Query 046883
Match_columns 292
No_of_seqs 119 out of 415
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 05:25:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046883.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046883hhsearch_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 2.5E-65 5.5E-70 487.7 15.9 229 51-288 1-272 (362)
2 TIGR02587 putative integral me 45.4 52 0.0011 30.6 5.6 50 14-72 35-84 (271)
3 PF09925 DUF2157: Predicted me 30.4 2.3E+02 0.0049 23.3 6.9 46 44-99 87-132 (145)
4 PF09323 DUF1980: Domain of un 26.3 4.1E+02 0.009 22.7 8.1 90 18-108 2-96 (182)
5 PF12550 GCR1_C: Transcription 24.3 49 0.0011 24.7 1.6 17 2-18 4-20 (81)
6 PF12273 RCR: Chitin synthesis 23.9 50 0.0011 26.8 1.7 27 16-42 2-28 (130)
7 PF09773 Meckelin: Meckelin (T 23.4 2.2E+02 0.0047 30.9 6.8 60 11-70 358-423 (853)
8 PF00367 PTS_EIIB: phosphotran 22.0 97 0.0021 19.6 2.4 17 95-111 2-18 (35)
9 PF10866 DUF2704: Protein of u 20.2 92 0.002 26.7 2.6 53 200-252 63-116 (168)
10 PF10754 DUF2569: Protein of u 20.0 1.9E+02 0.0041 24.1 4.5 56 16-71 56-111 (149)
No 1
>PF13968 DUF4220: Domain of unknown function (DUF4220)
Probab=100.00 E-value=2.5e-65 Score=487.75 Aligned_cols=229 Identities=39% Similarity=0.681 Sum_probs=208.6
Q ss_pred HHHHHhhhhhHHHHHHhhhccccCCCCCCCCCCCCccchhHHhHHHHHHHhcCCCceeeeecCcCCcccchhhhhhhhce
Q 046883 51 VWSAYLLADWVVNFGVGLITERARDTPDHSKQPAENNELLAFWVPFLLSHLGSPDTITAFALEDNEFWPRHLFGFIFQVV 130 (292)
Q Consensus 51 lWlAY~~ad~va~YaLG~l~~~~~~~~~~~~~~~~~~~l~~~WApfLLlhLGg~DtITAysleDn~lw~Rhll~l~~Qv~ 130 (292)
+|+||++||++|+|+||+||+++ ++.++++++|||||||+||||||||||||+||||+|+||++++++|++
T Consensus 1 lWlay~~sd~~a~Y~LG~l~~~~---------~~~~~~l~~~WAp~LLlhlgg~d~itaysleDn~lw~R~ll~ll~qv~ 71 (362)
T PF13968_consen 1 LWLAYLLSDSLATYALGLLQSSS---------SPFKSQLFPFWAPFLLLHLGGQDTITAYSLEDNELWLRHLLTLLVQVI 71 (362)
T ss_pred CchHHhhhHHHHHHHHHHHhcCC---------CCCCcchhhhHHHHHHHHhCCCcceeeeecccchHHHHHHHHHHHHhh
Confidence 69999999999999999999985 256899999999999999999999999999999999999999999999
Q ss_pred EEEEEEEEecCCCcchHHHHHHHHHHHHHHHHHHHHHHhhchhhhhhhhhHH---------HHhhhccc-------cee-
Q 046883 131 AAVYVFLLTLPGNKLFIPTILMFIAGVIKYFERILALYLASVEKFRDSTLRE---------LAEHYQKR-------DIV- 193 (292)
Q Consensus 131 ~a~yv~~~s~~~~~l~~~~~lmfv~GiiKy~eR~~aL~~as~~~l~~s~~~~---------~~~~~~~~-------~i~- 193 (292)
+++||++++|+|+.+..|+++||++|++||+||+|||++||.+.+++++..+ .|++|++. +..
T Consensus 72 ~a~Yv~~~~~~g~~l~~~~~lLfv~gi~K~~eR~~AL~~As~~~i~~s~~~~~~~~~~~~~~m~~~~~~~~~~~~~~~~~ 151 (362)
T PF13968_consen 72 WALYVFYKSWSGSRLLAPAILLFVVGIIKYGERIWALRRASSRSIRSSMMGEPDPGPNYAETMEGYKYLVEEEYPKEIRI 151 (362)
T ss_pred hhheeeeeecccchHHHHHHHHHHHHHHHHHHHHHHHHccchhhhHHhhhhhhcccccchhhccccchhccccccceeee
Confidence 9999999999887899999999999999999999999999999888776533 45655431 000
Q ss_pred -------------------------eccccchHHhhhhhHHHHhhhhcccccccccccccccccccC-ChhhHHHHHHHH
Q 046883 194 -------------------------IKKDRCYLEVGCQYFKIFKGILLELMSNFKRVNFAGPFFRDF-SPEDVLGIIEVE 247 (292)
Q Consensus 194 -------------------------~~~~~~~l~~a~~lf~~~r~~f~d~~~~~~~~~~~~~~~~~~-~~~~af~vie~E 247 (292)
.+++++++|+||++|+++||+|+|++++++++.++++++.+. |+|++|||+|+|
T Consensus 152 ~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~k~l~ls~aLf~llrr~f~d~~~~~~~~~~~~~~~~~l~~~~~af~vie~E 231 (362)
T PF13968_consen 152 LKEEDLETLVTVDKVWESLLDSREESDPELKDLCLSFALFKLLRRRFVDFPLSESGRLKTRDFFRGLDDAERAFRVIEME 231 (362)
T ss_pred ccccccccCCccceecccccchhcccccHHHHHHHHHHHHHHHHhhhhCCCcchhhhHHHHHHHhccccHHHHHHHHHHH
Confidence 014578999999999999999999999999999999998775 589999999999
Q ss_pred HHHHHHhhhcCcchhcccchhHHHHHHHHHHHHHHHHHhhc
Q 046883 248 LNLVYEVLYTKIQVTHSVLGITLRLICFGSVMAALSFFYFH 288 (292)
Q Consensus 248 Lsf~yD~lYTK~~v~~t~~G~~lR~is~~~t~~A~~lF~~~ 288 (292)
|+|+||++|||++++||+.|+++|+++++++++|+++|..+
T Consensus 232 Lsf~yD~~YTk~~v~~~~~~~~~~~~s~~~~~~a~~lf~~~ 272 (362)
T PF13968_consen 232 LSFLYDYLYTKAPVVHTWLGLFLRVISLLSTVAALVLFWLS 272 (362)
T ss_pred HHHHHHheeccceeeeeccchHHHHHHHHHHHHHHHHhhcc
Confidence 99999999999999999999999999999999999999985
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=45.36 E-value=52 Score=30.65 Aligned_cols=50 Identities=12% Similarity=0.212 Sum_probs=40.9
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHhccCCCCCchhHHHHHHHHHhhhhhHHHHHHhhhccc
Q 046883 14 DNCNIRGVILFSLSLQMVLILFASLRNGTGNKLVISVVWSAYLLADWVVNFGVGLITER 72 (292)
Q Consensus 14 ~~w~i~~Lvl~Sl~lq~~L~~~~~~Rr~~~~~~lr~~lWlAY~~ad~va~YaLG~l~~~ 72 (292)
+-|++=.++.+|+.+-..+...+++||+. .+..- ..|.+..|++|.+.+.
T Consensus 35 ~p~~lllll~~sl~i~~~lv~~~GFr~~~--~~~~~-------i~eti~ay~Iglv~S~ 84 (271)
T TIGR02587 35 KPRRLVLLIALMFPVLFLLNYTEGFRKRK--RVREA-------VIDTVEAMAIGFVCSA 84 (271)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHhcccccc--chHHH-------HHHHHHHHHHHHHHHH
Confidence 37888899999999999999999999983 23332 5599999999998863
No 3
>PF09925 DUF2157: Predicted membrane protein (DUF2157); InterPro: IPR018677 This family of various hypothetical prokaryotic proteins has no known function.
Probab=30.39 E-value=2.3e+02 Score=23.31 Aligned_cols=46 Identities=11% Similarity=0.089 Sum_probs=26.1
Q ss_pred chhHHHHHHHHHhhhhhHHHHHHhhhccccCCCCCCCCCCCCccchhHHhHHHHHH
Q 046883 44 NKLVISVVWSAYLLADWVVNFGVGLITERARDTPDHSKQPAENNELLAFWVPFLLS 99 (292)
Q Consensus 44 ~~~lr~~lWlAY~~ad~va~YaLG~l~~~~~~~~~~~~~~~~~~~l~~~WApfLLl 99 (292)
++..+-.+...-...-...+..+|.+.+..+ ...+++..|+...+.
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 3334444444444444555666677766543 245899999876543
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=26.30 E-value=4.1e+02 Score=22.70 Aligned_cols=90 Identities=20% Similarity=0.273 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHHHH-HHHHhccCCCCCchhHHHHHHHHHhhhhhHHHHHHhhhccccCCC---CCCC-CCCCCccchhHH
Q 046883 18 IRGVILFSLSLQMV-LILFASLRNGTGNKLVISVVWSAYLLADWVVNFGVGLITERARDT---PDHS-KQPAENNELLAF 92 (292)
Q Consensus 18 i~~Lvl~Sl~lq~~-L~~~~~~Rr~~~~~~lr~~lWlAY~~ad~va~YaLG~l~~~~~~~---~~~~-~~~~~~~~l~~~ 92 (292)
||+|+|+.+...++ |...|..-++.+++...++...+-.+. -+|.+.+-......... +++. ...+..-....|
T Consensus 2 ir~liL~~~~~l~~~l~~sG~i~~YI~P~~~~~~~~a~i~l~-ilai~q~~~~~~~~~~~~~~h~h~~~~~~~~~~y~l~ 80 (182)
T PF09323_consen 2 IRFLILLGFGILLFYLILSGKILLYIHPRYIPLLYFAAILLL-ILAIVQLWRWFRPKRRKEDCHDHGHSKSKKLWSYFLF 80 (182)
T ss_pred HHHHHHHHHHHHHHHHHHhCcHHHHhCccHHHHHHHHHHHHH-HHHHHHHHHHHhcccccccccccccccccccHHHHHH
Confidence 68999999888775 556666777887776665444443332 33344444443332221 1110 001222234566
Q ss_pred hHHHHHHHhcCCCcee
Q 046883 93 WVPFLLSHLGSPDTIT 108 (292)
Q Consensus 93 WApfLLlhLGg~DtIT 108 (292)
-.|.++.-+-.|-+..
T Consensus 81 ~iPll~g~l~p~~~L~ 96 (182)
T PF09323_consen 81 LIPLLIGFLFPPASLD 96 (182)
T ss_pred HHHHHHHHcCCCcCcc
Confidence 6676666554444433
No 5
>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=24.26 E-value=49 Score=24.72 Aligned_cols=17 Identities=12% Similarity=0.280 Sum_probs=12.3
Q ss_pred CCCChhhHHHHHHHhHH
Q 046883 2 VNPIPDSVRKIWDNCNI 18 (292)
Q Consensus 2 ~~~~~~~~~~~w~~w~i 18 (292)
|+--|.++.++|+||..
T Consensus 4 m~~~~~TV~dlw~Ew~~ 20 (81)
T PF12550_consen 4 MSRSIKTVYDLWREWFT 20 (81)
T ss_pred cCCCCCcHHHHHHHHhc
Confidence 55667778888888854
No 6
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=23.91 E-value=50 Score=26.84 Aligned_cols=27 Identities=15% Similarity=0.235 Sum_probs=14.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHhccCCCC
Q 046883 16 CNIRGVILFSLSLQMVLILFASLRNGT 42 (292)
Q Consensus 16 w~i~~Lvl~Sl~lq~~L~~~~~~Rr~~ 42 (292)
|-+=+++++.+++-+|++++-.+||++
T Consensus 2 W~l~~iii~~i~l~~~~~~~~~rRR~r 28 (130)
T PF12273_consen 2 WVLFAIIIVAILLFLFLFYCHNRRRRR 28 (130)
T ss_pred eeeHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 445455556666666655555555444
No 7
>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=2.2e+02 Score=30.92 Aligned_cols=60 Identities=22% Similarity=0.279 Sum_probs=48.5
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHhccCCCCCch------hHHHHHHHHHhhhhhHHHHHHhhhc
Q 046883 11 KIWDNCNIRGVILFSLSLQMVLILFASLRNGTGNK------LVISVVWSAYLLADWVVNFGVGLIT 70 (292)
Q Consensus 11 ~~w~~w~i~~Lvl~Sl~lq~~L~~~~~~Rr~~~~~------~lr~~lWlAY~~ad~va~YaLG~l~ 70 (292)
++|+.++|=.-|+.++.+-..++=+.+.+||+... ++++++-++-.+|+....+++|.-.
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 57999999999999999999888777777766653 5678888888888888777776544
No 8
>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=21.99 E-value=97 Score=19.56 Aligned_cols=17 Identities=24% Similarity=0.442 Sum_probs=13.2
Q ss_pred HHHHHHhcCCCceeeee
Q 046883 95 PFLLSHLGSPDTITAFA 111 (292)
Q Consensus 95 pfLLlhLGg~DtITAys 111 (292)
.-++-++||.++|....
T Consensus 2 ~~il~~lGG~~NI~~v~ 18 (35)
T PF00367_consen 2 KQILEALGGKENIKSVT 18 (35)
T ss_dssp HHHHHHCTTCCCEEEEE
T ss_pred hHHHHHhCCHHHHHHHh
Confidence 34577899999998764
No 9
>PF10866 DUF2704: Protein of unknown function (DUF2704); InterPro: IPR022594 This group of viral proteins has no known function.
Probab=20.24 E-value=92 Score=26.68 Aligned_cols=53 Identities=15% Similarity=0.199 Sum_probs=34.8
Q ss_pred hHHhhhhhHHHHhhhhcccccccccccccccccccC-ChhhHHHHHHHHHHHHH
Q 046883 200 YLEVGCQYFKIFKGILLELMSNFKRVNFAGPFFRDF-SPEDVLGIIEVELNLVY 252 (292)
Q Consensus 200 ~l~~a~~lf~~~r~~f~d~~~~~~~~~~~~~~~~~~-~~~~af~vie~ELsf~y 252 (292)
-..++..|+.++|+.|+|-|...=-...+.++..+. =.++++|.++.||...-
T Consensus 63 vysl~rqLyE~lr~~FVdePfKlWle~Na~qLaad~efrd~i~K~l~~~L~~~~ 116 (168)
T PF10866_consen 63 VYSLGRQLYEILRGDFVDEPFKLWLEQNAAQLAADAEFRDKIHKILQDQLQAAC 116 (168)
T ss_pred HHHHHHHHHHHHHHHhcCCchHHHHHhhHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence 356678999999999999765421112222232221 13589999999998876
No 10
>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=19.98 E-value=1.9e+02 Score=24.10 Aligned_cols=56 Identities=11% Similarity=0.023 Sum_probs=29.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHhccCCCCCchhHHHHHHHHHhhhhhHHHHHHhhhcc
Q 046883 16 CNIRGVILFSLSLQMVLILFASLRNGTGNKLVISVVWSAYLLADWVVNFGVGLITE 71 (292)
Q Consensus 16 w~i~~Lvl~Sl~lq~~L~~~~~~Rr~~~~~~lr~~lWlAY~~ad~va~YaLG~l~~ 71 (292)
|-.+++..+....-.+.+...-+||++.-+..-.+.++++...-.+.+++.+.+..
T Consensus 56 ~~~~~~~~~~~~~~~l~~~~lffkr~~~~P~~~I~~ll~~v~~~~l~~~~~~~~~~ 111 (149)
T PF10754_consen 56 WYFEVAINIAMWLFTLWLLYLFFKRKRRFPKLYIIWLLISVLFIALDAFAFSYIFP 111 (149)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 44555554443333333333334554444444444555677767777777766665
Done!