Query 028097
Match_columns 214
No_of_seqs 109 out of 134
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 06:11:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028097.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028097hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11891 DUF3411: Domain of un 100.0 8.1E-72 1.8E-76 471.3 13.4 164 1-164 15-179 (180)
2 PF07096 DUF1358: Protein of u 65.1 14 0.0003 30.3 4.7 54 96-152 29-91 (124)
3 KOG4096 Uncharacterized conser 47.7 4.1 8.8E-05 30.5 -0.9 56 103-158 16-71 (75)
4 PF15207 TMEM240: TMEM240 fami 30.0 66 0.0014 27.3 3.4 24 23-47 85-108 (180)
5 PF10247 Romo1: Reactive mitoc 26.0 69 0.0015 23.5 2.5 54 100-157 13-66 (67)
6 PRK12799 motB flagellar motor 22.6 60 0.0013 31.5 2.2 27 24-50 25-51 (421)
7 TIGR00766 ribonuclease, putati 22.0 2.1E+02 0.0046 24.8 5.4 46 87-134 70-115 (263)
8 TIGR00765 yihY_not_rbn YihY fa 21.8 2E+02 0.0044 25.0 5.2 57 88-146 71-127 (259)
9 PF01102 Glycophorin_A: Glycop 21.3 99 0.0021 25.0 2.9 18 100-117 67-84 (122)
10 KOG4215 Hepatocyte nuclear fac 20.2 1.7E+02 0.0038 28.3 4.7 61 151-212 273-341 (432)
No 1
>PF11891 DUF3411: Domain of unknown function (DUF3411); InterPro: IPR021825 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 168 to 186 amino acids in length. This domain has a conserved RYQ sequence motif.
Probab=100.00 E-value=8.1e-72 Score=471.29 Aligned_cols=164 Identities=52% Similarity=0.795 Sum_probs=160.3
Q ss_pred CccchhHHHHHHHHHhhcchhhhhHHHHHHHHHHHHHHHHHHHHhhcccccccCCCCcCCcc-hhhhhhhcCCccccccc
Q 028097 1 MECGVGVFTKTAAELERRRENFSKELDFVFADVVMAIIADFMLVWLPAPTISLRPPLAMSTG-PIAKFFFNCPDNAFQVA 79 (214)
Q Consensus 1 ~E~~i~i~~~~~aE~~~R~~~F~~E~D~v~~d~v~~~v~nf~lv~llAPt~s~~~~~~~~~g-~l~~~~~~lP~n~Fq~~ 79 (214)
|||+||++|+++|||++|||+||+|||||+||+++++|+||+||||||||++++++++...| .++|++++||+|+||++
T Consensus 15 ~E~~i~i~~~~~~e~~~R~e~f~~E~d~v~~d~v~~~i~n~~lv~llAPt~s~~~~~~~~~~~~~~~~~~~~P~n~Fq~~ 94 (180)
T PF11891_consen 15 IEEVIGIGCATAAEYAKRGERFWNELDFVFSDVVVGSIVNFALVWLLAPTRSFGSPAASSPGGGLQKFLGSLPNNAFQKG 94 (180)
T ss_pred HHHHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHHHHHHHHhccchHhhCcccccccchHHHHHHHhChHHHhccC
Confidence 69999999999999999999999999999999999999999999999999999998775544 89999999999999999
Q ss_pred cCCCCCChhHHHHHHHhhhhhhhhhhhhhhhhHHHHHHHHHHHHHhcCcCcCCCCCCCchhhhhhhhHHHhhhchhhHHH
Q 028097 80 FTGTSYSLIQRIGAIVRNGAKLFAVGTSASLVGVGITNALINARKALDTSFAGEAEDVPIISTSVAYGVYMAVSSNLRYQ 159 (214)
Q Consensus 80 ~~g~~fsl~qR~~~~~~kg~~l~~VG~~ag~vg~~lsn~l~~~Rk~~~~~~~~~~~~~P~l~ta~~~g~fmGvSsNlRYQ 159 (214)
+||++||++||++||+|||++|++||++||++|+++||+|+++||++||+||+++++||+++||++||+|||+|||+|||
T Consensus 95 ~~g~~fsl~qR~~~~~~kg~~l~~VG~~ag~vg~~lsn~L~~~rk~~~~~~e~~~~~ppv~~ta~~~g~fmGvSsNlRYQ 174 (180)
T PF11891_consen 95 YPGRSFSLAQRIGAFVYKGAKLAAVGFIAGLVGTGLSNALIAARKKVDPSFEPSVPVPPVLKTALGWGAFMGVSSNLRYQ 174 (180)
T ss_pred CCCCcccHHHHHHHHHHcchHhhhhHHHHHHHHHHHHHHHHHHHHhcCccccCCCCCCCHHHHHHHHHHHHhhhHhHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHH
Q 028097 160 VLAGV 164 (214)
Q Consensus 160 ~l~G~ 164 (214)
+|||+
T Consensus 175 il~Gi 179 (180)
T PF11891_consen 175 ILNGI 179 (180)
T ss_pred HHcCC
Confidence 99998
No 2
>PF07096 DUF1358: Protein of unknown function (DUF1358); InterPro: IPR009792 This family consists of several hypothetical eukaryotic proteins of around 125 residues in length. The function of this family is unknown.
Probab=65.13 E-value=14 Score=30.26 Aligned_cols=54 Identities=24% Similarity=0.343 Sum_probs=29.7
Q ss_pred hhhhhhhhhhhhhhhhHHHHHHHHHHHHHhcCcC-cCCCCC------CCch--hhhhhhhHHHhhh
Q 028097 96 RNGAKLFAVGTSASLVGVGITNALINARKALDTS-FAGEAE------DVPI--ISTSVAYGVYMAV 152 (214)
Q Consensus 96 ~kg~~l~~VG~~ag~vg~~lsn~l~~~Rk~~~~~-~~~~~~------~~P~--l~ta~~~g~fmGv 152 (214)
+.|+.++.|+.++-++|- +..|..+||+ ||. |..-+. ..+. -..||+||..+.+
T Consensus 29 ~~~~FL~~Va~~s~~aGF--~~tl~~aKKk-~p~~F~kg~~~~~~l~esGasLAlRALgWGTlyA~ 91 (124)
T PF07096_consen 29 KGGAFLGGVAGASALAGF--GTTLALAKKK-SPKWFSKGISQTKALHESGASLALRALGWGTLYAV 91 (124)
T ss_pred HHHHHHHHHHHHHHHHHH--HHHHHHHHhc-CcHHHhccCcCcccCCcchHHHHHHHHhHHHHHHH
Confidence 344555566666655554 4566666777 554 332211 1222 3358899977665
No 3
>KOG4096 consensus Uncharacterized conserved protein [Function unknown]
Probab=47.66 E-value=4.1 Score=30.50 Aligned_cols=56 Identities=11% Similarity=0.176 Sum_probs=30.7
Q ss_pred hhhhhhhhhHHHHHHHHHHHHHhcCcCcCCCCCCCchhhhhhhhHHHhhhchhhHH
Q 028097 103 AVGTSASLVGVGITNALINARKALDTSFAGEAEDVPIISTSVAYGVYMAVSSNLRY 158 (214)
Q Consensus 103 ~VG~~ag~vg~~lsn~l~~~Rk~~~~~~~~~~~~~P~l~ta~~~g~fmGvSsNlRY 158 (214)
.+|+..|....++=-....+|-.+.+.---...-.-+++++.++|.|||+-+-+||
T Consensus 16 ~mG~avG~a~G~lfGgf~~lR~g~~g~~~vr~iGkt~~~SagtFG~FM~igs~Ir~ 71 (75)
T KOG4096|consen 16 MMGGAVGGATGALFGGFAALRYGPRGRGLVRTIGKTMLQSAGTFGLFMGIGSGIRC 71 (75)
T ss_pred HHHhhhhhhhhhhccchhheeecCChhHHHHHHhHHHHhccchhhhhhhhhhheec
Confidence 34444443333333344555655443211011122356778899999999998887
No 4
>PF15207 TMEM240: TMEM240 family
Probab=29.99 E-value=66 Score=27.29 Aligned_cols=24 Identities=21% Similarity=0.747 Sum_probs=20.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhc
Q 028097 23 SKELDFVFADVVMAIIADFMLVWLP 47 (214)
Q Consensus 23 ~~E~D~v~~d~v~~~v~nf~lv~ll 47 (214)
++|+|+++ -++.|.+..-+||||=
T Consensus 85 kqeidlml-glllgfcisw~l~wmd 108 (180)
T PF15207_consen 85 KQEIDLML-GLLLGFCISWFLVWMD 108 (180)
T ss_pred HHHHHHHH-HHHHHHHHHHHHHHHh
Confidence 78999987 4778888888999973
No 5
>PF10247 Romo1: Reactive mitochondrial oxygen species modulator 1; InterPro: IPR018450 The majority of endogenous reactive oxygen species (ROS) in cells are produced by the mitochondrial respiratory chain. An increase or imbalance in ROS alters the intracellular redox homeostasis, triggers DNA damage, and may contribute to cancer development and progression. This entry contains the mitochondrial protein, reactive oxygen species modulator 1 (Romo1), that is responsible for increasing the level of ROS in cells. In various cancer cell lines with elevated levels of ROS there is also an increased abundance of Romo1 []. Increased Romo1 expression can have a number of other affects including: inducing premature senescence of cultured human fibroblasts [, ] and increased resistance to 5-fluorouracil [].
Probab=25.98 E-value=69 Score=23.49 Aligned_cols=54 Identities=15% Similarity=0.086 Sum_probs=31.4
Q ss_pred hhhhhhhhhhhhHHHHHHHHHHHHHhcCcCcCCCCCCCchhhhhhhhHHHhhhchhhH
Q 028097 100 KLFAVGTSASLVGVGITNALINARKALDTSFAGEAEDVPIISTSVAYGVYMAVSSNLR 157 (214)
Q Consensus 100 ~l~~VG~~ag~vg~~lsn~l~~~Rk~~~~~~~~~~~~~P~l~ta~~~g~fmGvSsNlR 157 (214)
.-+.||.+.|.+-.. ....|....+...-.....-++.++.+.|.||++=+=+|
T Consensus 13 MG~~VG~~~G~l~G~----~~~~r~g~~~~~~~~~lg~~~l~sg~tFG~Fm~iGs~IR 66 (67)
T PF10247_consen 13 MGGAVGGAFGALFGT----FSAFRYGARGRGLMRTLGKYMLGSGATFGFFMSIGSVIR 66 (67)
T ss_pred HhhHHHhhhhhhhhh----HHHhccCCCCcchHhHHhHHHhcchhHHHHHHhhhcccc
Confidence 344566666555444 334555544422112223446777899999999877655
No 6
>PRK12799 motB flagellar motor protein MotB; Reviewed
Probab=22.64 E-value=60 Score=31.48 Aligned_cols=27 Identities=30% Similarity=0.615 Sum_probs=24.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhcccc
Q 028097 24 KELDFVFADVVMAIIADFMLVWLPAPT 50 (214)
Q Consensus 24 ~E~D~v~~d~v~~~v~nf~lv~llAPt 50 (214)
..|=.-++|++++..+=|+|+|+++=+
T Consensus 25 gaWkVAYADfvTlLMAFFlLLwsmSsv 51 (421)
T PRK12799 25 GSWKIAYADFMTAMMAFFLVMWLLAVS 51 (421)
T ss_pred cchhhhHHHHHHHHHHHHHHHHHhhcC
Confidence 379999999999999999999999754
No 7
>TIGR00766 ribonuclease, putative. This family shows similarity to ribonuclease BN
Probab=21.95 E-value=2.1e+02 Score=24.82 Aligned_cols=46 Identities=17% Similarity=0.189 Sum_probs=29.1
Q ss_pred hhHHHHHHHhhhhhhhhhhhhhhhhHHHHHHHHHHHHHhcCcCcCCCC
Q 028097 87 LIQRIGAIVRNGAKLFAVGTSASLVGVGITNALINARKALDTSFAGEA 134 (214)
Q Consensus 87 l~qR~~~~~~kg~~l~~VG~~ag~vg~~lsn~l~~~Rk~~~~~~~~~~ 134 (214)
+.+-+..+..++..+..+|++.-+.+ .++++.++||.+|+-|+.+.
T Consensus 70 v~~~l~~~~~~~~~l~~ig~~~ll~t--as~~~~~l~~aln~i~~~~~ 115 (263)
T TIGR00766 70 LKNTMNTAVDARTTVGLIGLATALYS--GLNWMGNLREAISDVWERPP 115 (263)
T ss_pred HHHHHHHHHhcccHHHHHHHHHHHHH--HHHHHHHHHHHHHHHhCCCC
Confidence 44555556555555566666544433 34788899999988886543
No 8
>TIGR00765 yihY_not_rbn YihY family protein (not ribonuclease BN). Members of this subfamily include the largely uncharacterized BrkB (Bordetella resist killing by serum B) from Bordetella pertussis. Some members have an additional C-terminal domain. Paralogs from E. coli (yhjD) and Mycobactrium tuberculosis (Rv3335c) are part of a smaller, related subfamily that form their own cluster.
Probab=21.75 E-value=2e+02 Score=25.02 Aligned_cols=57 Identities=23% Similarity=0.260 Sum_probs=35.3
Q ss_pred hHHHHHHHhhhhhhhhhhhhhhhhHHHHHHHHHHHHHhcCcCcCCCCCCCchhhhhhhh
Q 028097 88 IQRIGAIVRNGAKLFAVGTSASLVGVGITNALINARKALDTSFAGEAEDVPIISTSVAY 146 (214)
Q Consensus 88 ~qR~~~~~~kg~~l~~VG~~ag~vg~~lsn~l~~~Rk~~~~~~~~~~~~~P~l~ta~~~ 146 (214)
.+.+-.+..+...+..+|++..+.+ .++++.++||.++.-|+.+.+++...+-+..|
T Consensus 71 ~~~i~~~~~~~~~~~~ig~~~~lws--as~~~~~l~~~ln~i~~~~~~r~~~~~~~~~~ 127 (259)
T TIGR00765 71 KDYIEQFVKNSNKLTAVGIVSLIVT--ALLLINNIDSTLNKIWRVKPRRSAIFSFAIYW 127 (259)
T ss_pred HHHHHHHHHhCCchHHHHHHHHHHH--HHHHHHHHHHHHHHHhCCCCCCcHHHHHHHHH
Confidence 3334444445455667777665543 45788999999988887665555544434444
No 9
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=21.28 E-value=99 Score=25.04 Aligned_cols=18 Identities=17% Similarity=0.198 Sum_probs=11.7
Q ss_pred hhhhhhhhhhhhHHHHHH
Q 028097 100 KLFAVGTSASLVGVGITN 117 (214)
Q Consensus 100 ~l~~VG~~ag~vg~~lsn 117 (214)
-+-.+|..||++|.-+--
T Consensus 67 ~~Ii~gv~aGvIg~Illi 84 (122)
T PF01102_consen 67 IGIIFGVMAGVIGIILLI 84 (122)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred eehhHHHHHHHHHHHHHH
Confidence 344567788888876533
No 10
>KOG4215 consensus Hepatocyte nuclear factor 4 and similar steroid hormone receptors [Transcription]
Probab=20.21 E-value=1.7e+02 Score=28.34 Aligned_cols=61 Identities=15% Similarity=0.102 Sum_probs=31.8
Q ss_pred hhchh-------hHHHHHHHHHHHHHhhhhhhhhHH-HHHHHHHHhhhhhhhhhhHHHHHHHHHHhhccc
Q 028097 151 AVSSN-------LRYQVLAGVIEQRILEPLLHENKI-ILAAICFAFRTGNTFLGSLMWVDYARWVGIQKM 212 (214)
Q Consensus 151 GvSsN-------lRYQ~l~G~~e~r~~e~~~~~~~~-~~~~~~~~~R~~Nn~~G~~~~vd~Ar~~G~Q~~ 212 (214)
|+|.+ +|||++..+ |+++.+......+. .++.+-+.==.--.-+-=+-.|.+|++.|+-+.
T Consensus 273 Gis~~s~~~I~~aR~~vl~sL-e~yi~d~q~~d~~~R~g~LLLllPsLqsIt~qliE~iqlaklFGla~v 341 (432)
T KOG4215|consen 273 GLSDPSQIRIREARNRVLKSL-EAYISDRQPYDAPGRFGNLLLLLPSLQSITQQLIEQIQLAKLFGLAKV 341 (432)
T ss_pred ccCCchHhHHHHHHHHHHHHH-HHHHhhcCccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhhH
Confidence 66665 499999999 77777644221110 001110100000011222456889999998775
Done!