|++
T Consensus 224 ----------~s~~~~rw~~fisfltelf~nlgs~p~~vL~~~l~~cl~~llrs-pd~~~~e~ecl~~~L~~~g~dle~- 291 (348)
T KOG3942|consen 224 ----------SSLASCRWWRFISFLTELFDNLGSCPQVVLQRSLRLCLQILLRS-PDWPEFEYECLSMKLAVEGLDLEK- 291 (348)
T ss_pred ----------cchhHHHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHHHHHccC-CCcchHHHHHHHHHHHHcCccchh-
Confidence 1123468999999999999875 66678999999999985 344588999999999999999986
Q ss_pred cchHHHHHHHHHHHHHhhCCCCC-hHHHHHHHHHHHHHHcCCccccc
Q 013803 319 KAKEHMDAYFDRMEKLSNNMKLS-SRVRLMLKDSIELRKNKWQQRRK 364 (436)
Q Consensus 319 k~k~~md~~f~~L~~l~~~~~lS-~RIRFmI~dLiDLR~nnW~~r~~ 364 (436)
.....|..+|.-.++..-...-| .-+|.+|..+|+|.++.|+.+..
T Consensus 292 qlP~ql~lL~~s~rDafL~~sep~a~~r~~lllliel~As~wqlpt~ 338 (348)
T KOG3942|consen 292 QLPFQLLLLFPSRRDAFLVRSEPLAPWRCPLLLLIELPASAWQLPTT 338 (348)
T ss_pred hhhHHHHHHHHHHHHhhhccccccccccchhhhccccCccccCCCCC
Confidence 35577888888888765544333 34699999999999999999754
No 7
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=98.83 E-value=4.1e-08 Score=109.58 Aligned_cols=172 Identities=18% Similarity=0.338 Sum_probs=129.0
Q ss_pred CHHHHHHHHHhccccChHHHHHHHHHHHHHhhcCCchhhHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHHhhH
Q 013803 149 NFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPDFSEDNEKITFKRLLLNKCQEEFERGE 228 (436)
Q Consensus 149 nFd~i~~qL~~l~i~~~e~L~~VI~lIfeKAi~Ep~fs~mYA~LC~~L~~~lp~~~~~~~~~~FR~~LL~rcQ~eFe~~~ 228 (436)
-+|..+-++... +++...=+.++..+|.---+.-...+.|++|++.|..-+|++. .-|++.+-.+|....
T Consensus 442 liD~~a~ef~~n-lNtKa~RkrLvKal~~vprt~ldllPyYsRlVAtl~~~M~dva---------t~lv~~L~~eFr~~~ 511 (1128)
T KOG2051|consen 442 LIDQAAIEFCSN-LNTKANRKRLVKALFVVPRTRLDLLPYYSRLVATLSKCMPDVA---------TELVTMLRKEFRSHL 511 (1128)
T ss_pred HHHHHHHHHHHH-hccHHHHHHHHHhhhcccchhhhhhhHHHHHHHHHHhhhhHHH---------HHHHHHHHHHHHHHH
Confidence 333344344332 5666666778888887666666788999999999988766543 566777777777654
Q ss_pred HHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhccCCcHHHHHHHHHHHhcCCCCCChhhHHHHHHHH
Q 013803 229 REQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKKMLTERIMHECIKKLLGQYENPDEEDVEALCILM 308 (436)
Q Consensus 229 ~~~~e~~k~~ee~e~~~s~eE~e~~~~k~Krr~lG~IrFIGELFk~~vLs~kII~~cI~~LL~~~~~p~Ee~IE~Lc~LL 308 (436)
..+... +-| ..+-+|+|||||.|+++++..-++.|+..||.+. .-.+||.+|.||
T Consensus 512 hkK~q~------------~ie----------tk~~~VrfIsEL~KF~lv~~~~if~cLk~ll~dF---~~hnIEm~c~lL 566 (1128)
T KOG2051|consen 512 HKKAQI------------NIE----------TKLKIVRFISELCKFQLVPKFEIFSCLKMLLNDF---THHNIEMACVLL 566 (1128)
T ss_pred hhhhhh------------hhh----------hhhhhhhhHHhhhhhCccChHHHHHHHHHHHHhc---ccccHHHHHHHH
Confidence 321000 000 1245899999999999999999999999999854 445699999999
Q ss_pred HHHhhhcc-CccchHHHHHHHHHHHHHhhCCCCChHHHHHHHHHHHHH
Q 013803 309 STIGEMID-HPKAKEHMDAYFDRMEKLSNNMKLSSRVRLMLKDSIELR 355 (436)
Q Consensus 309 ~tiG~~Ld-~~k~k~~md~~f~~L~~l~~~~~lS~RIRFmI~dLiDLR 355 (436)
.+||..|- .|..+..|..+++.|........+.+|..-+|+|.+-+=
T Consensus 567 E~~GrfLlr~pEt~lrM~~~Le~i~rkK~a~~lDsr~~~~iENay~~~ 614 (1128)
T KOG2051|consen 567 ESCGRFLLRSPETKLRMRVFLEQIKRKKRASALDSRQATLIENAYYLC 614 (1128)
T ss_pred HhcchhhhcChhHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHhHHhc
Confidence 99999886 477788899999999977777788999999999988874
No 8
>KOG0401 consensus Translation initiation factor 4F, ribosome/mRNA-bridging subunit (eIF-4G) [Translation, ribosomal structure and biogenesis]
Probab=98.56 E-value=9.7e-09 Score=117.27 Aligned_cols=285 Identities=19% Similarity=0.225 Sum_probs=190.0
Q ss_pred CCCCCcccCccCcCCCcccccchhhhhh--hcccccccccHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhc-----c
Q 013803 89 PDDESELKNDNHERNDKKHRNSRDKEIR--SDNRGKRRLSKRMRNLKWHIECRGDIGRLNAPNFKKLFEQVKAV-----N 161 (436)
Q Consensus 89 ~~~~~~~~~~~~~r~~~~~~~~r~~~~r--~~~~g~~~~s~~~~~~kl~r~Vk~ILNKLTpenFd~i~~qL~~l-----~ 161 (436)
+.++.-++..+.++|+|.....+-...- ..+.+-. ... -..+.+.+.++++++++|+.+...++.. .
T Consensus 586 ~ieei~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~--~~~----~~~~~~~~~~~~~~~e~~~~i~~~~~~~~~~~~~ 659 (970)
T KOG0401|consen 586 PIEEIAPEAPSANRWSPKSLSKKTEGRLAEESDSGLL--GKE----VVERKGKSGLRKLTPEMFDKISDPILDIADQSMD 659 (970)
T ss_pred chhhcchhhhhhcccCccccccccccccccccccccc--Ccc----ccccccccccccCChhhcccccccccccchhhcc
Confidence 5577777777888899988766433321 1111111 110 1346778999999999999999998754 2
Q ss_pred ccChHHHHHHHHHHHHHhhcCCchhhHHHHHHHHHHhcCCC-C-----CCchhhhHHHHHHHHHHHHHHHhhHHHHHHhh
Q 013803 162 IDNAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPD-F-----SEDNEKITFKRLLLNKCQEEFERGEREQEEAN 235 (436)
Q Consensus 162 i~~~e~L~~VI~lIfeKAi~Ep~fs~mYA~LC~~L~~~lp~-~-----~~~~~~~~FR~~LL~rcQ~eFe~~~~~~~e~~ 235 (436)
-.+.+..+.++..++.|+..+++|+.+|+..|.+....... + ........+.+.+..+|+.+|.+.|.......
T Consensus 660 e~~~~~~k~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~ 739 (970)
T KOG0401|consen 660 EEDGEASKQKGEQGGRKASDEQHFSSMRAPALEKVVPSLSSDIDDKRNRGSNGELLSDSYLSARCHEEFENGWSRELPSG 739 (970)
T ss_pred ccccchhhhcccccccccCccccccccCCccccccccccccccccccccCCccccccccccchhhhhhccccccccCCCC
Confidence 35678999999999999999999999999999987654421 1 01124556788999999999999987543322
Q ss_pred hhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhccCCcHHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhhhc
Q 013803 236 KADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKKMLTERIMHECIKKLLGQYENPDEEDVEALCILMSTIGEMI 315 (436)
Q Consensus 236 k~~ee~e~~~s~eE~e~~~~k~Krr~lG~IrFIGELFk~~vLs~kII~~cI~~LL~~~~~p~Ee~IE~Lc~LL~tiG~~L 315 (436)
+..+. +.++...++ +.....+++.+|+| +......+.+.+..|+..|+...+.+...+..+.++..|.++++||..+
T Consensus 740 ~~~~~-~~e~~~~~~-~~~~~~~~~~~~~v-~~~~~~~l~~~sk~l~ee~~~~~~~~~~~~~ie~l~S~~~~~~~v~~~v 816 (970)
T KOG0401|consen 740 KDGER-EPEMMSPEY-YAAKAAKRAGLGLV-IALSSELLELLSKSLLEEFLSLRLEKEALKCIEELESPSLLLKTVGENI 816 (970)
T ss_pred ccccc-chhhcCccc-chhhhhhccCCcch-hhhhHHHHHHHHHHHHHHHHHHhhhhhhhhhhhcccchhhhHHHHHHhc
Confidence 21111 112222222 45567788999999 6666666778889999998888877666788899999999999999999
Q ss_pred cCc--cchHHHHHHHHHHH-HHhhC-------CCCChHHHHHHHHHHHHH-HcCCccccccCCCCChHHHHHHHHHHHH
Q 013803 316 DHP--KAKEHMDAYFDRME-KLSNN-------MKLSSRVRLMLKDSIELR-KNKWQQRRKVEGPKKIEEVHRDAAQERQ 383 (436)
Q Consensus 316 d~~--k~k~~md~~f~~L~-~l~~~-------~~lS~RIRFmI~dLiDLR-~nnW~~r~~~~~pkti~eih~ea~~e~~ 383 (436)
+.. +. ..+..+..+|. .++.. -..+.+..|-+.+-+.+. -..|.--....||.+++.++...+..+.
T Consensus 817 ~~~l~~~-~~~~~~~~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~d~~~d~pk~w~~~~e~~gp~~~~~~~~~~e~~~~ 894 (970)
T KOG0401|consen 817 EPTLEKS-PQAVEELLQLLDILVSKNPLSIETLEIGYREKFKLADDKELDLPKGWNYIKEFLGPLIHQKILDESELVRE 894 (970)
T ss_pred CcccccC-hhHHHHHHHHHHHHHhcCcccHHHHhhhHHHHHhhhHHHhcccccchhHHHHhhhhHhhhccccHHHHHHH
Confidence 841 11 22222222222 22211 123556666666655554 4457766666777777777777665444
No 9
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=97.93 E-value=0.00039 Score=78.58 Aligned_cols=190 Identities=16% Similarity=0.239 Sum_probs=121.6
Q ss_pred HHHHHHhhc-CCCCCCHHHHHHHHHhccccChHHHHHHHHHHHHHhhcCCchhhHHHHHHHHHHhcCCCCCCchhhhHHH
Q 013803 135 HIECRGDIG-RLNAPNFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPDFSEDNEKITFK 213 (436)
Q Consensus 135 ~r~Vk~ILN-KLTpenFd~i~~qL~~l~i~~~e~L~~VI~lIfeKAi~Ep~fs~mYA~LC~~L~~~lp~~~~~~~~~~FR 213 (436)
+..|+-++- .|+.++|+.++..+-.+.=.++++-+.+|..+..-=.-.-.--..-|.|..-|+...|++.
T Consensus 631 ~efiR~Li~~dL~k~tvd~~lkllRkl~W~D~e~~~yli~~~~k~w~iky~~i~~lA~llaGL~~y~~~fv--------- 701 (1128)
T KOG2051|consen 631 QEFIRYLIRSDLSKDTVDRVLKLLRKLDWSDPEVKQYLISCFSKPWKIKYQNIHALASLLAGLSSYHPEFV--------- 701 (1128)
T ss_pred HHHHHHHHHHHhccccHHHHHHHHHhcccccHHHHHHHHHHhhhhhccccccHHHHHHHHHHHHhhchhhh---------
Confidence 334444333 6677788888888877766676766667766653322111222334555555544333321
Q ss_pred HHHHHHHHHHHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhccCCcHHHHHHHHHHHhcCC
Q 013803 214 RLLLNKCQEEFERGEREQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKKMLTERIMHECIKKLLGQY 293 (436)
Q Consensus 214 ~~LL~rcQ~eFe~~~~~~~e~~k~~ee~e~~~s~eE~e~~~~k~Krr~lG~IrFIGELFk~~vLs~kII~~cI~~LL~~~ 293 (436)
-..+ -..+|...... |+ .....+.+++..++|+||||++.|+...+|...+-.++.--
T Consensus 702 i~VI---D~vlE~Ir~gl----------Ei---------n~~~~nQrriA~aryL~ELynfemvds~vIl~tLy~~i~~g 759 (1128)
T KOG2051|consen 702 IHVI---DHVLEDIRPGL----------EI---------NDYVSNQRRIALARYLGELYNFEMVDSDVILNTLYHLISLG 759 (1128)
T ss_pred hhhH---HHHHHHHHhhh----------hc---------CcHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHhccc
Confidence 1111 11223222110 10 01234567899999999999999999999999998888531
Q ss_pred --CC-------CCh--hhHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHHhhCC--CCChHHHHHHHHHHHHH
Q 013803 294 --EN-------PDE--EDVEALCILMSTIGEMIDHPKAKEHMDAYFDRMEKLSNNM--KLSSRVRLMLKDSIELR 355 (436)
Q Consensus 294 --~~-------p~E--e~IE~Lc~LL~tiG~~Ld~~k~k~~md~~f~~L~~l~~~~--~lS~RIRFmI~dLiDLR 355 (436)
++ |.+ .-|-.+|.||.|||..++....+..|+.|+-.++...--. ..|--+.++++|++.+-
T Consensus 760 ~~~~~~~~~ldppddlFRirlV~~lL~tc~~yf~rgs~kkkl~~fL~~fq~Y~~iKk~~~Pld~~~~f~d~~~~~ 834 (1128)
T KOG2051|consen 760 HFENLTPSALDPPDDLFRIRLVCMLLQTCGPYFTRGSTKKKLDQFLVAFQRYILIKKSQQPLDMEYEFEDFLELV 834 (1128)
T ss_pred ccCCCCcccCCChHHHHHHHHHHHHHHHcccccccchhHHHHHHHHHHHHHHhhcccccCCCchhhhHHhhhhhc
Confidence 12 333 3588999999999999997677888999888887654322 37888999999998864
No 10
>KOG1104 consensus Nuclear cap-binding complex, subunit NCBP1/CBP80 [RNA processing and modification]
Probab=95.96 E-value=0.41 Score=53.33 Aligned_cols=193 Identities=16% Similarity=0.191 Sum_probs=129.8
Q ss_pred HHHHHHHHhhcCCCCC-------CHHHHHHHHHhccccChHHHHHHHHHHHHHhhcCCchhhHHHHHHHHHHhcCCCCCC
Q 013803 133 KWHIECRGDIGRLNAP-------NFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPDFSE 205 (436)
Q Consensus 133 kl~r~Vk~ILNKLTpe-------nFd~i~~qL~~l~i~~~e~L~~VI~lIfeKAi~Ep~fs~mYA~LC~~L~~~lp~~~~ 205 (436)
.+.+.+.+..-++... |++.++.-+.+- + +..-..+++.|-.=|+.-|.=+..||-|...++.+-+
T Consensus 26 ~l~krl~~~i~~vg~~s~ss~e~~l~~l~~~l~~~-~--~~~~~~iL~~L~~ca~~lP~K~~~yaTLvgllN~kn~---- 98 (759)
T KOG1104|consen 26 TLEKRLESLIREVGEPSGSSVEDNLENLVAVLEAD-L--ENFKSKILDILNTCAVYLPEKITAYATLVGLLNLKNF---- 98 (759)
T ss_pred HHHHHHHHHHHhhcCCCCCcHHHhHHHHHHHHHhh-H--HHHHHHHHHHHHHHHHHcccchhHHHHHHHHHhccch----
Confidence 4666777777777632 333333322221 1 2244557888888899999999999999999876532
Q ss_pred chhhhHHHHHHHHHHHHHHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhccCCcHHHHHHH
Q 013803 206 DNEKITFKRLLLNKCQEEFERGEREQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKKMLTERIMHEC 285 (436)
Q Consensus 206 ~~~~~~FR~~LL~rcQ~eFe~~~~~~~e~~k~~ee~e~~~s~eE~e~~~~k~Krr~lG~IrFIGELFk~~vLs~kII~~c 285 (436)
.|-..++...-.+|...... .. -.++.+.++|++.|++-+|+...-|..+
T Consensus 99 -----~fg~~~v~~~~~~~q~sl~~----------------~~---------~n~ar~llrfL~dL~~~~vl~~~sli~l 148 (759)
T KOG1104|consen 99 -----NFGGEFVEYMIEELQESLKS----------------GN---------WNEARYLLRFLSDLSNCHVLQADSLINL 148 (759)
T ss_pred -----hhHHHHHHHHHHHHHHHhhc----------------CC---------hHHHHHHHHHHHHHhcCCccChHHHHHH
Confidence 33344444333333322110 00 0235579999999999999999998888
Q ss_pred HHHHhcCC------CCCChhhHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHHhhCCC---C------C--------h
Q 013803 286 IKKLLGQY------ENPDEEDVEALCILMSTIGEMIDHPKAKEHMDAYFDRMEKLSNNMK---L------S--------S 342 (436)
Q Consensus 286 I~~LL~~~------~~p~Ee~IE~Lc~LL~tiG~~Ld~~k~k~~md~~f~~L~~l~~~~~---l------S--------~ 342 (436)
+..|+... +.-.+..+-|+.--|--+|+.+.. +.+..|+.++..++......+ + + -
T Consensus 149 ~esl~~~~~e~~~Pqvr~D~~v~~vLs~lPw~g~el~e-~~~~~~e~ll~~ie~Yl~~R~~shi~lL~vw~~~~~~~qee 227 (759)
T KOG1104|consen 149 FESLLDAAIEENVPQVRRDYYVYCVLSSLPWFGRELNE-KKPTEMEELLVYIEIYLKKRKKSHINLLNVWSGEPDHPQEE 227 (759)
T ss_pred HHHHHHHHHhhcCcchhhhHHHHHHHhccchhhhhhcc-cchHHHHHHHHHHHHHHHHhcccccchhhcCCCCCCchHHH
Confidence 88888642 223456788888888899999975 456789999999886543211 1 1 3
Q ss_pred HHHHHHHHHHHHHHcCCcccc
Q 013803 343 RVRLMLKDSIELRKNKWQQRR 363 (436)
Q Consensus 343 RIRFmI~dLiDLR~nnW~~r~ 363 (436)
=+..+...+.-+|.|+|..++
T Consensus 228 yle~L~~qI~~lr~n~w~e~h 248 (759)
T KOG1104|consen 228 YLELLWAQIQKLRQNDWAENH 248 (759)
T ss_pred HHHHHHHHHHHHHhcCccccc
Confidence 478899999999999999854
No 11
>PF05918 API5: Apoptosis inhibitory protein 5 (API5); InterPro: IPR008383 This family consists of apoptosis inhibitory protein 5 (API5) sequences from several organisms. Apoptosis or programmed cell death is a physiological form of cell death that occurs in embryonic development and organ formation. It is characterised by biochemical and morphological changes such as DNA fragmentation and cell volume shrinkage. API5 is an anti apoptosis gene located in Homo sapiens chromosome 11, whose expression prevents the programmed cell death that occurs upon the deprivation of growth factors [,].; PDB: 3U0R_A 3V6A_A.
Probab=93.92 E-value=0.83 Score=50.02 Aligned_cols=158 Identities=17% Similarity=0.159 Sum_probs=94.3
Q ss_pred HHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhccc----cChHHHHHHHHHHHHHhhcCC----chhhHHHHHHHHHHhc
Q 013803 128 RMRNLKWHIECRGDIGRLNAPNFKKLFEQVKAVNI----DNAVTLAGVVSQIFDKALMEP----TFCEMYANFFYFLAGE 199 (436)
Q Consensus 128 ~~~~~kl~r~Vk~ILNKLTpenFd~i~~qL~~l~i----~~~e~L~~VI~lIfeKAi~Ep----~fs~mYA~LC~~L~~~ 199 (436)
.+...-+...|+.+|..+|.+.|+.+.+=|-.+.+ .+....+.+|++|+++|--+. .....+.+|...+...
T Consensus 173 ~E~e~~i~~~ikkvL~DVTaeEF~l~m~lL~~lk~~~~~~t~~g~qeLv~ii~eQa~Ld~~f~~sD~e~Idrli~C~~~A 252 (556)
T PF05918_consen 173 KEMEEFIVDEIKKVLQDVTAEEFELFMSLLKSLKIYGGKQTIEGRQELVDIIEEQADLDQPFDPSDPESIDRLISCLRQA 252 (556)
T ss_dssp HHHHHHHHHHHHHHCTT--HHHHHHHHHHHHTSGG---GSSHHHHHHHHHHHHHHHTTTS---SSSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhCccccccCChHHHHHHHHHHHHHhccCCCCCCcCHHHHHHHHHHHHHh
Confidence 33445678888999999999999999966656665 578899999999999995433 3347777887777777
Q ss_pred CCCCCCchhhhHHHHHHHHHHHHHHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhcc--CC
Q 013803 200 LPDFSEDNEKITFKRLLLNKCQEEFERGEREQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKK--ML 277 (436)
Q Consensus 200 lp~~~~~~~~~~FR~~LL~rcQ~eFe~~~~~~~e~~k~~ee~e~~~s~eE~e~~~~k~Krr~lG~IrFIGELFk~~--vL 277 (436)
+|-+......+.|-.++..+.--.|... .++ ..+-+++.++|+--+- +-
T Consensus 253 lp~fs~~v~Sskfv~y~~~kvlP~l~~l-------------------~e~----------~kl~lLk~lAE~s~~~~~~d 303 (556)
T PF05918_consen 253 LPFFSRGVSSSKFVNYMCEKVLPKLSDL-------------------PED----------RKLDLLKLLAELSPFCGAQD 303 (556)
T ss_dssp GGG-BTTB--HHHHHHHHHHTCCCTT----------------------------------HHHHHHHHHHHHHTT----T
T ss_pred hHHhcCCCChHHHHHHHHHHhcCChhhC-------------------ChH----------HHHHHHHHHHHHcCCCCccc
Confidence 7766544455667666654322222211 011 1245677788876652 22
Q ss_pred cHHHHHHHHHHHhcCCC----CCC--hhhHHHHHHHHHHHhhh
Q 013803 278 TERIMHECIKKLLGQYE----NPD--EEDVEALCILMSTIGEM 314 (436)
Q Consensus 278 s~kII~~cI~~LL~~~~----~p~--Ee~IE~Lc~LL~tiG~~ 314 (436)
...++-.+...|+.... .|+ --.||||...+...|+.
T Consensus 304 ~~~~L~~i~~~L~~ymP~~~~~~~l~fs~vEcLL~afh~La~k 346 (556)
T PF05918_consen 304 ARQLLPSIFQLLKKYMPSKKTEPKLQFSYVECLLYAFHQLARK 346 (556)
T ss_dssp HHHHHHHHHHHHHTTS----------HHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHhCCCCCCCCcccchHhhHHHHHHHHHhhh
Confidence 23333333344433211 121 25799999999888876
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=92.73 E-value=1.2 Score=37.57 Aligned_cols=63 Identities=17% Similarity=0.231 Sum_probs=45.6
Q ss_pred HHHHHHhhcCC-CCCCHHHHHHHHHhccccChHHHHHHHHHHHHHhhcC-CchhhHHHHHHHHHHhc
Q 013803 135 HIECRGDIGRL-NAPNFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALME-PTFCEMYANFFYFLAGE 199 (436)
Q Consensus 135 ~r~Vk~ILNKL-TpenFd~i~~qL~~l~i~~~e~L~~VI~lIfeKAi~E-p~fs~mYA~LC~~L~~~ 199 (436)
+++|+.+|.-- +-...+..+..|.++.+. .....||..++..+.++ +.+..+|+.|...|...
T Consensus 2 rk~i~~~l~ey~~~~d~~ea~~~l~el~~~--~~~~~vv~~~l~~~le~~~~~r~~~~~Ll~~L~~~ 66 (113)
T PF02847_consen 2 RKKIFSILMEYFSSGDVDEAVECLKELKLP--SQHHEVVKVILECALEEKKSYREYYSKLLSHLCKR 66 (113)
T ss_dssp HHHHHHHHHHHHHHT-HHHHHHHHHHTT-G--GGHHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHT
T ss_pred hHHHHHHHHHHhcCCCHHHHHHHHHHhCCC--ccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHhc
Confidence 34444444321 124677788888887666 66778999999999998 89999999999999863
No 13
>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=90.98 E-value=1.7 Score=36.84 Aligned_cols=62 Identities=18% Similarity=0.137 Sum_probs=47.5
Q ss_pred HHHHHhhcCC-CCCCHHHHHHHHHhccccChHHHHHHHHHHHHHhhcC-CchhhHHHHHHHHHHhc
Q 013803 136 IECRGDIGRL-NAPNFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALME-PTFCEMYANFFYFLAGE 199 (436)
Q Consensus 136 r~Vk~ILNKL-TpenFd~i~~qL~~l~i~~~e~L~~VI~lIfeKAi~E-p~fs~mYA~LC~~L~~~ 199 (436)
++|..+|+.- +...++..+..|.++++. ....+++..++.-|+++ +.+.++|+.|...|+..
T Consensus 3 k~i~~~l~ey~~~~D~~ea~~~l~~L~~~--~~~~~vv~~~i~~~le~~~~~~~~~~~Ll~~L~~~ 66 (113)
T smart00544 3 KKIFLIIEEYLSSGDTDEAVHCLLELKLP--EQHHEVVKVLLTCALEEKRTYREMYSVLLSRLCQA 66 (113)
T ss_pred hHHHHHHHHHHHcCCHHHHHHHHHHhCCC--cchHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHc
Confidence 4444444332 356888899999888776 36677999999999988 58999999999999853
No 14
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=89.44 E-value=4.4 Score=44.05 Aligned_cols=115 Identities=12% Similarity=0.177 Sum_probs=72.8
Q ss_pred HHHHHHHhhcCCCCCCHHHHHHHHHhccccChHHHHHHHHHHHHHhhcCCchhhHHHHHHHHHHhcCCCCCCchhhhHHH
Q 013803 134 WHIECRGDIGRLNAPNFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPDFSEDNEKITFK 213 (436)
Q Consensus 134 l~r~Vk~ILNKLTpenFd~i~~qL~~l~i~~~e~L~~VI~lIfeKAi~Ep~fs~mYA~LC~~L~~~lp~~~~~~~~~~FR 213 (436)
++++| -|--.+-=.|+.....|+.+.|.+... ++|+.+|++-+.+|..|...|.-|...++.- .....
T Consensus 454 frr~I--YLti~SSldfeEaaHKLLKmkip~~q~-~elc~mii~cc~QerTy~kFYglL~eRfc~l---------~r~~q 521 (739)
T KOG2140|consen 454 FRRTI--YLTIQSSLDFEEAAHKLLKMKIPESQE-KELCNMIIDCCAQERTYEKFYGLLGERFCML---------HREWQ 521 (739)
T ss_pred hhhhh--eeeeeccCcHHHHHHHHHhccCCchhh-HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH---------HHHHH
Confidence 44444 233334446999999999988865433 4689999999999999999999888877642 11111
Q ss_pred HHHHHHHHHHHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhccCCcHHHHHHHHH
Q 013803 214 RLLLNKCQEEFERGEREQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKKMLTERIMHECIK 287 (436)
Q Consensus 214 ~~LL~rcQ~eFe~~~~~~~e~~k~~ee~e~~~s~eE~e~~~~k~Krr~lG~IrFIGELFk~~vLs~kII~~cI~ 287 (436)
.+.=..|++.|.....- + -.+..+..+|+|+|.....|+-.++ .||.
T Consensus 522 ~~fe~~f~q~YstIhr~--E------------------------tnkLRnlakffahLlstd~lpw~vl-~~ik 568 (739)
T KOG2140|consen 522 EAFEKCFKQQYSTIHRY--E------------------------TNKLRNLAKFFAHLLSTDALPWDVL-ACIK 568 (739)
T ss_pred HHHHHHHHHHHHHHHHH--h------------------------HHHHHHHHHHHHHHhcccccchHHH-HHhh
Confidence 22222233333332110 0 0234567899999999999887765 4654
No 15
>PF07817 GLE1: GLE1-like protein; InterPro: IPR012476 The members of this family are sequences that are similar to the human protein GLE1 (O75458 from SWISSPROT). This protein is localised at the nuclear pore complexes and functions in poly(A)+ RNA export to the cytoplasm []. ; GO: 0016973 poly(A)+ mRNA export from nucleus, 0005643 nuclear pore; PDB: 3PEV_B 3RRN_B 3PEU_B 3RRM_B.
Probab=83.03 E-value=29 Score=34.29 Aligned_cols=173 Identities=14% Similarity=0.161 Sum_probs=94.0
Q ss_pred HHHHHHHHHHhhcCCCCC--CHHHHHHHHHhc-------------ccc-C----hHHHHHHHHHHHHHhhc----CCchh
Q 013803 131 NLKWHIECRGDIGRLNAP--NFKKLFEQVKAV-------------NID-N----AVTLAGVVSQIFDKALM----EPTFC 186 (436)
Q Consensus 131 ~~kl~r~Vk~ILNKLTpe--nFd~i~~qL~~l-------------~i~-~----~e~L~~VI~lIfeKAi~----Ep~fs 186 (436)
+..+++.|+.-+|.||.. .+..++.+|.++ ... + .-.|..+++.|+..|-. .|..+
T Consensus 26 ~~~~kr~I~~~vgQls~~~~qi~~i~~~i~~ll~~~~~~~~~~~~~~~~~~~~~~~~l~~lAk~iv~Q~e~ev~~~~~~A 105 (256)
T PF07817_consen 26 RFDLKRKINPKVGQLSNSSSQINRIINQISNLLSGQPVKSNDLQQSKNDHPLAYKYLLNFLAKKIVSQAETEVSANPESA 105 (256)
T ss_dssp HHHHHHHHCCHHHC--SBHHHHHHHHHHHHHH----------HHTTTT-SHHHHHHHHHHHHHHHHHHHHHHHHH-GGGH
T ss_pred HHHhhhhCcCcHhhccCcHHHHHHHHHHHHHHhhhhhhchhhhhhhccCCchHHHHHHHHHHHHHHHHHHHHhccCCchh
Confidence 457889999999999965 455556666555 111 1 23455566666666654 57888
Q ss_pred hHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHHhhH----HHHHHhhhhcchhhhh----ccHHHHHHHHHHHh
Q 013803 187 EMYANFFYFLAGELPDFSEDNEKITFKRLLLNKCQEEFERGE----REQEEANKADKEGEIK----QTEEEREEKRIKAR 258 (436)
Q Consensus 187 ~mYA~LC~~L~~~lp~~~~~~~~~~FR~~LL~rcQ~eFe~~~----~~~~e~~k~~ee~e~~----~s~eE~e~~~~k~K 258 (436)
.-+|.++..|....|++ ...|+.++...---.. .... +..++++-.. ..+.- -|.....-
T Consensus 106 ~PlA~v~~~l~~~~p~~---------~dillA~l~k~Cp~~vP~~~~~~~--~~~~e~~~k~lGyk~~~~~-~E~~~~y~ 173 (256)
T PF07817_consen 106 FPLARVAVQLWSQHPEF---------GDILLARLHKKCPYLVPKYPGFTC--DQSTEEYRKRLGYKRDDGG-WESEDQYL 173 (256)
T ss_dssp HHHHHHHHHHHHHSTCH---------HHHHHHHHHHH-GGGG----T-------SSHHHHHHTT--B-TTS-B--HHHHH
T ss_pred hhHHHHHHHHHHcCCcH---------HHHHHHHHHHcCceeEeecCcccC--CCCHHHHHHHcCCccCCCC-ccchHHHH
Confidence 88999999998887764 3455554333211000 0000 0001111000 00000 01122344
Q ss_pred hhHHHHHHHHHHHHhccC---------CcHHHHHHHHHHHhcCCCCC-ChhhHHHHHHHHHHHhhhccC
Q 013803 259 RRWLGNIRLIGELYKKKM---------LTERIMHECIKKLLGQYENP-DEEDVEALCILMSTIGEMIDH 317 (436)
Q Consensus 259 rr~lG~IrFIGELFk~~v---------Ls~kII~~cI~~LL~~~~~p-~Ee~IE~Lc~LL~tiG~~Ld~ 317 (436)
+|+-|.+++-+-+-.... .+..--=..+..+|.. .| .+-....|..+|+.+|..|-.
T Consensus 174 ~Rm~Gi~~lyaAi~~~~~~~~~~~~~p~~~~~~W~wlAr~lN~--~p~~~~~~~lL~~~Le~ag~~l~~ 240 (256)
T PF07817_consen 174 KRMTGIIRLYAAIIQTPPPKGQKTSNPHGLEHGWRWLARILNL--PPAPNITATLLHSFLEVAGFRLLQ 240 (256)
T ss_dssp HHHHHHHHHHHHHHHS---CCCCTT-SS-THHHHHHHHHHHCS---CC-HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhccCCcCCCCCCCCCcHHHHHHHHHHhCC--CCCcccHHHHHHHHHHHHHHHHHH
Confidence 789999999999987542 2223334556666653 23 466788999999999998863
No 16
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=76.15 E-value=7.9 Score=43.48 Aligned_cols=107 Identities=17% Similarity=0.222 Sum_probs=73.7
Q ss_pred hhcCCCCCCHHHHHHHHHhccccChHHHHHHHHHHHHHhhcCCchhhHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHH
Q 013803 141 DIGRLNAPNFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPDFSEDNEKITFKRLLLNKC 220 (436)
Q Consensus 141 ILNKLTpenFd~i~~qL~~l~i~~~e~L~~VI~lIfeKAi~Ep~fs~mYA~LC~~L~~~lp~~~~~~~~~~FR~~LL~rc 220 (436)
..--+|.+-|......|+.+.+.+ ....+|+.+|+.=+..|-.|-+.||-|..++|..-.. -+.+|.-.|-.++
T Consensus 625 FcsImsaeDyiDAFEklLkL~LK~-~Q~rEI~~VllhC~l~EK~yNpfYa~lA~KfCe~~~~-----~~~tfQF~~WD~f 698 (822)
T KOG2141|consen 625 FCSIMSAEDYIDAFEKLLKLSLKG-KQEREIARVLLHCCLNEKTYNPFYALLALKFCEFNKN-----LKKTFQFALWDRF 698 (822)
T ss_pred eeeeecchHHHHHHHHHHhccCCC-cchHHHHHHHHHHHhhhcccchHHHHHHHHHHHHhhh-----hHHHHHHHHHHHH
Confidence 345577888888899999888765 3445789999999999999999999999998864211 1233333332221
Q ss_pred HHHHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhccCCcHHHHH
Q 013803 221 QEEFERGEREQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKKMLTERIMH 283 (436)
Q Consensus 221 Q~eFe~~~~~~~e~~k~~ee~e~~~s~eE~e~~~~k~Krr~lG~IrFIGELFk~~vLs~kII~ 283 (436)
. +|+. ....|..+.++|+++|....+++-.|+.
T Consensus 699 ~-ele~-----------------------------ls~~ri~nLa~l~a~Li~~~~lsLtVLK 731 (822)
T KOG2141|consen 699 K-ELEQ-----------------------------LSLFRISNLAKLLASLISNAVLSLTVLK 731 (822)
T ss_pred H-Hhhh-----------------------------cchhhHhHHHHHHHHHHHhcccceeeee
Confidence 1 0111 1124567899999999999888776654
No 17
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [].
Probab=69.39 E-value=1.1e+02 Score=35.52 Aligned_cols=135 Identities=14% Similarity=0.247 Sum_probs=81.3
Q ss_pred HHHHHHhhcCCCCCCHHHHHHHHHhcc-----ccChHHHHHHHHHHHHHh----hcC-CchhhHHHHHHHHHHhcCCCCC
Q 013803 135 HIECRGDIGRLNAPNFKKLFEQVKAVN-----IDNAVTLAGVVSQIFDKA----LME-PTFCEMYANFFYFLAGELPDFS 204 (436)
Q Consensus 135 ~r~Vk~ILNKLTpenFd~i~~qL~~l~-----i~~~e~L~~VI~lIfeKA----i~E-p~fs~mYA~LC~~L~~~lp~~~ 204 (436)
+.....+|...+++...+++..|..++ ..|.+.|..+..++++.. ... |..-.+.-.||.+|..-...++
T Consensus 428 ~eel~~lL~~~~~~~~~~iI~RIrk~~hpsLa~~NK~Kl~~f~~vLlq~i~~la~~~~~~~~~~ld~L~~~L~~Laq~~p 507 (840)
T PF04147_consen 428 HEELLELLDGYSPEDQPTIIQRIRKCYHPSLAEGNKEKLQVFFGVLLQHILYLASQDSPPPFEVLDSLIPHLYDLAQKYP 507 (840)
T ss_pred HHHHHHHHhcCCHHHHhHHHHHHHHhCCCCCCcchHHHHHHHHHHHHHHHHHHhcccCCcCHHHHHHHHHHHHHHHHHHH
Confidence 677888999999999999999999875 246777776666665553 333 4444556777777654211111
Q ss_pred CchhhhHHHHHHHHHHHHHHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhc-----cCCcH
Q 013803 205 EDNEKITFKRLLLNKCQEEFERGEREQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKK-----KMLTE 279 (436)
Q Consensus 205 ~~~~~~~FR~~LL~rcQ~eFe~~~~~~~e~~k~~ee~e~~~s~eE~e~~~~k~Krr~lG~IrFIGELFk~-----~vLs~ 279 (436)
..-...|| ..|..+|..|.+...... .+ . -+ .-..|-+++.||.||-- -|+|.
T Consensus 508 -~~~a~~~r-~~L~~~~~~~~~~~l~~~--~~----~-~P-------------~l~~Lvllklv~~lFPTSD~~HpVVTP 565 (840)
T PF04147_consen 508 -EEAAECFR-EVLKEMQKRFRKGALKPK--ER----S-WP-------------SLSDLVLLKLVGTLFPTSDFRHPVVTP 565 (840)
T ss_pred -HHHHHHHH-HHHHHHHHHHhhhccccc--CC----C-CC-------------ChhHHHHHHHHHHhcCcccccCcchhH
Confidence 12234454 455677877776311000 00 0 00 01346788999999864 48888
Q ss_pred HHHHHHHHHHhcCC
Q 013803 280 RIMHECIKKLLGQY 293 (436)
Q Consensus 280 kII~~cI~~LL~~~ 293 (436)
.+++ |..+|..+
T Consensus 566 alll--m~~~L~q~ 577 (840)
T PF04147_consen 566 ALLL--MSEYLSQC 577 (840)
T ss_pred HHHH--HHHHHhcC
Confidence 7774 44555543
No 18
>cd03561 VHS VHS domain family; The VHS domain is present in Vps27 (Vacuolar Protein Sorting), Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and STAM (Signal Transducing Adaptor Molecule). It has a superhelical structure similar to that of the ARM (Armadillo) repeats and is present at the N-termini of proteins involved in intracellular membrane trafficking. There are four general groups of VHS domain containing proteins based on their association with other domains. The first group consists of proteins of the STAM/EAST/Hbp family which has the domain composition VHS-SH3-ITAM. The second consists of proteins with a FYVE domain C-terminal to VHS. The third consists of GGA proteins with a domain composition VHS-GAT (GGA and TOM)-GAE (gamma-adaptin ear) domain. The fourth consists of proteins with a VHS domain alone or with domains other than those mentioned above. In GGA proteins, VHS domains are involved in cargo recognition in trans-Golgi, thereby having a general me
Probab=54.88 E-value=1.5e+02 Score=26.05 Aligned_cols=90 Identities=16% Similarity=0.126 Sum_probs=57.8
Q ss_pred HHHHHHHHHHHhccCCcHHHHHHHHHHHhcCCCCCChhh----HHHHHHHHHHHhhhccCccchHHHHHHHHHHHHHhhC
Q 013803 262 LGNIRLIGELYKKKMLTERIMHECIKKLLGQYENPDEED----VEALCILMSTIGEMIDHPKAKEHMDAYFDRMEKLSNN 337 (436)
Q Consensus 262 lG~IrFIGELFk~~vLs~kII~~cI~~LL~~~~~p~Ee~----IE~Lc~LL~tiG~~Ld~~k~k~~md~~f~~L~~l~~~ 337 (436)
...+..|+++.+..-...+-...+|..-|+. ++... +..|=.+++.+|+.+...-+. ..++..|..+..+
T Consensus 18 ~~~il~icd~I~~~~~~~k~a~raL~krl~~---~n~~vql~AL~lLd~~vkNcg~~f~~~i~s---~~fl~~l~~l~~~ 91 (133)
T cd03561 18 WALNLELCDLINLKPNGPKEAARAIRKKIKY---GNPHVQLLALTLLELLVKNCGKPFHLQVAD---KEFLLELVKIAKN 91 (133)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHHHHHcC---CCHHHHHHHHHHHHHHHHhCChHHHHHHhh---HHHHHHHHHHhCC
Confidence 4577889999998877777777777777763 45443 444444555556655422111 2445556666554
Q ss_pred C-CCChHHHHHHHHHHHHHHc
Q 013803 338 M-KLSSRVRLMLKDSIELRKN 357 (436)
Q Consensus 338 ~-~lS~RIRFmI~dLiDLR~n 357 (436)
. ..+..||-.+..++.-...
T Consensus 92 ~~~~~~~Vk~kil~ll~~W~~ 112 (133)
T cd03561 92 SPKYDPKVREKALELILAWSE 112 (133)
T ss_pred CCCCCHHHHHHHHHHHHHHHH
Confidence 4 6789999999999985543
No 19
>cd03567 VHS_GGA VHS domain family, GGA subfamily; GGA (Golgi-localized, Gamma-ear-containing, Arf-binding) comprise a subfamily of ubiquitously expressed, monomeric, motif-binding cargo/clathrin adaptor proteins. The VHS domain has a superhelical structure similar to the structure of the ARM (Armadillo) repeats and is present at the N-termini of proteins. GGA proteins have a multidomain structure consisting of an N-terminal VHS domain linked by a short proline-rich linker to a GAT (GGA and TOM) domain, which is followed by a long flexible linker to the C-terminal appendage, GAE (gamma-adaptin ear) domain. The VHS domain of GGA proteins binds to the acidic-cluster dileucine (DxxLL) motif found on the cytoplasmic tails of cargo proteins trafficked between the trans-Golgi network and the endosomal system.
Probab=47.55 E-value=2.1e+02 Score=25.69 Aligned_cols=96 Identities=11% Similarity=0.104 Sum_probs=58.1
Q ss_pred HHHHHHHHHHHhccCCcHHHHHHHHHHHhcCCCCCChh----hHHHHHHHHHHHhhhccCcc-chHHHHHHHHHHHHHhh
Q 013803 262 LGNIRLIGELYKKKMLTERIMHECIKKLLGQYENPDEE----DVEALCILMSTIGEMIDHPK-AKEHMDAYFDRMEKLSN 336 (436)
Q Consensus 262 lG~IrFIGELFk~~vLs~kII~~cI~~LL~~~~~p~Ee----~IE~Lc~LL~tiG~~Ld~~k-~k~~md~~f~~L~~l~~ 336 (436)
.+.+.-||++.+..-...+.....|..-|. .+++. .+..|=.+++.||..+...- .+..++.+...+..-..
T Consensus 19 w~~ileicD~In~~~~~~k~a~rai~krl~---~~n~~v~l~AL~LLe~~vkNCG~~fh~evas~~Fl~el~kl~~~k~~ 95 (139)
T cd03567 19 WEAIQAFCEQINKEPEGPQLAVRLLAHKIQ---SPQEKEALQALTVLEACMKNCGERFHSEVGKFRFLNELIKLVSPKYL 95 (139)
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHHHHHc---CCCHHHHHHHHHHHHHHHHHcCHHHHHHHHhHHHHHHHHHHhccccC
Confidence 467778888888876665554455555454 34543 45555566667787775422 23455554443321111
Q ss_pred CCCCChHHHHHHHHHHHHHHcCCc
Q 013803 337 NMKLSSRVRLMLKDSIELRKNKWQ 360 (436)
Q Consensus 337 ~~~lS~RIRFmI~dLiDLR~nnW~ 360 (436)
....+..|+-.|..++........
T Consensus 96 ~~~~~~~Vk~kil~li~~W~~~f~ 119 (139)
T cd03567 96 GSRTSEKVKTKIIELLYSWTLELP 119 (139)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHhc
Confidence 235789999999999997765553
No 20
>cd03569 VHS_Hrs_Vps27p VHS domain family, Hrs and Vps27p subfamily; composed of Hrs (Hepatocyte growth factor-regulated tyrosine kinase substrate) and its yeast homolog Vps27p (vacuolar protein sorting). The VHS domain, an essential part of Hrs/Vps27p, has a superhelical structure similar to the structure of ARM (Armadillo) repeats and is present at the N-termini of proteins. Hrs also contains a FYVE (Fab1p, YOTB, Vac1p, and EEA1) zinc finger domain C-terminal to VHS, as well as two coiled-coil domains. Hrs has been proposed to play a role in at least three vesicle trafficking events: exocytosis, endocytosis, and endosome to lysosome trafficking. Hrs is involved in promoting rapid recycling of endocytosed signaling receptors to the plasma membrane.
Probab=41.01 E-value=2.6e+02 Score=25.06 Aligned_cols=93 Identities=18% Similarity=0.230 Sum_probs=59.0
Q ss_pred HHHHHHHHHHHhccCCcHHHHHHHHHHHhcCCCCCCh--hhHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHHhhCCC
Q 013803 262 LGNIRLIGELYKKKMLTERIMHECIKKLLGQYENPDE--EDVEALCILMSTIGEMIDHPKAKEHMDAYFDRMEKLSNNMK 339 (436)
Q Consensus 262 lG~IrFIGELFk~~vLs~kII~~cI~~LL~~~~~p~E--e~IE~Lc~LL~tiG~~Ld~~k~k~~md~~f~~L~~l~~~~~ 339 (436)
++.+.-||.+.+..-...+-...+|.+-|.. .+|.. ..++.|=.+++.||..+...-+ -..+++.|..++.+ +
T Consensus 22 w~~ileicD~In~~~~~~k~a~ral~krl~~-~n~~vql~AL~LLe~~vkNCG~~fh~eva---s~~fl~~l~~l~~~-~ 96 (142)
T cd03569 22 LASILEICDMIRSKDVQPKYAMRALKKRLLS-KNPNVQLYALLLLESCVKNCGTHFHDEVA---SREFMDELKDLIKT-T 96 (142)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHHHHHcC-CChHHHHHHHHHHHHHHHHCCHHHHHHHh---hHHHHHHHHHHHcc-c
Confidence 4677889999988766766665666665542 22322 3455556666677777654211 23455555555544 6
Q ss_pred CChHHHHHHHHHHHHHHcCC
Q 013803 340 LSSRVRLMLKDSIELRKNKW 359 (436)
Q Consensus 340 lS~RIRFmI~dLiDLR~nnW 359 (436)
.+.+|+-.+..+|.-.....
T Consensus 97 ~~~~Vk~kil~li~~W~~~f 116 (142)
T cd03569 97 KNEEVRQKILELIQAWALAF 116 (142)
T ss_pred CCHHHHHHHHHHHHHHHHHh
Confidence 78999999999998665443
No 21
>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=36.26 E-value=46 Score=30.17 Aligned_cols=30 Identities=23% Similarity=0.320 Sum_probs=26.4
Q ss_pred hHHHHHHHHHHHHhccCCcHHHHHHHHHHH
Q 013803 260 RWLGNIRLIGELYKKKMLTERIMHECIKKL 289 (436)
Q Consensus 260 r~lG~IrFIGELFk~~vLs~kII~~cI~~L 289 (436)
...+.+.++..|+.+|+|+...|..|+..|
T Consensus 111 l~~~f~lHl~~L~d~glLd~~~i~~c~~~l 140 (140)
T PF09733_consen 111 LRREFLLHLINLWDFGLLDARTIDECMKIL 140 (140)
T ss_pred HHHHHHHHHHHHHHcCCCCHHHHHHHHhhC
Confidence 456778999999999999999999999764
No 22
>PF08149 BING4CT: BING4CT (NUC141) domain; InterPro: IPR012952 WD-40 repeats (also known as WD or beta-transducin repeats) are short ~40 amino acid motifs, often terminating in a Trp-Asp (W-D) dipeptide. WD40 repeats usually assume a 7-8 bladed beta-propeller fold, but proteins have been found with 4 to 16 repeated units, which also form a circularised beta-propeller structure. WD-repeat proteins are a large family found in all eukaryotes and are implicated in a variety of functions ranging from signal transduction and transcription regulation to cell cycle control and apoptosis. Repeated WD40 motifs act as a site for protein-protein interaction, and proteins containing WD40 repeats are known to serve as platforms for the assembly of protein complexes or mediators of transient interplay among other proteins. The specificity of the proteins is determined by the sequences outside the repeats themselves. Examples of such complexes are G proteins (beta subunit is a beta-propeller), TAFII transcription factor, and E3 ubiquitin ligase [, ]. In Arabidopsis spp., several WD40-containing proteins act as key regulators of plant-specific developmental events. This C-terminal domain is found in the BING4 family of nucleolar WD40 repeat proteins [].
Probab=35.51 E-value=23 Score=29.20 Aligned_cols=18 Identities=11% Similarity=0.165 Sum_probs=15.4
Q ss_pred HHHHHHHHhhcCCCCCCH
Q 013803 133 KWHIECRGDIGRLNAPNF 150 (436)
Q Consensus 133 kl~r~Vk~ILNKLTpenF 150 (436)
+.+++|+++|+||-|+.+
T Consensus 59 RrE~EV~~LLeKippd~I 76 (80)
T PF08149_consen 59 RREREVRSLLEKIPPDMI 76 (80)
T ss_pred HhHHHHHHHHHhCCccce
Confidence 367899999999999875
No 23
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=32.78 E-value=3.4e+02 Score=23.82 Aligned_cols=109 Identities=15% Similarity=0.073 Sum_probs=64.9
Q ss_pred HHHHHHHHHHHhccCCcHHHHHHHHHHHhcCCCCCChhh----HHHHHHHHHHHhhhccCccchHHHHHHHHHHHHHhhC
Q 013803 262 LGNIRLIGELYKKKMLTERIMHECIKKLLGQYENPDEED----VEALCILMSTIGEMIDHPKAKEHMDAYFDRMEKLSNN 337 (436)
Q Consensus 262 lG~IrFIGELFk~~vLs~kII~~cI~~LL~~~~~p~Ee~----IE~Lc~LL~tiG~~Ld~~k~k~~md~~f~~L~~l~~~ 337 (436)
.+.+.-||++.+.+-...+....+|..=|. .+++.. +..|=.+++.||..+...-+ -..+++.|..++..
T Consensus 18 w~~~l~icD~i~~~~~~~k~a~r~l~krl~---~~n~~v~l~AL~lLe~~vkNcg~~f~~ev~---s~~fl~~L~~l~~~ 91 (133)
T smart00288 18 WELILEICDLINSTPDGPKDAVRLLKKRLN---NKNPHVALLALTLLDACVKNCGSKFHLEVA---SKEFLNELVKLIKP 91 (133)
T ss_pred HHHHHHHHHHHhCCCccHHHHHHHHHHHHc---CCCHHHHHHHHHHHHHHHHHCCHHHHHHHH---hHHHHHHHHHHHcC
Confidence 356777899999987777666666666665 355544 44445555566766653211 12344555555554
Q ss_pred CCCChHHHHHHHHHHHHHHcCCccccccCCCCChHHHHHHHH
Q 013803 338 MKLSSRVRLMLKDSIELRKNKWQQRRKVEGPKKIEEVHRDAA 379 (436)
Q Consensus 338 ~~lS~RIRFmI~dLiDLR~nnW~~r~~~~~pkti~eih~ea~ 379 (436)
....+.|+-.|..++.-....... +.+.+.+.+++++-.
T Consensus 92 ~~~~~~Vk~kil~li~~W~~~f~~---~~~~~~i~~~y~~L~ 130 (133)
T smart00288 92 KYPLPLVKKRILELIQEWADAFKN---DPDLSQIVDVYDLLK 130 (133)
T ss_pred CCCcHHHHHHHHHHHHHHHHHHcC---CCCchHHHHHHHHHH
Confidence 433344888888888755443322 455667777766543
No 24
>KOG2213 consensus Apoptosis inhibitor 5/fibroblast growth factor 2-interacting factor 2, and related proteins [Signal transduction mechanisms]
Probab=31.54 E-value=6.8e+02 Score=26.88 Aligned_cols=83 Identities=11% Similarity=0.153 Sum_probs=53.8
Q ss_pred HHHHHHHHhhcCCCCCCHHHHHHHHHhcc----ccChHHHHHHHHHHHHHhhcCC---chhhHHHHHHHHHHhcCCCCCC
Q 013803 133 KWHIECRGDIGRLNAPNFKKLFEQVKAVN----IDNAVTLAGVVSQIFDKALMEP---TFCEMYANFFYFLAGELPDFSE 205 (436)
Q Consensus 133 kl~r~Vk~ILNKLTpenFd~i~~qL~~l~----i~~~e~L~~VI~lIfeKAi~Ep---~fs~mYA~LC~~L~~~lp~~~~ 205 (436)
.+-..|+..|-.+|-+.|....+-|-++. +...+.|.+++..+=.+|-.+. .=...--+|...+...+|=|..
T Consensus 151 ~iv~eikkal~dVtgeef~lfm~~L~~lk~~~~k~~~a~lqeLa~~~e~~a~ldaf~~sD~d~VdRfisCl~~AvPfFar 230 (460)
T KOG2213|consen 151 HIVDEIKKALEDVTGEEFTLFMDILASLKSLQTKAGEARLQELAEEQEGLADLDAFNVSDADYVDRFISCLLMAVPFFAR 230 (460)
T ss_pred HHHHHHHHHHHhccHHHHHHHHHHHHhhhcccCCCCHHHHHHHHHHHhhhhccCcccCCChHHHHHHHHHHHHhhhhhhc
Confidence 45666777888888887877776666554 3457889999998888886543 2223445666666666775554
Q ss_pred chhhhHHHHH
Q 013803 206 DNEKITFKRL 215 (436)
Q Consensus 206 ~~~~~~FR~~ 215 (436)
..-++.|-.+
T Consensus 231 gapSskf~~y 240 (460)
T KOG2213|consen 231 GAPSSKFVEY 240 (460)
T ss_pred CCchhHHHHH
Confidence 4345555443
No 25
>PF04129 Vps52: Vps52 / Sac2 family ; InterPro: IPR007258 Vps52 complexes with Vps53 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=31.16 E-value=7.2e+02 Score=27.05 Aligned_cols=84 Identities=17% Similarity=0.243 Sum_probs=55.2
Q ss_pred HHHHHHHHHhccCCcHHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhhhccC-----ccchHHHHHHHHHHHHHhhCC
Q 013803 264 NIRLIGELYKKKMLTERIMHECIKKLLGQYENPDEEDVEALCILMSTIGEMIDH-----PKAKEHMDAYFDRMEKLSNNM 338 (436)
Q Consensus 264 ~IrFIGELFk~~vLs~kII~~cI~~LL~~~~~p~Ee~IE~Lc~LL~tiG~~Ld~-----~k~k~~md~~f~~L~~l~~~~ 338 (436)
...-|+.+...-+|++.+|..++. + +.+|..++++..++...=..... .++...+...+++|+..+
T Consensus 71 ~~~~L~~~i~~i~ipP~lI~~I~~----~--~v~e~~~~~~~~~~~k~~~~~~~~~~~~~~a~~d~~~~Le~L~~ka--- 141 (508)
T PF04129_consen 71 VEEKLSPFIDDIVIPPDLIRSICE----G--PVNEQYIEELLELLKKKIFFSKDQSFKDSKAIKDVKPELEKLKNKA--- 141 (508)
T ss_pred HHHHHHHHHHHHcCCHHHHHhHhc----C--CCCHHHHHHHHHHHHHHHHHHhhcccccccchHHHHHHHHHHHHHH---
Confidence 445677778888899988876665 2 57888888888887754433321 223344566677776544
Q ss_pred CCChHHH-HHHHHHHHHHHcC
Q 013803 339 KLSSRVR-LMLKDSIELRKNK 358 (436)
Q Consensus 339 ~lS~RIR-FmI~dLiDLR~nn 358 (436)
..||| |++..+-.||+.+
T Consensus 142 --~~rir~fl~~kI~~lr~~~ 160 (508)
T PF04129_consen 142 --VERIRDFLLKKIKSLRKPK 160 (508)
T ss_pred --HHHHHHHHHHHHHHHcCCC
Confidence 34554 6777788888644
No 26
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=31.01 E-value=3.1e+02 Score=28.93 Aligned_cols=61 Identities=16% Similarity=0.079 Sum_probs=33.1
Q ss_pred HHHhhcCCCCCCHHHHHHHHHhcc--ccChHHHHHHHHHHHHHhhcCCchhhHHHHHHHHHHh
Q 013803 138 CRGDIGRLNAPNFKKLFEQVKAVN--IDNAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAG 198 (436)
Q Consensus 138 Vk~ILNKLTpenFd~i~~qL~~l~--i~~~e~L~~VI~lIfeKAi~Ep~fs~mYA~LC~~L~~ 198 (436)
+.-+.+=.+++|+..++++|...- ..+.+.-..++..|..=|..-|....-|.+..-.+..
T Consensus 325 l~lL~~l~~~~n~~~Il~eL~~~l~~~~d~~~~~~~i~~I~~la~~~~~~~~~~v~~l~~ll~ 387 (526)
T PF01602_consen 325 LDLLYKLANESNVKEILDELLKYLSELSDPDFRRELIKAIGDLAEKFPPDAEWYVDTLLKLLE 387 (526)
T ss_dssp HHHHHHH--HHHHHHHHHHHHHHHHHC--HHHHHHHHHHHHHHHHHHGSSHHHHHHHHHHHHH
T ss_pred HHHHhhcccccchhhHHHHHHHHHHhccchhhhhhHHHHHHHHHhccCchHHHHHHHHHHhhh
Confidence 344444445788888888887643 2244455556666665555445545555555555443
No 27
>cd03568 VHS_STAM VHS domain family, STAM subfamily; members include STAM (Signal Transducing Adaptor Molecule), EAST (EGFR-associated protein with SH3 and TAM domains) and Hbp (Hrs-binding protein). Collectively, they are referred to as STAM. All STAMs have at their N-termini a VHS domain, which is involved in cytokine-mediated intracellular signal transduction and has a superhelical structure similar to the structure of ARM (Armadillo) repeats, followed by a SH3 (Src homology 3) domain, a well-established protein-protein interaction domain. At the C-termini of most vertebrate STAMS, an ITAM (Immunoreceptor Tyrosine-based Activation) motif is present, which mediates the binding of HRS (hepatocyte growth factor-regulated tyrosine kinase substrate) in endocytic and exocytic machineries.
Probab=30.65 E-value=4e+02 Score=23.96 Aligned_cols=107 Identities=14% Similarity=0.172 Sum_probs=64.7
Q ss_pred HHHHHHHHHHHhccCCcHHHHHHHHHHHhcCCCCCChh----hHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHHhhC
Q 013803 262 LGNIRLIGELYKKKMLTERIMHECIKKLLGQYENPDEE----DVEALCILMSTIGEMIDHPKAKEHMDAYFDRMEKLSNN 337 (436)
Q Consensus 262 lG~IrFIGELFk~~vLs~kII~~cI~~LL~~~~~p~Ee----~IE~Lc~LL~tiG~~Ld~~k~k~~md~~f~~L~~l~~~ 337 (436)
++.+.=||.+.+..-...+-...+|.+-|. .++.. .+..|=.+++.||..+...-+ -..+++.|..++..
T Consensus 18 w~~il~icD~I~~~~~~~k~a~ral~KRl~---~~n~~v~l~AL~LLe~~vkNCG~~fh~eva---sk~Fl~eL~kl~~~ 91 (144)
T cd03568 18 WGLILDVCDKVKSDENGAKDCLKAIMKRLN---HKDPNVQLRALTLLDACAENCGKRFHQEVA---SRDFTQELKKLIND 91 (144)
T ss_pred HHHHHHHHHHHhcCCccHHHHHHHHHHHHc---CCCHHHHHHHHHHHHHHHHHCCHHHHHHHh---hHHHHHHHHHHhcc
Confidence 467777899998876666655555555554 34443 455555566667776653222 13455556666554
Q ss_pred CCCChHHHHHHHHHHHHHHcCCccccccCCCCChHHHHHHH
Q 013803 338 MKLSSRVRLMLKDSIELRKNKWQQRRKVEGPKKIEEVHRDA 378 (436)
Q Consensus 338 ~~lS~RIRFmI~dLiDLR~nnW~~r~~~~~pkti~eih~ea 378 (436)
. .+..|+-.|..+|.-....... +.....|.+++++-
T Consensus 92 ~-~~~~Vk~kil~li~~W~~~f~~---~~~l~~i~~~y~~L 128 (144)
T cd03568 92 R-VHPTVKEKLREVVKQWADEFKN---DPSLSLMSDLYKKL 128 (144)
T ss_pred c-CCHHHHHHHHHHHHHHHHHhCC---CcccHHHHHHHHHH
Confidence 4 7889999999999875544431 22334455555543
No 28
>KOG1831 consensus Negative regulator of transcription [Transcription]
Probab=26.66 E-value=94 Score=37.77 Aligned_cols=67 Identities=16% Similarity=0.161 Sum_probs=51.8
Q ss_pred HHHHHHHHHHhhcCCCCCCHHHHHHHHHhccccChHHHHHHHHHHHH-HhhcCCchhhHHHHHHHHHHhc
Q 013803 131 NLKWHIECRGDIGRLNAPNFKKLFEQVKAVNIDNAVTLAGVVSQIFD-KALMEPTFCEMYANFFYFLAGE 199 (436)
Q Consensus 131 ~~kl~r~Vk~ILNKLTpenFd~i~~qL~~l~i~~~e~L~~VI~lIfe-KAi~Ep~fs~mYA~LC~~L~~~ 199 (436)
-..+..+|-.+||.||..||-.-++++.+. -+++...-+..-|.- ++-.|++|-++|.++...|...
T Consensus 376 ~e~v~dkilF~lNNlsq~N~~qKvdevk~~--ltp~y~~Wfs~YiV~qR~S~E~Nf~~LYskFi~ai~n~ 443 (1591)
T KOG1831|consen 376 PEDVVDKILFPLNNLSQLNFNQKVDEVKEI--LTPEYYPWFSQYIVTQRVSKEINFHELYSKFISAIKNS 443 (1591)
T ss_pred chhhhhhheeeechHhhhhhHHHHHHHHHH--cChhhHHHHHHHHhhhhhhcccchHHHHHHHHHHHhCc
Confidence 346889999999999999999999999763 233444445444443 5778999999999999998654
No 29
>KOG4728 consensus Anti-apoptotic Bcl-2 family proteins, prevent opening of mitochondrial porin channel [Signal transduction mechanisms]
Probab=25.58 E-value=1.4e+02 Score=28.10 Aligned_cols=66 Identities=11% Similarity=0.104 Sum_probs=49.2
Q ss_pred HHHHHHHhhcCCCCCCHHHHHHHHHhccccChHHHHHHHHHHHHHhhcCC---chhhHHHHHHHHHHhc
Q 013803 134 WHIECRGDIGRLNAPNFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALMEP---TFCEMYANFFYFLAGE 199 (436)
Q Consensus 134 l~r~Vk~ILNKLTpenFd~i~~qL~~l~i~~~e~L~~VI~lIfeKAi~Ep---~fs~mYA~LC~~L~~~ 199 (436)
..+.+=..+++.-+.+|.++++||.-.+.+..+....|+..+|+-.+.-- .+-..++.||....+.
T Consensus 62 ~Lr~~Gd~~e~r~~s~F~t~~~qL~it~~~a~~~f~~V~~~lF~~Gi~wg~~va~~~~~g~la~~~~~~ 130 (176)
T KOG4728|consen 62 VLRRAGDEFERRYRSVFKTMLDQLHITPEDAYDSFSQVANELFEDGINWGRRVALLIFGGGLAVHSVQI 130 (176)
T ss_pred HHHHhhHHHHHHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHhccccccceeeeehhhHHHHHHHHHh
Confidence 44555567888889999999999875555556788899999999998744 3555567777776654
No 30
>TIGR02132 phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR subunit. This model describes a protein, PhaR, localized to polyhydroxyalkanoic acid (PHA) inclusion granules in Bacillus cereus and related species. PhaR is required for PHA biosynthesis along with PhaC and may be a regulatory subunit.
Probab=25.17 E-value=6e+02 Score=24.18 Aligned_cols=53 Identities=25% Similarity=0.451 Sum_probs=41.4
Q ss_pred cHHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhhhccCccchHHHHHHHHHHH
Q 013803 278 TERIMHECIKKLLGQYENPDEEDVEALCILMSTIGEMIDHPKAKEHMDAYFDRME 332 (436)
Q Consensus 278 s~kII~~cI~~LL~~~~~p~Ee~IE~Lc~LL~tiG~~Ld~~k~k~~md~~f~~L~ 332 (436)
--+++.+.....|.....|+-++|.-+..++..+-..+|. -...++..|+.+.
T Consensus 51 yQKafnE~MekYLe~lNlPSr~DiarvA~lvinlE~kvD~--lee~fdd~~d~l~ 103 (189)
T TIGR02132 51 YQKALNDTTGNYLEQVNVPTKEDIANVASLVINLEEKVDL--IEEFFDDKFDELE 103 (189)
T ss_pred HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHH
Confidence 4456666777777777789999999999999999999885 2356777777777
No 31
>PF06716 DUF1201: Protein of unknown function (DUF1201); InterPro: IPR009591 This entry consists of several Beet yellows virus (BYV) putative membrane-binding proteins of around 54 residues in length. The function of this currently unknown.
Probab=24.97 E-value=63 Score=23.99 Aligned_cols=13 Identities=46% Similarity=1.267 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHh
Q 013803 422 YYLCLVVLIWWWV 434 (436)
Q Consensus 422 ~~~~~~~~~~~~~ 434 (436)
|..|+|+.||+.+
T Consensus 20 Fl~~~~~F~~F~~ 32 (54)
T PF06716_consen 20 FLFCLVVFIWFVY 32 (54)
T ss_pred HHHHHHHHHHHHH
Confidence 4568888888765
No 32
>PF14676 FANCI_S2: FANCI solenoid 2; PDB: 3S51_A 3S4Z_A 3S4W_A.
Probab=22.97 E-value=1.4e+02 Score=27.56 Aligned_cols=55 Identities=20% Similarity=0.425 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHhcc-CCcHHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhhhccC
Q 013803 262 LGNIRLIGELYKKK-MLTERIMHECIKKLLGQYENPDEEDVEALCILMSTIGEMIDH 317 (436)
Q Consensus 262 lG~IrFIGELFk~~-vLs~kII~~cI~~LL~~~~~p~Ee~IE~Lc~LL~tiG~~Ld~ 317 (436)
+| +.++-++|+.+ .....|+..|+..++.....|....++||-.+..+.-..+.+
T Consensus 37 LG-~~IL~~~fk~h~~~r~~Ile~l~~rI~~~s~~~~~~~idlL~~lv~~~p~~vle 92 (158)
T PF14676_consen 37 LG-IQILLELFKVHEMIRSEILEQLLNRIVTKSSSPSSQYIDLLSELVRKAPLTVLE 92 (158)
T ss_dssp HH-HHHHHHHHHH-GGGHHHHHHHHHHHHHH--SS--HHHHHHHHHHHHH-HHHHS-
T ss_pred HH-HHHHHHHHHHhHHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHChHHHHH
Confidence 55 47899999754 667779999999999875556677899998888887766653
No 33
>PHA01513 mnt Mnt
Probab=22.92 E-value=3.4e+02 Score=22.50 Aligned_cols=67 Identities=22% Similarity=0.293 Sum_probs=45.6
Q ss_pred HHHHHHHhccccChHHHHHHHHHHHHHhhcCCchhhHHHHHHHHHHhcCCCCCCchhhhHHHHHHHHHHHHHHHh
Q 013803 152 KLFEQVKAVNIDNAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPDFSEDNEKITFKRLLLNKCQEEFER 226 (436)
Q Consensus 152 ~i~~qL~~l~i~~~e~L~~VI~lIfeKAi~Ep~fs~mYA~LC~~L~~~lp~~~~~~~~~~FR~~LL~rcQ~eFe~ 226 (436)
.+.+.|....-.++.-++.-|..+++.|+..|....-|++=...+... +.-.|+..++..+...|.+
T Consensus 15 eLk~rL~~aA~~nGRSmNaeIv~~Le~al~~~~~~~g~~~~~~~~a~~--------~~~~~~~~~~~~l~~~~~~ 81 (82)
T PHA01513 15 ELKEKLKQRAKANGRSLNAELVQIVQDALSKPSPVTGYRDDAERLADE--------QSELVKKMVFDTLKDLYKK 81 (82)
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCcchhhHHHHHHHHHH--------HHHHHHHHHHHHHHHHhcc
Confidence 344445444445666777788888899998887777776655555442 3557899998888777653
No 34
>KOG2171 consensus Karyopherin (importin) beta 3 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=22.53 E-value=1.4e+03 Score=27.57 Aligned_cols=201 Identities=14% Similarity=0.178 Sum_probs=105.8
Q ss_pred HHHHHHHHHHHhhcCCCCCCHHHHHHHHHhcccc-C----hHHHHHHHHHHHHHhhcCCchhhHHHHHHHHHHhcCCCCC
Q 013803 130 RNLKWHIECRGDIGRLNAPNFKKLFEQVKAVNID-N----AVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPDFS 204 (436)
Q Consensus 130 ~~~kl~r~Vk~ILNKLTpenFd~i~~qL~~l~i~-~----~e~L~~VI~lIfeKAi~Ep~fs~mYA~LC~~L~~~lp~~~ 204 (436)
+-..++|-+...-++|+.++-..|..+|+..-.. + ...+-.||..|+...+.| .|-++-.-|.......-+.+
T Consensus 57 aaVl~Rkl~~~~w~~l~~e~~~siks~lL~~~~~E~~~~vr~k~~dviAeia~~~l~e-~WPell~~L~q~~~S~~~~~- 134 (1075)
T KOG2171|consen 57 AAVLLRKLLTKHWSRLSAEVQQSIKSSLLEIIQSETEPSVRHKLADVIAEIARNDLPE-KWPELLQFLFQSTKSPNPSL- 134 (1075)
T ss_pred HHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHhcccc-chHHHHHHHHHHhcCCCcch-
Confidence 3345666666688888988888888888775321 1 245556777777777777 67666555555543321111
Q ss_pred CchhhhHHHHHHHHHHHHHHHhhHHHHH-H----hhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHH-------
Q 013803 205 EDNEKITFKRLLLNKCQEEFERGEREQE-E----ANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELY------- 272 (436)
Q Consensus 205 ~~~~~~~FR~~LL~rcQ~eFe~~~~~~~-e----~~k~~ee~e~~~s~eE~e~~~~k~Krr~lG~IrFIGELF------- 272 (436)
..+.| .+|..|-..|.+....-. . ..+.-.+. .+. -+..+ ..+...|+-.|=
T Consensus 135 ---rE~al--~il~s~~~~~~~~~~~~~~~l~~lf~q~~~d~---s~~-----vr~~a---~rA~~a~~~~~~~~~~~~~ 198 (1075)
T KOG2171|consen 135 ---RESAL--LILSSLPETFGNTLQPHLDDLLRLFSQTMTDP---SSP-----VRVAA---VRALGAFAEYLENNKSEVD 198 (1075)
T ss_pred ---hHHHH--HHHHhhhhhhccccchhHHHHHHHHHHhccCC---cch-----HHHHH---HHHHHHHHHHhccchHHHH
Confidence 11111 133333333332221000 0 00000000 000 01111 112333443331
Q ss_pred hccCCcHHHHHHHHHHHhcCCC-CCChhhHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHHhhCCCCChHHHHHHHHH
Q 013803 273 KKKMLTERIMHECIKKLLGQYE-NPDEEDVEALCILMSTIGEMIDHPKAKEHMDAYFDRMEKLSNNMKLSSRVRLMLKDS 351 (436)
Q Consensus 273 k~~vLs~kII~~cI~~LL~~~~-~p~Ee~IE~Lc~LL~tiG~~Ld~~k~k~~md~~f~~L~~l~~~~~lS~RIRFmI~dL 351 (436)
+...+=.++| .++..++.... +-...-+|+|..|+.+.++.+. +++..+++-.-.++.+..+..-+|.+...+
T Consensus 199 ~~~~llP~~l-~vl~~~i~~~d~~~a~~~l~~l~El~e~~pk~l~-----~~l~~ii~~~l~Ia~n~~l~~~~R~~ALe~ 272 (1075)
T KOG2171|consen 199 KFRDLLPSLL-NVLQEVIQDGDDDAAKSALEALIELLESEPKLLR-----PHLSQIIQFSLEIAKNKELENSIRHLALEF 272 (1075)
T ss_pred HHHHHhHHHH-HHhHhhhhccchHHHHHHHHHHHHHHhhchHHHH-----HHHHHHHHHHHHHhhcccccHHHHHHHHHH
Confidence 1112222233 34455554210 0113568999999999988875 678999999999999988988888887776
Q ss_pred HHH
Q 013803 352 IEL 354 (436)
Q Consensus 352 iDL 354 (436)
|=-
T Consensus 273 ivs 275 (1075)
T KOG2171|consen 273 LVS 275 (1075)
T ss_pred HHH
Confidence 643
No 35
>PF07055 Eno-Rase_FAD_bd: Enoyl reductase FAD binding domain; InterPro: IPR010758 This family contains a number of bacterial putative reductases. ; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3S8M_A 3ZU5_A 3ZU3_A 3ZU4_A 3ZU2_A.
Probab=21.28 E-value=83 Score=24.94 Aligned_cols=23 Identities=22% Similarity=0.226 Sum_probs=18.7
Q ss_pred HHHHHHHHhhcCCCCCCHHHHHH
Q 013803 133 KWHIECRGDIGRLNAPNFKKLFE 155 (436)
Q Consensus 133 kl~r~Vk~ILNKLTpenFd~i~~ 155 (436)
.++.+|..+..++|.+||..+.+
T Consensus 18 dvQ~~V~~lw~~it~en~~el~D 40 (65)
T PF07055_consen 18 DVQAEVAELWEQITTENFKELGD 40 (65)
T ss_dssp HHHHHHHHHHCCT-CCCHHHHS-
T ss_pred HHHHHHHHHHHHhccccHHHHHh
Confidence 58899999999999999987753
Done!