Query 012047
Match_columns 472
No_of_seqs 119 out of 141
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 08:03:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012047.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012047hhsearch_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 1.4E-45 3.1E-50 310.5 8.4 86 352-437 1-89 (89)
2 PF11961 DUF3475: Domain of un 99.9 2.7E-28 5.9E-33 191.2 4.1 57 132-188 1-57 (57)
3 TIGR02865 spore_II_E stage II 58.0 63 0.0014 37.3 10.0 178 89-269 190-403 (764)
4 PF05527 DUF758: Domain of unk 44.4 2.2E+02 0.0049 27.9 10.0 42 184-254 34-75 (186)
5 PF14182 YgaB: YgaB-like prote 40.5 2E+02 0.0044 24.9 7.9 52 239-304 10-61 (79)
6 KOG3498 Preprotein translocase 31.1 39 0.00084 28.3 2.2 31 187-217 6-36 (67)
7 PF01418 HTH_6: Helix-turn-hel 29.2 34 0.00074 27.9 1.6 65 139-214 2-66 (77)
8 PRK03333 coaE dephospho-CoA ki 29.1 73 0.0016 33.7 4.4 71 362-436 131-202 (395)
9 PF05597 Phasin: Poly(hydroxya 28.7 3.2E+02 0.0068 25.4 7.9 87 215-304 38-130 (132)
10 PF09139 Mmp37: Mitochondrial 27.9 82 0.0018 33.3 4.4 50 378-427 241-302 (330)
11 PF11598 COMP: Cartilage oligo 27.6 68 0.0015 24.9 2.8 20 285-304 17-36 (45)
12 PRK10174 hypothetical protein; 26.5 24 0.00053 29.7 0.3 19 431-453 1-19 (75)
13 PF13094 CENP-Q: CENP-Q, a CEN 26.2 2.3E+02 0.005 26.1 6.6 52 249-305 33-84 (160)
14 TIGR01834 PHA_synth_III_E poly 26.2 5.2E+02 0.011 27.5 9.9 31 274-305 281-311 (320)
15 PF09712 PHA_synth_III_E: Poly 24.1 5.2E+02 0.011 26.7 9.3 29 275-304 265-293 (293)
16 PF06160 EzrA: Septation ring 23.7 3.3E+02 0.0071 30.4 8.3 70 233-302 197-271 (560)
17 PRK04778 septation ring format 23.6 3.5E+02 0.0077 30.1 8.6 39 233-271 201-244 (569)
18 KOG4552 Vitamin-D-receptor int 23.5 7.5E+02 0.016 25.4 9.9 74 237-317 57-133 (272)
19 PF04111 APG6: Autophagy prote 23.3 1.4E+02 0.0029 31.1 5.0 30 284-313 114-143 (314)
20 PF05983 Med7: MED7 protein; 23.0 6.5E+02 0.014 23.8 10.1 34 164-200 52-85 (162)
21 KOG2574 mRNA splicing factor P 21.6 88 0.0019 34.5 3.3 47 384-430 280-338 (492)
22 COG2443 Sss1 Preprotein transl 20.8 63 0.0014 26.9 1.6 30 186-215 5-34 (65)
23 PF06005 DUF904: Protein of un 20.6 2.6E+02 0.0056 23.4 5.2 16 304-319 54-69 (72)
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=1.4e-45 Score=310.52 Aligned_cols=86 Identities=56% Similarity=0.893 Sum_probs=84.9
Q ss_pred CcchhhhhhhHHHHHHHHHHHhhCCCCCCCchhHHhhccCchHHHHHHhhhcccccCC---CCCcHHHHHHHHHHHHhhH
Q 012047 352 SLGSAGLALHYANIINQIDNIVSRPSSLPPNMRDTLYNGLPATVKMNLRSRLQTVNGK---EELPAFQIKAEMEKTLQWL 428 (472)
Q Consensus 352 TLG~AgLALHYANVIi~IEkLvs~P~~v~~~aRD~LYqmLP~sIRsaLRskLr~~~~~---de~la~ewk~amekiL~WL 428 (472)
|||+|||||||||||+|||+|+++|++||+|+||+||||||++||++||+|||++++. |+.+++|||++|+|||+||
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 8999999999999999999999999999999999999999999999999999999988 9999999999999999999
Q ss_pred hhhhhhhhh
Q 012047 429 VPVATNTTK 437 (472)
Q Consensus 429 aPmAhNTir 437 (472)
+||||||||
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=99.94 E-value=2.7e-28 Score=191.19 Aligned_cols=57 Identities=61% Similarity=0.780 Sum_probs=56.4
Q ss_pred eehHHHHHHHHHHHhhhhhCCHHHHHHHhhhhccccccccccccCHHHHHHHHHHHH
Q 012047 132 ILAFEVANTIAKGANLFQSLSEENIQFLKTEVLHSSGVQELVSTDMKELLRIAAADK 188 (472)
Q Consensus 132 ILAFEVAntMsK~~~L~~SLSd~eI~rLr~evL~SeGV~~LVS~D~~~LL~LA~AEk 188 (472)
||||||||||||++||||||||++|.+||+||++|||||+|||+|++|||+||||||
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=57.97 E-value=63 Score=37.33 Aligned_cols=178 Identities=19% Similarity=0.199 Sum_probs=95.9
Q ss_pred ccccccccchhhHHhhhccccccCCCCC--------CCcccccccCCCeee-eehHHHHHHHHHHHh-----hhhhCCHH
Q 012047 89 GRGGAAGLAMTVDVLDALGSSMSSLNAS--------SGFISGVTSKGNKIS-ILAFEVANTIAKGAN-----LFQSLSEE 154 (472)
Q Consensus 89 g~a~~~g~~kav~vldtlgssm~~l~~~--------~gf~sg~~~kg~kIg-ILAFEVAntMsK~~~-----L~~SLSd~ 154 (472)
+-+|-+|+|.|+.|.--+-.|+++.+.- +|+.+|.-++..|+| +++|=+++++..+.. +...|-|-
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 3456678899999998888888765332 377888888888865 689999998875542 11111121
Q ss_pred HHHHHhhhhccc---cccccccc-------cCHHHH--HHHHHHHHHHHHHHHHHHHHH-hhccCCCc----ccCchhHH
Q 012047 155 NIQFLKTEVLHS---SGVQELVS-------TDMKEL--LRIAAADKREEFDVFLREVIR-FGNLCKDP----QWHNLDRY 217 (472)
Q Consensus 155 eI~rLr~evL~S---eGV~~LVS-------~D~~~L--L~LA~AEk~eeL~~~A~~VaR-lG~rC~DP----~lh~fdr~ 217 (472)
=|+-+-==+++. +.+.+.++ ..+.+. ++=..++|++++..+=.++++ |++.|.++ .=...|.+
T Consensus 270 ~ia~~lFll~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~rl~~~a~~~~~Ls~tf~~~~~~~~~~~~~~~~~~~ 349 (764)
T TIGR02865 270 LIATLLFLLIPNKIYKKLERYLDGERKQPDLQEDYMRKVREIAAEKLEEFSEVFRELSNTFVEALASNEKLTMKRKSSYL 349 (764)
T ss_pred HHHHHHHHHhhHHHHHHHHhhCCCchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccccchhhHHHH
Confidence 111111011121 12222222 122222 333445565555444444444 43344432 12467888
Q ss_pred Hhhhhhhhcc-----CCCchhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 012047 218 FSNLKSEYLN-----HRQPRGEAETRMKELTTLAQHTSELYHEYNALDRFELDYRRK 269 (472)
Q Consensus 218 F~~l~~~~~~-----~~~~~k~ae~k~kkmerlV~~Ta~LY~ELeaL~~lEq~~rRk 269 (472)
|+.+...... ...|.++.+...+-|..+.+..-+ +.+.+ .++.+.++++
T Consensus 350 ~~~v~~~vC~~C~~~~~CW~~~~~~Ty~~~~~l~~~~e~-~~~~~--~~~p~~~~~~ 403 (764)
T TIGR02865 350 LENLAERVCQSCNMKHRCWKREFDYTYSAMEELIENLEE-KKDPN--SKLPDEFERK 403 (764)
T ss_pred HHHHhhchhhCCCCCchhhCcchHHHHHHHHHHHHHHHh-cCCch--hhhhHHHHHh
Confidence 8887644432 223667777777777777766444 33333 4555555433
No 4
>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=44.36 E-value=2.2e+02 Score=27.94 Aligned_cols=42 Identities=21% Similarity=0.347 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhccCCCcccCchhHHHhhhhhhhccCCCchhHHHHHHHHHHHHHHHHHHHHH
Q 012047 184 AAADKREEFDVFLREVIRFGNLCKDPQWHNLDRYFSNLKSEYLNHRQPRGEAETRMKELTTLAQHTSELYH 254 (472)
Q Consensus 184 A~AEk~eeL~~~A~~VaRlG~rC~DP~lh~fdr~F~~l~~~~~~~~~~~k~ae~k~kkmerlV~~Ta~LY~ 254 (472)
..+|.+++|-.++.++.+ .+++|++.++.+.+.|-...-||+
T Consensus 34 tsselLD~ly~l~K~~t~-----------------------------~kkeA~ki~KniIKi~vKigvl~r 75 (186)
T PF05527_consen 34 TSSELLDELYRLLKEYTG-----------------------------NKKEAEKIIKNIIKIVVKIGVLYR 75 (186)
T ss_dssp HHHHHHHHHHHHHHHHHS------------------------------HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHhc-----------------------------CHHHHHHHHHHHHHHHHHhheeee
Confidence 356667787777776552 579999999999999999999986
No 5
>PF14182 YgaB: YgaB-like protein
Probab=40.51 E-value=2e+02 Score=24.90 Aligned_cols=52 Identities=19% Similarity=0.344 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhhccCCCCCCCcchHHHHHHHHHHHHHHHhhhh
Q 012047 239 MKELTTLAQHTSELYHEYNALDRFELDYRRKLEELDSLNLPRKGEGVTFLHSDLKQQRKLVRSLKK 304 (472)
Q Consensus 239 ~kkmerlV~~Ta~LY~ELeaL~~lEq~~rRk~~~~~~~~~~~~g~~l~~lqqel~~QRk~Vk~LK~ 304 (472)
|+-|++|. .|-+|||.--+.|..+ .+++.. ..+..++++|..-|++++-+.+
T Consensus 10 m~tMD~LL----~LQsElERCqeIE~eL-~~l~~e---------a~l~~i~~EI~~mkk~Lk~Iq~ 61 (79)
T PF14182_consen 10 MKTMDKLL----FLQSELERCQEIEKEL-KELERE---------AELHSIQEEISQMKKELKEIQR 61 (79)
T ss_pred HHHHHHHH----HHHHHHHHHHHHHHHH-HHHHHH---------HhHHHHHHHHHHHHHHHHHHHH
Confidence 55666654 4667777777777777 333322 2578899999999999887764
No 6
>KOG3498 consensus Preprotein translocase, gamma subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=31.11 E-value=39 Score=28.29 Aligned_cols=31 Identities=23% Similarity=0.478 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHhhccCCCcccCchhHH
Q 012047 187 DKREEFDVFLREVIRFGNLCKDPQWHNLDRY 217 (472)
Q Consensus 187 Ek~eeL~~~A~~VaRlG~rC~DP~lh~fdr~ 217 (472)
.+.+-++.|+++-.||-+||.-|.-..|-..
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 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=29.21 E-value=34 Score=27.88 Aligned_cols=65 Identities=15% Similarity=0.227 Sum_probs=45.6
Q ss_pred HHHHHHHhhhhhCCHHHHHHHhhhhccccccccccccCHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCcccCch
Q 012047 139 NTIAKGANLFQSLSEENIQFLKTEVLHSSGVQELVSTDMKELLRIAAADKREEFDVFLREVIRFGNLCKDPQWHNL 214 (472)
Q Consensus 139 ntMsK~~~L~~SLSd~eI~rLr~evL~SeGV~~LVS~D~~~LL~LA~AEk~eeL~~~A~~VaRlG~rC~DP~lh~f 214 (472)
|.+.++-..+..||+.|-. |-.-|-++.+.+..+-..|..+.+.+--.+|.||.+++.=..|..|
T Consensus 2 ~l~~~i~~~~~~ls~~e~~-----------Ia~yil~~~~~~~~~si~elA~~~~vS~sti~Rf~kkLG~~gf~ef 66 (77)
T PF01418_consen 2 NLLEKIRSQYNSLSPTEKK-----------IADYILENPDEIAFMSISELAEKAGVSPSTIVRFCKKLGFSGFKEF 66 (77)
T ss_dssp -HHHHHHHHGGGS-HHHHH-----------HHHHHHH-HHHHCT--HHHHHHHCTS-HHHHHHHHHHCTTTCHHHH
T ss_pred cHHHHHHHHHhhCCHHHHH-----------HHHHHHhCHHHHHHccHHHHHHHcCCCHHHHHHHHHHhCCCCHHHH
Confidence 4566777788899988754 3344556788888899999999999999999999999885444443
No 8
>PRK03333 coaE dephospho-CoA kinase/protein folding accessory domain-containing protein; Provisional
Probab=29.09 E-value=73 Score=33.74 Aligned_cols=71 Identities=11% Similarity=0.111 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHhhCCCCCCCchhHHhhccCchHHHHHHhhhcccccCCCCCcHHHHHHHHHHHH-hhHhhhhhhhh
Q 012047 362 YANIINQIDNIVSRPSSLPPNMRDTLYNGLPATVKMNLRSRLQTVNGKEELPAFQIKAEMEKTL-QWLVPVATNTT 436 (472)
Q Consensus 362 YANVIi~IEkLvs~P~~v~~~aRD~LYqmLP~sIRsaLRskLr~~~~~de~la~ewk~amekiL-~WLaPmAhNTi 436 (472)
+|..=++++++..+-..-..++...+..-.|..-| ..+-.+......+.++....+.+++ .||.|+||||-
T Consensus 131 ~ap~e~ri~Rl~~rRg~s~~~a~~ri~~Q~~~e~k----~~~AD~vIdN~~s~e~l~~~v~~~l~~~~~~~~~~~~ 202 (395)
T PRK03333 131 DADVEVRVRRLVEQRGMAEADARARIAAQASDEQR----RAVADVWLDNSGTPDELVEAVRALWADRLLPFAHNLR 202 (395)
T ss_pred ECCHHHHHHHHHhcCCCCHHHHHHHHHhcCChHHH----HHhCCEEEECCCCHHHHHHHHHHHHHHHHhhHHHHHh
Confidence 45666777887764322222222223322332222 2222343345556778777776654 89999999985
No 9
>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=28.67 E-value=3.2e+02 Score=25.36 Aligned_cols=87 Identities=17% Similarity=0.324 Sum_probs=47.7
Q ss_pred hHHHhhhhh-hhccCCCchhHHHHHHH----HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhh-ccCCCCCCCcchHHH
Q 012047 215 DRYFSNLKS-EYLNHRQPRGEAETRMK----ELTTLAQHTSELYHEYNALDRFELDYRRKLEEL-DSLNLPRKGEGVTFL 288 (472)
Q Consensus 215 dr~F~~l~~-~~~~~~~~~k~ae~k~k----kmerlV~~Ta~LY~ELeaL~~lEq~~rRk~~~~-~~~~~~~~g~~l~~l 288 (472)
..+|+.|+. |..-....++.++..+. .|...|..... +-.+.++++|+.+-+....- ..+..|.+ .-++.|
T Consensus 38 ~k~F~~LVk~Ge~~e~~~~~~~~e~~~~~~~~~~~~~~~~~~--~~~~~~dklE~~fd~rV~~aL~rLgvPs~-~dv~~L 114 (132)
T PF05597_consen 38 SKVFEALVKEGEKLEKKTRKKAEEQVEEARDQVKSRVDDVKE--RATGQWDKLEQAFDERVARALNRLGVPSR-KDVEAL 114 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHhcCCCCH-HHHHHH
Confidence 357888874 33322222233333232 22233322222 23466788888876655433 23445554 357888
Q ss_pred HHHHHHHHHHHHhhhh
Q 012047 289 HSDLKQQRKLVRSLKK 304 (472)
Q Consensus 289 qqel~~QRk~Vk~LK~ 304 (472)
..+|..--.+|..|..
T Consensus 115 ~~rId~L~~~v~~l~~ 130 (132)
T PF05597_consen 115 SARIDQLTAQVERLAN 130 (132)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 8888888888877754
No 10
>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=27.86 E-value=82 Score=33.29 Aligned_cols=50 Identities=14% Similarity=0.244 Sum_probs=39.3
Q ss_pred CCCCchhHHhhccCchHHHHHHhhhccccc------------CCCCCcHHHHHHHHHHHHhh
Q 012047 378 SLPPNMRDTLYNGLPATVKMNLRSRLQTVN------------GKEELPAFQIKAEMEKTLQW 427 (472)
Q Consensus 378 ~v~~~aRD~LYqmLP~sIRsaLRskLr~~~------------~~de~la~ewk~amekiL~W 427 (472)
..+|++|-.|-..||.+++..|..+..... ..|+.....++.++.+|-.|
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 466889999999999999999998876422 23556677788888888776
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=27.58 E-value=68 Score=24.88 Aligned_cols=20 Identities=35% Similarity=0.305 Sum_probs=17.3
Q ss_pred hHHHHHHHHHHHHHHHhhhh
Q 012047 285 VTFLHSDLKQQRKLVRSLKK 304 (472)
Q Consensus 285 l~~lqqel~~QRk~Vk~LK~ 304 (472)
+.++++.++.|++|+..||.
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
>PRK10174 hypothetical protein; Provisional
Probab=26.47 E-value=24 Score=29.73 Aligned_cols=19 Identities=47% Similarity=0.803 Sum_probs=15.0
Q ss_pred hhhhhhhhcccCcchhhhhhcCC
Q 012047 431 VATNTTKAHQGFGWVGEWANTGY 453 (472)
Q Consensus 431 mAhNTirwh~gfgwvgEwa~~g~ 453 (472)
|+..+.+.|| |||||+-..
T Consensus 1 m~t~~~k~Hh----v~eWA~vR~ 19 (75)
T PRK10174 1 MPTQEAKAHH----VGEWASLRN 19 (75)
T ss_pred Cccccccchh----HHHHHHHhh
Confidence 5677889998 999997543
No 13
>PF13094 CENP-Q: CENP-Q, a CENPA-CAD centromere complex subunit
Probab=26.19 E-value=2.3e+02 Score=26.06 Aligned_cols=52 Identities=15% Similarity=0.158 Sum_probs=36.7
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHhhccCCCCCCCcchHHHHHHHHHHHHHHHhhhhc
Q 012047 249 TSELYHEYNALDRFELDYRRKLEELDSLNLPRKGEGVTFLHSDLKQQRKLVRSLKKK 305 (472)
Q Consensus 249 Ta~LY~ELeaL~~lEq~~rRk~~~~~~~~~~~~g~~l~~lqqel~~QRk~Vk~LK~~ 305 (472)
-..|..+++.|+.|+..+++....-+. ..+.+..|++.++.+..+++...++
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 345668889999999988655433321 2357888999988888887776554
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=26.18 E-value=5.2e+02 Score=27.46 Aligned_cols=31 Identities=39% Similarity=0.588 Sum_probs=23.6
Q ss_pred ccCCCCCCCcchHHHHHHHHHHHHHHHhhhhc
Q 012047 274 DSLNLPRKGEGVTFLHSDLKQQRKLVRSLKKK 305 (472)
Q Consensus 274 ~~~~~~~~g~~l~~lqqel~~QRk~Vk~LK~~ 305 (472)
.+++.|.+. -+++++++|-.=|++||+||+.
T Consensus 281 ~~LnlPTRs-ElDe~~krL~ELrR~vr~L~k~ 311 (320)
T TIGR01834 281 KMLNLPTRS-ELDEAHQRIQQLRREVKSLKKR 311 (320)
T ss_pred HhCCCCCHH-HHHHHHHHHHHHHHHHHHHHHH
Confidence 356666654 4888889999999999988875
No 15
>PF09712 PHA_synth_III_E: Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E)
Probab=24.13 E-value=5.2e+02 Score=26.65 Aligned_cols=29 Identities=45% Similarity=0.612 Sum_probs=23.8
Q ss_pred cCCCCCCCcchHHHHHHHHHHHHHHHhhhh
Q 012047 275 SLNLPRKGEGVTFLHSDLKQQRKLVRSLKK 304 (472)
Q Consensus 275 ~~~~~~~g~~l~~lqqel~~QRk~Vk~LK~ 304 (472)
.++.|.+. -+.++..+|-.=|++||.||+
T Consensus 265 ~l~lPTr~-evd~l~k~l~eLrre~r~Lkr 293 (293)
T PF09712_consen 265 SLNLPTRS-EVDELYKRLHELRREVRALKR 293 (293)
T ss_pred HCCCCCHH-HHHHHHHHHHHHHHHHHHhcC
Confidence 45666654 489999999999999999985
No 16
>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=23.73 E-value=3.3e+02 Score=30.40 Aligned_cols=70 Identities=21% Similarity=0.326 Sum_probs=45.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH-----hHHHHHHHHHHHHHHhhccCCCCCCCcchHHHHHHHHHHHHHHHhh
Q 012047 233 GEAETRMKELTTLAQHTSELYHEY-----NALDRFELDYRRKLEELDSLNLPRKGEGVTFLHSDLKQQRKLVRSL 302 (472)
Q Consensus 233 k~ae~k~kkmerlV~~Ta~LY~EL-----eaL~~lEq~~rRk~~~~~~~~~~~~g~~l~~lqqel~~QRk~Vk~L 302 (472)
.+++..+..|+..+..--.||+++ +.|++|+.+|+.+..+.=..+--.-...+..++.++..=...+++|
T Consensus 197 ~~l~~~~~~l~~~~e~IP~l~~~l~~~~P~ql~eL~~gy~~m~~~gy~l~~~~i~~~i~~i~~~l~~~~~~L~~l 271 (560)
T PF06160_consen 197 EKLKEETDELEEIMEDIPKLYKELQKEFPDQLEELKEGYREMEEEGYYLEHLDIEEEIEQIEEQLEEALALLKNL 271 (560)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHhHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHcC
Confidence 677888899999999999999998 5899999999666543211110011124455555555555555543
No 17
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=23.61 E-value=3.5e+02 Score=30.06 Aligned_cols=39 Identities=23% Similarity=0.447 Sum_probs=31.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH-----hHHHHHHHHHHHHHH
Q 012047 233 GEAETRMKELTTLAQHTSELYHEY-----NALDRFELDYRRKLE 271 (472)
Q Consensus 233 k~ae~k~kkmerlV~~Ta~LY~EL-----eaL~~lEq~~rRk~~ 271 (472)
.+++..+..|+.++..--.||+++ +.|++|+.+|+++..
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 667777888888888888899988 458999999966654
No 18
>KOG4552 consensus Vitamin-D-receptor interacting protein complex component [Transcription]
Probab=23.54 E-value=7.5e+02 Score=25.36 Aligned_cols=74 Identities=19% Similarity=0.219 Sum_probs=47.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHH-HHHHHHH--HHHHhhccCCCCCCCcchHHHHHHHHHHHHHHHhhhhcccccccHH
Q 012047 237 TRMKELTTLAQHTSELYHEYNALD-RFELDYR--RKLEELDSLNLPRKGEGVTFLHSDLKQQRKLVRSLKKKSLWSRNLE 313 (472)
Q Consensus 237 ~k~kkmerlV~~Ta~LY~ELeaL~-~lEq~~r--Rk~~~~~~~~~~~~g~~l~~lqqel~~QRk~Vk~LK~~SLWsrt~d 313 (472)
-.+++|+++|-.-++..|+|+.|. +.|.--+ ++++.. + .+.-.+|-..++.-+|+.++.++.-+=--+-|
T Consensus 57 ~ef~~llkla~eq~k~e~~m~~Lea~VEkrD~~IQqLqk~--L-----K~aE~iLtta~fqA~qKLksi~~A~krpvsSE 129 (272)
T KOG4552|consen 57 DEFKTLLKLAPEQQKREQLMRTLEAHVEKRDEVIQQLQKN--L-----KSAEVILTTACFQANQKLKSIKEAEKRPVSSE 129 (272)
T ss_pred HHHHHHHHHhHhHHHHHHHHHHHHHHHHHhHHHHHHHHHH--H-----HHHHHHHHHHHHHHHHHHHHHHHHhcCCCCHH
Confidence 458899999999999888887773 2222111 111111 0 01235677778888888998888877776767
Q ss_pred HHHH
Q 012047 314 EVME 317 (472)
Q Consensus 314 ~vV~ 317 (472)
+++.
T Consensus 130 elIK 133 (272)
T KOG4552|consen 130 ELIK 133 (272)
T ss_pred HHHH
Confidence 6654
No 19
>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=23.30 E-value=1.4e+02 Score=31.06 Aligned_cols=30 Identities=10% Similarity=0.232 Sum_probs=22.6
Q ss_pred chHHHHHHHHHHHHHHHhhhhcccccccHH
Q 012047 284 GVTFLHSDLKQQRKLVRSLKKKSLWSRNLE 313 (472)
Q Consensus 284 ~l~~lqqel~~QRk~Vk~LK~~SLWsrt~d 313 (472)
....+...+..-+.++..|++...||.+|.
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 456777888888999999999999999884
No 20
>PF05983 Med7: MED7 protein; InterPro: IPR009244 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This family consists of several eukaryotic proteins, which are homologues of the yeast MED7 protein. Activation of gene transcription in metazoans is a multistep process that is triggered by factors that recognise transcriptional enhancer sites in DNA. These factors work with co-activators such as MED7 to direct transcriptional initiation by the RNA polymerase II apparatus [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex; PDB: 3FBI_C 3FBN_A 1YKH_A 1YKE_A.
Probab=22.95 E-value=6.5e+02 Score=23.80 Aligned_cols=34 Identities=21% Similarity=0.455 Sum_probs=13.4
Q ss_pred ccccccccccccCHHHHHHHHHHHHHHHHHHHHHHHH
Q 012047 164 LHSSGVQELVSTDMKELLRIAAADKREEFDVFLREVI 200 (472)
Q Consensus 164 L~SeGV~~LVS~D~~~LL~LA~AEk~eeL~~~A~~Va 200 (472)
|.+.|+++|-..+.+ .-.-.|+++||+.+.++.-
T Consensus 52 L~~~gi~qLy~~~~~---~~~~~d~~~eLkkL~~sll 85 (162)
T PF05983_consen 52 LESQGIRQLYPPDDD---PSPSVDRKKELKKLNKSLL 85 (162)
T ss_dssp ---------------------HHHHHHHHHHHHHHHH
T ss_pred chhccccccCCCccc---cCCCchHHHHHHHHHHHHH
Confidence 777888888877722 2345688999999988875
No 21
>KOG2574 consensus mRNA splicing factor PRP31 [RNA processing and modification]
Probab=21.61 E-value=88 Score=34.54 Aligned_cols=47 Identities=19% Similarity=0.334 Sum_probs=34.5
Q ss_pred hHHhhccCchHHH----------HHHhhhcccccC-CCCCcHHHHHHHHHHHH-hhHhh
Q 012047 384 RDTLYNGLPATVK----------MNLRSRLQTVNG-KEELPAFQIKAEMEKTL-QWLVP 430 (472)
Q Consensus 384 RD~LYqmLP~sIR----------saLRskLr~~~~-~de~la~ewk~amekiL-~WLaP 430 (472)
--++||-.||.+| .+|-+|.-.... .+.....+||+++++-+ .|+-|
T Consensus 280 ~s~ivQk~Ppdl~~ka~Rl~aAKvtLAARVDa~he~~~g~~g~~~k~evekK~eKl~Ep 338 (492)
T KOG2574|consen 280 ASDIVQKTPPDLRKKAARLVAAKVTLAARVDAGHESPNGELGHEFKAEVEKKIEKLQEP 338 (492)
T ss_pred HHhHhhhcCccHHHHHHHHHHHHHHHHHHhhccccCCccHHHHHHHHHHHHHHHhhcCC
Confidence 5678888888886 467777776554 46677899999997655 56654
No 22
>COG2443 Sss1 Preprotein translocase subunit Sss1 [Intracellular trafficking and secretion]
Probab=20.79 E-value=63 Score=26.91 Aligned_cols=30 Identities=33% Similarity=0.648 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHhhccCCCcccCchh
Q 012047 186 ADKREEFDVFLREVIRFGNLCKDPQWHNLD 215 (472)
Q Consensus 186 AEk~eeL~~~A~~VaRlG~rC~DP~lh~fd 215 (472)
-++.|++..|-++-.|+=++|+-|.|..|-
T Consensus 5 ~~~~e~~~~~lke~~rvl~~arKP~~eEy~ 34 (65)
T COG2443 5 MDKPEELREFLKEYRRVLKVARKPDWEEYS 34 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCHHHHH
Confidence 478899999999999999999999886553
No 23
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=20.56 E-value=2.6e+02 Score=23.41 Aligned_cols=16 Identities=19% Similarity=0.673 Sum_probs=9.7
Q ss_pred hcccccccHHHHHHHH
Q 012047 304 KKSLWSRNLEEVMEKF 319 (472)
Q Consensus 304 ~~SLWsrt~d~vV~~L 319 (472)
+.+-|...++.++.+|
T Consensus 54 e~~~~~~rl~~LL~kl 69 (72)
T PF06005_consen 54 ERNAWQERLRSLLGKL 69 (72)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhh
Confidence 3455666666666655
Done!