Query 029965
Match_columns 184
No_of_seqs 147 out of 950
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 06:24:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029965.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029965hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1944 Peroxisomal membrane p 100.0 5.2E-39 1.1E-43 264.9 11.2 142 14-161 71-214 (222)
2 PF04117 Mpv17_PMP22: Mpv17 / 99.9 4.9E-26 1.1E-30 155.2 5.2 68 93-160 1-68 (68)
3 TIGR02163 napH_ ferredoxin-typ 23.9 1.9E+02 0.004 24.2 5.2 83 27-112 4-102 (255)
4 PF07960 CBP4: CBP4; InterPro 23.5 52 0.0011 25.1 1.6 26 24-49 2-29 (128)
5 cd02577 PSTD1 PSTD1: Pseudouri 20.8 1.2E+02 0.0027 26.4 3.6 28 132-159 229-257 (319)
6 PF04854 DUF624: Protein of un 18.4 2.9E+02 0.0064 18.1 4.4 20 80-99 20-39 (77)
7 PF10960 DUF2762: Protein of u 17.5 1.5E+02 0.0034 20.1 2.7 25 70-94 4-28 (71)
8 PRK13701 psiB plasmid SOS inhi 16.8 30 0.00065 26.7 -1.0 32 1-44 13-44 (144)
9 TIGR01641 phageSPP1_gp7 phage 15.3 1.7E+02 0.0036 20.7 2.7 22 91-112 5-26 (108)
10 COG5508 Uncharacterized conser 13.8 78 0.0017 22.3 0.5 10 175-184 58-67 (84)
No 1
>KOG1944 consensus Peroxisomal membrane protein MPV17 and related proteins [General function prediction only]
Probab=100.00 E-value=5.2e-39 Score=264.94 Aligned_cols=142 Identities=36% Similarity=0.656 Sum_probs=135.3
Q ss_pred CcccccCC--CCcccHHHHHHHHHhcccchhhHHHHHHHHHHHHhhhhcCCCCCcHHHHHHHHHHhhhhhhhhHHHHHHH
Q 029965 14 PDTMDADE--KFKVNWKRVAVTSSFGFGFVGPVGHFWYEGLDRFIRLKLQLPPKSARFVATKVAMDSIIFGPLDLFVFFT 91 (184)
Q Consensus 14 q~~~~~~~--~~~~D~~Rt~r~~~~G~~~~gP~~h~Wy~~Ldr~~~~~~~~~~~~~~~v~~Kv~~DQ~v~aP~~~~~F~~ 91 (184)
|.+.++.+ .+++|+.|++||+++|+++.||.+|+||+.||+.+| .++..++++|+++||++++|+++.+||.
T Consensus 71 q~~~~~~~~~~~~~d~~rtlr~~~~G~~f~gp~~~~Wy~~L~~~~p------~~~~~~~~~kvl~dql~~~P~~~~~ff~ 144 (222)
T KOG1944|consen 71 QSLEGRSKKLFQTLDLTRTLRMGIFGFLFVGPTLHYWYRLLSKLFP------KKTLITVVKKVLLDQLVFAPLFIVVFFL 144 (222)
T ss_pred hhhhhhcccccccccHHHHHHHHhhhhheeccchhHHHHHHHHHcc------CccHHHHHHHHHHhhhhhchHHHHHHHH
Confidence 55555554 689999999999999988999999999999999996 5788999999999999999999999999
Q ss_pred HHHhcCCCCHHHHHHHHHhchHHHHHhhcccchHHhhhhheeecccchhhhhhHHHHHHHHHHHHhhccc
Q 029965 92 YMGFSTGKNVAQVKEDLKRDFLPALVLEGGIWPIVQVANFRYVPVRYQLLYVNIFCLLDSAFLSWVEQQK 161 (184)
Q Consensus 92 ~~~~leG~~~~~~~~~lk~~~~~~l~~~~~vWp~~q~iNF~fVP~~~Rvl~~n~v~~~Wn~yLS~~~~~~ 161 (184)
.++++||++.+++.++++++++|++++||++||++|++||.+||+++|++++|+++++||+|||+++++.
T Consensus 145 ~~~~legk~~~~~~~~~~~~~~p~l~~~~~~WP~~q~inF~~VP~~~rvl~~~~vsl~W~~~Ls~~~~~~ 214 (222)
T KOG1944|consen 145 LMGLLEGKTNEEAKAKLKRKFWPTLKANWMVWPLVQFINFRLVPLQYRVLFVNIVSLVWNTYLSYKNASL 214 (222)
T ss_pred HHHHHcCCCHHHHHHHHHHHHHHHHhhhheecchhheeeeEEccccceehhhhhHHHHHHHHHHHHhhcc
Confidence 9999999999999999999999999999999999999999999999999999999999999999999997
No 2
>PF04117 Mpv17_PMP22: Mpv17 / PMP22 family ; InterPro: IPR007248 The 22 kDa peroxisomal membrane protein (PMP22) is a major component of peroxisomal membranes. PMP22 seems to be involved in pore-forming activity and may contribute to the unspecific permeability of the organelle membrane. PMP22 is synthesised on free cytosolic ribosomes and then directed to the peroxisome membrane by specific targeting information []. Mpv17 is a closely related peroxisomal protein involved in the development of early-onset glomerulosclerosis []. A member of this family found in Saccharomyces cerevisiae (Baker's yeast) is an integral membrane protein of the inner mitochondrial membrane and has been suggested to play a role in mitochondrial function during heat shock [].; GO: 0016021 integral to membrane
Probab=99.92 E-value=4.9e-26 Score=155.19 Aligned_cols=68 Identities=40% Similarity=0.820 Sum_probs=66.5
Q ss_pred HHhcCCCCHHHHHHHHHhchHHHHHhhcccchHHhhhhheeecccchhhhhhHHHHHHHHHHHHhhcc
Q 029965 93 MGFSTGKNVAQVKEDLKRDFLPALVLEGGIWPIVQVANFRYVPVRYQLLYVNIFCLLDSAFLSWVEQQ 160 (184)
Q Consensus 93 ~~~leG~~~~~~~~~lk~~~~~~l~~~~~vWp~~q~iNF~fVP~~~Rvl~~n~v~~~Wn~yLS~~~~~ 160 (184)
|+++||++++++++++|++++++++++|++|||+|++||.+||+++|++|+|+|+++||+|||+++|+
T Consensus 1 Mg~l~g~s~~~~~~~l~~~~~~~~~~~~~~Wp~~~~vnF~~vP~~~Rv~~~~~v~~~W~~~LS~~~~r 68 (68)
T PF04117_consen 1 MGLLEGKSWEEIKEKLKRDYWPTLKASWKFWPPAQIVNFRYVPPHYRVLFVNVVSFFWNTYLSYIANR 68 (68)
T ss_pred CCcccCCCHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHhcccChhhhhhhhhhHHHHHHHHHHHHhcC
Confidence 57899999999999999999999999999999999999999999999999999999999999999986
No 3
>TIGR02163 napH_ ferredoxin-type protein, NapH/MauN family. Most members of this family are the NapH protein, found next to NapG,in operons that encode the periplasmic nitrate reductase. Some species with this reductase lack NapC but accomplish electron transfer to NapAB in some other manner, likely to involve NapH, NapG, and/or some other protein. A few members of this protein are designated MauN and are found in methylamine utilization operons in species that appear to lack a periplasmic nitrate reductase.
Probab=23.94 E-value=1.9e+02 Score=24.16 Aligned_cols=83 Identities=16% Similarity=0.266 Sum_probs=49.5
Q ss_pred HHHHHHHHHhcccchhhHHHHHH--HHHH--HHhhhhcCCCCCcHHHHHHHHHHhhhhhhhhHHHHHH--HHHHhcCCC-
Q 029965 27 WKRVAVTSSFGFGFVGPVGHFWY--EGLD--RFIRLKLQLPPKSARFVATKVAMDSIIFGPLDLFVFF--TYMGFSTGK- 99 (184)
Q Consensus 27 ~~Rt~r~~~~G~~~~gP~~h~Wy--~~Ld--r~~~~~~~~~~~~~~~v~~Kv~~DQ~v~aP~~~~~F~--~~~~~leG~- 99 (184)
+||+...++...++.||..+.|. +-|. +.++. +|-.+...++.-++....+..+++....+ ...+++-|+
T Consensus 4 ~r~~~~~~~~~lf~~~~~~~~~~~~G~l~~s~~~~~---~~l~dP~~~lq~~~a~~~~~~~~~~~~~iv~~~~~l~~GR~ 80 (255)
T TIGR02163 4 LRRLVQLSILGLFLLGPYAGVWILKGNLSSSRLLGT---IPLSDPLITLQILLAGHSPPTNALIGALIIVAFYALFGGRA 80 (255)
T ss_pred HHHHHHHHHHHHHHcchhhcceEEEecchHHHhcCC---ccCcCHHHHHHHHHhcChhhHHHHHHHHHHHHHHHHHhccc
Confidence 68999999999988889877775 3332 33321 22345455555566666655566555543 333566665
Q ss_pred ---------CHHHHHHHHHhch
Q 029965 100 ---------NVAQVKEDLKRDF 112 (184)
Q Consensus 100 ---------~~~~~~~~lk~~~ 112 (184)
...|..++++++.
T Consensus 81 fCgwiCP~g~~~el~~~l~~k~ 102 (255)
T TIGR02163 81 FCSWVCPVNLVTDFAAWLRRKL 102 (255)
T ss_pred ceeccCCchHHHHHHHHHHHhh
Confidence 3556666666544
No 4
>PF07960 CBP4: CBP4; InterPro: IPR012420 The CBP4 gene in Saccharomyces cerevisiae is essential for the expression and activity of ubiquinol-cytochrome c reductase [, ]. This family appears to be fungal specific.
Probab=23.54 E-value=52 Score=25.07 Aligned_cols=26 Identities=27% Similarity=0.347 Sum_probs=19.6
Q ss_pred cccHHHHHHHHHhcccch--hhHHHHHH
Q 029965 24 KVNWKRVAVTSSFGFGFV--GPVGHFWY 49 (184)
Q Consensus 24 ~~D~~Rt~r~~~~G~~~~--gP~~h~Wy 49 (184)
...|.|.++|.++|+++. ||.+..|-
T Consensus 2 ~~~w~~W~K~~~~G~~ii~~G~~l~~y~ 29 (128)
T PF07960_consen 2 PPNWRRWAKMLVAGAVIIGGGPALVKYT 29 (128)
T ss_pred CchHHHHHHHHHhcceeEeechHHheec
Confidence 357899999999998754 77765554
No 5
>cd02577 PSTD1 PSTD1: Pseudouridine synthase, a subgroup of the TruD family. This group consists of several hypothetical archeal pseudouridine synthases assigned to the TruD family of psuedouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). The TruD family is comprised of proteins related to Escherichia coli TruD.
Probab=20.85 E-value=1.2e+02 Score=26.36 Aligned_cols=28 Identities=18% Similarity=0.133 Sum_probs=23.3
Q ss_pred eeecccchhhhh-hHHHHHHHHHHHHhhc
Q 029965 132 RYVPVRYQLLYV-NIFCLLDSAFLSWVEQ 159 (184)
Q Consensus 132 ~fVP~~~Rvl~~-n~v~~~Wn~yLS~~~~ 159 (184)
.-+|...|.+|+ +--|.+||-.+|..-.
T Consensus 229 ~~iP~~lr~myvhAYQSylfN~~lS~Ri~ 257 (319)
T cd02577 229 LALPKNLRRMFVHAYQSYLFNEILSERIE 257 (319)
T ss_pred HhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 359999999988 5579999999997654
No 6
>PF04854 DUF624: Protein of unknown function, DUF624; InterPro: IPR006938 This family consists of uncharacterised or hypothetical bacterial proteins.
Probab=18.37 E-value=2.9e+02 Score=18.08 Aligned_cols=20 Identities=10% Similarity=0.363 Sum_probs=13.5
Q ss_pred hhhhhHHHHHHHHHHhcCCC
Q 029965 80 IFGPLDLFVFFTYMGFSTGK 99 (184)
Q Consensus 80 v~aP~~~~~F~~~~~~leG~ 99 (184)
...|-..+.+.+.....+++
T Consensus 20 tigPA~~Al~~~~~~~~~~~ 39 (77)
T PF04854_consen 20 TIGPATAALYYVVRKWVRDE 39 (77)
T ss_pred HHHHHHHHHHHHHHHHHcCC
Confidence 35566667777777777776
No 7
>PF10960 DUF2762: Protein of unknown function (DUF2762); InterPro: IPR024405 BhlA is a SP-beta prophage-derived protein found in Bacillus subtilis [, ] and other Bacilli. A related protein, UviB, has also been described in Clostridia, where it is believed to be involved in bacteriocin secretion or immunity [, ].
Probab=17.48 E-value=1.5e+02 Score=20.07 Aligned_cols=25 Identities=24% Similarity=0.364 Sum_probs=20.2
Q ss_pred HHHHHHHhhhhhhhhHHHHHHHHHH
Q 029965 70 VATKVAMDSIIFGPLDLFVFFTYMG 94 (184)
Q Consensus 70 v~~Kv~~DQ~v~aP~~~~~F~~~~~ 94 (184)
-+.|+++.|-+||-+++.+++..+-
T Consensus 4 ei~k~~~sQG~fA~LFv~Ll~yvlK 28 (71)
T PF10960_consen 4 EIIKLALSQGIFAVLFVWLLFYVLK 28 (71)
T ss_pred HHHHHHHHcCcHHHHHHHHHHHHHH
Confidence 3678999999999998887776654
No 8
>PRK13701 psiB plasmid SOS inhibition protein B; Provisional
Probab=16.83 E-value=30 Score=26.73 Aligned_cols=32 Identities=22% Similarity=0.165 Sum_probs=25.7
Q ss_pred CccccccCCCCCCCcccccCCCCcccHHHHHHHHHhcccchhhH
Q 029965 1 MIPQQYCGIREPSPDTMDADEKFKVNWKRVAVTSSFGFGFVGPV 44 (184)
Q Consensus 1 ~~~~~~~~~~~~~q~~~~~~~~~~~D~~Rt~r~~~~G~~~~gP~ 44 (184)
|++|++|-+|+. .=|+||.+.-+..+-+ ..|-
T Consensus 13 M~a~ElEd~R~~-----------G~d~RR~Lt~aVm~~L-~~P~ 44 (144)
T PRK13701 13 MSAQEYEDIRAA-----------GSDERRELTHAVMREL-DAPD 44 (144)
T ss_pred cCHHHHHHHHHH-----------hHHHHHHhHHHHHhcc-CCCc
Confidence 678888888877 4599999999998885 6664
No 9
>TIGR01641 phageSPP1_gp7 phage putative head morphogenesis protein, SPP1 gp7 family. This model describes a region of about 110 amino acids found exclusively in phage-related proteins, internally or toward the C-terminus. One member, gp7 of phage SPP1, appears involved in head morphogenesis.
Probab=15.25 E-value=1.7e+02 Score=20.66 Aligned_cols=22 Identities=14% Similarity=0.321 Sum_probs=18.2
Q ss_pred HHHHhcCCCCHHHHHHHHHhch
Q 029965 91 TYMGFSTGKNVAQVKEDLKRDF 112 (184)
Q Consensus 91 ~~~~~leG~~~~~~~~~lk~~~ 112 (184)
+..++.+|.+.+++.+++++.+
T Consensus 5 l~~gi~~G~~~~~iak~i~~~~ 26 (108)
T TIGR01641 5 LADGVQRGLGPNELAKRLRKEL 26 (108)
T ss_pred HHHHHHcCCCHHHHHHHHHHHH
Confidence 4567889999999999988765
No 10
>COG5508 Uncharacterized conserved small protein [Function unknown]
Probab=13.81 E-value=78 Score=22.28 Aligned_cols=10 Identities=60% Similarity=1.106 Sum_probs=7.4
Q ss_pred ccccCCCCCC
Q 029965 175 LEERGGKGGL 184 (184)
Q Consensus 175 ~~~~~~~~~~ 184 (184)
|.|-||.|||
T Consensus 58 pkEiGGrgGl 67 (84)
T COG5508 58 PKEIGGRGGL 67 (84)
T ss_pred chhhCCCCCC
Confidence 5677888875
Done!