Query 029707
Match_columns 189
No_of_seqs 57 out of 59
Neff 2.2
Searched_HMMs 46136
Date Fri Mar 29 17:13:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029707.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029707hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12077 DUF3556: Transmembran 76.9 1.1 2.3E-05 43.9 0.9 49 80-128 118-167 (574)
2 COG0395 UgpE ABC-type sugar tr 41.1 12 0.00027 32.6 0.9 63 120-189 121-183 (281)
3 PRK09928 choline transport pro 36.2 34 0.00074 34.2 3.1 63 85-181 443-505 (679)
4 PF04120 Iron_permease: Low af 35.4 54 0.0012 26.5 3.6 27 108-134 13-39 (132)
5 PF12270 Cyt_c_ox_IV: Cytochro 31.2 41 0.00088 27.6 2.3 22 115-136 113-134 (137)
6 PF12955 DUF3844: Domain of un 27.4 2.3E+02 0.005 22.3 5.8 38 77-129 49-86 (103)
7 PLN00048 photosystem I light h 27.3 87 0.0019 27.9 3.9 23 76-100 39-61 (262)
8 PF15088 NADH_dh_m_C1: NADH de 25.0 99 0.0021 22.0 3.0 31 158-188 18-48 (49)
9 PF11446 DUF2897: Protein of u 20.6 27 0.00058 24.6 -0.5 21 149-169 3-23 (55)
10 PF07172 GRP: Glycine rich pro 19.1 42 0.00091 25.5 0.3 21 156-176 6-26 (95)
No 1
>PF12077 DUF3556: Transmembrane protein of unknown function (DUF3556); InterPro: IPR021941 This family of transmembrane proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 576 to 592 amino acids in length.
Probab=76.91 E-value=1.1 Score=43.90 Aligned_cols=49 Identities=24% Similarity=0.529 Sum_probs=41.9
Q ss_pred CCCCCCCCCCCCCc-ccccCCCCCCCCccCccHHHHHHHHHHHHHHHhcc
Q 029707 80 PSWAKPDSDEPPPW-ATDEGKGLTSQGSFEIPFYVYLLTSTITAIAAIGS 128 (189)
Q Consensus 80 pswAkp~sde~PPW-aR~E~~~~~a~~~~~lPf~~yLl~ScItAIAAVGS 128 (189)
=-|.||+.-.+||| .|--.-+...-..+|+=.|+-||.+.+.|++.=|.
T Consensus 118 lyWlRpgTIRLpPWP~~VP~T~Gd~Rt~~DV~LYaalL~~lv~aL~~pG~ 167 (574)
T PF12077_consen 118 LYWLRPGTIRLPPWPGRVPLTAGDRRTPFDVALYAALLASLVVALLSPGT 167 (574)
T ss_pred eEEecCCceeCCCCCCCCCCCCCCcCchHHHHHHHHHHHHHHHHHcCCCC
Confidence 45999999999999 56555556667889999999999999999998887
No 2
>COG0395 UgpE ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]
Probab=41.08 E-value=12 Score=32.62 Aligned_cols=63 Identities=27% Similarity=0.379 Sum_probs=45.3
Q ss_pred HHHHHHhcceeeeecCCCccccccCCcccccccceeeeeeccchhHHHHHHHHHHHhHhHHHhhhhcCCC
Q 029707 120 ITAIAAIGSIFEYVNKNPVFGILNSDSIFYAPLLGFFAFTGFPTSAFLWFKSVQVANKEAEEQDRRDGYK 189 (189)
Q Consensus 120 ItAIAAVGSIFEls~g~P~fGv~~tDS~lyaPiLg~fl~tgiP~s~~lf~kAV~~An~~aEeQDk~DGy~ 189 (189)
+=.++.+=-+|.+.. ++|.++| |..+....++.++|.++|++.--.+.-=+|.||.-|.||.+
T Consensus 121 ~P~~v~~iPl~~~~~---~lgl~nt----~~glil~~~~~~~pf~ifl~~~ff~~iP~eleEAA~iDGas 183 (281)
T COG0395 121 LPAQVLLIPLYLLMR---KLGLLNT----YWGLILPYLAFGLPFAIFLLRQFFRTIPKELEEAARIDGAS 183 (281)
T ss_pred hhHHHHHHHHHHHHH---HcCChhh----HHHHHHHHHHHHhHHHHHHHHHHHHhCCHHHHHHHHHcCCC
Confidence 333333334455555 7888877 44444445556679999999999999999999999999964
No 3
>PRK09928 choline transport protein BetT; Provisional
Probab=36.24 E-value=34 Score=34.19 Aligned_cols=63 Identities=16% Similarity=0.249 Sum_probs=41.1
Q ss_pred CCCCCCCCcccccCCCCCCCCccCccHHHHHHHHHHHHHHHhcceeeeecCCCccccccCCcccccccceeeeeeccchh
Q 029707 85 PDSDEPPPWATDEGKGLTSQGSFEIPFYVYLLTSTITAIAAIGSIFEYVNKNPVFGILNSDSIFYAPLLGFFAFTGFPTS 164 (189)
Q Consensus 85 p~sde~PPWaR~E~~~~~a~~~~~lPf~~yLl~ScItAIAAVGSIFEls~g~P~fGv~~tDS~lyaPiLg~fl~tgiP~s 164 (189)
++.+|||.|.| +=|++.+++-+++-+.+ | | +..+++ ..+++++|.+
T Consensus 443 ~~~~~pp~~~R-------------ifW~v~ig~la~~LL~~-G-------G---L~aLQt----------~sii~alPf~ 488 (679)
T PRK09928 443 DINSDAPNWLR-------------VFWSVAIGLLTLGMLMT-N-------G---ISALQN----------TTVIMGLPFS 488 (679)
T ss_pred CCCCCCCccee-------------eHHHHHHHHHHHHHHHh-c-------C---HHHHHH----------HHHHHHHHHH
Confidence 34578999987 67888777666655533 2 2 666776 5667899999
Q ss_pred HHHHHHHHHHHhHhHHH
Q 029707 165 AFLWFKSVQVANKEAEE 181 (189)
Q Consensus 165 ~~lf~kAV~~An~~aEe 181 (189)
+.++...+..-|.-.+|
T Consensus 489 ~I~ll~~~sl~k~l~~e 505 (679)
T PRK09928 489 FVIFFVMAGLYKSLKVE 505 (679)
T ss_pred HHHHHHHHHHHHHHHhh
Confidence 88766555444433333
No 4
>PF04120 Iron_permease: Low affinity iron permease ; InterPro: IPR007251 Although originally identified as a low-affinity iron(II) permease [, ], Fet4 has since been shown to import several other transition metal ions, including copper [, ] and zinc []. Copper, cobalt, and cadmium inhibit Fet4 [, ]. Fet4 is an integral protein of the plasma membrane [, ]. FET4 is not essential, not even in fet3 fet4 double mutants []. Over expression of FET4 improves growth under alkaline conditions []. Transcription of FET4 is induced by Aft1 in response to low levels of iron [, , ] or by Zap1 in response to low zinc [, ], but not in response to low copper []. When the high-affinity iron permease component Fet3 is deleted, FET4 is induced by the addition of copper, zinc, cobalt, or manganese []. It is also induced under anaerobic conditions [, , ] and repressed by Rox1 in aerobic conditions [, ]. Rox1 attenuates the activation of FET4 by Aft1 or Zap1 []. ; GO: 0055085 transmembrane transport
Probab=35.38 E-value=54 Score=26.52 Aligned_cols=27 Identities=19% Similarity=0.399 Sum_probs=22.9
Q ss_pred CccHHHHHHHHHHHHHHHhcceeeeec
Q 029707 108 EIPFYVYLLTSTITAIAAIGSIFEYVN 134 (189)
Q Consensus 108 ~lPf~~yLl~ScItAIAAVGSIFEls~ 134 (189)
+-|+...+.+.+|.+-+++|.+|.++.
T Consensus 13 gs~~~f~~~~~~Ii~W~i~Gp~~~~sd 39 (132)
T PF04120_consen 13 GSPWAFVIAVAVIIVWAISGPVFGFSD 39 (132)
T ss_pred CCHHHHHHHHHHHHHHHHHhccccCcc
Confidence 458888899999999999999988864
No 5
>PF12270 Cyt_c_ox_IV: Cytochrome c oxidase subunit IV; InterPro: IPR021050 This family of proteins is found in bacteria. Proteins in this family are approximately 140 amino acids in length. This family is the fourth subunit of the cytochrome c oxidase complex. This subunit does not have a catalytic capacity but instead, is required for assembly and/or stability of the complex []. ; GO: 0004129 cytochrome-c oxidase activity, 0055114 oxidation-reduction process, 0016021 integral to membrane
Probab=31.15 E-value=41 Score=27.60 Aligned_cols=22 Identities=27% Similarity=0.579 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHhcceeeeecCC
Q 029707 115 LLTSTITAIAAIGSIFEYVNKN 136 (189)
Q Consensus 115 Ll~ScItAIAAVGSIFEls~g~ 136 (189)
+++..++.++.+|=+|||..|+
T Consensus 113 ~iG~~~~i~~~~G~vfEy~rg~ 134 (137)
T PF12270_consen 113 LIGAVLLIVAVVGWVFEYYRGP 134 (137)
T ss_pred HHHHHHHHHHHHHHhheeccCc
Confidence 3445567788899999998775
No 6
>PF12955 DUF3844: Domain of unknown function (DUF3844); InterPro: IPR024382 This presumed domain is found in fungal species. It contains 8 largely conserved cysteine residues. This domain is found in proteins thought to be located in the endoplasmic reticulum.
Probab=27.40 E-value=2.3e+02 Score=22.31 Aligned_cols=38 Identities=16% Similarity=0.472 Sum_probs=25.5
Q ss_pred cCCCCCCCCCCCCCCCcccccCCCCCCCCccCccHHHHHHHHHHHHHHHhcce
Q 029707 77 ETIPSWAKPDSDEPPPWATDEGKGLTSQGSFEIPFYVYLLTSTITAIAAIGSI 129 (189)
Q Consensus 77 e~~pswAkp~sde~PPWaR~E~~~~~a~~~~~lPf~~yLl~ScItAIAAVGSI 129 (189)
.+...|+-+.= +..-+-.||-+|+..+.+..++.+++|
T Consensus 49 ~ktt~W~G~aC---------------qKkDvS~~F~L~~~~ti~lv~~~~~~I 86 (103)
T PF12955_consen 49 GKTTHWGGPAC---------------QKKDVSVPFWLFAGFTIALVVLVAGAI 86 (103)
T ss_pred Cceeeeccccc---------------ccccccchhhHHHHHHHHHHHHHHHHH
Confidence 47777775532 134566899999888877766666655
No 7
>PLN00048 photosystem I light harvesting chlorophyll a/b binding protein 3; Provisional
Probab=27.27 E-value=87 Score=27.88 Aligned_cols=23 Identities=9% Similarity=0.182 Sum_probs=17.2
Q ss_pred ccCCCCCCCCCCCCCCCcccccCCC
Q 029707 76 EETIPSWAKPDSDEPPPWATDEGKG 100 (189)
Q Consensus 76 ~e~~pswAkp~sde~PPWaR~E~~~ 100 (189)
.+.-|.|. |+ .++|.|-+++--+
T Consensus 39 ~~~r~~w~-p~-~~~P~yLdG~lPG 61 (262)
T PLN00048 39 GADRQLWF-AS-KQSLSYLDGTLPG 61 (262)
T ss_pred CCCCceec-CC-CCCccccCCCCCC
Confidence 33459999 66 4899999987654
No 8
>PF15088 NADH_dh_m_C1: NADH dehydrogenase [ubiquinone] 1 subunit C1, mitochondrial
Probab=25.03 E-value=99 Score=21.96 Aligned_cols=31 Identities=32% Similarity=0.512 Sum_probs=26.1
Q ss_pred eeccchhHHHHHHHHHHHhHhHHHhhhhcCC
Q 029707 158 FTGFPTSAFLWFKSVQVANKEAEEQDRRDGY 188 (189)
Q Consensus 158 ~tgiP~s~~lf~kAV~~An~~aEeQDk~DGy 188 (189)
++++-+++|+|.--|+.-|++.-|-.+|.|-
T Consensus 18 GLtlGts~flW~~L~kqHneDVlEYkrRNgL 48 (49)
T PF15088_consen 18 GLTLGTSVFLWIYLIKQHNEDVLEYKRRNGL 48 (49)
T ss_pred eeecchHHHHHHHHHHhhchHHHHHHHhcCC
Confidence 4455689999999999999999998888874
No 9
>PF11446 DUF2897: Protein of unknown function (DUF2897); InterPro: IPR021550 This is a bacterial family of uncharacterised proteins.
Probab=20.59 E-value=27 Score=24.56 Aligned_cols=21 Identities=14% Similarity=0.178 Sum_probs=13.2
Q ss_pred ccccceeeeeeccchhHHHHH
Q 029707 149 YAPLLGFFAFTGFPTSAFLWF 169 (189)
Q Consensus 149 yaPiLg~fl~tgiP~s~~lf~ 169 (189)
|-|.|.+++++|+-.+-+..+
T Consensus 3 ~~~wlIIviVlgvIigNia~L 23 (55)
T PF11446_consen 3 WNPWLIIVIVLGVIIGNIAAL 23 (55)
T ss_pred chhhHHHHHHHHHHHhHHHHH
Confidence 556677777777766654443
No 10
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=19.11 E-value=42 Score=25.50 Aligned_cols=21 Identities=29% Similarity=0.366 Sum_probs=12.5
Q ss_pred eeeeccchhHHHHHHHHHHHh
Q 029707 156 FAFTGFPTSAFLWFKSVQVAN 176 (189)
Q Consensus 156 fl~tgiP~s~~lf~kAV~~An 176 (189)
||++++-++++|++.+--.|+
T Consensus 6 ~llL~l~LA~lLlisSevaa~ 26 (95)
T PF07172_consen 6 FLLLGLLLAALLLISSEVAAR 26 (95)
T ss_pred HHHHHHHHHHHHHHHhhhhhH
Confidence 455666677777766544443
Done!