Query 006946
Match_columns 624
No_of_seqs 123 out of 144
Neff 3.6
Searched_HMMs 46136
Date Thu Mar 28 16:45:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006946.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006946hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05003 DUF668: Protein of un 100.0 8.7E-44 1.9E-48 308.5 8.0 86 356-441 1-89 (89)
2 PF11961 DUF3475: Domain of un 99.9 2.3E-27 5E-32 191.6 3.9 57 136-192 1-57 (57)
3 TIGR02865 spore_II_E stage II 72.8 29 0.00063 41.3 11.3 174 94-273 190-403 (764)
4 PF09325 Vps5: Vps5 C terminal 33.2 4.8E+02 0.01 25.6 15.0 119 188-308 53-184 (236)
5 KOG4403 Cell surface glycoprot 33.0 3.1E+02 0.0068 31.6 10.1 83 172-254 166-259 (575)
6 PF13094 CENP-Q: CENP-Q, a CEN 28.0 1.6E+02 0.0035 28.1 6.1 52 253-309 33-84 (160)
7 PF05597 Phasin: Poly(hydroxya 27.5 4.8E+02 0.01 25.1 9.1 87 219-308 38-130 (132)
8 PF10168 Nup88: Nuclear pore c 26.6 4.5E+02 0.0097 31.7 10.6 65 239-304 602-670 (717)
9 PRK04778 septation ring format 26.5 3.3E+02 0.0071 31.4 9.3 39 237-275 201-244 (569)
10 PF04111 APG6: Autophagy prote 26.4 1.8E+02 0.0039 31.3 6.7 28 289-316 115-142 (314)
11 TIGR01834 PHA_synth_III_E poly 26.0 4.2E+02 0.0091 29.2 9.4 29 280-309 283-311 (320)
12 PF05527 DUF758: Domain of unk 25.4 3.7E+02 0.0079 27.5 8.3 25 234-258 51-75 (186)
13 KOG3498 Preprotein translocase 25.2 53 0.0011 28.5 2.0 31 191-221 6-36 (67)
14 KOG4552 Vitamin-D-receptor int 24.6 4.4E+02 0.0096 27.9 8.8 70 241-321 57-133 (272)
15 PF09139 Mmp37: Mitochondrial 23.6 1.2E+02 0.0026 33.2 4.9 50 382-431 241-302 (330)
16 cd07665 BAR_SNX1 The Bin/Amphi 23.5 8.6E+02 0.019 25.4 13.9 126 189-323 52-189 (234)
17 PF11598 COMP: Cartilage oligo 23.0 99 0.0022 24.9 3.1 20 289-308 17-36 (45)
18 KOG2991 Splicing regulator [RN 22.3 3.4E+02 0.0074 29.5 7.6 23 287-309 278-300 (330)
19 KOG0994 Extracellular matrix g 22.3 7.5E+02 0.016 32.2 11.3 170 237-440 1204-1376(1758)
20 PF01418 HTH_6: Helix-turn-hel 22.2 83 0.0018 26.6 2.7 66 143-219 2-67 (77)
21 PF06160 EzrA: Septation ring 22.0 4.2E+02 0.0091 30.6 9.0 93 214-306 169-271 (560)
No 1
>PF05003 DUF668: Protein of unknown function (DUF668); InterPro: IPR007700 This is a family of uncharacterised plant proteins of unknown function.
Probab=100.00 E-value=8.7e-44 Score=308.48 Aligned_cols=86 Identities=63% Similarity=1.001 Sum_probs=85.1
Q ss_pred CcchhhhhhhhHHHHHHHHHHhhcCCCCCCchHHHhhhcCchhHHHHHhhcccccccc---chhhHHHHHHHHHHhhhhh
Q 006946 356 RLGPAGLALHYANIILQIDSLVARSSSMPPSTRDALYQSLPPSIKSALRSKLQSFHVK---EEFTVAQIKDEMEKTLQWL 432 (624)
Q Consensus 356 TLG~AgLALHYANIIi~IEklvs~p~~v~~~aRD~LYqmLP~sIRsaLRskLr~~~~~---de~la~ewk~amekiL~WL 432 (624)
|||+|||||||||||+|||+|+++|++||+|+||+||||||++||++||+|||++++. |+.+++|||++|+|||+||
T Consensus 1 tLG~AgLALhYANvI~~ie~l~~~p~~v~~~aRD~LY~mLP~~ir~aLr~kL~~~~~~~~~d~~~a~~~~~~m~kiL~WL 80 (89)
T PF05003_consen 1 TLGGAGLALHYANVIIQIEKLVSRPSSVPPNARDDLYQMLPPSIRSALRSKLRSYWKKAIYDELLAAEWKDAMEKILEWL 80 (89)
T ss_pred CcchHHHHHHHHHHHHHHHHHHcCcccCCchHHHHHHhhCcHHHHHHHHHhccccccccccchhhHHHHHHHHHHHHHHH
Confidence 8999999999999999999999999999999999999999999999999999999999 9999999999999999999
Q ss_pred hhhhhhhhh
Q 006946 433 VPIATNTAK 441 (624)
Q Consensus 433 aPmAhNTir 441 (624)
+||||||+|
T Consensus 81 ~P~A~nt~r 89 (89)
T PF05003_consen 81 APMAHNTIR 89 (89)
T ss_pred HHHHHhccC
Confidence 999999997
No 2
>PF11961 DUF3475: Domain of unknown function (DUF3475); InterPro: IPR021864 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 60 amino acids in length. This domain is found associated with PF05003 from PFAM.
Probab=99.93 E-value=2.3e-27 Score=191.56 Aligned_cols=57 Identities=51% Similarity=0.656 Sum_probs=56.4
Q ss_pred eehHHHHHHHHHHHHhhhcCCHHHHHHHhhhccCccccccccccChHHHHHHHHHHH
Q 006946 136 ILAFEVANTIVKGSNLMLSISESSVRQLKEVVLPAEGVQNLVSKDMDELLKIFAADK 192 (624)
Q Consensus 136 ILAFEVAntmsK~~~L~~SLSd~~I~~Lr~evL~SeGVq~LVS~D~~~LL~LA~AEk 192 (624)
||||||||||+|++||||||||++|.+||+||++|||||+|||+|++|||+||||||
T Consensus 1 ILAFEVAn~msk~~~L~~SLsd~~i~~Lr~evl~seGV~~LVS~D~~~LL~La~aE~ 57 (57)
T PF11961_consen 1 ILAFEVANTMSKLVNLWQSLSDEEIARLREEVLRSEGVRKLVSDDDSFLLRLACAEK 57 (57)
T ss_pred CccHHHHHHHHHHHHHHHHcChHHHHHHHHHHhhhHHHHHHcCCCHHHHHHHHHhcC
Confidence 899999999999999999999999999999999999999999999999999999996
No 3
>TIGR02865 spore_II_E stage II sporulation protein E. Stage II sporulation protein E (SpoIIE) is a multiple membrane spanning protein with two separable functions. It plays a role in the switch to polar cell division during sporulation. By means of it protein phosphatase activity, located in the C-terminal region, it activates sigma-F. All proteins that score above the trusted cutoff to this model are found in endospore-forming Gram-positive bacteria. Surprisingly, a sequence from the Cyanobacterium-like (and presumably non-spore-forming) photosynthesizer Heliobacillus mobilis is homologous, and scores between the trusted and noise cutoffs.
Probab=72.76 E-value=29 Score=41.31 Aligned_cols=174 Identities=15% Similarity=0.221 Sum_probs=93.6
Q ss_pred ccccccCccchhhHhhhhcccccCCCCC--------CCc-cccccCCCcee-eehHHHHHHHHHHHH-----hhhcCCHH
Q 006946 94 GRAGTVGLGKAVDVLDTLGSSMTNLNPN--------NGF-SGVGTKSNELS-ILAFEVANTIVKGSN-----LMLSISES 158 (624)
Q Consensus 94 gra~~~g~~kavevldtlgssm~~l~~~--------~gf-sg~~~kg~kIg-ILAFEVAntmsK~~~-----L~~SLSd~ 158 (624)
+-+|-+|+|.|+.|.--+..|+++.+.- +|+ +|.-++.+|+| +++|=+++++..+.. +...|-|-
T Consensus 190 a~~gG~~~Gaa~Gv~~Gli~~l~~~~~~~~~~~~af~GLlaG~fk~~gK~g~~~g~~l~~~il~~y~~~~~~~~~~~~e~ 269 (764)
T TIGR02865 190 SYIGGSGAGAAGGVVIGVILGLANNANLYQIGVFGFAGLLGGIFKELGKIGTGIGYLVGFLILAFYTQGSVAFSLALYEA 269 (764)
T ss_pred HHhcCchHhHHHHHHHHHHHHhcCccHHHHHHHHHHHHHHHHhhccCCcceeeHHHHHHHHHHHHHhccchhHHHHHHHH
Confidence 4467788999999999999999885432 266 78877778865 689999998875542 11111111
Q ss_pred HH-------------HHHhhhccCccccccccccChHHH--HHHHHHHHHHHHhHHHHHHHh-hhccCCCc----cccch
Q 006946 159 SV-------------RQLKEVVLPAEGVQNLVSKDMDEL--LKIFAADKRDDLKIFTGEVVR-FGNRSKDP----QWHNL 218 (624)
Q Consensus 159 ~I-------------~~Lr~evL~SeGVq~LVS~D~~~L--L~LA~AEk~eeL~~~A~~VaR-lG~rC~DP----~~hnf 218 (624)
-| .++...+ + |-++-....+.+. ++=..++|++++..+=.++++ |++.|.++ .=...
T Consensus 270 ~ia~~lFll~P~~~~~~~~~~~-~--~~~~~~~~~~~~~~~~~~~~~~rl~~~a~~~~~Ls~tf~~~~~~~~~~~~~~~~ 346 (764)
T TIGR02865 270 LIATLLFLLIPNKIYKKLERYL-D--GERKQPDLQEDYMRKVREIAAEKLEEFSEVFRELSNTFVEALASNEKLTMKRKS 346 (764)
T ss_pred HHHHHHHHHhhHHHHHHHHhhC-C--CchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccccchhhH
Confidence 11 1222221 1 2222111122222 333445665555544444444 43344332 12467
Q ss_pred hHHHHHHhhcc-----cchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 006946 219 GRYFEKISREL-----IPQKQLKQEAELLMEQLMTLVQHTAELYNELQILDRFEQDCQHK 273 (624)
Q Consensus 219 dr~F~~l~~~~-----~~~~~~~~~ae~~m~km~rlV~~Ta~LY~ELeaLd~lEq~~rrk 273 (624)
+.+|+.+.... .-...|.++.+...+.|..+.+...+ +.+++ .++.+.++++
T Consensus 347 ~~~~~~v~~~vC~~C~~~~~CW~~~~~~Ty~~~~~l~~~~e~-~~~~~--~~~p~~~~~~ 403 (764)
T TIGR02865 347 SYLLENLAERVCQSCNMKHRCWKREFDYTYSAMEELIENLEE-KKDPN--SKLPDEFERK 403 (764)
T ss_pred HHHHHHHhhchhhCCCCCchhhCcchHHHHHHHHHHHHHHHh-cCCch--hhhhHHHHHh
Confidence 88888776533 22344666666666666666655443 22333 4555555444
No 4
>PF09325 Vps5: Vps5 C terminal like; InterPro: IPR015404 Vps5 is a sorting nexin that functions in membrane trafficking. This is the C-terminal dimerisation domain [].
Probab=33.21 E-value=4.8e+02 Score=25.62 Aligned_cols=119 Identities=18% Similarity=0.261 Sum_probs=66.7
Q ss_pred HHHHHHHHHhHHHHHHHhhhccCCCc----cccchhHHHHHHhhcccchhhhHHHHH---HHHHHHHHHHHHHHHHHHH-
Q 006946 188 FAADKRDDLKIFTGEVVRFGNRSKDP----QWHNLGRYFEKISRELIPQKQLKQEAE---LLMEQLMTLVQHTAELYNE- 259 (624)
Q Consensus 188 A~AEk~eeL~~~A~~VaRlG~rC~DP----~~hnfdr~F~~l~~~~~~~~~~~~~ae---~~m~km~rlV~~Ta~LY~E- 259 (624)
...|....+..|+.....||.-..++ .++.|..++..+..-.. .+...+.. ..++...+++.+...+.+.
T Consensus 53 ~~~~l~~~~~e~~~~~~~la~~E~~~~l~~~l~~l~~~~~~~~~~~~--~~a~~~~~~l~~~L~ey~~~~~svk~~l~~R 130 (236)
T PF09325_consen 53 RRQELASALAEFGSSFSQLAKSEEEKSLSEALSQLAEAFEKISELLE--EQANQEEETLGEPLREYLRYIESVKEALNRR 130 (236)
T ss_pred HHHHHHHHHHHHHHHHHHhhcccCCchhHHHHHHHHHHHHHHHHHHH--HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566778888999999999887774 33444444444432211 11222222 2344444444444444333
Q ss_pred ---HhHHHHHHHHHHHHhhhcCCCCCC--CCCccHHHHHHHHHHHHHHHHHhhh
Q 006946 260 ---LQILDRFEQDCQHKRQEEDNPVGS--QKGESFAILRAELKSQRKQVKILRK 308 (624)
Q Consensus 260 ---LeaLd~lEq~~rrk~~~~~~~~~~--~~g~~l~~lq~elk~QRk~Vk~LKk 308 (624)
+..+...++++.++....+..... .+.+.+..++.+|..-.+.|..+++
T Consensus 131 ~~~~~~~~~a~~~l~kkk~~~~kl~~~~~~~~~k~~~~~~ei~~~~~~~~~~~~ 184 (236)
T PF09325_consen 131 DKKLIEYQNAEKELQKKKAQLEKLKASGKNRQDKVEQAENEIEEAERRVEQAKD 184 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 445556667776666544432222 2346778888888887777777764
No 5
>KOG4403 consensus Cell surface glycoprotein STIM, contains SAM domain [General function prediction only]
Probab=32.98 E-value=3.1e+02 Score=31.64 Aligned_cols=83 Identities=22% Similarity=0.212 Sum_probs=52.4
Q ss_pred ccccccccChHHH---HHHHHHHHHHHHhHHHHHHHhhhccCCCc-cc-cchhHHHHHHhhcccch------hhhHHHHH
Q 006946 172 GVQNLVSKDMDEL---LKIFAADKRDDLKIFTGEVVRFGNRSKDP-QW-HNLGRYFEKISRELIPQ------KQLKQEAE 240 (624)
Q Consensus 172 GVq~LVS~D~~~L---L~LA~AEk~eeL~~~A~~VaRlG~rC~DP-~~-hnfdr~F~~l~~~~~~~------~~~~~~ae 240 (624)
..-+|-+.+-+|+ |.|-----|+-|..-|=.|+=||---+++ .| .+|=-+|.-+..-.-.| +..++.+.
T Consensus 166 alPRlAv~n~~f~~~~Lgikd~~hrQKlqLkalDvVLFGpp~~~~~n~~KD~iLv~lili~v~gcw~ay~Qnk~akehv~ 245 (575)
T KOG4403|consen 166 ALPRLAVPNSDFLGKVLGIKDRSHRQKLQLKALDVVLFGPPYKTNHNWTKDFILVVLILIGVGGCWFAYRQNKKAKEHVN 245 (575)
T ss_pred cccccccCchHHhhhhhccCchHHHHhhhhhhcceEEecCCcCCCcchhhhHHHHHHHHHHhhhhhhhhhhhhHHHHHHH
Confidence 3345556666665 44555556888889999999999766665 56 77888887766422222 33455666
Q ss_pred HHHHHHHHHHHHHH
Q 006946 241 LLMEQLMTLVQHTA 254 (624)
Q Consensus 241 ~~m~km~rlV~~Ta 254 (624)
+.|++|+-|-.+-.
T Consensus 246 km~kdle~Lq~aEq 259 (575)
T KOG4403|consen 246 KMMKDLEGLQRAEQ 259 (575)
T ss_pred HHHHHHHHHHHHHH
Confidence 66666665544433
No 6
>PF13094 CENP-Q: CENP-Q, a CENPA-CAD centromere complex subunit
Probab=28.02 E-value=1.6e+02 Score=28.13 Aligned_cols=52 Identities=15% Similarity=0.201 Sum_probs=38.2
Q ss_pred HHHHHHHHhHHHHHHHHHHHHhhhcCCCCCCCCCccHHHHHHHHHHHHHHHHHhhhh
Q 006946 253 TAELYNELQILDRFEQDCQHKRQEEDNPVGSQKGESFAILRAELKSQRKQVKILRKK 309 (624)
Q Consensus 253 Ta~LY~ELeaLd~lEq~~rrk~~~~~~~~~~~~g~~l~~lq~elk~QRk~Vk~LKk~ 309 (624)
-..|+.+++.|+.|+..+++....-+. ..+.+..|++.++.+..+++...++
T Consensus 33 E~qL~~~~~~l~lLq~e~~~~e~~le~-----d~~~L~~Le~~~~~~~~e~~~~~~~ 84 (160)
T PF13094_consen 33 ERQLAANLHQLELLQEEIEKEEAALER-----DYEYLQELEKNAKALEREREEEEKK 84 (160)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 356778899999999999766544333 3457888888888888887776554
No 7
>PF05597 Phasin: Poly(hydroxyalcanoate) granule associated protein (phasin); InterPro: IPR008769 Polyhydroxyalkanoates (PHAs) are storage polyesters synthesised by various bacteria as intracellular carbon and energy reserve material. PHAs are accumulated as water-insoluble inclusions within the cells. This family consists of the phasins PhaF and PhaI which act as a transcriptional regulator of PHA biosynthesis genes. PhaF has been proposed to repress expression of the phaC1 gene and the phaIF operon.
Probab=27.45 E-value=4.8e+02 Score=25.11 Aligned_cols=87 Identities=20% Similarity=0.221 Sum_probs=47.6
Q ss_pred hHHHHHHhhcc-cchhhhHHHHHHHHHHH----HHHHHHHHHHHHHHhHHHHHHHHHHHHhhh-cCCCCCCCCCccHHHH
Q 006946 219 GRYFEKISREL-IPQKQLKQEAELLMEQL----MTLVQHTAELYNELQILDRFEQDCQHKRQE-EDNPVGSQKGESFAIL 292 (624)
Q Consensus 219 dr~F~~l~~~~-~~~~~~~~~ae~~m~km----~rlV~~Ta~LY~ELeaLd~lEq~~rrk~~~-~~~~~~~~~g~~l~~l 292 (624)
..||+.|+.+. ..+...++.++..+... ...|..... +-.+.++++|+.+-..... -.....|.+. -+..|
T Consensus 38 ~k~F~~LVk~Ge~~e~~~~~~~~e~~~~~~~~~~~~~~~~~~--~~~~~~dklE~~fd~rV~~aL~rLgvPs~~-dv~~L 114 (132)
T PF05597_consen 38 SKVFEALVKEGEKLEKKTRKKAEEQVEEARDQVKSRVDDVKE--RATGQWDKLEQAFDERVARALNRLGVPSRK-DVEAL 114 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHhcCCCCHH-HHHHH
Confidence 35788887643 33333333333333332 233332222 2345677888877555432 2223444444 48888
Q ss_pred HHHHHHHHHHHHHhhh
Q 006946 293 RAELKSQRKQVKILRK 308 (624)
Q Consensus 293 q~elk~QRk~Vk~LKk 308 (624)
..+|..--.+|..|..
T Consensus 115 ~~rId~L~~~v~~l~~ 130 (132)
T PF05597_consen 115 SARIDQLTAQVERLAN 130 (132)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 8888888888887754
No 8
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=26.59 E-value=4.5e+02 Score=31.69 Aligned_cols=65 Identities=15% Similarity=0.203 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhH----HHHHHHHHHHHhhhcCCCCCCCCCccHHHHHHHHHHHHHHHH
Q 006946 239 AELLMEQLMTLVQHTAELYNELQI----LDRFEQDCQHKRQEEDNPVGSQKGESFAILRAELKSQRKQVK 304 (624)
Q Consensus 239 ae~~m~km~rlV~~Ta~LY~ELea----Ld~lEq~~rrk~~~~~~~~~~~~g~~l~~lq~elk~QRk~Vk 304 (624)
.|...++-+.|++....+.+-++. |.+-|+++++.++..... ...-..++..++.++..|+.++.
T Consensus 602 ~e~a~d~Qe~L~~R~~~vl~~l~~~~P~LS~AEr~~~~EL~~~~~~-l~~l~~si~~lk~k~~~Q~~~i~ 670 (717)
T PF10168_consen 602 YEEAKDKQEKLMKRVDRVLQLLNSQLPVLSEAEREFKKELERMKDQ-LQDLKASIEQLKKKLDYQQRQIE 670 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHh
Confidence 333333333444444444444333 566666665554432210 00011244555555555555554
No 9
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=26.54 E-value=3.3e+02 Score=31.39 Aligned_cols=39 Identities=21% Similarity=0.307 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhH-----HHHHHHHHHHHhh
Q 006946 237 QEAELLMEQLMTLVQHTAELYNELQI-----LDRFEQDCQHKRQ 275 (624)
Q Consensus 237 ~~ae~~m~km~rlV~~Ta~LY~ELea-----Ld~lEq~~rrk~~ 275 (624)
.+++..+..|+.++..-=.||+|+.. |++|+.+||++..
T Consensus 201 ~~l~~~~~~l~~~~~~iP~l~~~~~~~~P~ql~el~~gy~~m~~ 244 (569)
T PRK04778 201 DQLEEELAALEQIMEEIPELLKELQTELPDQLQELKAGYRELVE 244 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 46677788888888888788888754 8999999987754
No 10
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=26.40 E-value=1.8e+02 Score=31.28 Aligned_cols=28 Identities=18% Similarity=0.335 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccccccH
Q 006946 289 FAILRAELKSQRKQVKILRKKSLWSRSL 316 (624)
Q Consensus 289 l~~lq~elk~QRk~Vk~LKk~SLWsrt~ 316 (624)
...+...+..-+.++..|++...||.+|
T Consensus 115 ~~sl~~q~~~~~~~L~~L~ktNv~n~~F 142 (314)
T PF04111_consen 115 RDSLKNQYEYASNQLDRLRKTNVYNDTF 142 (314)
T ss_dssp HHHHHHHHHHHHHHHHCHHT--TTTTT-
T ss_pred HHHHHHHHHHHHHHHHHHHhcCchhcee
Confidence 4566667777788888888888888877
No 11
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=25.96 E-value=4.2e+02 Score=29.15 Aligned_cols=29 Identities=21% Similarity=0.303 Sum_probs=22.3
Q ss_pred CCCCCCCccHHHHHHHHHHHHHHHHHhhhh
Q 006946 280 PVGSQKGESFAILRAELKSQRKQVKILRKK 309 (624)
Q Consensus 280 ~~~~~~g~~l~~lq~elk~QRk~Vk~LKk~ 309 (624)
.+.|.+.+ ++++++.|-.=|++||+||+.
T Consensus 283 LnlPTRsE-lDe~~krL~ELrR~vr~L~k~ 311 (320)
T TIGR01834 283 LNLPTRSE-LDEAHQRIQQLRREVKSLKKR 311 (320)
T ss_pred CCCCCHHH-HHHHHHHHHHHHHHHHHHHHH
Confidence 45565554 888888888888899888875
No 12
>PF05527 DUF758: Domain of unknown function (DUF758) ; InterPro: IPR008477 This is a family of eukaryotic proteins with unknown function, which are induced by tumour necrosis factor.; PDB: 3F4M_A.
Probab=25.45 E-value=3.7e+02 Score=27.49 Aligned_cols=25 Identities=28% Similarity=0.484 Sum_probs=22.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHH
Q 006946 234 QLKQEAELLMEQLMTLVQHTAELYN 258 (624)
Q Consensus 234 ~~~~~ae~~m~km~rlV~~Ta~LY~ 258 (624)
+.+++|++.++.+.+.|-...-||+
T Consensus 51 ~~kkeA~ki~KniIKi~vKigvl~r 75 (186)
T PF05527_consen 51 GNKKEAEKIIKNIIKIVVKIGVLYR 75 (186)
T ss_dssp S-HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCHHHHHHHHHHHHHHHHHhheeee
Confidence 3578999999999999999999986
No 13
>KOG3498 consensus Preprotein translocase, gamma subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.15 E-value=53 Score=28.53 Aligned_cols=31 Identities=19% Similarity=0.420 Sum_probs=25.1
Q ss_pred HHHHHHhHHHHHHHhhhccCCCccccchhHH
Q 006946 191 DKRDDLKIFTGEVVRFGNRSKDPQWHNLGRY 221 (624)
Q Consensus 191 Ek~eeL~~~A~~VaRlG~rC~DP~~hnfdr~ 221 (624)
.+.|-++.|+++-.||-+||.-|.-..|-..
T Consensus 6 ~~~~~~~~f~k~s~rf~krC~KPdrKEf~ki 36 (67)
T KOG3498|consen 6 QLVEPLRDFAKDSIRFVKRCTKPDRKEFTKI 36 (67)
T ss_pred HhcchHHHHHHHHHHHHHHhcCCcHHHHHHH
Confidence 3567789999999999999999976665543
No 14
>KOG4552 consensus Vitamin-D-receptor interacting protein complex component [Transcription]
Probab=24.56 E-value=4.4e+02 Score=27.85 Aligned_cols=70 Identities=16% Similarity=0.171 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHH-------HHHHHHHHHhhhcCCCCCCCCCccHHHHHHHHHHHHHHHHHhhhhcccc
Q 006946 241 LLMEQLMTLVQHTAELYNELQILD-------RFEQDCQHKRQEEDNPVGSQKGESFAILRAELKSQRKQVKILRKKSLWS 313 (624)
Q Consensus 241 ~~m~km~rlV~~Ta~LY~ELeaLd-------~lEq~~rrk~~~~~~~~~~~~g~~l~~lq~elk~QRk~Vk~LKk~SLWs 313 (624)
-.+++|+++|-.-++..|+|+.|. +-=|.+++.++.. -.+|-..++.-+|..|+.++.-+--
T Consensus 57 ~ef~~llkla~eq~k~e~~m~~Lea~VEkrD~~IQqLqk~LK~a-----------E~iLtta~fqA~qKLksi~~A~krp 125 (272)
T KOG4552|consen 57 DEFKTLLKLAPEQQKREQLMRTLEAHVEKRDEVIQQLQKNLKSA-----------EVILTTACFQANQKLKSIKEAEKRP 125 (272)
T ss_pred HHHHHHHHHhHhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 457888888888888888887763 2222332222222 2467777778888888888877666
Q ss_pred ccHHHHHH
Q 006946 314 RSLEEVME 321 (624)
Q Consensus 314 rt~d~VVe 321 (624)
-+-|+++.
T Consensus 126 vsSEelIK 133 (272)
T KOG4552|consen 126 VSSEELIK 133 (272)
T ss_pred CCHHHHHH
Confidence 66666543
No 15
>PF09139 Mmp37: Mitochondrial matrix Mmp37; InterPro: IPR015222 MMp37 is a mitochondrial matrix protein that functions in the translocation of proteins across the mitochondrial inner membrane [].
Probab=23.55 E-value=1.2e+02 Score=33.19 Aligned_cols=50 Identities=16% Similarity=0.290 Sum_probs=39.3
Q ss_pred CCCCchHHHhhhcCchhHHHHHhhcccccc------------ccchhhHHHHHHHHHHhhhh
Q 006946 382 SMPPSTRDALYQSLPPSIKSALRSKLQSFH------------VKEEFTVAQIKDEMEKTLQW 431 (624)
Q Consensus 382 ~v~~~aRD~LYqmLP~sIRsaLRskLr~~~------------~~de~la~ewk~amekiL~W 431 (624)
...+++|-.|-..||.+++..|..+..... ..|+.....++.++.+|-.|
T Consensus 241 d~s~~~~~~~l~~LP~~~~~~l~~~~~~~~~~~d~~~~~~~ia~d~~~~~~v~~aI~~IV~~ 302 (330)
T PF09139_consen 241 DKSPSARAHLLRRLPKTLRSRLYRQYDRKGRNRDGEEFLRAIASDPDLREVVRRAIRRIVRR 302 (330)
T ss_pred CCCHHHHHHHHHHCCHHHHHHHHHHhccCCCccchhHHHHHHhcChhHHHHHHHHHHhHhhh
Confidence 456889999999999999999998876433 22666678888888888776
No 16
>cd07665 BAR_SNX1 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX1 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=23.51 E-value=8.6e+02 Score=25.42 Aligned_cols=126 Identities=13% Similarity=0.221 Sum_probs=76.6
Q ss_pred HHHHHHHHhHHHHHHHhhhccCCCccccchhHHHHHHhh--cc---cchhhhH---HHHHHHHHHHHHHHHHHHHHHHH-
Q 006946 189 AADKRDDLKIFTGEVVRFGNRSKDPQWHNLGRYFEKISR--EL---IPQKQLK---QEAELLMEQLMTLVQHTAELYNE- 259 (624)
Q Consensus 189 ~AEk~eeL~~~A~~VaRlG~rC~DP~~hnfdr~F~~l~~--~~---~~~~~~~---~~ae~~m~km~rlV~~Ta~LY~E- 259 (624)
..|....+..||.++.-||+-=.+|.+ -+.|+.|.. +. ..+++.. ....-.++..-|+|++....+.+
T Consensus 52 r~eLa~~~~eFa~s~~~L~~~E~~~~L---s~als~laev~~~i~~~~~~qa~qd~~~f~e~l~eYiRli~SVK~~f~~R 128 (234)
T cd07665 52 RKELALNTALFAKSLAMLGSSEDNTAL---SRALSQLAEVEEKIEQLHQEQANNDFFLLAELLADYIRLLSAVRGAFDQR 128 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHhcccchhH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence 356777888899999989875444533 344444431 10 1112221 23445567777777777666655
Q ss_pred ---HhHHHHHHHHHHHHhhhcCCCCCCCCCccHHHHHHHHHHHHHHHHHhhhhccccccHHHHHHHH
Q 006946 260 ---LQILDRFEQDCQHKRQEEDNPVGSQKGESFAILRAELKSQRKQVKILRKKSLWSRSLEEVMEKL 323 (624)
Q Consensus 260 ---LeaLd~lEq~~rrk~~~~~~~~~~~~g~~l~~lq~elk~QRk~Vk~LKk~SLWsrt~d~VVekL 323 (624)
.+..-.+++++.+|....+......+.+++...+.+|.--.+.|...++ .||.|.+.+
T Consensus 129 ~k~~~~~~~~~~~l~kKr~~~~Kl~~~~~~dK~~~a~~Ev~e~e~k~~~a~~------~fe~is~~i 189 (234)
T cd07665 129 MKTWQRWQDAQAMLQKKREAEARLLWANKPDKLQQAKDEIAEWESRVTQYER------DFERISATV 189 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHH
Confidence 5566677888877654433321123457888888888877777777776 466664443
No 17
>PF11598 COMP: Cartilage oligomeric matrix protein; InterPro: IPR024665 Thrombospondins are adhesive glycoproteins that mediate cell-to-cell and cell-to-matrix interactions. Cartilage oligomeric matrix protein may play a role in the structural integrity of cartilage via its interaction with other extracellular matrix proteins such as collagen and fibronectin [, ]. Thrombospondin 3 and 4 and cartilage oligomeric matrix proteins contain a five-stranded coiled-coil domain represented by this entry. This domain has a binding site between two internal rings formed by Leu37 and Thr40 [].; PDB: 1MZ9_D 1FBM_A 1VDF_E.
Probab=22.96 E-value=99 Score=24.94 Aligned_cols=20 Identities=30% Similarity=0.473 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHhhh
Q 006946 289 FAILRAELKSQRKQVKILRK 308 (624)
Q Consensus 289 l~~lq~elk~QRk~Vk~LKk 308 (624)
+.+++..++.|+||+..||.
T Consensus 17 l~elk~~l~~Q~kE~~~LRn 36 (45)
T PF11598_consen 17 LQELKELLRQQIKETRFLRN 36 (45)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 46788899999999999985
No 18
>KOG2991 consensus Splicing regulator [RNA processing and modification]
Probab=22.32 E-value=3.4e+02 Score=29.49 Aligned_cols=23 Identities=35% Similarity=0.580 Sum_probs=20.3
Q ss_pred ccHHHHHHHHHHHHHHHHHhhhh
Q 006946 287 ESFAILRAELKSQRKQVKILRKK 309 (624)
Q Consensus 287 ~~l~~lq~elk~QRk~Vk~LKk~ 309 (624)
..+.+||++|+.-|+++.+|++.
T Consensus 278 sTiliLQq~Lketr~~Iq~l~k~ 300 (330)
T KOG2991|consen 278 STILILQQKLKETRKEIQRLKKG 300 (330)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHH
Confidence 36789999999999999999874
No 19
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=22.31 E-value=7.5e+02 Score=32.18 Aligned_cols=170 Identities=14% Similarity=0.150 Sum_probs=92.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhcCCCCCCCCCccHHHHHHHHHHHHHHHHHhhhhccccccH
Q 006946 237 QEAELLMEQLMTLVQHTAELYNELQILDRFEQDCQHKRQEEDNPVGSQKGESFAILRAELKSQRKQVKILRKKSLWSRSL 316 (624)
Q Consensus 237 ~~ae~~m~km~rlV~~Ta~LY~ELeaLd~lEq~~rrk~~~~~~~~~~~~g~~l~~lq~elk~QRk~Vk~LKk~SLWsrt~ 316 (624)
.+|+.|++....++++++---.+++.|+..=+.+||.++.... ..++....|....+.+..--++..+|..
T Consensus 1204 ~~me~kl~~ir~il~~~svs~~~i~~l~~~~~~lr~~l~~~~e-~L~~~E~~Lsdi~~~~~~a~~~LesLq~-------- 1274 (1758)
T KOG0994|consen 1204 LDMEEKLEEIRAILSAPSVSAEDIAQLASATESLRRQLQALTE-DLPQEEETLSDITNSLPLAGKDLESLQR-------- 1274 (1758)
T ss_pred HHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHHHHHHh-hhhhhhhhhhhhhhccchhhhhHHHHHH--------
Confidence 4788888888888755544444444444444444444432111 0122223455555555544444444432
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhCCCCCCCCCCCCCCCCCCcchhhhhhhhHHHHHHHHHHhhcCCCCCCchHHHhhhcCc
Q 006946 317 EEVMEKLVDIVTFLLLEMHDAFGSTDDHFPFKGSMSNHQRLGPAGLALHYANIILQIDSLVARSSSMPPSTRDALYQSLP 396 (624)
Q Consensus 317 d~VVekLvriV~~i~~rI~~vFG~~~~~~~~~~~~~~~~TLG~AgLALHYANIIi~IEklvs~p~~v~~~aRD~LYqmLP 396 (624)
=++.|...+.+..+-|- ..+...-+|+--+--||+--...+|+.+..+..-.+.++|.=
T Consensus 1275 ------~~~~l~~~~keL~e~~~----------~ik~sdi~GA~~~~r~a~~~s~ea~~r~~~s~~~l~s~~~~s----- 1333 (1758)
T KOG0994|consen 1275 ------EFNGLLTTYKELREQLE----------KIKESDILGAFNSTRHAYEQSAEAERRVDASSRELASLVDQS----- 1333 (1758)
T ss_pred ------HHHHHHHHHHHHHHHHH----------HhhccCchhHHHHHHHHHHHHHHHHHhhhhhhhcccchhhhh-----
Confidence 23445555566555441 122355688888889999999999998876554444444432
Q ss_pred hhHHHHHhhcccc-ccc--cchhhHHHHHHHHHHhhhhhhhhhhhhh
Q 006946 397 PSIKSALRSKLQS-FHV--KEEFTVAQIKDEMEKTLQWLVPIATNTA 440 (624)
Q Consensus 397 ~sIRsaLRskLr~-~~~--~de~la~ewk~amekiL~WLaPmAhNTi 440 (624)
+ -..|--|-+. |.. ..+.+..+.+.+|... . |.|++.-+.
T Consensus 1334 -R-~e~l~~k~k~~f~~~~~n~~~L~el~~~l~sL-~-L~~lne~vC 1376 (1758)
T KOG0994|consen 1334 -R-VEELLVKQKGDFGGLAENSRLLVELRAELSSL-P-LTPLNEQVC 1376 (1758)
T ss_pred -H-HHHHHHHhhhcccccccccHHHHHHHHHhcCC-C-CchhhHHhc
Confidence 1 1223333332 332 3556777888877654 4 666665444
No 20
>PF01418 HTH_6: Helix-turn-helix domain, rpiR family; InterPro: IPR000281 This domain contains a helix-turn-helix motif []. Every member of this family is N-terminal to a SIS domain IPR001347 from INTERPRO. Members of this family are probably regulators of genes involved in phosphosugar metobolism.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2O3F_B 3IWF_B.
Probab=22.20 E-value=83 Score=26.60 Aligned_cols=66 Identities=14% Similarity=0.204 Sum_probs=46.4
Q ss_pred HHHHHHHHhhhcCCHHHHHHHhhhccCccccccccccChHHHHHHHHHHHHHHHhHHHHHHHhhhccCCCccccchh
Q 006946 143 NTIVKGSNLMLSISESSVRQLKEVVLPAEGVQNLVSKDMDELLKIFAADKRDDLKIFTGEVVRFGNRSKDPQWHNLG 219 (624)
Q Consensus 143 ntmsK~~~L~~SLSd~~I~~Lr~evL~SeGVq~LVS~D~~~LL~LA~AEk~eeL~~~A~~VaRlG~rC~DP~~hnfd 219 (624)
|.+.|+-..+..|++.|-. |-.-|-++.+.+..+-..|..+.+.+--.+|+||.+++.=..|..|-
T Consensus 2 ~l~~~i~~~~~~ls~~e~~-----------Ia~yil~~~~~~~~~si~elA~~~~vS~sti~Rf~kkLG~~gf~efk 67 (77)
T PF01418_consen 2 NLLEKIRSQYNSLSPTEKK-----------IADYILENPDEIAFMSISELAEKAGVSPSTIVRFCKKLGFSGFKEFK 67 (77)
T ss_dssp -HHHHHHHHGGGS-HHHHH-----------HHHHHHH-HHHHCT--HHHHHHHCTS-HHHHHHHHHHCTTTCHHHHH
T ss_pred cHHHHHHHHHhhCCHHHHH-----------HHHHHHhCHHHHHHccHHHHHHHcCCCHHHHHHHHHHhCCCCHHHHH
Confidence 4566777788899988754 34455567888888999999999999999999999998855444443
No 21
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=22.02 E-value=4.2e+02 Score=30.64 Aligned_cols=93 Identities=16% Similarity=0.259 Sum_probs=54.6
Q ss_pred cccchhHHHHHHhh----c-ccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHh-----HHHHHHHHHHHHhhhcCCCCCC
Q 006946 214 QWHNLGRYFEKISR----E-LIPQKQLKQEAELLMEQLMTLVQHTAELYNELQ-----ILDRFEQDCQHKRQEEDNPVGS 283 (624)
Q Consensus 214 ~~hnfdr~F~~l~~----~-~~~~~~~~~~ae~~m~km~rlV~~Ta~LY~ELe-----aLd~lEq~~rrk~~~~~~~~~~ 283 (624)
++.+++.-|+.+.. | ....+..-.+++..+..|+..+..--.||++++ .|++++.+|+++..+.-....-
T Consensus 169 ~L~~ie~~F~~f~~lt~~GD~~~A~eil~~l~~~~~~l~~~~e~IP~l~~~l~~~~P~ql~eL~~gy~~m~~~gy~l~~~ 248 (560)
T PF06160_consen 169 QLENIEEEFSEFEELTENGDYLEAREILEKLKEETDELEEIMEDIPKLYKELQKEFPDQLEELKEGYREMEEEGYYLEHL 248 (560)
T ss_pred HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhHHHHHHHHHHHHHHHHCCCCCCCC
Confidence 44455555555542 1 111222334778888999999999999999986 6999999998775533211100
Q ss_pred CCCccHHHHHHHHHHHHHHHHHh
Q 006946 284 QKGESFAILRAELKSQRKQVKIL 306 (624)
Q Consensus 284 ~~g~~l~~lq~elk~QRk~Vk~L 306 (624)
.-...+..++.++..=...+++|
T Consensus 249 ~i~~~i~~i~~~l~~~~~~L~~l 271 (560)
T PF06160_consen 249 DIEEEIEQIEEQLEEALALLKNL 271 (560)
T ss_pred CHHHHHHHHHHHHHHHHHHHHcC
Confidence 01123455555555555555543
Done!