Query 014586
Match_columns 422
No_of_seqs 118 out of 139
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 06:34:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014586.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014586hhsearch_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 2.1E-31 4.5E-36 222.1 4.5 67 356-422 1-70 (89)
2 PF11961 DUF3475: Domain of un 99.9 9.5E-29 2.1E-33 191.4 4.3 57 136-192 1-57 (57)
3 TIGR02865 spore_II_E stage II 72.0 40 0.00087 38.3 11.7 174 94-273 190-403 (764)
4 PF14182 YgaB: YgaB-like prote 50.7 1E+02 0.0022 26.3 7.6 53 242-308 9-61 (79)
5 PRK04778 septation ring format 44.5 1.4E+02 0.003 32.7 9.6 39 237-275 201-244 (569)
6 PF06160 EzrA: Septation ring 44.2 1.3E+02 0.0028 32.9 9.3 93 214-306 169-271 (560)
7 PF01418 HTH_6: Helix-turn-hel 39.7 29 0.00063 27.9 2.7 66 143-219 2-67 (77)
8 KOG4403 Cell surface glycoprot 38.7 67 0.0014 35.1 5.9 84 173-256 167-261 (575)
9 KOG3498 Preprotein translocase 35.3 24 0.00052 29.1 1.6 31 191-221 6-36 (67)
10 PF13094 CENP-Q: CENP-Q, a CEN 33.3 1.3E+02 0.0027 27.3 6.1 51 254-309 34-84 (160)
11 PF11598 COMP: Cartilage oligo 31.4 57 0.0012 24.9 3.0 20 289-308 17-36 (45)
12 PF10168 Nup88: Nuclear pore c 31.4 3.9E+02 0.0085 30.6 10.7 92 212-304 575-670 (717)
13 PF04111 APG6: Autophagy prote 30.6 2.8E+02 0.0061 28.3 8.7 30 288-317 114-143 (314)
14 TIGR01834 PHA_synth_III_E poly 29.1 3.6E+02 0.0079 28.2 9.2 28 281-309 284-311 (320)
15 cd07664 BAR_SNX2 The Bin/Amphi 28.0 5.9E+02 0.013 25.1 12.3 119 188-308 51-180 (234)
16 PF08702 Fib_alpha: Fibrinogen 27.8 1.7E+02 0.0036 26.9 6.0 22 288-309 105-126 (146)
17 PF04156 IncA: IncA protein; 27.7 4.8E+02 0.01 23.9 10.2 25 237-261 126-150 (191)
18 PF04799 Fzo_mitofusin: fzo-li 27.4 2.2E+02 0.0049 27.2 6.9 23 207-229 96-118 (171)
19 cd03197 GST_C_mPGES2 GST_C fam 25.8 60 0.0013 30.2 2.7 59 361-421 52-112 (149)
20 KOG4552 Vitamin-D-receptor int 25.1 5.5E+02 0.012 25.9 9.2 71 241-322 57-134 (272)
21 KOG0994 Extracellular matrix g 24.0 4.2E+02 0.009 32.8 9.4 38 237-274 1204-1241(1758)
22 COG2443 Sss1 Preprotein transl 23.3 49 0.0011 27.1 1.4 30 190-219 5-34 (65)
23 cd07665 BAR_SNX1 The Bin/Amphi 22.9 7.5E+02 0.016 24.5 12.3 126 189-323 52-189 (234)
24 PF04859 DUF641: Plant protein 22.4 3.5E+02 0.0077 24.8 6.9 25 251-275 45-69 (131)
25 PF05597 Phasin: Poly(hydroxya 22.1 6.1E+02 0.013 23.1 9.4 86 220-308 39-130 (132)
26 COG4295 Uncharacterized protei 21.5 42 0.00091 33.8 0.9 28 119-157 102-130 (285)
27 PF12777 MT: Microtubule-bindi 21.3 8.4E+02 0.018 24.9 10.2 39 289-327 272-311 (344)
28 PRK15362 pathogenicity island 20.7 6.8E+02 0.015 27.6 9.6 75 247-339 101-175 (473)
29 TIGR01069 mutS2 MutS2 family p 20.2 9.1E+02 0.02 27.9 11.1 24 302-325 584-607 (771)
30 KOG4519 Phosphomevalonate kina 20.1 1.6E+02 0.0035 31.5 4.7 60 214-274 306-369 (459)
No 1
>PF05003 DUF668: Protein of unknown function (DUF668); InterPro: IPR007700 This is a family of uncharacterised plant proteins of unknown function.
Probab=99.97 E-value=2.1e-31 Score=222.10 Aligned_cols=67 Identities=61% Similarity=0.966 Sum_probs=65.4
Q ss_pred CcchhhhhhhHHHHHHHHHHHhhcCCCCCCchHHHHhhhCchhHHHHHHhhhcccccc---cccccccCC
Q 014586 356 RLGPAGLALHYANIILQIDSLVARSSSMPPSTRDALYQSLPPSIKSALRSKLQSFHVK---EEVFHVSIT 422 (422)
Q Consensus 356 TLG~AgLALHYANvIi~IEkLvs~p~~v~~~aRD~LY~mLP~sIRsaLRakLr~~~~~---~e~t~~~i~ 422 (422)
|||+|||||||||||+|||+|+++|++||+|+||+||||||++||++||+|||+|.++ +|++++||+
T Consensus 1 tLG~AgLALhYANvI~~ie~l~~~p~~v~~~aRD~LY~mLP~~ir~aLr~kL~~~~~~~~~d~~~a~~~~ 70 (89)
T PF05003_consen 1 TLGGAGLALHYANVIIQIEKLVSRPSSVPPNARDDLYQMLPPSIRSALRSKLRSYWKKAIYDELLAAEWK 70 (89)
T ss_pred CcchHHHHHHHHHHHHHHHHHHcCcccCCchHHHHHHhhCcHHHHHHHHHhccccccccccchhhHHHHH
Confidence 8999999999999999999999999999999999999999999999999999999999 999999874
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=99.95 E-value=9.5e-29 Score=191.38 Aligned_cols=57 Identities=51% Similarity=0.656 Sum_probs=56.4
Q ss_pred eehHHHHHHHHHHHHhhhcCChHHHHHHhhhccCcccchhhcccChHHHHHHHHHHH
Q 014586 136 ILAFEVANTIVKGSNLMLSISESSVRQLKEVVLPAEGVQNLVSKDMDELLKIFAADK 192 (422)
Q Consensus 136 ILAFEVAntMsK~~~L~~SLSd~eI~rLr~evL~SeGV~~LVS~D~~~LL~LA~AEk 192 (422)
||||||||||||++||||||||++|.+||+|+++|||||+|||+|++|||+||||||
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=72.01 E-value=40 Score=38.29 Aligned_cols=174 Identities=15% Similarity=0.221 Sum_probs=92.6
Q ss_pred ccccccCcchhhHHhhhhcccccCCCCC--------CCc-cccccCCCcee-eehHHHHHHHHHHHH-----hhhcCChH
Q 014586 94 GRAGTVGLGKAVDVLDTLGSSMTNLNPN--------NGF-SGVGTKSNELS-ILAFEVANTIVKGSN-----LMLSISES 158 (422)
Q Consensus 94 g~a~~~g~~kav~vldtlgss~~~l~~~--------~gf-sg~~~k~~kIg-ILAFEVAntMsK~~~-----L~~SLSd~ 158 (422)
+-+|-+|+|-|+.|.--+..|+++.+.- +|+ +|.-.+.+|+| +++|=+++++..+.. +...|-|-
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 4457788999999999999999885432 266 78877778865 689999998875542 11111111
Q ss_pred HH-------------HHHhhhccCcccchhhcccChHHH--HHHHHHHHHHHHhHHHhhHhh-hhccCCCc----cccch
Q 014586 159 SV-------------RQLKEVVLPAEGVQNLVSKDMDEL--LKIFAADKRDDLKIFTGEVVR-FGNRSKDP----QWHNL 218 (422)
Q Consensus 159 eI-------------~rLr~evL~SeGV~~LVS~D~~~L--L~LA~AEk~eeL~~~A~~VaR-lG~rC~DP----~lh~f 218 (422)
=| .++...+ + |-++-....+.+. ++=..+++++++..+=.++++ |++.|.++ .=+..
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 333344555554443333333 32344332 12467
Q ss_pred hHHHHHHhhhc-----chhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 014586 219 GRYFEKISREL-----IPQKQLKQEAELLMEQLMTLVQHTAELYNELQILDRFEQDCQHK 273 (422)
Q Consensus 219 dr~F~~l~~~~-----~~~~~~~k~ae~km~kmerlV~~Ta~LY~ELeaL~~lEq~~rrk 273 (422)
+.+|+.+.... .-...|.++.+...+-|..+.+..-+ +.+.+ .++.+.++++
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 88888877632 22345666777666666666655443 22332 4455555433
No 4
>PF14182 YgaB: YgaB-like protein
Probab=50.72 E-value=1e+02 Score=26.26 Aligned_cols=53 Identities=19% Similarity=0.347 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhcCCCCCCCCCccHHHHHHHHHHHHHHHHhhhh
Q 014586 242 LMEQLMTLVQHTAELYNELQILDRFEQDCQHKRQEEDNPVGSQKGESFAILRAELKSQRKQVKILRK 308 (422)
Q Consensus 242 km~kmerlV~~Ta~LY~ELeaL~~lEq~~rrk~~~~~~~~~~~~g~~l~~lqq~l~~QRq~Vk~LK~ 308 (422)
.|+-|++|. .|-+|||.--+.|..+... +.. ..+..++++|..-|++++-+.+
T Consensus 9 Qm~tMD~LL----~LQsElERCqeIE~eL~~l-~~e---------a~l~~i~~EI~~mkk~Lk~Iq~ 61 (79)
T PF14182_consen 9 QMKTMDKLL----FLQSELERCQEIEKELKEL-ERE---------AELHSIQEEISQMKKELKEIQR 61 (79)
T ss_pred HHHHHHHHH----HHHHHHHHHHHHHHHHHHH-HHH---------HhHHHHHHHHHHHHHHHHHHHH
Confidence 455555553 4667777777777777433 221 2378899999999999988764
No 5
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=44.46 E-value=1.4e+02 Score=32.67 Aligned_cols=39 Identities=18% Similarity=0.280 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-----hHHHHHHHHHHHHhh
Q 014586 237 QEAELLMEQLMTLVQHTAELYNEL-----QILDRFEQDCQHKRQ 275 (422)
Q Consensus 237 k~ae~km~kmerlV~~Ta~LY~EL-----eaL~~lEq~~rrk~~ 275 (422)
.+++..+..|+.++..--.||+++ +.|++|+.+||++..
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 677778888888888888899988 458999999987754
No 6
>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=44.23 E-value=1.3e+02 Score=32.94 Aligned_cols=93 Identities=15% Similarity=0.245 Sum_probs=55.9
Q ss_pred cccchhHHHHHHhhh-----cchhhhhHHHHHHHHHHHHHHHHHHHHHHHHH-----hHHHHHHHHHHHHhhhcCCCCCC
Q 014586 214 QWHNLGRYFEKISRE-----LIPQKQLKQEAELLMEQLMTLVQHTAELYNEL-----QILDRFEQDCQHKRQEEDNPVGS 283 (422)
Q Consensus 214 ~lh~fdr~F~~l~~~-----~~~~~~~~k~ae~km~kmerlV~~Ta~LY~EL-----eaL~~lEq~~rrk~~~~~~~~~~ 283 (422)
+|.+++.-|+.+..- ....+..-.+++..+..|+..+..--.||+++ +.|++++.+|+++..+.-....-
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 344555555555431 11122233777888999999999999999998 57999999998775432211110
Q ss_pred CCCccHHHHHHHHHHHHHHHHhh
Q 014586 284 QKGESFAILRAELKSQRKQVKIL 306 (422)
Q Consensus 284 ~~g~~l~~lqq~l~~QRq~Vk~L 306 (422)
.-...+..++.++..=...+++|
T Consensus 249 ~i~~~i~~i~~~l~~~~~~L~~l 271 (560)
T PF06160_consen 249 DIEEEIEQIEEQLEEALALLKNL 271 (560)
T ss_pred CHHHHHHHHHHHHHHHHHHHHcC
Confidence 11123555555555555555543
No 7
>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=39.69 E-value=29 Score=27.85 Aligned_cols=66 Identities=14% Similarity=0.204 Sum_probs=46.9
Q ss_pred HHHHHHHHhhhcCChHHHHHHhhhccCcccchhhcccChHHHHHHHHHHHHHHHhHHHhhHhhhhccCCCccccchh
Q 014586 143 NTIVKGSNLMLSISESSVRQLKEVVLPAEGVQNLVSKDMDELLKIFAADKRDDLKIFTGEVVRFGNRSKDPQWHNLG 219 (422)
Q Consensus 143 ntMsK~~~L~~SLSd~eI~rLr~evL~SeGV~~LVS~D~~~LL~LA~AEk~eeL~~~A~~VaRlG~rC~DP~lh~fd 219 (422)
|...|+-..+..|++.|-. |-.-+-++.+.+..+-..|..+.+.+--.+|.||.+++.=..|+.|-
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 44455677888889999999999999999999999999855444443
No 8
>KOG4403 consensus Cell surface glycoprotein STIM, contains SAM domain [General function prediction only]
Probab=38.70 E-value=67 Score=35.12 Aligned_cols=84 Identities=23% Similarity=0.224 Sum_probs=52.7
Q ss_pred chhhcccChHHH---HHHHHHHHHHHHhHHHhhHhhhhccCCCc-cc-cchhHHHHHHhhhcchh------hhhHHHHHH
Q 014586 173 VQNLVSKDMDEL---LKIFAADKRDDLKIFTGEVVRFGNRSKDP-QW-HNLGRYFEKISRELIPQ------KQLKQEAEL 241 (422)
Q Consensus 173 V~~LVS~D~~~L---L~LA~AEk~eeL~~~A~~VaRlG~rC~DP-~l-h~fdr~F~~l~~~~~~~------~~~~k~ae~ 241 (422)
.-+|-+.+-+|+ |.|-----++-|..-|=.|+=||---+++ .| .+|=-+|.-+..-.-.| +..++.+.+
T Consensus 167 lPRlAv~n~~f~~~~Lgikd~~hrQKlqLkalDvVLFGpp~~~~~n~~KD~iLv~lili~v~gcw~ay~Qnk~akehv~k 246 (575)
T KOG4403|consen 167 LPRLAVPNSDFLGKVLGIKDRSHRQKLQLKALDVVLFGPPYKTNHNWTKDFILVVLILIGVGGCWFAYRQNKKAKEHVNK 246 (575)
T ss_pred ccccccCchHHhhhhhccCchHHHHhhhhhhcceEEecCCcCCCcchhhhHHHHHHHHHHhhhhhhhhhhhhHHHHHHHH
Confidence 345555566665 44444455788888899999999766665 56 78888888776633333 223466666
Q ss_pred HHHHHHHHHHHHHHH
Q 014586 242 LMEQLMTLVQHTAEL 256 (422)
Q Consensus 242 km~kmerlV~~Ta~L 256 (422)
.|++|+-|-.+-.+|
T Consensus 247 m~kdle~Lq~aEqsl 261 (575)
T KOG4403|consen 247 MMKDLEGLQRAEQSL 261 (575)
T ss_pred HHHHHHHHHHHHHHH
Confidence 666666665544433
No 9
>KOG3498 consensus Preprotein translocase, gamma subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=35.31 E-value=24 Score=29.06 Aligned_cols=31 Identities=19% Similarity=0.420 Sum_probs=25.5
Q ss_pred HHHHHHhHHHhhHhhhhccCCCccccchhHH
Q 014586 191 DKRDDLKIFTGEVVRFGNRSKDPQWHNLGRY 221 (422)
Q Consensus 191 Ek~eeL~~~A~~VaRlG~rC~DP~lh~fdr~ 221 (422)
.+.+-++.|+++-.||-+||.-|....|-..
T Consensus 6 ~~~~~~~~f~k~s~rf~krC~KPdrKEf~ki 36 (67)
T KOG3498|consen 6 QLVEPLRDFAKDSIRFVKRCTKPDRKEFTKI 36 (67)
T ss_pred HhcchHHHHHHHHHHHHHHhcCCcHHHHHHH
Confidence 3567789999999999999999977766543
No 10
>PF13094 CENP-Q: CENP-Q, a CENPA-CAD centromere complex subunit
Probab=33.31 E-value=1.3e+02 Score=27.30 Aligned_cols=51 Identities=16% Similarity=0.206 Sum_probs=36.9
Q ss_pred HHHHHHHhHHHHHHHHHHHHhhhcCCCCCCCCCccHHHHHHHHHHHHHHHHhhhhc
Q 014586 254 AELYNELQILDRFEQDCQHKRQEEDNPVGSQKGESFAILRAELKSQRKQVKILRKK 309 (422)
Q Consensus 254 a~LY~ELeaL~~lEq~~rrk~~~~~~~~~~~~g~~l~~lqq~l~~QRq~Vk~LK~~ 309 (422)
..|..+++.|+.|+..+++....-+. ..+.+..|++.++.+..+++...++
T Consensus 34 ~qL~~~~~~l~lLq~e~~~~e~~le~-----d~~~L~~Le~~~~~~~~e~~~~~~~ 84 (160)
T PF13094_consen 34 RQLAANLHQLELLQEEIEKEEAALER-----DYEYLQELEKNAKALEREREEEEKK 84 (160)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45668889999999888766443332 2456888999988888887776554
No 11
>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=31.42 E-value=57 Score=24.89 Aligned_cols=20 Identities=30% Similarity=0.473 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHhhhh
Q 014586 289 FAILRAELKSQRKQVKILRK 308 (422)
Q Consensus 289 l~~lqq~l~~QRq~Vk~LK~ 308 (422)
+.+++..++.|++|...||.
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 56788899999999999985
No 12
>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=31.36 E-value=3.9e+02 Score=30.62 Aligned_cols=92 Identities=15% Similarity=0.180 Sum_probs=39.2
Q ss_pred CccccchhHHHHHHhhhcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhH----HHHHHHHHHHHhhhcCCCCCCCCCc
Q 014586 212 DPQWHNLGRYFEKISRELIPQKQLKQEAELLMEQLMTLVQHTAELYNELQI----LDRFEQDCQHKRQEEDNPVGSQKGE 287 (422)
Q Consensus 212 DP~lh~fdr~F~~l~~~~~~~~~~~k~ae~km~kmerlV~~Ta~LY~ELea----L~~lEq~~rrk~~~~~~~~~~~~g~ 287 (422)
+-|++.++.+-++...=......+.++.|...++-+.+++....+.+-++. |.+-|+++++.++..... ...-..
T Consensus 575 e~Ql~~L~~l~e~~~~l~~~ae~LaeR~e~a~d~Qe~L~~R~~~vl~~l~~~~P~LS~AEr~~~~EL~~~~~~-l~~l~~ 653 (717)
T PF10168_consen 575 EQQLKELQELQEERKSLRESAEKLAERYEEAKDKQEKLMKRVDRVLQLLNSQLPVLSEAEREFKKELERMKDQ-LQDLKA 653 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHH-HHHHHH
Confidence 334444444444433322222233333333333333444444444443332 566666665544432210 000123
Q ss_pred cHHHHHHHHHHHHHHHH
Q 014586 288 SFAILRAELKSQRKQVK 304 (422)
Q Consensus 288 ~l~~lqq~l~~QRq~Vk 304 (422)
.++.++.++..|+.++.
T Consensus 654 si~~lk~k~~~Q~~~i~ 670 (717)
T PF10168_consen 654 SIEQLKKKLDYQQRQIE 670 (717)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 45666666666666555
No 13
>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=30.61 E-value=2.8e+02 Score=28.35 Aligned_cols=30 Identities=17% Similarity=0.319 Sum_probs=22.7
Q ss_pred cHHHHHHHHHHHHHHHHhhhhcccccccHH
Q 014586 288 SFAILRAELKSQRKQVKILRKKSLWSRSLE 317 (422)
Q Consensus 288 ~l~~lqq~l~~QRq~Vk~LK~~SLWsrt~d 317 (422)
....+...+.+-+.++..|++...||.+|.
T Consensus 114 e~~sl~~q~~~~~~~L~~L~ktNv~n~~F~ 143 (314)
T PF04111_consen 114 ERDSLKNQYEYASNQLDRLRKTNVYNDTFH 143 (314)
T ss_dssp HHHHHHHHHHHHHHHHHCHHT--TTTTT--
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCchhceee
Confidence 356778888888999999999999999884
No 14
>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=29.10 E-value=3.6e+02 Score=28.16 Aligned_cols=28 Identities=18% Similarity=0.300 Sum_probs=20.5
Q ss_pred CCCCCCccHHHHHHHHHHHHHHHHhhhhc
Q 014586 281 VGSQKGESFAILRAELKSQRKQVKILRKK 309 (422)
Q Consensus 281 ~~~~~g~~l~~lqq~l~~QRq~Vk~LK~~ 309 (422)
+.|.+. -+++++++|-.=|++||+||+.
T Consensus 284 nlPTRs-ElDe~~krL~ELrR~vr~L~k~ 311 (320)
T TIGR01834 284 NLPTRS-ELDEAHQRIQQLRREVKSLKKR 311 (320)
T ss_pred CCCCHH-HHHHHHHHHHHHHHHHHHHHHH
Confidence 444444 3788888888888888888764
No 15
>cd07664 BAR_SNX2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 2. 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. SNX2 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=28.02 E-value=5.9e+02 Score=25.08 Aligned_cols=119 Identities=17% Similarity=0.183 Sum_probs=65.7
Q ss_pred HHHHHHHHHhHHHhhHhhhhccCCCc----cccchhHHHHHHhhhcchhhhhH---HHHHHHHHHHHHHHHHHHHHHHH-
Q 014586 188 FAADKRDDLKIFTGEVVRFGNRSKDP----QWHNLGRYFEKISRELIPQKQLK---QEAELLMEQLMTLVQHTAELYNE- 259 (422)
Q Consensus 188 A~AEk~eeL~~~A~~VaRlG~rC~DP----~lh~fdr~F~~l~~~~~~~~~~~---k~ae~km~kmerlV~~Ta~LY~E- 259 (422)
-..|....+..||.++.-||+-=..+ .+.+|-.++.++..-. +++.. -...-.++...|++++...++.+
T Consensus 51 ~rkela~~~~efa~s~~~L~~~E~~~~ls~~l~~laev~~ki~~~~--~~qa~~d~~~l~e~L~eYiR~i~svK~~f~~R 128 (234)
T cd07664 51 HRKELSANTAAFAKSAAMLGNSEDHTALSRALSQLAEVEEKIDQLH--QDQAFADFYLFSELLGDYIRLIAAVKGVFDQR 128 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCcccchHHHHHHHHHHHHHHHHHHH--HHHHHHhHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence 34577888889999999998832223 2233333333333221 11221 12233566666777777555443
Q ss_pred ---HhHHHHHHHHHHHHhhhcCCCCCCCCCccHHHHHHHHHHHHHHHHhhhh
Q 014586 260 ---LQILDRFEQDCQHKRQEEDNPVGSQKGESFAILRAELKSQRKQVKILRK 308 (422)
Q Consensus 260 ---LeaL~~lEq~~rrk~~~~~~~~~~~~g~~l~~lqq~l~~QRq~Vk~LK~ 308 (422)
.+.....++++.+|....+......+.+++..++.+|..-...|...++
T Consensus 129 ~k~~~~~~~a~~~L~kkr~~~~Kl~~~~k~dK~~~~~~ev~~~e~~~~~a~~ 180 (234)
T cd07664 129 MKCWQKWQDAQVTLQKKREAEAKLQYANKPDKLQQAKDEIKEWEAKVQQGER 180 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcCchhHHHHHHHHHHHHHHHHHHHHH
Confidence 3556677788876653322211122346788888888765555555554
No 16
>PF08702 Fib_alpha: Fibrinogen alpha/beta chain family; InterPro: IPR012290 Fibrinogen plays key roles in both blood clotting and platelet aggregation. During blood clot formation, the conversion of soluble fibrinogen to insoluble fibrin is triggered by thrombin, resulting in the polymerisation of fibrin, which forms a soft clot; this is then converted to a hard clot by factor XIIIA, which cross-links fibrin molecules. Platelet aggregation involves the binding of the platelet protein receptor integrin alpha(IIb)-beta(3) to the C-terminal D domain of fibrinogen []. In addition to platelet aggregation, platelet-fibrinogen interaction mediates both adhesion and fibrin clot retraction. Fibrinogen occurs as a dimer, where each monomer is composed of three non-identical chains, alpha, beta and gamma, linked together by several disulphide bonds []. The N-terminals of all six chains come together to form the centre of the molecule (E domain), from which the monomers extend in opposite directions as coiled coils, followed by C-terminal globular domains (D domains). Therefore, the domain composition is: D-coil-E-coil-D. At each end, the C-terminal of the alpha chain extends beyond the D domain as a protuberance that is important for cross-linking the molecule. During clot formation, the N-terminal fragments of the alpha and beta chains (within the E domain) in fibrinogen are cleaved by thrombin, releasing fibrinopeptides A and B, respectively, and producing fibrin. This cleavage results in the exposure of four binding sites on the E domain, each of which can bind to a D domain from different fibrin molecules. The binding of fibrin molecules produces a polymer consisting of a lattice network of fibrins that form a long, branching, flexible fibre [, ]. Fibrin fibres interact with platelets to increase the size of the clot, as well as with several different proteins and cells, thereby promoting the inflammatory response and concentrating the cells required for wound repair at the site of damage. This entry represents the coiled-coil domain and part of the N-terminal E domain found in all three fibrinogen polypeptides, namely the alpha, beta and gamma chains. More information about these proteins can be found at Protein of the Month: Fibrinogen [].; GO: 0005102 receptor binding, 0030674 protein binding, bridging, 0007165 signal transduction, 0030168 platelet activation, 0051258 protein polymerization, 0005577 fibrinogen complex; PDB: 1LWU_D 1N73_D 1M1J_B 1JY2_R 1JY3_R 1RF0_A 2H43_D 1RE4_D 2XNY_D 2HPC_D ....
Probab=27.84 E-value=1.7e+02 Score=26.92 Aligned_cols=22 Identities=23% Similarity=0.498 Sum_probs=17.7
Q ss_pred cHHHHHHHHHHHHHHHHhhhhc
Q 014586 288 SFAILRAELKSQRKQVKILRKK 309 (422)
Q Consensus 288 ~l~~lqq~l~~QRq~Vk~LK~~ 309 (422)
++..||.-+..|++++++|+..
T Consensus 105 ~I~~Lq~~~~~~~~ki~~Le~~ 126 (146)
T PF08702_consen 105 NIRVLQNILRSNRQKIQRLEQD 126 (146)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5778888888888888888753
No 17
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=27.73 E-value=4.8e+02 Score=23.86 Aligned_cols=25 Identities=20% Similarity=0.227 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q 014586 237 QEAELLMEQLMTLVQHTAELYNELQ 261 (422)
Q Consensus 237 k~ae~km~kmerlV~~Ta~LY~ELe 261 (422)
+..+.+++.++.-+....+-++++.
T Consensus 126 ~~~~~~l~~l~~~~~~~~~e~~~l~ 150 (191)
T PF04156_consen 126 KSVEERLDSLDESIKELEKEIRELQ 150 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444445544444444444444444
No 18
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=27.45 E-value=2.2e+02 Score=27.25 Aligned_cols=23 Identities=9% Similarity=0.271 Sum_probs=7.3
Q ss_pred hccCCCccccchhHHHHHHhhhc
Q 014586 207 GNRSKDPQWHNLGRYFEKISREL 229 (422)
Q Consensus 207 G~rC~DP~lh~fdr~F~~l~~~~ 229 (422)
+..|.+--++.++..|++|....
T Consensus 96 sancs~QVqqeL~~tf~rL~~~V 118 (171)
T PF04799_consen 96 SANCSHQVQQELSSTFARLCQQV 118 (171)
T ss_dssp --------------HHHHHHHHH
T ss_pred hcchHHHHHHHHHHHHHHHHHHH
Confidence 57999999999999999998754
No 19
>cd03197 GST_C_mPGES2 GST_C family; microsomal Prostaglandin E synthase Type 2 (mPGES2) subfamily; mPGES2 is a membrane-anchored dimeric protein containing a CXXC motif which catalyzes the isomerization of PGH2 to PGE2. Unlike cytosolic PGE synthase (cPGES) and microsomal PGES Type 1 (mPGES1), mPGES2 does not require glutathione (GSH) for its activity, although its catalytic rate is increased two- to four-fold in the presence of DTT, GSH, or other thiol compounds. PGE2 is widely distributed in various tissues and is implicated in the sleep/wake cycle, relaxation/contraction of smooth muscle, excretion of sodium ions, maintenance of body temperature, and mediation of inflammation. mPGES2 contains an N-terminal hydrophobic domain which is membrane associated and a C-terminal soluble domain with a GST-like structure. The C-terminus contains two structural domains a N-terminal thioredoxin-fold domain and a C-terminal alpha helical domain. The GST active site is located in a cleft between t
Probab=25.84 E-value=60 Score=30.17 Aligned_cols=59 Identities=17% Similarity=0.285 Sum_probs=44.4
Q ss_pred hhhhhHHH--HHHHHHHHhhcCCCCCCchHHHHhhhCchhHHHHHHhhhcccccccccccccC
Q 014586 361 GLALHYAN--IILQIDSLVARSSSMPPSTRDALYQSLPPSIKSALRSKLQSFHVKEEVFHVSI 421 (422)
Q Consensus 361 gLALHYAN--vIi~IEkLvs~p~~v~~~aRD~LY~mLP~sIRsaLRakLr~~~~~~e~t~~~i 421 (422)
-+..+|.. +.-.|-+.+..|+.|..|.|.+||.-+-.-+. ++..+ +.|..-+++||..|
T Consensus 52 r~~~~~~Ga~aM~~isk~lkk~~~i~~D~r~~L~~a~~~w~~-~~~~~-~~FlaGd~ptIADi 112 (149)
T cd03197 52 KFFAKYVGAAAMYLISKYLKKPRLLQDDVREWLYDALNTWVA-ALGKD-RQFHGGSKPNLADL 112 (149)
T ss_pred HHHHHHhhHHHHHHHHHHhccccCCCchHHHHHHHHHHHHHH-HhcCC-CCccCCCCCCHHHH
Confidence 34556655 22456677889999988899999999999985 45444 66888899999876
No 20
>KOG4552 consensus Vitamin-D-receptor interacting protein complex component [Transcription]
Probab=25.14 E-value=5.5e+02 Score=25.90 Aligned_cols=71 Identities=17% Similarity=0.194 Sum_probs=47.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHH-HHH------HHHHHHhhhcCCCCCCCCCccHHHHHHHHHHHHHHHHhhhhccccc
Q 014586 241 LLMEQLMTLVQHTAELYNELQILD-RFE------QDCQHKRQEEDNPVGSQKGESFAILRAELKSQRKQVKILRKKSLWS 313 (422)
Q Consensus 241 ~km~kmerlV~~Ta~LY~ELeaL~-~lE------q~~rrk~~~~~~~~~~~~g~~l~~lqq~l~~QRq~Vk~LK~~SLWs 313 (422)
-.+++|++++-.-++..|+|+.|. +.| |.+++-++. .-.+|-..++.-+|+.|+.++.-+--
T Consensus 57 ~ef~~llkla~eq~k~e~~m~~Lea~VEkrD~~IQqLqk~LK~-----------aE~iLtta~fqA~qKLksi~~A~krp 125 (272)
T KOG4552|consen 57 DEFKTLLKLAPEQQKREQLMRTLEAHVEKRDEVIQQLQKNLKS-----------AEVILTTACFQANQKLKSIKEAEKRP 125 (272)
T ss_pred HHHHHHHHHhHhHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 468888888888888888887763 222 222222222 22457777888889999998887777
Q ss_pred ccHHHHHHH
Q 014586 314 RSLEEVMEK 322 (422)
Q Consensus 314 rt~d~vV~k 322 (422)
-+-|+++..
T Consensus 126 vsSEelIKy 134 (272)
T KOG4552|consen 126 VSSEELIKY 134 (272)
T ss_pred CCHHHHHHH
Confidence 676766543
No 21
>KOG0994 consensus Extracellular matrix glycoprotein Laminin subunit beta [Extracellular structures]
Probab=24.04 E-value=4.2e+02 Score=32.83 Aligned_cols=38 Identities=8% Similarity=0.137 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHh
Q 014586 237 QEAELLMEQLMTLVQHTAELYNELQILDRFEQDCQHKR 274 (422)
Q Consensus 237 k~ae~km~kmerlV~~Ta~LY~ELeaL~~lEq~~rrk~ 274 (422)
.+|+.|++....++++++-=-.+++.|+..=+.+||.+
T Consensus 1204 ~~me~kl~~ir~il~~~svs~~~i~~l~~~~~~lr~~l 1241 (1758)
T KOG0994|consen 1204 LDMEEKLEEIRAILSAPSVSAEDIAQLASATESLRRQL 1241 (1758)
T ss_pred HHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHH
Confidence 67888888887777554433344444444444444433
No 22
>COG2443 Sss1 Preprotein translocase subunit Sss1 [Intracellular trafficking and secretion]
Probab=23.26 E-value=49 Score=27.14 Aligned_cols=30 Identities=27% Similarity=0.542 Sum_probs=26.7
Q ss_pred HHHHHHHhHHHhhHhhhhccCCCccccchh
Q 014586 190 ADKRDDLKIFTGEVVRFGNRSKDPQWHNLG 219 (422)
Q Consensus 190 AEk~eeL~~~A~~VaRlG~rC~DP~lh~fd 219 (422)
-++.|+++.|=++-.|+=++|+-|.|..|-
T Consensus 5 ~~~~e~~~~~lke~~rvl~~arKP~~eEy~ 34 (65)
T COG2443 5 MDKPEELREFLKEYRRVLKVARKPDWEEYS 34 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCHHHHH
Confidence 478899999999999999999999997664
No 23
>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=22.87 E-value=7.5e+02 Score=24.51 Aligned_cols=126 Identities=13% Similarity=0.207 Sum_probs=70.9
Q ss_pred HHHHHHHHhHHHhhHhhhhccCCCccccchhHHHHHHhhh--c---chhhhhH---HHHHHHHHHHHHHHHHHHHHHHH-
Q 014586 189 AADKRDDLKIFTGEVVRFGNRSKDPQWHNLGRYFEKISRE--L---IPQKQLK---QEAELLMEQLMTLVQHTAELYNE- 259 (422)
Q Consensus 189 ~AEk~eeL~~~A~~VaRlG~rC~DP~lh~fdr~F~~l~~~--~---~~~~~~~---k~ae~km~kmerlV~~Ta~LY~E- 259 (422)
..|+...+..||.++.-||+-=.+|.+ -+.|+.|..- . ..+++.. -...-.++..-|+|.+....+.+
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 467778888899999988875444533 2444444320 0 1111111 22334455555666665444433
Q ss_pred ---HhHHHHHHHHHHHHhhhcCCCCCCCCCccHHHHHHHHHHHHHHHHhhhhcccccccHHHHHHHH
Q 014586 260 ---LQILDRFEQDCQHKRQEEDNPVGSQKGESFAILRAELKSQRKQVKILRKKSLWSRSLEEVMEKL 323 (422)
Q Consensus 260 ---LeaL~~lEq~~rrk~~~~~~~~~~~~g~~l~~lqq~l~~QRq~Vk~LK~~SLWsrt~d~vV~kL 323 (422)
.+..-.+++++.+|....+......+.+++...+.+|.--.+.|...++ .||.|.+.+
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 2455666888876654322211122456888888888877777777776 466654443
No 24
>PF04859 DUF641: Plant protein of unknown function (DUF641); InterPro: IPR006943 This conserved region is found in a number of plant proteins of unknown function.
Probab=22.38 E-value=3.5e+02 Score=24.78 Aligned_cols=25 Identities=16% Similarity=0.309 Sum_probs=19.6
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHhh
Q 014586 251 QHTAELYNELQILDRFEQDCQHKRQ 275 (422)
Q Consensus 251 ~~Ta~LY~ELeaL~~lEq~~rrk~~ 275 (422)
.+-..+-.||+.|.+|-+-|+++..
T Consensus 45 aAD~~vVsEL~~Ls~LK~~y~~~~~ 69 (131)
T PF04859_consen 45 AADEAVVSELRRLSELKRRYRKKQS 69 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 4445667899999999999987643
No 25
>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=22.13 E-value=6.1e+02 Score=23.15 Aligned_cols=86 Identities=21% Similarity=0.246 Sum_probs=46.3
Q ss_pred HHHHHHhhhc-chhhhhHHHHHHHHH----HHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhh-cCCCCCCCCCccHHHHH
Q 014586 220 RYFEKISREL-IPQKQLKQEAELLME----QLMTLVQHTAELYNELQILDRFEQDCQHKRQE-EDNPVGSQKGESFAILR 293 (422)
Q Consensus 220 r~F~~l~~~~-~~~~~~~k~ae~km~----kmerlV~~Ta~LY~ELeaL~~lEq~~rrk~~~-~~~~~~~~~g~~l~~lq 293 (422)
.+|+.|+.+. .-+...++.++..+. .|...|..... +-.+.++++|+.+-..... -...+.|.+ .-++.|.
T Consensus 39 k~F~~LVk~Ge~~e~~~~~~~~e~~~~~~~~~~~~~~~~~~--~~~~~~dklE~~fd~rV~~aL~rLgvPs~-~dv~~L~ 115 (132)
T PF05597_consen 39 KVFEALVKEGEKLEKKTRKKAEEQVEEARDQVKSRVDDVKE--RATGQWDKLEQAFDERVARALNRLGVPSR-KDVEALS 115 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHhcCCCCH-HHHHHHH
Confidence 5788888753 223333333333332 22233332222 2335677788876554432 122233443 3488888
Q ss_pred HHHHHHHHHHHhhhh
Q 014586 294 AELKSQRKQVKILRK 308 (422)
Q Consensus 294 q~l~~QRq~Vk~LK~ 308 (422)
.+|..--.+|..|..
T Consensus 116 ~rId~L~~~v~~l~~ 130 (132)
T PF05597_consen 116 ARIDQLTAQVERLAN 130 (132)
T ss_pred HHHHHHHHHHHHHhc
Confidence 888888888887754
No 26
>COG4295 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.45 E-value=42 Score=33.76 Aligned_cols=28 Identities=32% Similarity=0.637 Sum_probs=22.4
Q ss_pred CCCCCc-cccccCCCceeeehHHHHHHHHHHHHhhhcCCh
Q 014586 119 NPNNGF-SGVGTKSNELSILAFEVANTIVKGSNLMLSISE 157 (422)
Q Consensus 119 ~~~~gf-sg~~~k~~kIgILAFEVAntMsK~~~L~~SLSd 157 (422)
||+||| +|+-... .-+.++.+||.||-.
T Consensus 102 NPGGGF~~GAqAQE-----------EslaR~S~lY~sL~k 130 (285)
T COG4295 102 NPGGGFQSGAQAQE-----------ESLARASSLYPSLIK 130 (285)
T ss_pred CCCCccccchhhhh-----------HHHhhhccchHhhhc
Confidence 899999 8885543 357899999999865
No 27
>PF12777 MT: Microtubule-binding stalk of dynein motor; InterPro: IPR024743 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules (D1-6), of which four correspond to the ATP binding sites with P-loop signatures, and two are modules in which the P loop has been lost in evolution. This domain occurs between D4 and D5 and includes the two predicted alpha-helical coiled coil segments that form the stalk supporting the ATP-sensitive microtubule binding component [].; PDB: 3VKH_A 3VKG_A 3ERR_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 2RR7_A.
Probab=21.29 E-value=8.4e+02 Score=24.92 Aligned_cols=39 Identities=28% Similarity=0.448 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHhhh-hcccccccHHHHHHHHHHHH
Q 014586 289 FAILRAELKSQRKQVKILR-KKSLWSRSLEEVMEKLVDIV 327 (422)
Q Consensus 289 l~~lqq~l~~QRq~Vk~LK-~~SLWsrt~d~vV~kLvriV 327 (422)
+...+.++..-.+-+..|. ++.=|..+++..-+.+..++
T Consensus 272 ~~~~~~kl~rA~~Li~~L~~E~~RW~~~~~~l~~~~~~l~ 311 (344)
T PF12777_consen 272 IEETERKLERAEKLISGLSGEKERWSEQIEELEEQLKNLV 311 (344)
T ss_dssp HHHHHHHHHHHHHHHHCCHHHHHCCHCHHHHHHHHHHHHH
T ss_pred HHHHHhhhccHHHHHhhhcchhhhHHHHHHHHHHHhcccH
Confidence 3445555665566666664 35569999999877666654
No 28
>PRK15362 pathogenicity island 2 effector protein SseC; Provisional
Probab=20.67 E-value=6.8e+02 Score=27.63 Aligned_cols=75 Identities=12% Similarity=0.198 Sum_probs=57.7
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHhhhcCCCCCCCCCccHHHHHHHHHHHHHHHHhhhhcccccccHHHHHHHHHHH
Q 014586 247 MTLVQHTAELYNELQILDRFEQDCQHKRQEEDNPVGSQKGESFAILRAELKSQRKQVKILRKKSLWSRSLEEVMEKLVDI 326 (422)
Q Consensus 247 erlV~~Ta~LY~ELeaL~~lEq~~rrk~~~~~~~~~~~~g~~l~~lqq~l~~QRq~Vk~LK~~SLWsrt~d~vV~kLvri 326 (422)
..|......++.-||...+-..-+|.| ...++|++|.-+-++-..-||..+|++-||-++ -+
T Consensus 101 ~~~ad~a~s~~kq~ei~td~Q~~LR~k--------------~~~e~q~qi~ka~e~adkA~KagIf~~ifdWi~----~~ 162 (473)
T PRK15362 101 SVFGDNAQSLCQALEIATEVQEALRDK--------------QVKEYQEQIQKAIEQEDKARKAGIFGAIFDWIV----GI 162 (473)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHH----HH
Confidence 355566677777777777777777654 267899999999999999999999999998765 35
Q ss_pred HHHHHHHHHHhhC
Q 014586 327 VTFLLLEMHDAFG 339 (422)
Q Consensus 327 V~~i~~rI~~VFG 339 (422)
|-.|+.-|+.+=|
T Consensus 163 ~e~v~Ga~kv~~G 175 (473)
T PRK15362 163 FETVIGALKVVEG 175 (473)
T ss_pred HHHHHHHHHHHhc
Confidence 5666777877766
No 29
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=20.15 E-value=9.1e+02 Score=27.87 Aligned_cols=24 Identities=21% Similarity=0.324 Sum_probs=11.1
Q ss_pred HHHhhhhcccccccHHHHHHHHHH
Q 014586 302 QVKILRKKSLWSRSLEEVMEKLVD 325 (422)
Q Consensus 302 ~Vk~LK~~SLWsrt~d~vV~kLvr 325 (422)
.++.||+.+.=.+...++...+..
T Consensus 584 ~i~~lk~~~~~~~~~~~~~~~~~~ 607 (771)
T TIGR01069 584 IIRELKEKKIHKAKEIKSIEDLVK 607 (771)
T ss_pred HHHHHHhccccHHHHHHHHHHHHH
Confidence 344467654333444444444433
No 30
>KOG4519 consensus Phosphomevalonate kinase [Lipid transport and metabolism]
Probab=20.10 E-value=1.6e+02 Score=31.55 Aligned_cols=60 Identities=17% Similarity=0.171 Sum_probs=37.9
Q ss_pred cccchhHHHHHHhhhcchhhhhH----HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHh
Q 014586 214 QWHNLGRYFEKISRELIPQKQLK----QEAELLMEQLMTLVQHTAELYNELQILDRFEQDCQHKR 274 (422)
Q Consensus 214 ~lh~fdr~F~~l~~~~~~~~~~~----k~ae~km~kmerlV~~Ta~LY~ELeaL~~lEq~~rrk~ 274 (422)
.|.+||+.+.++.+.......+. .--.+.++-++++- .|...|.|+-.+.+--...||-+
T Consensus 306 ~~~~lddansr~~~~l~kl~~l~~~h~d~~~~v~eSl~~~~-~~~~~~~e~~E~r~a~~~IRr~~ 369 (459)
T KOG4519|consen 306 NWQNLDDANSRLETKLNKLSKLAKDHWDVYLRVIESLSVLT-INEAIIKELLEAREAMLRIRRLM 369 (459)
T ss_pred hhcchhhHHHHHHhhhhhhhHhhhhchhHHHHHHhhccccc-chhhhhhHHHHHHHHHHHHHHHH
Confidence 69999999999988765533322 22344556566554 56677888766655555555444
Done!