Query 017537
Match_columns 369
No_of_seqs 182 out of 602
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 09:27:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017537.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017537hhsearch_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 7.7E-41 1.7E-45 366.4 15.2 252 61-316 343-599 (970)
2 PF02854 MIF4G: MIF4G domain; 100.0 2.6E-34 5.6E-39 259.5 20.2 198 69-291 2-209 (209)
3 smart00543 MIF4G Middle domain 100.0 9.1E-30 2E-34 229.9 22.5 192 69-291 2-200 (200)
4 KOG2140 Uncharacterized conser 99.8 3.6E-18 7.9E-23 172.2 15.3 191 66-296 163-353 (739)
5 KOG2141 Protein involved in hi 99.6 2.5E-14 5.4E-19 148.9 19.7 203 61-295 313-524 (822)
6 KOG3942 MIF4G domain-containin 99.2 1.1E-10 2.5E-15 111.8 13.8 170 97-297 163-338 (348)
7 KOG2051 Nonsense-mediated mRNA 98.8 1.6E-07 3.5E-12 102.1 15.4 184 70-288 426-614 (1128)
8 KOG0401 Translation initiation 98.4 4.7E-08 1E-12 108.8 0.3 244 69-315 629-893 (970)
9 KOG2051 Nonsense-mediated mRNA 98.0 0.00025 5.5E-09 78.0 17.1 191 67-288 630-834 (1128)
10 PF05918 API5: Apoptosis inhib 96.9 0.042 9.1E-07 58.2 16.9 153 66-247 178-346 (556)
11 KOG1104 Nuclear cap-binding co 95.2 1.4 3E-05 47.9 18.0 193 66-296 26-248 (759)
12 PF02847 MA3: MA3 domain; Int 90.5 4.1 8.9E-05 33.3 10.4 62 69-132 3-66 (113)
13 smart00544 MA3 Domain in DAP-5 85.2 7.4 0.00016 31.9 8.7 62 69-132 3-66 (113)
14 PF12300 DUF3628: Protein of u 62.1 16 0.00035 32.7 4.9 24 299-322 33-56 (180)
15 KOG3293 Small nuclear ribonucl 55.9 19 0.00041 30.9 4.1 10 341-350 115-124 (134)
16 PF07817 GLE1: GLE1-like prote 54.4 2E+02 0.0044 27.4 15.1 170 67-250 29-240 (256)
17 KOG2140 Uncharacterized conser 48.4 2.2E+02 0.0048 30.6 11.3 102 82-220 467-568 (739)
18 KOG2141 Protein involved in hi 48.3 64 0.0014 35.6 7.6 105 76-216 627-731 (822)
19 PF04147 Nop14: Nop14-like fam 47.2 4.3E+02 0.0094 29.9 14.3 127 68-216 428-569 (840)
20 cd03561 VHS VHS domain family; 41.5 2.2E+02 0.0048 24.1 10.9 90 195-290 18-112 (133)
21 smart00288 VHS Domain present 40.6 2.3E+02 0.005 24.1 10.6 109 195-312 18-130 (133)
22 PF09733 VEFS-Box: VEFS-Box of 37.4 46 0.001 29.2 3.9 30 193-222 111-140 (140)
23 cd03568 VHS_STAM VHS domain fa 36.3 2.9E+02 0.0063 24.1 10.5 107 195-311 18-128 (144)
24 cd03569 VHS_Hrs_Vps27p VHS dom 36.3 2.9E+02 0.0062 24.0 9.4 91 195-292 22-116 (142)
25 KOG2003 TPR repeat-containing 32.5 2E+02 0.0044 30.5 8.0 26 195-220 626-651 (840)
26 PRK10930 FtsH protease regulat 31.1 1.9E+02 0.004 30.0 7.7 12 299-310 36-47 (419)
27 KOG1924 RhoA GTPase effector D 29.7 5.9E+02 0.013 28.9 11.2 90 67-161 777-879 (1102)
28 PRK11546 zraP zinc resistance 26.3 4E+02 0.0086 23.6 7.8 26 264-289 77-103 (143)
29 PF00790 VHS: VHS domain; Int 25.6 4.2E+02 0.0092 22.6 9.3 91 196-292 24-120 (140)
30 PF05841 Apc15p: Apc15p protei 25.2 1.7E+02 0.0036 25.0 5.2 39 273-311 77-115 (125)
31 KOG3293 Small nuclear ribonucl 24.0 1.6E+02 0.0035 25.3 4.8 11 334-344 112-122 (134)
32 PF14676 FANCI_S2: FANCI solen 23.1 1.5E+02 0.0033 26.4 4.7 54 195-249 37-91 (158)
33 KOG4728 Anti-apoptotic Bcl-2 f 22.2 2.6E+02 0.0056 25.6 6.1 64 69-132 64-130 (176)
34 PF01031 Dynamin_M: Dynamin ce 21.5 2.5E+02 0.0054 27.1 6.3 100 207-309 187-289 (295)
35 PTZ00009 heat shock 70 kDa pro 21.2 5.3E+02 0.012 28.1 9.4 78 229-310 512-597 (653)
36 KOG1877 Putative transmembrane 20.6 2.4E+02 0.0051 31.8 6.5 53 100-159 14-67 (819)
37 KOG2213 Apoptosis inhibitor 5/ 20.6 9.8E+02 0.021 25.0 15.8 81 68-149 153-241 (460)
No 1
>KOG0401 consensus Translation initiation factor 4F, ribosome/mRNA-bridging subunit (eIF-4G) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=7.7e-41 Score=366.45 Aligned_cols=252 Identities=40% Similarity=0.689 Sum_probs=220.2
Q ss_pred HhhhhhHHHHHHHhhccCChhcHHHHHHHHHhcccCChHHHHHHHHHHHHHhhcCCCchHHHHHHHHHhhh--cCCCCCC
Q 017537 61 RMRNLKWHIECRGDIGRLNAPNFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAG--ELPDFSE 138 (369)
Q Consensus 61 ~~~~~kl~~~Vk~iLNKLTp~nFd~l~~ql~~l~i~~~e~L~~vI~lIfeKAi~Ep~fs~mYA~LC~~L~~--~l~~~~~ 138 (369)
...++.+.+.|++|||||||.+|+.+..+++...+++.+.++++|.+|||||+.||+||++||+||..|.. ..|....
T Consensus 343 ~~~~~el~~~vrsilnkltp~~~~~l~~q~~~~~i~t~~~l~~vi~~vfdkAi~EP~f~~~yA~lc~~l~~~~~~~~~~~ 422 (970)
T KOG0401|consen 343 VELKEELAKRVRSLLNKLTPERKELLIEQLIELNVDTDDALKEVIELVFDKAINEPTFCAMYARLCFDLEGPPSEPELDM 422 (970)
T ss_pred hHHHHHHHHHHhhhcCCCchHHHHHHHHHHHhhccCcHHHHhHHHHHHHHhhhcccccchhcchhcccccCCccCCCcCC
Confidence 35556678999999999999999999999999999999999999999999999999999999999999987 2233344
Q ss_pred ChhhhHHHHHHHHHHHHHHHhhH-HHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhccCCcHHHHHH
Q 017537 139 DNEKITFKRLLLNKCQEEFERGE-REQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKKMLTERIMHE 217 (369)
Q Consensus 139 ~~~~~~FR~~LL~rcQ~eFe~~~-~~~~e~~k~~ee~e~~~s~eE~ee~~~k~krr~lG~i~FIGELfk~~lLte~Ii~~ 217 (369)
++...+||+.||++||.+|+... ....+.....+. ...++++++.+..+++|.+|+++|||+||+..|++++|||.
T Consensus 423 ~~~~~~fr~~lL~rcq~~fe~~~~~~~~~~~~~~~~---~~~e~~le~~k~~~~~rtlgn~~~ig~l~~~~ml~e~i~~~ 499 (970)
T KOG0401|consen 423 GGDEINFRRLLLNRCQKEFEGEDDKIADEYSEAEEP---DELEEELEEEKYILRRRTLGNFRFIGELFKLKMLTEKIVHA 499 (970)
T ss_pred CCCcccHHHHHHHHhHHHhhcccHHHHHHhhhhcCc---hhHHHHHHhccceecCCccchHHHHHHHHHHHHHHHHHHHH
Confidence 56788999999999999999876 222222222111 12567788888999999999999999999999999999999
Q ss_pred HHHHHhcCCCCCChhhHHHHHHHHHHHhhhhcCccchHH-HHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHcCCcccc
Q 017537 218 CIKKLLGQYENPDEEDVEALCILMSTIGEMIDHPKAKEH-MDAYFDRMEKLSNNMKLSSRVRLMLKDSIELRKNKWQQRR 296 (369)
Q Consensus 218 cI~~LL~~~~~p~Ee~IE~Lc~LL~tiG~~Ld~~k~k~~-md~~F~~L~~l~~~~~ls~RiRFmI~dlidLR~nnW~~r~ 296 (369)
|+..||...+ |+|+++||+|.|++|+|..+|..+.+.. ||.||.+++.+...+..++|+|||+++++|||.++|++|+
T Consensus 500 ~v~~Ll~~~~-~~ee~ie~lc~f~~tig~~lD~~~~s~r~md~~~~~~k~~~~~~~~s~r~RfM~~~~idlR~~~w~~rr 578 (970)
T KOG0401|consen 500 CVQKLLSDDQ-PSEESIECLCRFLTTIGKKLDFSKESPRNMDEYFNSMKNLKRKPQRSNRIRFMLQSVIDLRKSGWGPRR 578 (970)
T ss_pred HHHHhhcccc-ccchhhhhHHhhhhcccccccccCcccchhHHHHHHHHHhhhhhhhccchhhhhccccccccccccchh
Confidence 9999998532 8999999999999999999998666666 9999999999999999999999999999999999999999
Q ss_pred cccCCC-ChHHHHHHHHHHHH
Q 017537 297 KVEGPK-KIEEVHRDAAQERQ 316 (369)
Q Consensus 297 ~~~~pk-ti~~ih~ea~~e~~ 316 (369)
..+++. +|++||.++..+.+
T Consensus 579 ~~~~~~~~ieei~~~~~~~~~ 599 (970)
T KOG0401|consen 579 AEETNDKPIEEIAPEAPSANR 599 (970)
T ss_pred cccCCCCchhhcchhhhhhcc
Confidence 998887 99999999987765
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=2.6e-34 Score=259.49 Aligned_cols=198 Identities=38% Similarity=0.700 Sum_probs=174.8
Q ss_pred HHHHHhhccCChhcHHHHHHHHHhcccC-ChHHHHHHHHHHHHHhhcCCCchHHHHHHHHHhhhcCCCCCCChhhhHHHH
Q 017537 69 IECRGDIGRLNAPNFKKLFEQVKAVNID-NAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPDFSEDNEKITFKR 147 (369)
Q Consensus 69 ~~Vk~iLNKLTp~nFd~l~~ql~~l~i~-~~e~L~~vI~lIfeKAi~Ep~fs~mYA~LC~~L~~~l~~~~~~~~~~~FR~ 147 (369)
|+++++|||||++||+.+++++..+... +++.++.+++.||++|+.+|+|+++||+||..|+...| ..|+.
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 6899999999999999999999998765 48999999999999999999999999999999988653 58999
Q ss_pred HHHHHHHHHHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhccCCcHHHHHHHHHHHhcCCC
Q 017537 148 LLLNKCQEEFERGEREQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKKMLTERIMHECIKKLLGQYE 227 (369)
Q Consensus 148 ~LL~rcQ~eFe~~~~~~~e~~k~~ee~e~~~s~eE~ee~~~k~krr~lG~i~FIGELfk~~lLte~Ii~~cI~~LL~~~~ 227 (369)
.|+++||++|+.... .++.++.....+++..|+++||||||+.++++++++++|+..|+....
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 112233445667789999999999999999999999999999998543
Q ss_pred C-----CChhhHHHHHHHHHHHhhhhc-CccchHHHHHHHHHHHHHhhC---CCCCHHHHHHHHHHHHHHHcC
Q 017537 228 N-----PDEEDVEALCILMSTIGEMID-HPKAKEHMDAYFDRMEKLSNN---MKLSSRVRLMLKDSIELRKNK 291 (369)
Q Consensus 228 ~-----p~Ee~IE~Lc~LL~tiG~~Ld-~~k~k~~md~~F~~L~~l~~~---~~ls~RiRFmI~dlidLR~nn 291 (369)
. +++++|||+|.+|.++|+.|+ .+..+..|+.+|..++....+ +.+++|+|||+++++|+|++|
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 2 567999999999999999999 445678999999999998887 799999999999999999986
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=9.1e-30 Score=229.93 Aligned_cols=192 Identities=34% Similarity=0.552 Sum_probs=169.8
Q ss_pred HHHHHhhccCChhcHHHHHHHHHhcccCChHHHHHHHHHHHHHhhcCCCchHHHHHHHHHhhhcCCCCCCChhhhHHHHH
Q 017537 69 IECRGDIGRLNAPNFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPDFSEDNEKITFKRL 148 (369)
Q Consensus 69 ~~Vk~iLNKLTp~nFd~l~~ql~~l~i~~~e~L~~vI~lIfeKAi~Ep~fs~mYA~LC~~L~~~l~~~~~~~~~~~FR~~ 148 (369)
+++++++||||++||+.+++++..+...+++..+.+++.||++|+.+|+|+++||+||..+....+ .|+..
T Consensus 2 ~~v~~~lnkLs~~n~~~~~~~l~~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~ya~L~~~l~~~~~---------~f~~~ 72 (200)
T smart00543 2 KKVKGLINKLSPSNFESIIKELLKLNNSDKNLRKYILELIFEKAVEEPNFIPAYARLCALLNAKNP---------DFGSL 72 (200)
T ss_pred hHHHHHHhhCCHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHHHH---------HHHHH
Confidence 578999999999999999999999988888999999999999999999999999999999987542 79999
Q ss_pred HHHHHHHHHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhccCCcHHHHHHHHHHHhcCCCC
Q 017537 149 LLNKCQEEFERGEREQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKKMLTERIMHECIKKLLGQYEN 228 (369)
Q Consensus 149 LL~rcQ~eFe~~~~~~~e~~k~~ee~e~~~s~eE~ee~~~k~krr~lG~i~FIGELfk~~lLte~Ii~~cI~~LL~~~~~ 228 (369)
+++.||++|++.... .+...++++.|+++||||||+.++++..++++|+..|+.....
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 1123456789999999999999999999999999999986433
Q ss_pred ----CChhhHHHHHHHHHHHhhhhcCccchHHHHHHHHHHHHHhhCC---CCCHHHHHHHHHHHHHHHcC
Q 017537 229 ----PDEEDVEALCILMSTIGEMIDHPKAKEHMDAYFDRMEKLSNNM---KLSSRVRLMLKDSIELRKNK 291 (369)
Q Consensus 229 ----p~Ee~IE~Lc~LL~tiG~~Ld~~k~k~~md~~F~~L~~l~~~~---~ls~RiRFmI~dlidLR~nn 291 (369)
+++.++||+|.+|.++|+.|+++..+..|+.+|+.++....+. .+++|+|||+++++|+|++.
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 3458999999999999999995456789999999999988776 79999999999999999863
No 4
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=99.77 E-value=3.6e-18 Score=172.20 Aligned_cols=191 Identities=20% Similarity=0.394 Sum_probs=170.9
Q ss_pred hHHHHHHHhhccCChhcHHHHHHHHHhcccCChHHHHHHHHHHHHHhhcCCCchHHHHHHHHHhhhcCCCCCCChhhhHH
Q 017537 66 KWHIECRGDIGRLNAPNFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPDFSEDNEKITF 145 (369)
Q Consensus 66 kl~~~Vk~iLNKLTp~nFd~l~~ql~~l~i~~~e~L~~vI~lIfeKAi~Ep~fs~mYA~LC~~L~~~l~~~~~~~~~~~F 145 (369)
.+++.|.+++||++.+|+..++.+++..||-.+..| +...|++....-|.|+++||.|.+.|...+|.+.
T Consensus 163 alkksInglInkvn~sNi~~ii~eLfqeNiirgRgl--~crsv~~aq~asp~ft~vyaALvAviNskfP~Ig-------- 232 (739)
T KOG2140|consen 163 ALKKSINGLINKVNASNIQEIIRELFQENIIRGRGL--LCRSVMQAQAASPGFTPVYAALVAVINSKFPQIG-------- 232 (739)
T ss_pred HHHHHhHHHHhhhhHHHHHHHHHHHHHHHHHhccch--hHHHHHHHHhcCCCCcHHHHHHHHHHccCCchHH--------
Confidence 456899999999999999999999999999888888 8999999999999999999999999999998764
Q ss_pred HHHHHHHHHHHHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhccCCcHHHHHHHHHHHhcC
Q 017537 146 KRLLLNKCQEEFERGEREQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKKMLTERIMHECIKKLLGQ 225 (369)
Q Consensus 146 R~~LL~rcQ~eFe~~~~~~~e~~k~~ee~e~~~s~eE~ee~~~k~krr~lG~i~FIGELfk~~lLte~Ii~~cI~~LL~~ 225 (369)
.+||.+..-.|.+.++.. -+-.++..++||++|+++++.++-+..+++.-||.
T Consensus 233 -ElLlkrLilqf~r~f~Rn-------------------------Dk~~c~~~~kfiahLinq~VahEIv~Leil~lLLe- 285 (739)
T KOG2140|consen 233 -ELLLKRLILQFKRSFRRN-------------------------DKVSCLNASKFIAHLINQQVAHEIVALEILTLLLE- 285 (739)
T ss_pred -HHHHHHHHHHHHHHhccc-------------------------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-
Confidence 577777777787766532 12358899999999999999999999999999998
Q ss_pred CCCCChhhHHHHHHHHHHHhhhhcCccchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHcCCcccc
Q 017537 226 YENPDEEDVEALCILMSTIGEMIDHPKAKEHMDAYFDRMEKLSNNMKLSSRVRLMLKDSIELRKNKWQQRR 296 (369)
Q Consensus 226 ~~~p~Ee~IE~Lc~LL~tiG~~Ld~~k~k~~md~~F~~L~~l~~~~~ls~RiRFmI~dlidLR~nnW~~r~ 296 (369)
.|++++||.++.+|+.||..|-. .++..++.+|++++.+.....++.|++|||+.++..|+.+++...
T Consensus 286 --~PTddSvevaI~flkecGakL~~-VSpr~~n~IfErlR~ILhe~Eld~rvqy~iEtlf~iRkdkfk~~p 353 (739)
T KOG2140|consen 286 --RPTDDSVEVAIAFLKECGAKLAE-VSPRALNGIFERLRYILHEGELDRRVQYMIETLFQIRKDKFKSHP 353 (739)
T ss_pred --CCCCchHHHHHHHHHHHHHHHHH-hChHHHhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHhhccCC
Confidence 79999999999999999999975 356789999999999999999999999999999999999988754
No 5
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=99.62 E-value=2.5e-14 Score=148.91 Aligned_cols=203 Identities=19% Similarity=0.325 Sum_probs=154.3
Q ss_pred HhhhhhHHHHHHHhhccCChhcHHHHHHHHHhcccCChH-HHHHHHHHHHHHhhcCC-----CchHHHHHHHHHhhhcCC
Q 017537 61 RMRNLKWHIECRGDIGRLNAPNFKKLFEQVKAVNIDNAV-TLAGVVSQIFDKALMEP-----TFCEMYANFFYFLAGELP 134 (369)
Q Consensus 61 ~~~~~kl~~~Vk~iLNKLTp~nFd~l~~ql~~l~i~~~e-~L~~vI~lIfeKAi~Ep-----~fs~mYA~LC~~L~~~l~ 134 (369)
.+.-++++++|+|+||||+..|+..|+..|..++..++. ..+.-+.-...+|+..| .++..||.|...|+...
T Consensus 313 sE~l~rl~rkv~g~LNKLSdaNi~~I~~~i~~Ly~~~sr~~v~~sLtk~l~~~~~~~~~~ld~~~~~y~AL~~~l~~~v- 391 (822)
T KOG2141|consen 313 SEQLQRLRRKVNGSLNKLSDANIIKIIAGIAELYMNNSRYDVTSSLTKLLLKALLGPFRLLDSLLTTYAALAAMLHTMV- 391 (822)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHH-
Confidence 344567899999999999999999999999999875442 23333444444555544 57889999999997643
Q ss_pred CCCCChhhhHHHHHHHHHHHHHHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhccCCcHHH
Q 017537 135 DFSEDNEKITFKRLLLNKCQEEFERGEREQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKKMLTERI 214 (369)
Q Consensus 135 ~~~~~~~~~~FR~~LL~rcQ~eFe~~~~~~~e~~k~~ee~e~~~s~eE~ee~~~k~krr~lG~i~FIGELfk~~lLte~I 214 (369)
+..|-..++....+.|-...+...+. ... -+.+.+.+.|+++||+.+++.+.+
T Consensus 392 -------g~eigahf~q~~ve~f~~~~~~~~~~---------~~~-----------~K~~~Nl~~~l~ylynF~ivs~~L 444 (822)
T KOG2141|consen 392 -------GNEIGAHFLQTFVEDFLKSYKEEEEM---------DLK-----------DKSLNNIVLFLSYLYNFGIVSCSL 444 (822)
T ss_pred -------hhHHHHHHHHHHHHHHHHHHHHHHhc---------ccc-----------cchhhhHHHHHHHHHHhhcccHHH
Confidence 23444555666666676665432110 000 245889999999999999999999
Q ss_pred HHHHHHHHhcCCCCCChhhHHHHHHHHHHHhhhhcCccchHHHHHHHHHHHHHhhCCC---CCHHHHHHHHHHHHHHHcC
Q 017537 215 MHECIKKLLGQYENPDEEDVEALCILMSTIGEMIDHPKAKEHMDAYFDRMEKLSNNMK---LSSRVRLMLKDSIELRKNK 291 (369)
Q Consensus 215 i~~cI~~LL~~~~~p~Ee~IE~Lc~LL~tiG~~Ld~~k~k~~md~~F~~L~~l~~~~~---ls~RiRFmI~dlidLR~nn 291 (369)
|+++|..|.. +++|-++||+..++..||..|..+. +..+.++...++..+.+.+ .++|+|||+..+..|++|+
T Consensus 445 iydiI~kl~~---~l~e~~ve~ll~ii~~~G~~LRkDD-p~alk~~i~eiq~~a~~a~~s~~~pR~rFmleti~aLKnN~ 520 (822)
T KOG2141|consen 445 IYDIIRKLAE---NLNETNVEALLTIIANCGFSLRKDD-PLALKDIITEIQSKAASAKISAISPRLRFMLETISALKNNK 520 (822)
T ss_pred HHHHHHHHHh---chhhhhHHHHHHHHHHccchhcCCC-hHHHHHHHHHHHHHhhcCCccccchHHHHHHHHHHHHhcCC
Confidence 9999999998 7999999999999999999998754 3677888887777655432 4799999999999999988
Q ss_pred Cccc
Q 017537 292 WQQR 295 (369)
Q Consensus 292 W~~r 295 (369)
-.+.
T Consensus 521 ~kki 524 (822)
T KOG2141|consen 521 LKKI 524 (822)
T ss_pred CcCC
Confidence 7665
No 6
>KOG3942 consensus MIF4G domain-containing protein [Translation, ribosomal structure and biogenesis]
Probab=99.24 E-value=1.1e-10 Score=111.80 Aligned_cols=170 Identities=18% Similarity=0.146 Sum_probs=137.8
Q ss_pred ChHHHHHHHHHHHHHhhcCCCchHHHHHHHHHhhhcCCCCCCChhhhHHHHHHHHHHHHHHHhhHHHHHHhhhhcchhhh
Q 017537 97 NAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPDFSEDNEKITFKRLLLNKCQEEFERGEREQEEANKADKEGEI 176 (369)
Q Consensus 97 ~~e~L~~vI~lIfeKAi~Ep~fs~mYA~LC~~L~~~l~~~~~~~~~~~FR~~LL~rcQ~eFe~~~~~~~e~~k~~ee~e~ 176 (369)
+.+.|-.++-.|..+|++...|.-.-++||..+..... .++.|++.||+.|++.|+-...-
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 34778888999999999999999999999999976532 35679999999999999965321
Q ss_pred hccHHHHHHHHHHHhhhHHHHHHHHHHHHhcc-----CCcHHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhhhhcCc
Q 017537 177 KQTEEEREEKRIKARRRWLGNIRLIGELYKKK-----MLTERIMHECIKKLLGQYENPDEEDVEALCILMSTIGEMIDHP 251 (369)
Q Consensus 177 ~~s~eE~ee~~~k~krr~lG~i~FIGELfk~~-----lLte~Ii~~cI~~LL~~~~~p~Ee~IE~Lc~LL~tiG~~Ld~~ 251 (369)
+ +....|++++|.|++|||..- ++-..+++.|++.|+... +-.+..+||+...|...|..++.
T Consensus 224 --~--------s~~~~rw~~fisfltelf~nlgs~p~~vL~~~l~~cl~~llrsp-d~~~~e~ecl~~~L~~~g~dle~- 291 (348)
T KOG3942|consen 224 --S--------SLASCRWWRFISFLTELFDNLGSCPQVVLQRSLRLCLQILLRSP-DWPEFEYECLSMKLAVEGLDLEK- 291 (348)
T ss_pred --c--------chhHHHHHHHHHHHHHHHhhcCCCChhhHHHHHHHHHHHHccCC-CcchHHHHHHHHHHHHcCccchh-
Confidence 1 123468999999999999875 566678999999999853 44578999999999999999986
Q ss_pred cchHHHHHHHHHHHHHhhCCCCCH-HHHHHHHHHHHHHHcCCccccc
Q 017537 252 KAKEHMDAYFDRMEKLSNNMKLSS-RVRLMLKDSIELRKNKWQQRRK 297 (369)
Q Consensus 252 k~k~~md~~F~~L~~l~~~~~ls~-RiRFmI~dlidLR~nnW~~r~~ 297 (369)
.-+..|..+|...++......-|- -+|.++..+|+|.++.|+++..
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 355788999998888655554443 3599999999999999999743
No 7
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=98.75 E-value=1.6e-07 Score=102.11 Aligned_cols=184 Identities=18% Similarity=0.307 Sum_probs=135.2
Q ss_pred HHHHhhccCC----hhcHHHHHHHHHhcccCChHHHHHHHHHHHHHhhcCCCchHHHHHHHHHhhhcCCCCCCChhhhHH
Q 017537 70 ECRGDIGRLN----APNFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPDFSEDNEKITF 145 (369)
Q Consensus 70 ~Vk~iLNKLT----p~nFd~l~~ql~~l~i~~~e~L~~vI~lIfeKAi~Ep~fs~mYA~LC~~L~~~l~~~~~~~~~~~F 145 (369)
.+.+.|-+|- -+=+|..+-++... .++...=+.+++.+|.-.-+.-...+.|++|.+.|...+|++.
T Consensus 426 ~~d~Fl~~L~~~vsrdliD~~a~ef~~n-lNtKa~RkrLvKal~~vprt~ldllPyYsRlVAtl~~~M~dva-------- 496 (1128)
T KOG2051|consen 426 NVDCFLLDLPNCVSRDLIDQAAIEFCSN-LNTKANRKRLVKALFVVPRTRLDLLPYYSRLVATLSKCMPDVA-------- 496 (1128)
T ss_pred HHHHHHccCcchHHHHHHHHHHHHHHHH-hccHHHHHHHHHhhhcccchhhhhhhHHHHHHHHHHhhhhHHH--------
Confidence 4444444443 33344444444332 6677777888999988777777788999999999988776543
Q ss_pred HHHHHHHHHHHHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhccCCcHHHHHHHHHHHhcC
Q 017537 146 KRLLLNKCQEEFERGEREQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKKMLTERIMHECIKKLLGQ 225 (369)
Q Consensus 146 R~~LL~rcQ~eFe~~~~~~~e~~k~~ee~e~~~s~eE~ee~~~k~krr~lG~i~FIGELfk~~lLte~Ii~~cI~~LL~~ 225 (369)
.-|++..-++|........ +.+-| ..+-+|+|||||.|.++++..-++.|++.|+.+
T Consensus 497 -t~lv~~L~~eFr~~~hkK~------------q~~ie----------tk~~~VrfIsEL~KF~lv~~~~if~cLk~ll~d 553 (1128)
T KOG2051|consen 497 -TELVTMLRKEFRSHLHKKA------------QINIE----------TKLKIVRFISELCKFQLVPKFEIFSCLKMLLND 553 (1128)
T ss_pred -HHHHHHHHHHHHHHHhhhh------------hhhhh----------hhhhhhhhHHhhhhhCccChHHHHHHHHHHHHh
Confidence 5677777778876543210 00001 235689999999999999999999999999985
Q ss_pred CCCCChhhHHHHHHHHHHHhhhhc-CccchHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHH
Q 017537 226 YENPDEEDVEALCILMSTIGEMID-HPKAKEHMDAYFDRMEKLSNNMKLSSRVRLMLKDSIELR 288 (369)
Q Consensus 226 ~~~p~Ee~IE~Lc~LL~tiG~~Ld-~~k~k~~md~~F~~L~~l~~~~~ls~RiRFmI~dlidLR 288 (369)
. .-.+||.+|.||++||..|- .|.++-.|...+++|........+.+|-.-+|.+.+-+=
T Consensus 554 F---~~hnIEm~c~lLE~~GrfLlr~pEt~lrM~~~Le~i~rkK~a~~lDsr~~~~iENay~~~ 614 (1128)
T KOG2051|consen 554 F---THHNIEMACVLLESCGRFLLRSPETKLRMRVFLEQIKRKKRASALDSRQATLIENAYYLC 614 (1128)
T ss_pred c---ccccHHHHHHHHHhcchhhhcChhHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHhHHhc
Confidence 4 44469999999999999876 477788899999999977666778888888888877653
No 8
>KOG0401 consensus Translation initiation factor 4F, ribosome/mRNA-bridging subunit (eIF-4G) [Translation, ribosomal structure and biogenesis]
Probab=98.42 E-value=4.7e-08 Score=108.79 Aligned_cols=244 Identities=20% Similarity=0.253 Sum_probs=174.5
Q ss_pred HHHHHhhccCChhcHHHHHHHHHhc-----ccCChHHHHHHHHHHHHHhhcCCCchHHHHHHHHHhhhcCCC-CC-----
Q 017537 69 IECRGDIGRLNAPNFKKLFEQVKAV-----NIDNAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPD-FS----- 137 (369)
Q Consensus 69 ~~Vk~iLNKLTp~nFd~l~~ql~~l-----~i~~~e~L~~vI~lIfeKAi~Ep~fs~mYA~LC~~L~~~l~~-~~----- 137 (369)
+.+.+.++++++++|+.+...+... ...+.+..+.++..++.++..+|+|+.+|+..|.+....... +.
T Consensus 629 ~~~~~~~~~~~~e~~~~i~~~~~~~~~~~~~e~~~~~~k~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~ 708 (970)
T KOG0401|consen 629 RKGKSGLRKLTPEMFDKISDPILDIADQSMDEEDGEASKQKGEQGGRKASDEQHFSSMRAPALEKVVPSLSSDIDDKRNR 708 (970)
T ss_pred cccccccccCChhhcccccccccccchhhccccccchhhhcccccccccCccccccccCCcccccccccccccccccccc
Confidence 6779999999999999999998754 345788999999999999999999999999999987654321 11
Q ss_pred CChhhhHHHHHHHHHHHHHHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhccCCcHHHHHH
Q 017537 138 EDNEKITFKRLLLNKCQEEFERGEREQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKKMLTERIMHE 217 (369)
Q Consensus 138 ~~~~~~~FR~~LL~rcQ~eFe~~~~~~~e~~k~~ee~e~~~s~eE~ee~~~k~krr~lG~i~FIGELfk~~lLte~Ii~~ 217 (369)
...+...+.+.+..+|+.+|.+.+.......+..+. +.+...+++ +.....+++.+|++ +......+.+.+..|+..
T Consensus 709 g~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~-~~e~~~~~~-~~~~~~~~~~~~~v-~~~~~~~l~~~sk~l~ee 785 (970)
T KOG0401|consen 709 GSNGELLSDSYLSARCHEEFENGWSRELPSGKDGER-EPEMMSPEY-YAAKAAKRAGLGLV-IALSSELLELLSKSLLEE 785 (970)
T ss_pred CCccccccccccchhhhhhccccccccCCCCccccc-chhhcCccc-chhhhhhccCCcch-hhhhHHHHHHHHHHHHHH
Confidence 122455788899999999999998764322221111 112222222 44556778899999 777777778899999999
Q ss_pred HHHHHhcCCCCCChhhHHHHHHHHHHHhhhhcCc--cc---hHHHHHHHHHHHH----HhhCCCCCHHHHHHHHHHHHHH
Q 017537 218 CIKKLLGQYENPDEEDVEALCILMSTIGEMIDHP--KA---KEHMDAYFDRMEK----LSNNMKLSSRVRLMLKDSIELR 288 (369)
Q Consensus 218 cI~~LL~~~~~p~Ee~IE~Lc~LL~tiG~~Ld~~--k~---k~~md~~F~~L~~----l~~~~~ls~RiRFmI~dlidLR 288 (369)
|+...+.+...+..+.++..|.++++||..++.. +. ..++-.++..+-. ....-..+.+..|-+.|-+.++
T Consensus 786 ~~~~~~~~~~~~~ie~l~S~~~~~~~v~~~v~~~l~~~~~~~~~~~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~d~~~d 865 (970)
T KOG0401|consen 786 FLSLRLEKEALKCIEELESPSLLLKTVGENIEPTLEKSPQAVEELLQLLDILVSKNPLSIETLEIGYREKFKLADDKELD 865 (970)
T ss_pred HHHHhhhhhhhhhhhcccchhhhHHHHHHhcCcccccChhHHHHHHHHHHHHHhcCcccHHHHhhhHHHHHhhhHHHhcc
Confidence 9998887766788899999999999999999852 22 2222222222211 0111134667777777777766
Q ss_pred -HcCCcccccccCCCChHHHHHHHHHHH
Q 017537 289 -KNKWQQRRKVEGPKKIEEVHRDAAQER 315 (369)
Q Consensus 289 -~nnW~~r~~~~~pkti~~ih~ea~~e~ 315 (369)
-++|.--....||.+++.++...+..+
T Consensus 866 ~pk~w~~~~e~~gp~~~~~~~~~~e~~~ 893 (970)
T KOG0401|consen 866 LPKGWNYIKEFLGPLIHQKILDESELVR 893 (970)
T ss_pred cccchhHHHHhhhhHhhhccccHHHHHH
Confidence 557888888889999888888876544
No 9
>KOG2051 consensus Nonsense-mediated mRNA decay 2 protein [RNA processing and modification]
Probab=97.98 E-value=0.00025 Score=77.96 Aligned_cols=191 Identities=16% Similarity=0.240 Sum_probs=125.5
Q ss_pred HHHHHHHhhc-cCChhcHHHHHHHHHhcccCChHHHHHHHHHHHHHhhcCCCchHHHHHHHHHhhhcCCCCCCChhhhHH
Q 017537 67 WHIECRGDIG-RLNAPNFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPDFSEDNEKITF 145 (369)
Q Consensus 67 l~~~Vk~iLN-KLTp~nFd~l~~ql~~l~i~~~e~L~~vI~lIfeKAi~Ep~fs~mYA~LC~~L~~~l~~~~~~~~~~~F 145 (369)
.+..+|.++- .|+.++|+.++.++-.+.=.++++-..++..+..-=.-.-+--..-|.|..-|....|++.
T Consensus 630 ~~efiR~Li~~dL~k~tvd~~lkllRkl~W~D~e~~~yli~~~~k~w~iky~~i~~lA~llaGL~~y~~~fv-------- 701 (1128)
T KOG2051|consen 630 MQEFIRYLIRSDLSKDTVDRVLKLLRKLDWSDPEVKQYLISCFSKPWKIKYQNIHALASLLAGLSSYHPEFV-------- 701 (1128)
T ss_pred HHHHHHHHHHHHhccccHHHHHHHHHhcccccHHHHHHHHHHhhhhhccccccHHHHHHHHHHHHhhchhhh--------
Confidence 3456666554 6777788888888887777777777667766654332222223444555555554444331
Q ss_pred HHHHHHHHHHHHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhccCCcHHHHHHHHHHHhcC
Q 017537 146 KRLLLNKCQEEFERGEREQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKKMLTERIMHECIKKLLGQ 225 (369)
Q Consensus 146 R~~LL~rcQ~eFe~~~~~~~e~~k~~ee~e~~~s~eE~ee~~~k~krr~lG~i~FIGELfk~~lLte~Ii~~cI~~LL~~ 225 (369)
-..+ -..+|...... ++ .....+.|++..++|+||||+..|+...+|...+-.++..
T Consensus 702 -i~VI---D~vlE~Ir~gl-Ei------------------n~~~~nQrriA~aryL~ELynfemvds~vIl~tLy~~i~~ 758 (1128)
T KOG2051|consen 702 -IHVI---DHVLEDIRPGL-EI------------------NDYVSNQRRIALARYLGELYNFEMVDSDVILNTLYHLISL 758 (1128)
T ss_pred -hhhH---HHHHHHHHhhh-hc------------------CcHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHhcc
Confidence 1111 12233322211 00 0123456789999999999999999999999988888853
Q ss_pred C--CC-------CChh--hHHHHHHHHHHHhhhhcCccchHHHHHHHHHHHHHhhCC--CCCHHHHHHHHHHHHHH
Q 017537 226 Y--EN-------PDEE--DVEALCILMSTIGEMIDHPKAKEHMDAYFDRMEKLSNNM--KLSSRVRLMLKDSIELR 288 (369)
Q Consensus 226 ~--~~-------p~Ee--~IE~Lc~LL~tiG~~Ld~~k~k~~md~~F~~L~~l~~~~--~ls~RiRFmI~dlidLR 288 (369)
. ++ |.++ -|-.+|.+|.|||+.++.-+.+..|+.|+-..+...--. ..|--+.++.+|.+.+-
T Consensus 759 g~~~~~~~~~ldppddlFRirlV~~lL~tc~~yf~rgs~kkkl~~fL~~fq~Y~~iKk~~~Pld~~~~f~d~~~~~ 834 (1128)
T KOG2051|consen 759 GHFENLTPSALDPPDDLFRIRLVCMLLQTCGPYFTRGSTKKKLDQFLVAFQRYILIKKSQQPLDMEYEFEDFLELV 834 (1128)
T ss_pred cccCCCCcccCCChHHHHHHHHHHHHHHHcccccccchhHHHHHHHHHHHHHHhhcccccCCCchhhhHHhhhhhc
Confidence 2 12 3232 488899999999999997777889999988888754333 37888889999888764
No 10
>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=96.92 E-value=0.042 Score=58.17 Aligned_cols=153 Identities=18% Similarity=0.192 Sum_probs=91.9
Q ss_pred hHHHHHHHhhccCChhcHHHHHHHHHhccc----CChHHHHHHHHHHHHHhhcCCCc----hHHHHHHHHHhhhcCCCCC
Q 017537 66 KWHIECRGDIGRLNAPNFKKLFEQVKAVNI----DNAVTLAGVVSQIFDKALMEPTF----CEMYANFFYFLAGELPDFS 137 (369)
Q Consensus 66 kl~~~Vk~iLNKLTp~nFd~l~~ql~~l~i----~~~e~L~~vI~lIfeKAi~Ep~f----s~mYA~LC~~L~~~l~~~~ 137 (369)
-+...++.+|..+|.+.|+.+++=+-.+.+ .+.+....++++|.++|--+..| .....++...+...+|-+.
T Consensus 178 ~i~~~ikkvL~DVTaeEF~l~m~lL~~lk~~~~~~t~~g~qeLv~ii~eQa~Ld~~f~~sD~e~Idrli~C~~~Alp~fs 257 (556)
T PF05918_consen 178 FIVDEIKKVLQDVTAEEFELFMSLLKSLKIYGGKQTIEGRQELVDIIEEQADLDQPFDPSDPESIDRLISCLRQALPFFS 257 (556)
T ss_dssp HHHHHHHHHCTT--HHHHHHHHHHHHTSGG---GSSHHHHHHHHHHHHHHHTTTS---SSSHHHHHHHHHHHHHHGGG-B
T ss_pred HHHHHHHHHHHhccHHHHHHHHHHHHhCccccccCChHHHHHHHHHHHHHhccCCCCCCcCHHHHHHHHHHHHHhhHHhc
Confidence 356889999999999999999976666766 57888999999999999543333 4777888888877777665
Q ss_pred CChhhhHHHHHHHHHHHHHHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhcc--CCcHHHH
Q 017537 138 EDNEKITFKRLLLNKCQEEFERGEREQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKK--MLTERIM 215 (369)
Q Consensus 138 ~~~~~~~FR~~LL~rcQ~eFe~~~~~~~e~~k~~ee~e~~~s~eE~ee~~~k~krr~lG~i~FIGELfk~~--lLte~Ii 215 (369)
.....+.|-.++..+.--.|... +++ ..+-.++.++|+--+- .-....+
T Consensus 258 ~~v~Sskfv~y~~~kvlP~l~~l-------------------~e~----------~kl~lLk~lAE~s~~~~~~d~~~~L 308 (556)
T PF05918_consen 258 RGVSSSKFVNYMCEKVLPKLSDL-------------------PED----------RKLDLLKLLAELSPFCGAQDARQLL 308 (556)
T ss_dssp TTB--HHHHHHHHHHTCCCTT----------------------------------HHHHHHHHHHHHHTT----THHHHH
T ss_pred CCCChHHHHHHHHHHhcCChhhC-------------------ChH----------HHHHHHHHHHHHcCCCCcccHHHHH
Confidence 54455666666654322222211 011 2345677777776652 1123333
Q ss_pred HHHHHHHhcCCCC----CC--hhhHHHHHHHHHHHhhh
Q 017537 216 HECIKKLLGQYEN----PD--EEDVEALCILMSTIGEM 247 (369)
Q Consensus 216 ~~cI~~LL~~~~~----p~--Ee~IE~Lc~LL~tiG~~ 247 (369)
-.+...|+...+. |+ --.||||...+...|+.
T Consensus 309 ~~i~~~L~~ymP~~~~~~~l~fs~vEcLL~afh~La~k 346 (556)
T PF05918_consen 309 PSIFQLLKKYMPSKKTEPKLQFSYVECLLYAFHQLARK 346 (556)
T ss_dssp HHHHHHHHTTS----------HHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHhCCCCCCCCcccchHhhHHHHHHHHHhhh
Confidence 3333444332211 21 14699999999998875
No 11
>KOG1104 consensus Nuclear cap-binding complex, subunit NCBP1/CBP80 [RNA processing and modification]
Probab=95.21 E-value=1.4 Score=47.94 Aligned_cols=193 Identities=15% Similarity=0.153 Sum_probs=127.8
Q ss_pred hHHHHHHHhhccCC-------hhcHHHHHHHHHhcccCChHHHHHHHHHHHHHhhcCCCchHHHHHHHHHhhhcCCCCCC
Q 017537 66 KWHIECRGDIGRLN-------APNFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPDFSE 138 (369)
Q Consensus 66 kl~~~Vk~iLNKLT-------p~nFd~l~~ql~~l~i~~~e~L~~vI~lIfeKAi~Ep~fs~mYA~LC~~L~~~l~~~~~ 138 (369)
.+-+.+.+..-++. .+|.+.++.-+.+- -+..-..+++.+-.=|+.-|.=...||-|...++.+-+.
T Consensus 26 ~l~krl~~~i~~vg~~s~ss~e~~l~~l~~~l~~~---~~~~~~~iL~~L~~ca~~lP~K~~~yaTLvgllN~kn~~--- 99 (759)
T KOG1104|consen 26 TLEKRLESLIREVGEPSGSSVEDNLENLVAVLEAD---LENFKSKILDILNTCAVYLPEKITAYATLVGLLNLKNFN--- 99 (759)
T ss_pred HHHHHHHHHHHhhcCCCCCcHHHhHHHHHHHHHhh---HHHHHHHHHHHHHHHHHHcccchhHHHHHHHHHhccchh---
Confidence 34466677666666 23444443333221 122445678888888999999999999999998765332
Q ss_pred ChhhhHHHHHHHHHHHHHHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhccCCcHHHHHHH
Q 017537 139 DNEKITFKRLLLNKCQEEFERGEREQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKKMLTERIMHEC 218 (369)
Q Consensus 139 ~~~~~~FR~~LL~rcQ~eFe~~~~~~~e~~k~~ee~e~~~s~eE~ee~~~k~krr~lG~i~FIGELfk~~lLte~Ii~~c 218 (369)
|-.-++...-.+|...... ... .+..+.++|++.|++.+++...-+...
T Consensus 100 ------fg~~~v~~~~~~~q~sl~~----------------~~~---------n~ar~llrfL~dL~~~~vl~~~sli~l 148 (759)
T KOG1104|consen 100 ------FGGEFVEYMIEELQESLKS----------------GNW---------NEARYLLRFLSDLSNCHVLQADSLINL 148 (759)
T ss_pred ------hHHHHHHHHHHHHHHHhhc----------------CCh---------HHHHHHHHHHHHHhcCCccChHHHHHH
Confidence 3333333333333321110 000 135689999999999999999988888
Q ss_pred HHHHhcCC------CCCChhhHHHHHHHHHHHhhhhcCccchHHHHHHHHHHHHHhhCCC---------------CC--H
Q 017537 219 IKKLLGQY------ENPDEEDVEALCILMSTIGEMIDHPKAKEHMDAYFDRMEKLSNNMK---------------LS--S 275 (369)
Q Consensus 219 I~~LL~~~------~~p~Ee~IE~Lc~LL~tiG~~Ld~~k~k~~md~~F~~L~~l~~~~~---------------ls--~ 275 (369)
...|+... +.-.+-.+-|+..-|--+|+.|.. +.+..|+.++..++.....++ .. -
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 112344588888888889999975 456789999998887543221 11 2
Q ss_pred HHHHHHHHHHHHHHcCCcccc
Q 017537 276 RVRLMLKDSIELRKNKWQQRR 296 (369)
Q Consensus 276 RiRFmI~dlidLR~nnW~~r~ 296 (369)
=++.+...+..+|.|+|...+
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 478899999999999999853
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=90.47 E-value=4.1 Score=33.32 Aligned_cols=62 Identities=18% Similarity=0.232 Sum_probs=45.1
Q ss_pred HHHHHhhccC-ChhcHHHHHHHHHhcccCChHHHHHHHHHHHHHhhcC-CCchHHHHHHHHHhhhc
Q 017537 69 IECRGDIGRL-NAPNFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALME-PTFCEMYANFFYFLAGE 132 (369)
Q Consensus 69 ~~Vk~iLNKL-Tp~nFd~l~~ql~~l~i~~~e~L~~vI~lIfeKAi~E-p~fs~mYA~LC~~L~~~ 132 (369)
++++.+|..- .-.+.+..+..|.++... .....+|..+++.+.++ +.+.++|+.|...|...
T Consensus 3 k~i~~~l~ey~~~~d~~ea~~~l~el~~~--~~~~~vv~~~l~~~le~~~~~r~~~~~Ll~~L~~~ 66 (113)
T PF02847_consen 3 KKIFSILMEYFSSGDVDEAVECLKELKLP--SQHHEVVKVILECALEEKKSYREYYSKLLSHLCKR 66 (113)
T ss_dssp HHHHHHHHHHHHHT-HHHHHHHHHHTT-G--GGHHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHhCCC--ccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHhc
Confidence 4444444321 134677788888877666 67778999999999999 89999999999999763
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=85.19 E-value=7.4 Score=31.88 Aligned_cols=62 Identities=19% Similarity=0.158 Sum_probs=47.0
Q ss_pred HHHHHhhcc-CChhcHHHHHHHHHhcccCChHHHHHHHHHHHHHhhcC-CCchHHHHHHHHHhhhc
Q 017537 69 IECRGDIGR-LNAPNFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALME-PTFCEMYANFFYFLAGE 132 (369)
Q Consensus 69 ~~Vk~iLNK-LTp~nFd~l~~ql~~l~i~~~e~L~~vI~lIfeKAi~E-p~fs~mYA~LC~~L~~~ 132 (369)
+++..+|+. ++.+.++..+..|.+++.. .....++..++.-++++ +.+.++|+.|...|...
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 334444432 2356888888899888776 46777999999999998 58999999999999853
No 14
>PF12300 DUF3628: Protein of unknown function (DUF3628); InterPro: IPR022077 Proteins in this entry are DEAD Box RhlB RNA Helicases found in Xanthomonadaceae bacteria.; GO: 0016817 hydrolase activity, acting on acid anhydrides
Probab=62.14 E-value=16 Score=32.68 Aligned_cols=24 Identities=25% Similarity=0.437 Sum_probs=17.3
Q ss_pred cCCCChHHHHHHHHHHHHHHHhhc
Q 017537 299 EGPKKIEEVHRDAAQERQAQASRL 322 (369)
Q Consensus 299 ~~pkti~~ih~ea~~e~~~~~~~~ 322 (369)
++--++.+|-+||-.++.+++.|-
T Consensus 33 ~~gdSVG~IfreAReqraA~E~RR 56 (180)
T PF12300_consen 33 EAGDSVGTIFREAREQRAADEQRR 56 (180)
T ss_pred ccCchHHHHHHHHHHHHHHHHHhh
Confidence 456789999999876666655544
No 15
>KOG3293 consensus Small nuclear ribonucleoprotein (snRNP) [RNA processing and modification]
Probab=55.95 E-value=19 Score=30.86 Aligned_cols=10 Identities=40% Similarity=0.441 Sum_probs=4.7
Q ss_pred CCCCCCCCCc
Q 017537 341 PRGLSLGTPI 350 (369)
Q Consensus 341 ~~~~~~~~~~ 350 (369)
.+|++++-|+
T Consensus 115 ~~g~~~g~~n 124 (134)
T KOG3293|consen 115 GRGGSMGQNN 124 (134)
T ss_pred CCCCCcCCCC
Confidence 3455555443
No 16
>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=54.35 E-value=2e+02 Score=27.44 Aligned_cols=170 Identities=14% Similarity=0.162 Sum_probs=91.5
Q ss_pred HHHHHHHhhccCChh--cHHHHHHHHHhc-------------ccC-Ch----HHHHHHHHHHHHHhhc----CCCchHHH
Q 017537 67 WHIECRGDIGRLNAP--NFKKLFEQVKAV-------------NID-NA----VTLAGVVSQIFDKALM----EPTFCEMY 122 (369)
Q Consensus 67 l~~~Vk~iLNKLTp~--nFd~l~~ql~~l-------------~i~-~~----e~L~~vI~lIfeKAi~----Ep~fs~mY 122 (369)
++|.|+.-+|+||.. .+..++.+|.++ ... ++ -.+..+++.|+..|-. .|..+.-+
T Consensus 29 ~kr~I~~~vgQls~~~~qi~~i~~~i~~ll~~~~~~~~~~~~~~~~~~~~~~~~l~~lAk~iv~Q~e~ev~~~~~~A~Pl 108 (256)
T PF07817_consen 29 LKRKINPKVGQLSNSSSQINRIINQISNLLSGQPVKSNDLQQSKNDHPLAYKYLLNFLAKKIVSQAETEVSANPESAFPL 108 (256)
T ss_dssp HHHHHCCHHHC--SBHHHHHHHHHHHHHH----------HHTTTT-SHHHHHHHHHHHHHHHHHHHHHHHHH-GGGHHHH
T ss_pred hhhhCcCcHhhccCcHHHHHHHHHHHHHHhhhhhhchhhhhhhccCCchHHHHHHHHHHHHHHHHHHHHhccCCchhhhH
Confidence 457778888888844 555666666555 111 22 3456666777766655 57788889
Q ss_pred HHHHHHhhhcCCCCCCChhhhHHHHHHHHHHHHH--HHh--hHHHHHHhhhhcchhhh--h--ccHHHHHHHHHHHhhhH
Q 017537 123 ANFFYFLAGELPDFSEDNEKITFKRLLLNKCQEE--FER--GEREQEEANKADKEGEI--K--QTEEEREEKRIKARRRW 194 (369)
Q Consensus 123 A~LC~~L~~~l~~~~~~~~~~~FR~~LL~rcQ~e--Fe~--~~~~~~e~~k~~ee~e~--~--~s~eE~ee~~~k~krr~ 194 (369)
|.++..|....|++ -..|+.+.... |-- ...... +..++++.. . ..++- -|.....-+|+
T Consensus 109 A~v~~~l~~~~p~~---------~dillA~l~k~Cp~~vP~~~~~~~--~~~~e~~~k~lGyk~~~~~-~E~~~~y~~Rm 176 (256)
T PF07817_consen 109 ARVAVQLWSQHPEF---------GDILLARLHKKCPYLVPKYPGFTC--DQSTEEYRKRLGYKRDDGG-WESEDQYLKRM 176 (256)
T ss_dssp HHHHHHHHHHSTCH---------HHHHHHHHHHH-GGGG----T-------SSHHHHHHTT--B-TTS-B--HHHHHHHH
T ss_pred HHHHHHHHHcCCcH---------HHHHHHHHHHcCceeEeecCcccC--CCCHHHHHHHcCCccCCCC-ccchHHHHHHH
Confidence 99999998877754 35666554432 100 000000 000111100 0 00000 01223345689
Q ss_pred HHHHHHHHHHHhccC---------CcHHHHHHHHHHHhcCCCCC-ChhhHHHHHHHHHHHhhhhcC
Q 017537 195 LGNIRLIGELYKKKM---------LTERIMHECIKKLLGQYENP-DEEDVEALCILMSTIGEMIDH 250 (369)
Q Consensus 195 lG~i~FIGELfk~~l---------Lte~Ii~~cI~~LL~~~~~p-~Ee~IE~Lc~LL~tiG~~Ld~ 250 (369)
-|.+++-+-+-.... .+..--=..+..+++. .| .+-....|..+|+..|..|-.
T Consensus 177 ~Gi~~lyaAi~~~~~~~~~~~~~p~~~~~~W~wlAr~lN~--~p~~~~~~~lL~~~Le~ag~~l~~ 240 (256)
T PF07817_consen 177 TGIIRLYAAIIQTPPPKGQKTSNPHGLEHGWRWLARILNL--PPAPNITATLLHSFLEVAGFRLLQ 240 (256)
T ss_dssp HHHHHHHHHHHHS---CCCCTT-SS-THHHHHHHHHHHCS---CC-HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhccCCcCCCCCCCCCcHHHHHHHHHHhCC--CCCcccHHHHHHHHHHHHHHHHHH
Confidence 999999999987542 2222234456667763 23 456688899999999998763
No 17
>KOG2140 consensus Uncharacterized conserved protein [General function prediction only]
Probab=48.35 E-value=2.2e+02 Score=30.64 Aligned_cols=102 Identities=19% Similarity=0.255 Sum_probs=63.7
Q ss_pred cHHHHHHHHHhcccCChHHHHHHHHHHHHHhhcCCCchHHHHHHHHHhhhcCCCCCCChhhhHHHHHHHHHHHHHHHhhH
Q 017537 82 NFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPDFSEDNEKITFKRLLLNKCQEEFERGE 161 (369)
Q Consensus 82 nFd~l~~ql~~l~i~~~e~L~~vI~lIfeKAi~Ep~fs~mYA~LC~~L~~~l~~~~~~~~~~~FR~~LL~rcQ~eFe~~~ 161 (369)
.|++..-.++.+.+.+... ++|+.+|++=+.+|..|...|.-|..+++.- + ..-|+.|++-.
T Consensus 467 dfeEaaHKLLKmkip~~q~-~elc~mii~cc~QerTy~kFYglL~eRfc~l-------------~----r~~q~~fe~~f 528 (739)
T KOG2140|consen 467 DFEEAAHKLLKMKIPESQE-KELCNMIIDCCAQERTYEKFYGLLGERFCML-------------H----REWQEAFEKCF 528 (739)
T ss_pred cHHHHHHHHHhccCCchhh-HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH-------------H----HHHHHHHHHHH
Confidence 5777777887777766543 4688999999999988888888776665431 1 11334444433
Q ss_pred HHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhccCCcHHHHHHHHH
Q 017537 162 REQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKKMLTERIMHECIK 220 (369)
Q Consensus 162 ~~~~e~~k~~ee~e~~~s~eE~ee~~~k~krr~lG~i~FIGELfk~~lLte~Ii~~cI~ 220 (369)
+.... ...+.+ -.+.....+|+|+|.....|+=.++ .||+
T Consensus 529 ~q~Ys-------------tIhr~E-----tnkLRnlakffahLlstd~lpw~vl-~~ik 568 (739)
T KOG2140|consen 529 KQQYS-------------TIHRYE-----TNKLRNLAKFFAHLLSTDALPWDVL-ACIK 568 (739)
T ss_pred HHHHH-------------HHHHHh-----HHHHHHHHHHHHHHhcccccchHHH-HHhh
Confidence 32110 000000 0134467789999999999888664 5666
No 18
>KOG2141 consensus Protein involved in high osmolarity signaling pathway [Signal transduction mechanisms]
Probab=48.30 E-value=64 Score=35.61 Aligned_cols=105 Identities=17% Similarity=0.248 Sum_probs=70.2
Q ss_pred ccCChhcHHHHHHHHHhcccCChHHHHHHHHHHHHHhhcCCCchHHHHHHHHHhhhcCCCCCCChhhhHHHHHHHHHHHH
Q 017537 76 GRLNAPNFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALMEPTFCEMYANFFYFLAGELPDFSEDNEKITFKRLLLNKCQE 155 (369)
Q Consensus 76 NKLTp~nFd~l~~ql~~l~i~~~e~L~~vI~lIfeKAi~Ep~fs~mYA~LC~~L~~~l~~~~~~~~~~~FR~~LL~rcQ~ 155 (369)
--+|.+.|......++.+.+.+. ...+++..|+.=+..|..|-+.||-|..++++.-.. -..+|.-.+-.+..
T Consensus 627 sImsaeDyiDAFEklLkL~LK~~-Q~rEI~~VllhC~l~EK~yNpfYa~lA~KfCe~~~~-----~~~tfQF~~WD~f~- 699 (822)
T KOG2141|consen 627 SIMSAEDYIDAFEKLLKLSLKGK-QEREIARVLLHCCLNEKTYNPFYALLALKFCEFNKN-----LKKTFQFALWDRFK- 699 (822)
T ss_pred eeecchHHHHHHHHHHhccCCCc-chHHHHHHHHHHHhhhcccchHHHHHHHHHHHHhhh-----hHHHHHHHHHHHHH-
Confidence 34567788888888888877544 456789999999999999999999999998764211 12233222221111
Q ss_pred HHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhccCCcHHHHH
Q 017537 156 EFERGEREQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKKKMLTERIMH 216 (369)
Q Consensus 156 eFe~~~~~~~e~~k~~ee~e~~~s~eE~ee~~~k~krr~lG~i~FIGELfk~~lLte~Ii~ 216 (369)
+|+. ....|....++|+++|.....++-.|+.
T Consensus 700 ele~-----------------------------ls~~ri~nLa~l~a~Li~~~~lsLtVLK 731 (822)
T KOG2141|consen 700 ELEQ-----------------------------LSLFRISNLAKLLASLISNAVLSLTVLK 731 (822)
T ss_pred Hhhh-----------------------------cchhhHhHHHHHHHHHHHhcccceeeee
Confidence 0110 1124677889999999999887776654
No 19
>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=47.19 E-value=4.3e+02 Score=29.90 Aligned_cols=127 Identities=14% Similarity=0.238 Sum_probs=77.1
Q ss_pred HHHHHHhhccCChhcHHHHHHHHHhcc-----cCChHHHHHHHHHHHHHh----hcC-CCchHHHHHHHHHhhhcCCCCC
Q 017537 68 HIECRGDIGRLNAPNFKKLFEQVKAVN-----IDNAVTLAGVVSQIFDKA----LME-PTFCEMYANFFYFLAGELPDFS 137 (369)
Q Consensus 68 ~~~Vk~iLNKLTp~nFd~l~~ql~~l~-----i~~~e~L~~vI~lIfeKA----i~E-p~fs~mYA~LC~~L~~~l~~~~ 137 (369)
+..+..+|...+++....++..|..++ ..|.+.|..+...+++.. ... |..-.+.-.||.+|..-...++
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 578899999999999999999999865 346677766655555544 344 4444666778877764211111
Q ss_pred CChhhhHHHHHHHHHHHHHHHhhHHHHHHhhhhcchhhhhccHHHHHHHHHHHhhhHHHHHHHHHHHHhc-----cCCcH
Q 017537 138 EDNEKITFKRLLLNKCQEEFERGEREQEEANKADKEGEIKQTEEEREEKRIKARRRWLGNIRLIGELYKK-----KMLTE 212 (369)
Q Consensus 138 ~~~~~~~FR~~LL~rcQ~eFe~~~~~~~e~~k~~ee~e~~~s~eE~ee~~~k~krr~lG~i~FIGELfk~-----~lLte 212 (369)
..-...|| ..|..+|..|.+....... -+ -+. -..+-.++.||.||-- -|+|+
T Consensus 508 -~~~a~~~r-~~L~~~~~~~~~~~l~~~~------~~-~P~-------------l~~Lvllklv~~lFPTSD~~HpVVTP 565 (840)
T PF04147_consen 508 -EEAAECFR-EVLKEMQKRFRKGALKPKE------RS-WPS-------------LSDLVLLKLVGTLFPTSDFRHPVVTP 565 (840)
T ss_pred -HHHHHHHH-HHHHHHHHHHhhhcccccC------CC-CCC-------------hhHHHHHHHHHHhcCcccccCcchhH
Confidence 12344565 4557788888763110000 00 000 1346677888888764 37777
Q ss_pred HHHH
Q 017537 213 RIMH 216 (369)
Q Consensus 213 ~Ii~ 216 (369)
.+++
T Consensus 566 alll 569 (840)
T PF04147_consen 566 ALLL 569 (840)
T ss_pred HHHH
Confidence 6653
No 20
>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=41.46 E-value=2.2e+02 Score=24.15 Aligned_cols=90 Identities=14% Similarity=0.079 Sum_probs=57.0
Q ss_pred HHHHHHHHHHHhccCCcHHHHHHHHHHHhcCCCCCChhhHHHHHHH----HHHHhhhhcCccchHHHHHHHHHHHHHhhC
Q 017537 195 LGNIRLIGELYKKKMLTERIMHECIKKLLGQYENPDEEDVEALCIL----MSTIGEMIDHPKAKEHMDAYFDRMEKLSNN 270 (369)
Q Consensus 195 lG~i~FIGELfk~~lLte~Ii~~cI~~LL~~~~~p~Ee~IE~Lc~L----L~tiG~~Ld~~k~k~~md~~F~~L~~l~~~ 270 (369)
.+.+..|+++.+.+-.+.+-....|++-|+ .+++...-....| ++.+|+.+...-+. ..++..|..+..+
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 WALNLELCDLINLKPNGPKEAARAIRKKIK---YGNPHVQLLALTLLELLVKNCGKPFHLQVAD---KEFLLELVKIAKN 91 (133)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHHHHHc---CCCHHHHHHHHHHHHHHHHhCChHHHHHHhh---HHHHHHHHHHhCC
Confidence 467788999999887777766667777676 4555444444444 44556554422111 2444445565554
Q ss_pred C-CCCHHHHHHHHHHHHHHHc
Q 017537 271 M-KLSSRVRLMLKDSIELRKN 290 (369)
Q Consensus 271 ~-~ls~RiRFmI~dlidLR~n 290 (369)
. ..+..+|-.+..++.-...
T Consensus 92 ~~~~~~~Vk~kil~ll~~W~~ 112 (133)
T cd03561 92 SPKYDPKVREKALELILAWSE 112 (133)
T ss_pred CCCCCHHHHHHHHHHHHHHHH
Confidence 4 7889999999999985443
No 21
>smart00288 VHS Domain present in VPS-27, Hrs and STAM. Unpublished observations. Domain of unknown function.
Probab=40.65 E-value=2.3e+02 Score=24.14 Aligned_cols=109 Identities=14% Similarity=0.049 Sum_probs=65.0
Q ss_pred HHHHHHHHHHHhccCCcHHHHHHHHHHHhcCCCCCChhhHHHHH----HHHHHHhhhhcCccchHHHHHHHHHHHHHhhC
Q 017537 195 LGNIRLIGELYKKKMLTERIMHECIKKLLGQYENPDEEDVEALC----ILMSTIGEMIDHPKAKEHMDAYFDRMEKLSNN 270 (369)
Q Consensus 195 lG~i~FIGELfk~~lLte~Ii~~cI~~LL~~~~~p~Ee~IE~Lc----~LL~tiG~~Ld~~k~k~~md~~F~~L~~l~~~ 270 (369)
.+.+.-||++.+.+-.+.+-...++++=|+ .+++...-... .+++.||..+..+-+ -..+.+.|..+...
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 467777899999887666666666666665 45555444444 445555666653211 13344555555554
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCcccccccCCCChHHHHHHHH
Q 017537 271 MKLSSRVRLMLKDSIELRKNKWQQRRKVEGPKKIEEVHRDAA 312 (369)
Q Consensus 271 ~~ls~RiRFmI~dlidLR~nnW~~r~~~~~pkti~~ih~ea~ 312 (369)
....+.|+-.+..++.-....... +.+...+.+++++-.
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 443445888888888855443322 456677777776643
No 22
>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=37.44 E-value=46 Score=29.17 Aligned_cols=30 Identities=23% Similarity=0.320 Sum_probs=26.5
Q ss_pred hHHHHHHHHHHHHhccCCcHHHHHHHHHHH
Q 017537 193 RWLGNIRLIGELYKKKMLTERIMHECIKKL 222 (369)
Q Consensus 193 r~lG~i~FIGELfk~~lLte~Ii~~cI~~L 222 (369)
...++..++..|+.+|+|+...|..|+..|
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 456778999999999999999999998764
No 23
>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=36.32 E-value=2.9e+02 Score=24.06 Aligned_cols=107 Identities=14% Similarity=0.169 Sum_probs=64.3
Q ss_pred HHHHHHHHHHHhccCCcHHHHHHHHHHHhcCCCCCChhh----HHHHHHHHHHHhhhhcCccchHHHHHHHHHHHHHhhC
Q 017537 195 LGNIRLIGELYKKKMLTERIMHECIKKLLGQYENPDEED----VEALCILMSTIGEMIDHPKAKEHMDAYFDRMEKLSNN 270 (369)
Q Consensus 195 lG~i~FIGELfk~~lLte~Ii~~cI~~LL~~~~~p~Ee~----IE~Lc~LL~tiG~~Ld~~k~k~~md~~F~~L~~l~~~ 270 (369)
++.+.=||.+.+.+-.+.+-...+|++-|. .+++.. +..|=.+.+.||..+..+-+. ..+.+.|..++..
T Consensus 18 w~~il~icD~I~~~~~~~k~a~ral~KRl~---~~n~~v~l~AL~LLe~~vkNCG~~fh~evas---k~Fl~eL~kl~~~ 91 (144)
T cd03568 18 WGLILDVCDKVKSDENGAKDCLKAIMKRLN---HKDPNVQLRALTLLDACAENCGKRFHQEVAS---RDFTQELKKLIND 91 (144)
T ss_pred HHHHHHHHHHHhcCCccHHHHHHHHHHHHc---CCCHHHHHHHHHHHHHHHHHCCHHHHHHHhh---HHHHHHHHHHhcc
Confidence 467778899998876666554455555554 445443 444445555667666543221 3455556666654
Q ss_pred CCCCHHHHHHHHHHHHHHHcCCcccccccCCCChHHHHHHH
Q 017537 271 MKLSSRVRLMLKDSIELRKNKWQQRRKVEGPKKIEEVHRDA 311 (369)
Q Consensus 271 ~~ls~RiRFmI~dlidLR~nnW~~r~~~~~pkti~~ih~ea 311 (369)
+ .+..|+-.|..+|......... +.....+.+++++-
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 7889999999999965544432 23344566666554
No 24
>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=36.32 E-value=2.9e+02 Score=23.98 Aligned_cols=91 Identities=16% Similarity=0.207 Sum_probs=58.2
Q ss_pred HHHHHHHHHHHhccCCcHHHHHHHHHHHhcCCCCCChh----hHHHHHHHHHHHhhhhcCccchHHHHHHHHHHHHHhhC
Q 017537 195 LGNIRLIGELYKKKMLTERIMHECIKKLLGQYENPDEE----DVEALCILMSTIGEMIDHPKAKEHMDAYFDRMEKLSNN 270 (369)
Q Consensus 195 lG~i~FIGELfk~~lLte~Ii~~cI~~LL~~~~~p~Ee----~IE~Lc~LL~tiG~~Ld~~k~k~~md~~F~~L~~l~~~ 270 (369)
++.+.-||++.+.+-...+-...+|++-|. .+++. .++.|=.+.+.||..+..+-+ -..+.+.|..++.+
T Consensus 22 w~~ileicD~In~~~~~~k~a~ral~krl~---~~n~~vql~AL~LLe~~vkNCG~~fh~eva---s~~fl~~l~~l~~~ 95 (142)
T cd03569 22 LASILEICDMIRSKDVQPKYAMRALKKRLL---SKNPNVQLYALLLLESCVKNCGTHFHDEVA---SREFMDELKDLIKT 95 (142)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHHHHHc---CCChHHHHHHHHHHHHHHHHCCHHHHHHHh---hHHHHHHHHHHHcc
Confidence 577888999998876666655555555555 34443 344555555666776654322 13455556665544
Q ss_pred CCCCHHHHHHHHHHHHHHHcCC
Q 017537 271 MKLSSRVRLMLKDSIELRKNKW 292 (369)
Q Consensus 271 ~~ls~RiRFmI~dlidLR~nnW 292 (369)
+.+.+|+-.+..++.-.....
T Consensus 96 -~~~~~Vk~kil~li~~W~~~f 116 (142)
T cd03569 96 -TKNEEVRQKILELIQAWALAF 116 (142)
T ss_pred -cCCHHHHHHHHHHHHHHHHHh
Confidence 778999999999998655433
No 25
>KOG2003 consensus TPR repeat-containing protein [General function prediction only]
Probab=32.54 E-value=2e+02 Score=30.45 Aligned_cols=26 Identities=15% Similarity=0.316 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHhccCCcHHHHHHHHH
Q 017537 195 LGNIRLIGELYKKKMLTERIMHECIK 220 (369)
Q Consensus 195 lG~i~FIGELfk~~lLte~Ii~~cI~ 220 (369)
+-.|-.+|.-|.---..++-|...-+
T Consensus 626 ie~iewl~ayyidtqf~ekai~y~ek 651 (840)
T KOG2003|consen 626 IETIEWLAAYYIDTQFSEKAINYFEK 651 (840)
T ss_pred hHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 34455666666665566665554443
No 26
>PRK10930 FtsH protease regulator HflK; Provisional
Probab=31.10 E-value=1.9e+02 Score=30.04 Aligned_cols=12 Identities=25% Similarity=0.894 Sum_probs=8.8
Q ss_pred cCCCChHHHHHH
Q 017537 299 EGPKKIEEVHRD 310 (369)
Q Consensus 299 ~~pkti~~ih~e 310 (369)
.+|-.++++-+.
T Consensus 36 ~~ppdl~~~~~~ 47 (419)
T PRK10930 36 QGPPDLDDIFRK 47 (419)
T ss_pred CCCCCHHHHHHH
Confidence 468888887665
No 27
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=29.74 E-value=5.9e+02 Score=28.91 Aligned_cols=90 Identities=12% Similarity=0.152 Sum_probs=43.7
Q ss_pred HHHHHHHhhccCC-hhcHHHHHHHHHhcc-----cCChHHHHHHHHHHHHHhh-------cCCCchHHHHHHHHHhhhcC
Q 017537 67 WHIECRGDIGRLN-APNFKKLFEQVKAVN-----IDNAVTLAGVVSQIFDKAL-------MEPTFCEMYANFFYFLAGEL 133 (369)
Q Consensus 67 l~~~Vk~iLNKLT-p~nFd~l~~ql~~l~-----i~~~e~L~~vI~lIfeKAi-------~Ep~fs~mYA~LC~~L~~~l 133 (369)
|+..+.+||=||| .+....|...|.++. +...+....+.++|+--.- ....|.---.-||+ +
T Consensus 777 L~pRL~~ilFKl~fse~vnniKP~i~avt~ACEE~rkSesFs~lLeLvLl~GNyMn~gSrNa~afgF~is~L~k-----L 851 (1102)
T KOG1924|consen 777 LRPRLSAILFKLTFSEQVNNIKPDIVAVTAACEELRKSESFSKLLELVLLVGNYMNSGSRNAQAFGFNISFLCK-----L 851 (1102)
T ss_pred cChhHHHHHHHhhHHHHHhhcChHHHHHHHHHHHHHhhhhHHHHHHHHHHHhcccccccccchhhccchHHHHh-----h
Confidence 4456667777777 334444444444431 3344445555555542210 11122211222332 2
Q ss_pred CCCCCChhhhHHHHHHHHHHHHHHHhhH
Q 017537 134 PDFSEDNEKITFKRLLLNKCQEEFERGE 161 (369)
Q Consensus 134 ~~~~~~~~~~~FR~~LL~rcQ~eFe~~~ 161 (369)
.+..+.+++.+.-..|...|.+.|-...
T Consensus 852 ~dTKsaDqk~TLLHfLae~~e~kypd~l 879 (1102)
T KOG1924|consen 852 RDTKSADQKTTLLHFLAEICEEKYPDIL 879 (1102)
T ss_pred ccccccchhhHHHHHHHHHHHHhChhhh
Confidence 3333345666777777777877776543
No 28
>PRK11546 zraP zinc resistance protein; Provisional
Probab=26.32 E-value=4e+02 Score=23.56 Aligned_cols=26 Identities=23% Similarity=0.257 Sum_probs=17.0
Q ss_pred HHHHhhCCCC-CHHHHHHHHHHHHHHH
Q 017537 264 MEKLSNNMKL-SSRVRLMLKDSIELRK 289 (369)
Q Consensus 264 L~~l~~~~~l-s~RiRFmI~dlidLR~ 289 (369)
|+.+..+++. +.+|+=+-.++.+||.
T Consensus 77 LnALl~~~~pD~~kI~aL~kEI~~Lr~ 103 (143)
T PRK11546 77 YNALLTANPPDSSKINAVAKEMENLRQ 103 (143)
T ss_pred HHHHHcCCCCCHHHHHHHHHHHHHHHH
Confidence 3444444444 3568888888888886
No 29
>PF00790 VHS: VHS domain; InterPro: IPR002014 The VHS domain is a ~140 residues long domain, whose name is derived from its occurrence in VPS-27, Hrs and STAM. Based on regions surrounding the domain, VHS-proteins can be divided into 4 groups []: STAM/EAST/Hbp which all share the domain composition VHS-SH3-ITAM and carry one or two ubiquitin-interacting motifs Proteins with a FYVE domain (IPR000306 from INTERPRO) C-terminal to VHS which also carry one or two ubiquitin-interacting motifs GGA proteins with a domain composition VHS-GAT (GGA and Tom1) homology domain VHS domain alone or in combination with domains other than those listed above The VHS domain is always found at the N- terminus of proteins suggesting that such topology is important for function. The domain is considered to have a general membrane targeting/cargo recognition role in vesicular trafficking []. Resolution of the crystal structure of the VHS domain of Drosophila Hrs and human Tom1 revealed that it consists of eight helices arranged in a double-layer superhelix []. The existence of conserved patches of residues on the domain surface suggests that VHS domains may be involved in protein-protein recognition and docking. Overall, sequence similarity is low (approx 25%) amongst domain family members.; GO: 0006886 intracellular protein transport; PDB: 1X5B_A 2L0T_B 1DVP_A 3LDZ_C 3ZYQ_A 4AVX_A 3G2U_A 3G2W_A 1UJJ_A 3G2V_A ....
Probab=25.55 E-value=4.2e+02 Score=22.55 Aligned_cols=91 Identities=15% Similarity=0.177 Sum_probs=54.7
Q ss_pred HHHHHHHHHHhccCCcHHHHHHHHHHHhcCCCCCChhh----HHHHHHHHHHHhhhhcCccchHHHHHHHHHHHHHhhCC
Q 017537 196 GNIRLIGELYKKKMLTERIMHECIKKLLGQYENPDEED----VEALCILMSTIGEMIDHPKAKEHMDAYFDRMEKLSNNM 271 (369)
Q Consensus 196 G~i~FIGELfk~~lLte~Ii~~cI~~LL~~~~~p~Ee~----IE~Lc~LL~tiG~~Ld~~k~k~~md~~F~~L~~l~~~~ 271 (369)
+.+.-|+++.+.+-...+-...+|++=|+ .++... +..|-.+++.+|..+...-+. ..+++.|..++.+.
T Consensus 24 ~~~l~icD~i~~~~~~~kea~~~l~krl~---~~~~~vq~~aL~lld~lvkNcg~~f~~ev~~---~~fl~~l~~l~~~~ 97 (140)
T PF00790_consen 24 SLILEICDLINSSPDGAKEAARALRKRLK---HGNPNVQLLALTLLDALVKNCGPRFHREVAS---KEFLDELVKLIKSK 97 (140)
T ss_dssp HHHHHHHHHHHTSTTHHHHHHHHHHHHHT---TSSHHHHHHHHHHHHHHHHHSHHHHHHHHTS---HHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHcCCccHHHHHHHHHHHHh---CCCHHHHHHHHHHHHHHHHcCCHHHHHHHhH---HHHHHHHHHHHccC
Confidence 55666899999886666666666666665 455544 444444555567666532111 23455566655544
Q ss_pred CCCHH--HHHHHHHHHHHHHcCC
Q 017537 272 KLSSR--VRLMLKDSIELRKNKW 292 (369)
Q Consensus 272 ~ls~R--iRFmI~dlidLR~nnW 292 (369)
..... ||-.+..++.-.....
T Consensus 98 ~~~~~~~Vk~k~l~ll~~W~~~f 120 (140)
T PF00790_consen 98 KTDPETPVKEKILELLQEWAEAF 120 (140)
T ss_dssp TTHHHSHHHHHHHHHHHHHHHHT
T ss_pred CCCchhHHHHHHHHHHHHHHHHH
Confidence 44444 9999999988655444
No 30
>PF05841 Apc15p: Apc15p protein; InterPro: IPR008402 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. Members of this family are components of the anaphase-promoting complex homologous to subunit Apc15/MND2 [].; GO: 0030071 regulation of mitotic metaphase/anaphase transition, 0031145 anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process, 0005680 anaphase-promoting complex
Probab=25.24 E-value=1.7e+02 Score=25.03 Aligned_cols=39 Identities=13% Similarity=0.273 Sum_probs=30.5
Q ss_pred CCHHHHHHHHHHHHHHHcCCcccccccCCCChHHHHHHH
Q 017537 273 LSSRVRLMLKDSIELRKNKWQQRRKVEGPKKIEEVHRDA 311 (369)
Q Consensus 273 ls~RiRFmI~dlidLR~nnW~~r~~~~~pkti~~ih~ea 311 (369)
+....+.+-..+...|+-||.--+..--|||+.++.+|.
T Consensus 77 L~~~e~~~~~r~~~Ir~~G~~wikPiGv~KTm~~~~eE~ 115 (125)
T PF05841_consen 77 LSMEEQQLERRKQNIRNFGYNWIKPIGVPKTMQQMREEE 115 (125)
T ss_pred hhHHHHHHHHHHHHHHHhCccceeCCCccHHHHHHHHHH
Confidence 455666677777777888888888888999999999653
No 31
>KOG3293 consensus Small nuclear ribonucleoprotein (snRNP) [RNA processing and modification]
Probab=24.04 E-value=1.6e+02 Score=25.28 Aligned_cols=11 Identities=27% Similarity=0.151 Sum_probs=4.6
Q ss_pred CCCCCCCCCCC
Q 017537 334 RAPMDFGPRGL 344 (369)
Q Consensus 334 ~~~~~~~~~~~ 344 (369)
||..+.|.+|-
T Consensus 112 rg~~~g~~~g~ 122 (134)
T KOG3293|consen 112 RGGGRGGSMGQ 122 (134)
T ss_pred CCCCCCCCcCC
Confidence 33333445553
No 32
>PF14676 FANCI_S2: FANCI solenoid 2; PDB: 3S51_A 3S4Z_A 3S4W_A.
Probab=23.13 E-value=1.5e+02 Score=26.41 Aligned_cols=54 Identities=20% Similarity=0.434 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHhc-cCCcHHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhhhhc
Q 017537 195 LGNIRLIGELYKK-KMLTERIMHECIKKLLGQYENPDEEDVEALCILMSTIGEMID 249 (369)
Q Consensus 195 lG~i~FIGELfk~-~lLte~Ii~~cI~~LL~~~~~p~Ee~IE~Lc~LL~tiG~~Ld 249 (369)
+| ..++.++|+. ......|+.+|+..++.....|...-++||-.+..+.--.+.
T Consensus 37 LG-~~IL~~~fk~h~~~r~~Ile~l~~rI~~~s~~~~~~~idlL~~lv~~~p~~vl 91 (158)
T PF14676_consen 37 LG-IQILLELFKVHEMIRSEILEQLLNRIVTKSSSPSSQYIDLLSELVRKAPLTVL 91 (158)
T ss_dssp HH-HHHHHHHHHH-GGGHHHHHHHHHHHHHH--SS--HHHHHHHHHHHHH-HHHHS
T ss_pred HH-HHHHHHHHHHhHHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHChHHHH
Confidence 55 4789999975 466667999999999987655667778888888887766655
No 33
>KOG4728 consensus Anti-apoptotic Bcl-2 family proteins, prevent opening of mitochondrial porin channel [Signal transduction mechanisms]
Probab=22.22 E-value=2.6e+02 Score=25.58 Aligned_cols=64 Identities=11% Similarity=0.130 Sum_probs=49.1
Q ss_pred HHHHHhhccCChhcHHHHHHHHHhcccCChHHHHHHHHHHHHHhhcCC---CchHHHHHHHHHhhhc
Q 017537 69 IECRGDIGRLNAPNFKKLFEQVKAVNIDNAVTLAGVVSQIFDKALMEP---TFCEMYANFFYFLAGE 132 (369)
Q Consensus 69 ~~Vk~iLNKLTp~nFd~l~~ql~~l~i~~~e~L~~vI~lIfeKAi~Ep---~fs~mYA~LC~~L~~~ 132 (369)
+.+=-.+++.-+.+|.++++||.-.+.+..+....|+..+|+-.+.-- .+-..++.||....+.
T Consensus 64 r~~Gd~~e~r~~s~F~t~~~qL~it~~~a~~~f~~V~~~lF~~Gi~wg~~va~~~~~g~la~~~~~~ 130 (176)
T KOG4728|consen 64 RRAGDEFERRYRSVFKTMLDQLHITPEDAYDSFSQVANELFEDGINWGRRVALLIFGGGLAVHSVQI 130 (176)
T ss_pred HHhhHHHHHHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHhccccccceeeeehhhHHHHHHHHHh
Confidence 455568899999999999999876555556788999999999998754 3445567777776654
No 34
>PF01031 Dynamin_M: Dynamin central region; InterPro: IPR000375 Dynamin is a microtubule-associated force-producing protein of 100 Kd which is involved in the production of microtubule bundles. At the N terminus of dynamin is a GTPase domain (see IPR001401 from INTERPRO), and at the C terminus is a PH domain (see IPR001849 from INTERPRO). Between these two domains lies a central region of unknown function, which this entry represents.; GO: 0005525 GTP binding; PDB: 3ZVR_A 2AKA_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D 1JWY_B 1JX2_B 3SZR_A ....
Probab=21.50 E-value=2.5e+02 Score=27.07 Aligned_cols=100 Identities=13% Similarity=0.206 Sum_probs=50.0
Q ss_pred ccCCcHHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhhhhcCcc---chHHHHHHHHHHHHHhhCCCCCHHHHHHHHH
Q 017537 207 KKMLTERIMHECIKKLLGQYENPDEEDVEALCILMSTIGEMIDHPK---AKEHMDAYFDRMEKLSNNMKLSSRVRLMLKD 283 (369)
Q Consensus 207 ~~lLte~Ii~~cI~~LL~~~~~p~Ee~IE~Lc~LL~tiG~~Ld~~k---~k~~md~~F~~L~~l~~~~~ls~RiRFmI~d 283 (369)
.++++.......|+.-+.....|..+-++.++..|..+-..+-... -+..-+.+-+.+..+.. +.....+-+|.+
T Consensus 187 p~f~p~~afe~Li~~~i~~l~~Pa~~cv~~V~~~l~~i~~~~~~~~~~~fp~L~~~i~~~v~~~l~--~~~~~a~~~i~~ 264 (295)
T PF01031_consen 187 PGFVPESAFESLIRKQIEKLEEPALQCVEEVHEELQRIVEQVLEKEFERFPNLKEAIKEAVQQLLE--ECREPAKEMIEN 264 (295)
T ss_dssp S-SCCHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHHHHCHHHTTSHHHHHHHHHHHHHHHH--HHHHHHHHHHHH
T ss_pred ccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhcchhcCCchHHHHHHHHHHHHHHH--HHHHHHHHHHHH
Confidence 4678888777777777766556777777777777777665533211 11111112222222222 123566679999
Q ss_pred HHHHHHcCCcccccccCCCChHHHHH
Q 017537 284 SIELRKNKWQQRRKVEGPKKIEEVHR 309 (369)
Q Consensus 284 lidLR~nnW~~r~~~~~pkti~~ih~ 309 (369)
+++.-. ++.-.....--.+.+.+..
T Consensus 265 li~~E~-~~i~T~~~~f~~~~~~~~~ 289 (295)
T PF01031_consen 265 LIDMEL-SYINTQHPDFLGELQAIRQ 289 (295)
T ss_dssp HHHHHT-TS--TTSTT--TTS-----
T ss_pred HHHHhc-ccCCCCCHHHHHHHHHHHH
Confidence 999765 3444333233333334444
No 35
>PTZ00009 heat shock 70 kDa protein; Provisional
Probab=21.21 E-value=5.3e+02 Score=28.09 Aligned_cols=78 Identities=15% Similarity=0.244 Sum_probs=41.0
Q ss_pred CChhhHHHHHHHHHHHhhhhc--C--ccchHHHHHHHHHHHHHhhC----CCCCHHHHHHHHHHHHHHHcCCcccccccC
Q 017537 229 PDEEDVEALCILMSTIGEMID--H--PKAKEHMDAYFDRMEKLSNN----MKLSSRVRLMLKDSIELRKNKWQQRRKVEG 300 (369)
Q Consensus 229 p~Ee~IE~Lc~LL~tiG~~Ld--~--~k~k~~md~~F~~L~~l~~~----~~ls~RiRFmI~dlidLR~nnW~~r~~~~~ 300 (369)
.++++++.+...+...-..-. . ...+..++.|.-.++..+.. ..++..-|--+.+.++-- ..|-....
T Consensus 512 ls~~~i~~~~~~~~~~~~~d~~~~~~~eakN~lEs~Iy~~r~~L~~~~~~~~~t~ee~~~l~~~l~~~-~~wL~~~~--- 587 (653)
T PTZ00009 512 LSKADIDRMVNEAEKYKAEDEANRERVEAKNGLENYCYSMKNTLQDEKVKGKLSDSDKATIEKAIDEA-LEWLEKNQ--- 587 (653)
T ss_pred ccHHHHHHHHHHHHHHHHHhHHHHHHHHHHhhhHHHHHHHHHHHhhhhhhccCCHHHHHHHHHHHHHH-HHHHhcCC---
Confidence 455667776666654432211 0 12344577777777766542 356666666666666533 35776322
Q ss_pred CCChHHHHHH
Q 017537 301 PKKIEEVHRD 310 (369)
Q Consensus 301 pkti~~ih~e 310 (369)
..+.+++.+.
T Consensus 588 ~~~~~~~~~k 597 (653)
T PTZ00009 588 LAEKEEFEHK 597 (653)
T ss_pred chhHHHHHHH
Confidence 2344444444
No 36
>KOG1877 consensus Putative transmembrane protein cmp44E [General function prediction only]
Probab=20.64 E-value=2.4e+02 Score=31.81 Aligned_cols=53 Identities=19% Similarity=0.425 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHhhc-CCCchHHHHHHHHHhhhcCCCCCCChhhhHHHHHHHHHHHHHHHh
Q 017537 100 TLAGVVSQIFDKALM-EPTFCEMYANFFYFLAGELPDFSEDNEKITFKRLLLNKCQEEFER 159 (369)
Q Consensus 100 ~L~~vI~lIfeKAi~-Ep~fs~mYA~LC~~L~~~l~~~~~~~~~~~FR~~LL~rcQ~eFe~ 159 (369)
.-+.+|+-||=+..+ +|+.+.| ++||.+-+.+ |. .-...-.+|..||..+...
T Consensus 14 RyKkLV~~iFPr~~e~gpn~s~m-~kL~~YAasn-p~-----KL~KI~~yL~~R~~kdl~~ 67 (819)
T KOG1877|consen 14 RYKKLVDNIFPRSPEDGPNKSKM-EKLTFYAASN-PS-----KLPKIGTYLEERCYKDLRR 67 (819)
T ss_pred HHHHHHHHhCCCCCCCCcccccH-HHHHHHHhhC-hh-----hhhHHHHHHHHHHHHHHHh
Confidence 456788888887765 6788888 8999987653 21 1112336788888877654
No 37
>KOG2213 consensus Apoptosis inhibitor 5/fibroblast growth factor 2-interacting factor 2, and related proteins [Signal transduction mechanisms]
Probab=20.59 E-value=9.8e+02 Score=24.95 Aligned_cols=81 Identities=14% Similarity=0.210 Sum_probs=56.6
Q ss_pred HHHHHHhhccCChhcHHHHHHHHHhcc----cCChHHHHHHHHHHHHHhhcCCCch----HHHHHHHHHhhhcCCCCCCC
Q 017537 68 HIECRGDIGRLNAPNFKKLFEQVKAVN----IDNAVTLAGVVSQIFDKALMEPTFC----EMYANFFYFLAGELPDFSED 139 (369)
Q Consensus 68 ~~~Vk~iLNKLTp~nFd~l~~ql~~l~----i~~~e~L~~vI~lIfeKAi~Ep~fs----~mYA~LC~~L~~~l~~~~~~ 139 (369)
-..|+..|-.+|-+.|.-..+-+-++. ....+.|.+++..+=++|-.+. |- ..--+|...+...+|=|...
T Consensus 153 v~eikkal~dVtgeef~lfm~~L~~lk~~~~k~~~a~lqeLa~~~e~~a~lda-f~~sD~d~VdRfisCl~~AvPfFarg 231 (460)
T KOG2213|consen 153 VDEIKKALEDVTGEEFTLFMDILASLKSLQTKAGEARLQELAEEQEGLADLDA-FNVSDADYVDRFISCLLMAVPFFARG 231 (460)
T ss_pred HHHHHHHHHhccHHHHHHHHHHHHhhhcccCCCCHHHHHHHHHHHhhhhccCc-ccCCChHHHHHHHHHHHHhhhhhhcC
Confidence 367888999999998887777776654 4456889999999988886644 43 34567777777777766544
Q ss_pred hhhhHHHHHH
Q 017537 140 NEKITFKRLL 149 (369)
Q Consensus 140 ~~~~~FR~~L 149 (369)
.-++.|-.++
T Consensus 232 apSskf~~y~ 241 (460)
T KOG2213|consen 232 APSSKFVEYL 241 (460)
T ss_pred CchhHHHHHH
Confidence 4455554433
Done!