Query 042281
Match_columns 271
No_of_seqs 128 out of 396
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 04:42:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042281.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042281hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13968 DUF4220: Domain of un 100.0 1.4E-63 3.1E-68 469.5 14.9 214 51-271 1-262 (362)
2 TIGR02587 putative integral me 46.9 74 0.0016 29.3 6.8 48 15-71 36-83 (271)
3 COG3336 Predicted membrane pro 45.1 32 0.0007 32.0 4.2 84 12-105 9-101 (299)
4 PF09323 DUF1980: Domain of un 42.5 1.2E+02 0.0026 25.8 7.2 54 18-72 2-56 (182)
5 PF09925 DUF2157: Predicted me 39.3 1.3E+02 0.0029 24.4 6.8 46 44-97 87-132 (145)
6 PF10866 DUF2704: Protein of u 33.9 43 0.00094 28.3 3.0 56 190-245 60-116 (168)
7 PF00367 PTS_EIIB: phosphotran 28.9 58 0.0013 20.3 2.3 16 94-109 3-18 (35)
8 PRK15071 lipopolysaccharide AB 25.1 5.5E+02 0.012 23.8 9.2 16 85-100 332-347 (356)
9 TIGR02737 caa3_CtaG cytochrome 24.7 1.2E+02 0.0026 28.0 4.5 82 14-105 9-100 (281)
10 PRK15120 lipopolysaccharide AB 24.3 5.3E+02 0.011 24.1 9.0 79 14-101 264-342 (366)
11 PF03739 YjgP_YjgQ: Predicted 23.9 5.5E+02 0.012 23.4 9.0 79 11-98 267-345 (354)
12 PF09773 Meckelin: Meckelin (T 23.4 2.1E+02 0.0046 30.7 6.6 60 11-70 358-423 (853)
13 cd05833 Ribosomal_P2 Ribosomal 22.2 36 0.00078 27.0 0.5 19 92-110 5-23 (109)
14 PF12550 GCR1_C: Transcription 21.4 55 0.0012 24.1 1.4 17 2-18 4-20 (81)
15 PF10754 DUF2569: Protein of u 21.4 2.5E+02 0.0054 23.1 5.4 56 16-71 56-111 (149)
No 1
>PF13968 DUF4220: Domain of unknown function (DUF4220)
Probab=100.00 E-value=1.4e-63 Score=469.54 Aligned_cols=214 Identities=41% Similarity=0.667 Sum_probs=193.9
Q ss_pred HHHHHhhhhhHHHHHHhhhhcccCCCCCCCCCCcchhhhHHHHHHHHHhcCCCceeeeeccchhhhhHHHHHHHhhhhee
Q 042281 51 IWSAYLLADWAANFGIGLITERARDNPELSMPTEKELLAFWAPFLLLHLGGPDTITAFALEDNELWIRQLLGLVVQVVAA 130 (271)
Q Consensus 51 lWlAY~~ad~~a~YaLG~l~~~~~~~~~~~~~~~~~L~~~WApfLLlhLGG~DtITAysleDn~lw~Rhll~l~~Qv~~a 130 (271)
+|+||+++|++|+|+||+||++++ |.+++|++|||||||+||||||||||||+||||+|+||++++++|++++
T Consensus 1 lWlay~~sd~~a~Y~LG~l~~~~~-------~~~~~l~~~WAp~LLlhlgg~d~itaysleDn~lw~R~ll~ll~qv~~a 73 (362)
T PF13968_consen 1 LWLAYLLSDSLATYALGLLQSSSS-------PFKSQLFPFWAPFLLLHLGGQDTITAYSLEDNELWLRHLLTLLVQVIWA 73 (362)
T ss_pred CchHHhhhHHHHHHHHHHHhcCCC-------CCCcchhhhHHHHHHHHhCCCcceeeeecccchHHHHHHHHHHHHhhhh
Confidence 699999999999999999999862 5799999999999999999999999999999999999999999999999
Q ss_pred eEEEEeccCCCcchHHHHHHHHHHHHHHHHHHHHHHHhchhhhhhccccee----------------e------------
Q 042281 131 VYIFFQSLHGNKLLFPTVLVFIAAMIKYFERIRALYLASLEKFRDLSLKIQ----------------L------------ 182 (271)
Q Consensus 131 ~Yv~~~s~~~~~l~~~~~l~fv~G~iKy~eR~~aL~~as~~~l~~s~~~i~----------------v------------ 182 (271)
+||++++|+|+.+..|+++||++|++||+||+||+++||.+.+++++.+.+ +
T Consensus 74 ~Yv~~~~~~g~~l~~~~~lLfv~gi~K~~eR~~AL~~As~~~i~~s~~~~~~~~~~~~~~m~~~~~~~~~~~~~~~~~~~ 153 (362)
T PF13968_consen 74 LYVFYKSWSGSRLLAPAILLFVVGIIKYGERIWALRRASSRSIRSSMMGEPDPGPNYAETMEGYKYLVEEEYPKEIRILK 153 (362)
T ss_pred heeeeeecccchHHHHHHHHHHHHHHHHHHHHHHHHccchhhhHHhhhhhhcccccchhhccccchhccccccceeeecc
Confidence 999999998778999999999999999999999999999988887764310 0
Q ss_pred cc-------------------ccccchhhHHHHhhhhHHHHHHhhcccccCcccccccccccccC-ChhhHHHHHHHHHH
Q 042281 183 EH-------------------FKRLRALDYVEVGCQYFNLFRLILVDLVPSFKDVKLEEPSIDDF-SPAEALGIIEVELN 242 (271)
Q Consensus 183 e~-------------------~~~~~~~~~l~~a~~lf~~~r~~f~d~~~~~~~~~~~~~~~~~~-~~~~afkviE~ELs 242 (271)
++ .++.++++++|.||++|+++||+|+|++++++++.++++++.+. |++++|||+|+||+
T Consensus 154 ~~~~~~~~~~~~v~~~~~~~~~~~~~~~k~l~ls~aLf~llrr~f~d~~~~~~~~~~~~~~~~~l~~~~~af~vie~ELs 233 (362)
T PF13968_consen 154 EEDLETLVTVDKVWESLLDSREESDPELKDLCLSFALFKLLRRRFVDFPLSESGRLKTRDFFRGLDDAERAFRVIEMELS 233 (362)
T ss_pred ccccccCCccceecccccchhcccccHHHHHHHHHHHHHHHHhhhhCCCcchhhhHHHHHHHhccccHHHHHHHHHHHHH
Confidence 00 01224577899999999999999999999999999999998775 58999999999999
Q ss_pred HHHhhhhcccccccccchhhhhhhcccCC
Q 042281 243 LVYEVFHTKIQVTQGVLGIVLRFISFGSV 271 (271)
Q Consensus 243 f~yD~lYTK~~v~~t~~G~~~r~~s~~~~ 271 (271)
||||++|||++++||+.|+++|++|++++
T Consensus 234 f~yD~~YTk~~v~~~~~~~~~~~~s~~~~ 262 (362)
T PF13968_consen 234 FLYDYLYTKAPVVHTWLGLFLRVISLLST 262 (362)
T ss_pred HHHHheeccceeeeeccchHHHHHHHHHH
Confidence 99999999999999999999999998753
No 2
>TIGR02587 putative integral membrane protein TIGR02587. Members of this family are found in Nostoc sp. PCC 7120, Agrobacterium tumefaciens, Sinorhizobium meliloti, and Gloeobacter violaceus in a conserved two-gene neighborhood. This family, as defined, includes some members of COG4711 but is narrower and strictly bacterial. Members appear to span the membrane seven times.
Probab=46.91 E-value=74 Score=29.29 Aligned_cols=48 Identities=15% Similarity=0.175 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCCCCchhhHHHHHHHHHhhhhhHHHHHHhhhhc
Q 042281 15 DWNIRGVILFSLSLQTVLVFFAPLRKTTGHKLIILIIWSAYLLADWAANFGIGLITE 71 (271)
Q Consensus 15 ~w~i~~LVl~S~~Lq~~L~~~~~~Rrr~~~~~lr~~lWlAY~~ad~~a~YaLG~l~~ 71 (271)
-|++=.++.+|+.+-..+...+++||+... ..- ..|.+..|++|.+.+
T Consensus 36 p~~lllll~~sl~i~~~lv~~~GFr~~~~~--~~~-------i~eti~ay~Iglv~S 83 (271)
T TIGR02587 36 PRRLVLLIALMFPVLFLLNYTEGFRKRKRV--REA-------VIDTVEAMAIGFVCS 83 (271)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccccccch--HHH-------HHHHHHHHHHHHHHH
Confidence 788889999999999999999999998432 222 347777777776654
No 3
>COG3336 Predicted membrane protein [Function unknown]
Probab=45.11 E-value=32 Score=31.99 Aligned_cols=84 Identities=23% Similarity=0.261 Sum_probs=50.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCc-h--hhHHHHHHHHHhhhhhHHH----HHHhh--hhcccCCCCCCCCC
Q 042281 12 LWNDWNIRGVILFSLSLQTVLVFFAPLRKTTG-H--KLIILIIWSAYLLADWAAN----FGIGL--ITERARDNPELSMP 82 (271)
Q Consensus 12 ~w~~w~i~~LVl~S~~Lq~~L~~~~~~Rrr~~-~--~~lr~~lWlAY~~ad~~a~----YaLG~--l~~~~~~~~~~~~~ 82 (271)
...-|+.+.+..+-.+.-.+..+.+..|.|+. + +..|.+.|+.=.++-..|+ ++.|+ ++.+-
T Consensus 9 ~~~~w~~~l~l~l~~i~~~~~y~~~~~r~rr~g~~wp~~r~~~~~lG~val~~a~~Spv~~~g~~mfs~HM--------- 79 (299)
T COG3336 9 FRTMWRFDLLLGLLGIVLLYFYIAGRVRSRREGISWPLGRVILWLLGCVALYGAVGSPVRAYGHAMFSLHM--------- 79 (299)
T ss_pred ehhhcchHHHHHHHHHHHHHHHHHHHHHhcccCCcccHHHHHHHHHHHHHHHHHhCCchhhhccccHHHHH---------
Confidence 34568888777777776666666666555333 3 3678888865444433322 33332 22221
Q ss_pred CcchhhhHHHHHHHHHhcCCCce
Q 042281 83 TEKELLAFWAPFLLLHLGGPDTI 105 (271)
Q Consensus 83 ~~~~L~~~WApfLLlhLGG~DtI 105 (271)
.+|.+.-.=||.|++ ||+|-+.
T Consensus 80 a~hm~L~mvappLlV-Lg~P~~l 101 (299)
T COG3336 80 AEHMLLMMVAPPLLV-LGAPVTL 101 (299)
T ss_pred HHHHHHHHHHHHHHH-HcchHHH
Confidence 466777777887665 8988763
No 4
>PF09323 DUF1980: Domain of unknown function (DUF1980); InterPro: IPR015402 Members of this occur in gene pairs with members of PF03773 from PFAM. The N-terminal region contains several predicted transmembrane helix regions while the few invariant residues (G, CxxD, and W) occur in the C-terminal region. Members of this family are found in a set of prokaryotic hypothetical proteins. Their exact function has not, as yet, been defined.
Probab=42.53 E-value=1.2e+02 Score=25.78 Aligned_cols=54 Identities=17% Similarity=0.061 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHH-HHcCCCCCCchhhHHHHHHHHHhhhhhHHHHHHhhhhcc
Q 042281 18 IRGVILFSLSLQTVLV-FFAPLRKTTGHKLIILIIWSAYLLADWAANFGIGLITER 72 (271)
Q Consensus 18 i~~LVl~S~~Lq~~L~-~~~~~Rrr~~~~~lr~~lWlAY~~ad~~a~YaLG~l~~~ 72 (271)
||+++|+.+...++-+ ..|..-++-+++...++. .|=.+.-.+|.+.+-.....
T Consensus 2 ir~liL~~~~~l~~~l~~sG~i~~YI~P~~~~~~~-~a~i~l~ilai~q~~~~~~~ 56 (182)
T PF09323_consen 2 IRFLILLGFGILLFYLILSGKILLYIHPRYIPLLY-FAAILLLILAIVQLWRWFRP 56 (182)
T ss_pred HHHHHHHHHHHHHHHHHHhCcHHHHhCccHHHHHH-HHHHHHHHHHHHHHHHHHhc
Confidence 6888888888776655 455555566665554443 33333333444444444444
No 5
>PF09925 DUF2157: Predicted membrane protein (DUF2157); InterPro: IPR018677 This family of various hypothetical prokaryotic proteins has no known function.
Probab=39.28 E-value=1.3e+02 Score=24.37 Aligned_cols=46 Identities=17% Similarity=0.050 Sum_probs=27.2
Q ss_pred hhhHHHHHHHHHhhhhhHHHHHHhhhhcccCCCCCCCCCCcchhhhHHHHHHHH
Q 042281 44 HKLIILIIWSAYLLADWAANFGIGLITERARDNPELSMPTEKELLAFWAPFLLL 97 (271)
Q Consensus 44 ~~~lr~~lWlAY~~ad~~a~YaLG~l~~~~~~~~~~~~~~~~~L~~~WApfLLl 97 (271)
++..+-.+.+.-.+.-...+.-+|.+.+..+ ...+++..|+...+.
T Consensus 87 ~~~~~~~l~~l~~~l~ga~ialigQ~y~~~~--------~~~~~~~~W~~~~l~ 132 (145)
T PF09925_consen 87 SPRLAEALLLLGAVLFGALIALIGQIYQTGA--------DPWQLFLLWALLALP 132 (145)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHhHhcCCC--------chHHHHHHHHHHHHH
Confidence 3334444444444445556666777776543 356799999876654
No 6
>PF10866 DUF2704: Protein of unknown function (DUF2704); InterPro: IPR022594 This group of viral proteins has no known function.
Probab=33.95 E-value=43 Score=28.30 Aligned_cols=56 Identities=14% Similarity=0.052 Sum_probs=37.9
Q ss_pred hhhHHHHhhhhHHHHHHhhcccccCcccccccccccccC-ChhhHHHHHHHHHHHHH
Q 042281 190 ALDYVEVGCQYFNLFRLILVDLVPSFKDVKLEEPSIDDF-SPAEALGIIEVELNLVY 245 (271)
Q Consensus 190 ~~~~l~~a~~lf~~~r~~f~d~~~~~~~~~~~~~~~~~~-~~~~afkviE~ELsf~y 245 (271)
..+....+..|+.++|+.|+|-|...--..++.++..+. -.+.++|.++.||.-.-
T Consensus 60 YkEvysl~rqLyE~lr~~FVdePfKlWle~Na~qLaad~efrd~i~K~l~~~L~~~~ 116 (168)
T PF10866_consen 60 YKEVYSLGRQLYEILRGDFVDEPFKLWLEQNAAQLAADAEFRDKIHKILQDQLQAAC 116 (168)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCchHHHHHhhHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence 345667889999999999999775432222333333221 13589999999998765
No 7
>PF00367 PTS_EIIB: phosphotransferase system, EIIB; InterPro: IPR018113 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred to enzyme-I (EI) of PTS which in turn transfers it to a phosphoryl carrier protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease which consists of at least three structurally distinct domains (IIA, IIB, and IIC) [] which can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA) carries the first permease-specific phoshorylation site, a histidine, which is phosphorylated by phospho-HPr. The second domain (IIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the permease. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate in a process catalyzed by the IIC domain; this process is coupled to the transmembrane transport of the sugar. This entry covers the phosphorylation site of EIIB domains. ; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity; PDB: 3IPJ_B 3BP3_A 1O2F_B 3BP8_C 1IBA_A.
Probab=28.93 E-value=58 Score=20.35 Aligned_cols=16 Identities=31% Similarity=0.549 Sum_probs=12.6
Q ss_pred HHHHHhcCCCceeeee
Q 042281 94 FLLLHLGGPDTITAFA 109 (271)
Q Consensus 94 fLLlhLGG~DtITAys 109 (271)
-++-++||.+||+...
T Consensus 3 ~il~~lGG~~NI~~v~ 18 (35)
T PF00367_consen 3 QILEALGGKENIKSVT 18 (35)
T ss_dssp HHHHHCTTCCCEEEEE
T ss_pred HHHHHhCCHHHHHHHh
Confidence 4577899999998753
No 8
>PRK15071 lipopolysaccharide ABC transporter permease; Provisional
Probab=25.09 E-value=5.5e+02 Score=23.76 Aligned_cols=16 Identities=19% Similarity=0.102 Sum_probs=12.1
Q ss_pred chhhhHHHHHHHHHhc
Q 042281 85 KELLAFWAPFLLLHLG 100 (271)
Q Consensus 85 ~~L~~~WApfLLlhLG 100 (271)
+...+.|+|.++.-..
T Consensus 332 ~P~laaw~P~iif~~~ 347 (356)
T PRK15071 332 PPIIGALLPSLLFLGI 347 (356)
T ss_pred cHHHHHHHHHHHHHHH
Confidence 4578899998887653
No 9
>TIGR02737 caa3_CtaG cytochrome c oxidase assembly factor CtaG. Members of this family are the CtaG protein required for assembly of active cytochrome c oxidase of the caa3 type, as in Bacillus subtilis.
Probab=24.74 E-value=1.2e+02 Score=28.01 Aligned_cols=82 Identities=16% Similarity=0.205 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCCCC----CchhhHHHHHHHH------HhhhhhHHHHHHhhhhcccCCCCCCCCCC
Q 042281 14 NDWNIRGVILFSLSLQTVLVFFAPLRKT----TGHKLIILIIWSA------YLLADWAANFGIGLITERARDNPELSMPT 83 (271)
Q Consensus 14 ~~w~i~~LVl~S~~Lq~~L~~~~~~Rrr----~~~~~lr~~lWlA------Y~~ad~~a~YaLG~l~~~~~~~~~~~~~~ 83 (271)
..|+...++.+....-......|..|+| ..-+.-|.+.|.+ ...+-++..|+=...+-+- .
T Consensus 9 ~~W~p~~l~~~~~~~~~y~~~~~~~r~r~~~g~~~~~~R~~~f~~Gl~~l~~a~~spl~~~~~~lFs~HM---------v 79 (281)
T TIGR02737 9 ALWSPYFLIILAMVGFLYFLITGPWRRRFGNSDKVTIKQKIYFLTGLLLLYIVKGSPIDLLGHIMFTAHM---------V 79 (281)
T ss_pred ccccHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH---------H
Confidence 3577777776666666666555533332 2223456655533 3334444555543333221 3
Q ss_pred cchhhhHHHHHHHHHhcCCCce
Q 042281 84 EKELLAFWAPFLLLHLGGPDTI 105 (271)
Q Consensus 84 ~~~L~~~WApfLLlhLGG~DtI 105 (271)
+|.+...=||.||+ +|.|.+.
T Consensus 80 qHllL~~vaPpLLv-lG~P~~l 100 (281)
T TIGR02737 80 QMAVLYLIVPPLFI-LGIPAWL 100 (281)
T ss_pred HHHHHHHHHHHHHH-hcCcHHH
Confidence 56667677887764 7888654
No 10
>PRK15120 lipopolysaccharide ABC transporter permease LptF; Provisional
Probab=24.26 E-value=5.3e+02 Score=24.09 Aligned_cols=79 Identities=10% Similarity=0.128 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCCCCCchhhHHHHHHHHHhhhhhHHHHHHhhhhcccCCCCCCCCCCcchhhhHHHH
Q 042281 14 NDWNIRGVILFSLSLQTVLVFFAPLRKTTGHKLIILIIWSAYLLADWAANFGIGLITERARDNPELSMPTEKELLAFWAP 93 (271)
Q Consensus 14 ~~w~i~~LVl~S~~Lq~~L~~~~~~Rrr~~~~~lr~~lWlAY~~ad~~a~YaLG~l~~~~~~~~~~~~~~~~~L~~~WAp 93 (271)
-|+.-|+..-++..+..++.+--+.+.++.+...++++=+.-..+.....-..+.+.... .=+...+.|.|
T Consensus 264 ~El~~Rla~Pl~~l~l~llavpl~~~~~R~g~~~~i~~~i~~~~~y~~l~~~~~~l~~~g---------~lpp~la~Wlp 334 (366)
T PRK15120 264 AELHWRLTLVFSVFIMALMVVPLSVVNPRQGRVLSMLPAMLLYLIFFLLQTSLRSNGGKG---------KLDPMIWMWAV 334 (366)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhcccCCccccchhHHHHHHHHHHHHHHHHHHHHHHHCC---------CCChHHHHHHH
Confidence 356666666666666666655544544444444454433222222222222222222221 12357889999
Q ss_pred HHHHHhcC
Q 042281 94 FLLLHLGG 101 (271)
Q Consensus 94 fLLlhLGG 101 (271)
-++.-..|
T Consensus 335 ~i~~~~~~ 342 (366)
T PRK15120 335 NLIYLALA 342 (366)
T ss_pred HHHHHHHH
Confidence 87766543
No 11
>PF03739 YjgP_YjgQ: Predicted permease YjgP/YjgQ family; InterPro: IPR005495 Members of this family are predicted integral membrane proteins of unknown function. They are about 350 amino acids long, contain about 6 transmembrane regions and may be permeases, although there is no verification of this.; GO: 0016021 integral to membrane
Probab=23.91 E-value=5.5e+02 Score=23.45 Aligned_cols=79 Identities=14% Similarity=0.118 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCchhhHHHHHHHHHhhhhhHHHHHHhhhhcccCCCCCCCCCCcchhhhH
Q 042281 11 KLWNDWNIRGVILFSLSLQTVLVFFAPLRKTTGHKLIILIIWSAYLLADWAANFGIGLITERARDNPELSMPTEKELLAF 90 (271)
Q Consensus 11 ~~w~~w~i~~LVl~S~~Lq~~L~~~~~~Rrr~~~~~lr~~lWlAY~~ad~~a~YaLG~l~~~~~~~~~~~~~~~~~L~~~ 90 (271)
+..-|+.=|...-++..+.+++.+.=+.|.++.+....++.=+.-.... |.+..+....++. ..-+...+.
T Consensus 267 ~~~~~l~~R~~~p~~~l~~~lla~~l~~~~~r~~~~~~~~~~l~~~~~~----~~~~~~~~~l~~~-----~~l~p~~a~ 337 (354)
T PF03739_consen 267 KYETELHKRIALPLSCLILVLLALPLGIRFPRSGRISSLFIALLLGFLY----YILFSFFSSLGEN-----GNLPPFIAA 337 (354)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCCchHHHHHHHHHHHHH----HHHHHHHHHHHHc-----CCccHHHHH
Confidence 3344555555555555555555544344433333332222222211222 3333333322210 023457888
Q ss_pred HHHHHHHH
Q 042281 91 WAPFLLLH 98 (271)
Q Consensus 91 WApfLLlh 98 (271)
|.|.++.-
T Consensus 338 w~p~ii~~ 345 (354)
T PF03739_consen 338 WLPNIIFL 345 (354)
T ss_pred HHHHHHHH
Confidence 99987654
No 12
>PF09773 Meckelin: Meckelin (Transmembrane protein 67); InterPro: IPR019170 Meckelin is a 995-amino acid seven-transmembrane receptor protein of unknown function []. Members of this family are thought to be related to the ciliary basal body. Defects result in Meckel syndrome type 3, [MIM:607361], an autosomal recessive disorder characterised by a combination of renal cysts and variably associated features including developmental anomalies of the central nervous system (typically encephalocele), hepatic ductal dysplasia and cysts, and polydactyly. Joubert syndrome type 6 [MIM:610688] is also a manifestation of certain mutations; it is an autosomal recessive congenital malformation of the cerebellar vermis and brainstem with abnormalities of axonal decussation (crossing in the brain) affecting the corticospinal tract and superior cerebellar peduncles. Individuals with Joubert syndrome have motor and behavioural abnormalities, including an inability to walk due to severe clumsiness and 'mirror' movements, and cognitive and behavioural disturbances [, ].
Probab=23.41 E-value=2.1e+02 Score=30.67 Aligned_cols=60 Identities=18% Similarity=0.280 Sum_probs=48.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCchh------hHHHHHHHHHhhhhhHHHHHHhhhh
Q 042281 11 KLWNDWNIRGVILFSLSLQTVLVFFAPLRKTTGHK------LIILIIWSAYLLADWAANFGIGLIT 70 (271)
Q Consensus 11 ~~w~~w~i~~LVl~S~~Lq~~L~~~~~~Rrr~~~~------~lr~~lWlAY~~ad~~a~YaLG~l~ 70 (271)
+.|..++|=.-|++++++-..++=..+.+||+... ++++++-++-.+|+....+++|.-.
T Consensus 358 ~f~~~~~I~l~Vl~~La~~~al~rt~~w~RR~~~~~id~~~l~~fl~~~~~~~a~~ff~v~~~~s~ 423 (853)
T PF09773_consen 358 EFWQVLEIALIVLCVLAFLYALFRTYSWRRRNGSEMIDGQTLLKFLVYLCGNLANVFFIVTFGFSL 423 (853)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57999999999999999999988888887777654 4678888888888888777766543
No 13
>cd05833 Ribosomal_P2 Ribosomal protein P2. This subfamily represents the eukaryotic large ribosomal protein P2. Eukaryotic P1 and P2 are functionally equivalent to the bacterial protein L7/L12, but are not homologous to L7/L12. P2 is located in the L12 stalk, with proteins P1, P0, L11, and 28S rRNA. P1 and P2 are the only proteins in the ribosome to occur as multimers, always appearing as sets of heterodimers. Recent data indicate that eukaryotes have four copies (two heterodimers), while most archaeal species contain six copies of L12p (three homodimers). Bacteria may have four or six copies of L7/L12 (two or three homodimers) depending on the species. Experiments using S. cerevisiae P1 and P2 indicate that P1 proteins are positioned more internally with limited reactivity in the C-terminal domains, while P2 proteins seem to be more externally located and are more likely to interact with other cellular components. In lower eukaryotes, P1 and P2 are further subdivided into P1A, P1B, P2
Probab=22.17 E-value=36 Score=26.97 Aligned_cols=19 Identities=37% Similarity=0.538 Sum_probs=15.8
Q ss_pred HHHHHHHhcCCCceeeeec
Q 042281 92 APFLLLHLGGPDTITAFAL 110 (271)
Q Consensus 92 ApfLLlhLGG~DtITAysl 110 (271)
|-.||+++||.++||+-.+
T Consensus 5 aAylL~~l~g~~~pTa~dI 23 (109)
T cd05833 5 AAYLLAVLGGNASPSAADV 23 (109)
T ss_pred HHHHHHHHcCCCCCCHHHH
Confidence 5679999999999997554
No 14
>PF12550 GCR1_C: Transcriptional activator of glycolytic enzymes; InterPro: IPR022210 This domain family is found in eukaryotes, and is approximately 80 amino acids in length. This family is activates the transcription of glycolytic enzymes.
Probab=21.43 E-value=55 Score=24.12 Aligned_cols=17 Identities=29% Similarity=0.734 Sum_probs=12.9
Q ss_pred CCcchHHHHHHHHHHHH
Q 042281 2 LNRIPELVKKLWNDWNI 18 (271)
Q Consensus 2 ~~~~~~~~~~~w~~w~i 18 (271)
|+.-|..+.|+|+||..
T Consensus 4 m~~~~~TV~dlw~Ew~~ 20 (81)
T PF12550_consen 4 MSRSIKTVYDLWREWFT 20 (81)
T ss_pred cCCCCCcHHHHHHHHhc
Confidence 45667888888888865
No 15
>PF10754 DUF2569: Protein of unknown function (DUF2569); InterPro: IPR019690 This entry represents a protein that is conserved in bacteria. The function is not known, but several members are annotated as being YdgK or a homologue thereof and associated to the inner membrane. This signature also matches proteins that are described as transglutaminase-like enzymes, although this could not be confirmed.
Probab=21.36 E-value=2.5e+02 Score=23.05 Aligned_cols=56 Identities=14% Similarity=0.193 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHcCCCCCCchhhHHHHHHHHHhhhhhHHHHHHhhhhc
Q 042281 16 WNIRGVILFSLSLQTVLVFFAPLRKTTGHKLIILIIWSAYLLADWAANFGIGLITE 71 (271)
Q Consensus 16 w~i~~LVl~S~~Lq~~L~~~~~~Rrr~~~~~lr~~lWlAY~~ad~~a~YaLG~l~~ 71 (271)
|-.+++..+....-.+.+..--+||++.-+..-.+.++++...-.+.+++.+....
T Consensus 56 ~~~~~~~~~~~~~~~l~~~~lffkr~~~~P~~~I~~ll~~v~~~~l~~~~~~~~~~ 111 (149)
T PF10754_consen 56 WYFEVAINIAMWLFTLWLLYLFFKRKRRFPKLYIIWLLISVLFIALDAFAFSYIFP 111 (149)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 44555554433333333333334555444444444555677767777777766664
Done!