Query psy5171
Match_columns 180
No_of_seqs 45 out of 47
Neff 2.9
Searched_HMMs 46136
Date Fri Aug 16 19:10:55 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5171.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5171hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00283 MA Methyl-accepting 96.8 0.17 3.7E-06 39.8 19.2 42 118-159 200-241 (262)
2 PRK09793 methyl-accepting prot 95.8 1.5 3.3E-05 40.2 19.2 44 115-158 447-490 (533)
3 PRK15048 methyl-accepting chem 95.3 2.3 5E-05 38.8 19.0 17 13-29 298-314 (553)
4 PF00015 MCPsignal: Methyl-acc 93.5 2.8 6.1E-05 32.5 17.6 106 58-163 89-194 (213)
5 COG0840 Tar Methyl-accepting c 74.5 55 0.0012 28.0 15.2 16 38-53 286-301 (408)
6 PF03670 UPF0184: Uncharacteri 18.0 3.9E+02 0.0084 20.4 5.2 45 64-108 28-72 (83)
7 PF03670 UPF0184: Uncharacteri 7.2 1.1E+03 0.023 18.0 5.3 45 57-101 28-72 (83)
8 PF02810 SEC-C: SEC-C motif; 5.5 2.3E+02 0.0049 16.4 0.1 10 171-180 8-17 (21)
9 KOG0994|consensus 5.2 4E+03 0.086 22.6 15.6 175 3-177 1444-1636(1758)
10 PF11887 DUF3407: Protein of u 4.5 2.2E+03 0.047 18.6 11.8 115 9-123 31-145 (267)
No 1
>smart00283 MA Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer). Thought to undergo reversible methylation in response to attractants or repellants during bacterial chemotaxis.
Probab=96.82 E-value=0.17 Score=39.79 Aligned_cols=42 Identities=7% Similarity=0.245 Sum_probs=15.8
Q ss_pred HHHHhhhhhHhhhhhhHHhhhhhhhhhhHHHhhhhhHHHhhh
Q psy5171 118 RFMEQTKSTMEQTKNSMEQTKNSMEQTKSFMEQTKSSMEQTK 159 (180)
Q Consensus 118 ssl~Q~~sSl~Q~asSl~Qt~sSl~q~~ssl~Qt~ssl~Qt~ 159 (180)
..++.+....+......++...+.++......+......+..
T Consensus 200 ~~i~~i~~~~~~~~~~~~~~~~~~~~i~~~~~~i~~~~~~~~ 241 (262)
T smart00283 200 DLVQEIAAATDEQAAGSEEVNAAIDEIAQVTQETAAMSEEIS 241 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333333333333333333333333333333333333333
No 2
>PRK09793 methyl-accepting protein IV; Provisional
Probab=95.79 E-value=1.5 Score=40.18 Aligned_cols=44 Identities=20% Similarity=0.333 Sum_probs=16.0
Q ss_pred HhHHHHHhhhhhHhhhhhhHHhhhhhhhhhhHHHhhhhhHHHhh
Q psy5171 115 QTKRFMEQTKSTMEQTKNSMEQTKNSMEQTKSFMEQTKSSMEQT 158 (180)
Q Consensus 115 Q~assl~Q~~sSl~Q~asSl~Qt~sSl~q~~ssl~Qt~ssl~Qt 158 (180)
++...+.++....++.....++....+.+.....+++....++.
T Consensus 447 ~~~~~~~~i~~~~~e~~~~~~~i~~~i~~i~~~~~~~~~~~~~~ 490 (533)
T PRK09793 447 RVNDIMGEIASASEEQRRGIEQVAQAVSQMDQVTQQNASLVEEA 490 (533)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333333333333333333333333333
No 3
>PRK15048 methyl-accepting chemotaxis protein II; Provisional
Probab=95.25 E-value=2.3 Score=38.76 Aligned_cols=17 Identities=35% Similarity=0.495 Sum_probs=6.1
Q ss_pred hhHhhhhHHHhhhhhhh
Q psy5171 13 SSMEQTKSFMEQTESSM 29 (180)
Q Consensus 13 sSl~Q~~ssl~Qt~sSl 29 (180)
..++++...+++...++
T Consensus 298 ~~i~~i~~s~eeis~~~ 314 (553)
T PRK15048 298 SALEETAASMEQLTATV 314 (553)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33333333333333333
No 4
>PF00015 MCPsignal: Methyl-accepting chemotaxis protein (MCP) signalling domain; InterPro: IPR004089 Methyl-accepting chemotaxis proteins (MCPs) are a family of bacterial receptors that mediate chemotaxis to diverse signals, responding to changes in the concentration of attractants and repellents in the environment by altering swimming behaviour []. Environmental diversity gives rise to diversity in bacterial signalling receptors, and consequently there are many genes encoding MCPs []. For example, there are four well-characterised MCPs found in Escherichia coli: Tar (taxis towards aspartate and maltose, away from nickel and cobalt), Tsr (taxis towards serine, away from leucine, indole and weak acids), Trg (taxis towards galactose and ribose) and Tap (taxis towards dipeptides). MCPs share similar topology and signalling mechanisms. MCPs either bind ligands directly or interact with ligand-binding proteins, transducing the signal to downstream signalling proteins in the cytoplasm. MCPs undergo two covalent modifications: deamidation and reversible methylation at a number of glutamate residues. Attractants increase the level of methylation, while repellents decrease it. The methyl groups are added by the methyl-transferase cheR and are removed by the methylesterase cheB. Most MCPs are homodimers that contain the following organisation: an N-terminal signal sequence that acts as a transmembrane domain in the mature protein; a poorly-conserved periplasmic receptor (ligand-binding) domain; a second transmembrane domain; and a highly-conserved C-terminal cytoplasmic domain that interacts with downstream signalling components. The C-terminal domain contains the glycosylated glutamate residues. This entry represents the signalling domain found in several methyl-accepting chemotaxis proteins. This domain is thought to transduce the signal to CheA since it is highly conserved in very diverse MCPs.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016020 membrane; PDB: 2CH7_A 3ZX6_B 1QU7_A 3G6B_B 3UR1_C 3G67_B.
Probab=93.51 E-value=2.8 Score=32.52 Aligned_cols=106 Identities=26% Similarity=0.377 Sum_probs=54.8
Q ss_pred HhhhhHHHhhhhhhhhhhhhhhhhhhHHHhhhHHHHHhHHhHhhhhhhHHhhhhhHHHhHHHHHhhhhhHhhhhhhHHhh
Q psy5171 58 EQTKSSMEQNKSSMEQTKRFMEQTKSTMEQTKSFMEQTKNSMEQTKSSMEQTKSSMEQTKRFMEQTKSTMEQTKNSMEQT 137 (180)
Q Consensus 58 ~Q~~sSl~Q~~sSldQ~~sSl~Q~asSl~Q~~ssl~Q~asSl~Qt~sSl~Q~asSl~Q~assl~Q~~sSl~Q~asSl~Qt 137 (180)
+++..+...|...++.+....+.....++.....++........+...+..+...+......+..+.....+.+...++.
T Consensus 89 ~~t~~~~~~I~~~i~~i~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~l~~i~~~~~~i~~~i~~i~~~~~~~~~~~~~i 168 (213)
T PF00015_consen 89 EQTSESAKEISEIIEEIQEQISQVVESMEESREQIEEGSESVEETSESLEEIAESVEEISDSIEEISESAEEQSESIEQI 168 (213)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhhhHHHHHHHHHhhhhhhhhhhhhhhhcchhhhhhhcccchhcchhhhhhhhhhhHHhhhhHHHHhhHHHHHHHHHHH
Confidence 34444444555555555444444444455444444444455555555555555555555555555555555555555555
Q ss_pred hhhhhhhhHHHhhhhhHHHhhhhhhh
Q psy5171 138 KNSMEQTKSFMEQTKSSMEQTKSSME 163 (180)
Q Consensus 138 ~sSl~q~~ssl~Qt~ssl~Qt~sSl~ 163 (180)
...+.+.....++.....++.....+
T Consensus 169 ~~~i~~i~~~~~~~~~~~~~~~~~~~ 194 (213)
T PF00015_consen 169 NESIEEISEISEQISASSEEIAEAAE 194 (213)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55555555555555555555444443
No 5
>COG0840 Tar Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]
Probab=74.45 E-value=55 Score=28.05 Aligned_cols=16 Identities=13% Similarity=0.306 Sum_probs=6.1
Q ss_pred hhhhHHHhhhhHHHHh
Q psy5171 38 QTKNSMEQTKSFMEQT 53 (180)
Q Consensus 38 Q~~sSl~Qs~sSl~Q~ 53 (180)
++..+..++..-+..+
T Consensus 286 ~s~~st~~I~~~i~~i 301 (408)
T COG0840 286 RSADSAKEIGLLIEEI 301 (408)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333333333333333
No 6
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=17.96 E-value=3.9e+02 Score=20.38 Aligned_cols=45 Identities=9% Similarity=0.174 Sum_probs=0.0
Q ss_pred HHhhhhhhhhhhhhhhhhhhHHHhhhHHHHHhHHhHhhhhhhHHh
Q psy5171 64 MEQNKSSMEQTKRFMEQTKSTMEQTKSFMEQTKNSMEQTKSSMEQ 108 (180)
Q Consensus 64 l~Q~~sSldQ~~sSl~Q~asSl~Q~~ssl~Q~asSl~Qt~sSl~Q 108 (180)
..-|.+.||+|.+-|+..+..-+.+..-|+..-.|.+|+---+.+
T Consensus 28 ~~~ins~LD~Lns~LD~LE~rnD~l~~~L~~LLesnrq~R~e~~~ 72 (83)
T PF03670_consen 28 YAAINSMLDQLNSCLDHLEQRNDHLHAQLQELLESNRQIRLEFQE 72 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
No 7
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=7.22 E-value=1.1e+03 Score=17.99 Aligned_cols=45 Identities=9% Similarity=0.160 Sum_probs=0.0
Q ss_pred HHhhhhHHHhhhhhhhhhhhhhhhhhhHHHhhhHHHHHhHHhHhh
Q psy5171 57 MEQTKSSMEQNKSSMEQTKRFMEQTKSTMEQTKSFMEQTKNSMEQ 101 (180)
Q Consensus 57 l~Q~~sSl~Q~~sSldQ~~sSl~Q~asSl~Q~~ssl~Q~asSl~Q 101 (180)
..-|.+.|++|.+-||-+..-.+...+.|+..=.+.+|+---+.+
T Consensus 28 ~~~ins~LD~Lns~LD~LE~rnD~l~~~L~~LLesnrq~R~e~~~ 72 (83)
T PF03670_consen 28 YAAINSMLDQLNSCLDHLEQRNDHLHAQLQELLESNRQIRLEFQE 72 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
No 8
>PF02810 SEC-C: SEC-C motif; InterPro: IPR004027 The SEC-C motif found in the C terminus of the SecA protein, in the middle of some SWI2 ATPases and also solo in several proteins. The motif is predicted to chelate zinc with the CXC and C[HC] pairs that constitute the most conserved feature of the motif. It is predicted to be a potential nucleic acid binding domain.; PDB: 1OZB_J 1TM6_A 2I9W_A 2JQ5_A.
Probab=5.49 E-value=2.3e+02 Score=16.41 Aligned_cols=10 Identities=40% Similarity=0.833 Sum_probs=0.0
Q ss_pred ccccccccCC
Q psy5171 171 GSKLNYTSCH 180 (180)
Q Consensus 171 ~s~l~y~~~~ 180 (180)
||.+.|.-||
T Consensus 8 gSg~~y~~CC 17 (21)
T PF02810_consen 8 GSGKKYKDCC 17 (21)
T ss_dssp SCSSBHHHCT
T ss_pred CCCchHHHhC
No 9
>KOG0994|consensus
Probab=5.21 E-value=4e+03 Score=22.59 Aligned_cols=175 Identities=11% Similarity=0.192 Sum_probs=0.0
Q ss_pred hhhHHHHhhhhhHhhhhHHHhhhhhhhhhhhhhHHhhhhHHHhhhhHHHHh---------------HhHHHhhhhHHHhh
Q psy5171 3 QTKISMEQTKSSMEQTKSFMEQTESSMEQTKSSMEQTKNSMEQTKSFMEQT---------------KNSMEQTKSSMEQN 67 (180)
Q Consensus 3 Qt~~s~~Q~~sSl~Q~~ssl~Qt~sSl~Q~asSl~Q~~sSl~Qs~sSl~Q~---------------~sSl~Q~~sSl~Q~ 67 (180)
+......-.+.-+++.+.+..|++++......-..++..=|.+-+.+.++| ..-+.+.+.-....
T Consensus 1444 ~aseA~~~Aq~~~~~a~as~~q~~~s~~el~~Li~~v~~Flt~~~adp~si~~vA~~vL~l~lp~tpeqi~~L~~~I~e~ 1523 (1758)
T KOG0994|consen 1444 SASEAQQSAQRALEQANASRSQMEESNRELRNLIQQVRDFLTQPDADPDSIEEVAEEVLALELPLTPEQIQQLTGEIQER 1523 (1758)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHH
Q ss_pred hhhhhhhhhhhhhhh---hHHHhhhHHHHHhHHhHhhhhhhHHhhhhhHHHhHHHHHhhhhhHhhhhhhHHhhhhhhhhh
Q psy5171 68 KSSMEQTKRFMEQTK---STMEQTKSFMEQTKNSMEQTKSSMEQTKSSMEQTKRFMEQTKSTMEQTKNSMEQTKNSMEQT 144 (180)
Q Consensus 68 ~sSldQ~~sSl~Q~a---sSl~Q~~ssl~Q~asSl~Qt~sSl~Q~asSl~Q~assl~Q~~sSl~Q~asSl~Qt~sSl~q~ 144 (180)
-++|-++-.-|..++ .-.+..-+...-..+..+-.+-..+-+...|+.......-....+.+....++.+..-|...
T Consensus 1524 v~sL~nVd~IL~~T~~di~ra~~L~s~A~~a~~~A~~v~~~ae~V~eaL~~Ad~Aq~~a~~ai~~a~~~~~~a~~~l~kv 1603 (1758)
T KOG0994|consen 1524 VASLPNVDAILSRTKGDIARAENLQSEAERARSRAEDVKGQAEDVVEALEEADVAQGEAQDAIQGADRDIRLAQQLLAKV 1603 (1758)
T ss_pred HHhcccHHHHHHhhhhhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Q ss_pred hHHHhhhhhHHHhhhhhhhHhHhhhcccccccc
Q psy5171 145 KSFMEQTKSSMEQTKSSMEQTKLQAKGSKLNYT 177 (180)
Q Consensus 145 ~ssl~Qt~ssl~Qt~sSl~Q~~l~~~~s~l~y~ 177 (180)
...+.=.+.-+.-...-+.+-+---.+-++.|+
T Consensus 1604 ~~~t~~aE~~~~~a~q~~~eL~~~~e~lk~~~~ 1636 (1758)
T KOG0994|consen 1604 QEETAAAEKLATSATQQLGELETRMEELKHKAA 1636 (1758)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 10
>PF11887 DUF3407: Protein of unknown function (DUF3407); InterPro: IPR024516 This entry represents a domain of unknown function found at the C terminus of many proteins in the mammalian cell entry family.
Probab=4.53 E-value=2.2e+03 Score=18.58 Aligned_cols=115 Identities=6% Similarity=0.163 Sum_probs=0.0
Q ss_pred HhhhhhHhhhhHHHhhhhhhhhhhhhhHHhhhhHHHhhhhHHHHhHhHHHhhhhHHHhhhhhhhhhhhhhhhhhhHHHhh
Q psy5171 9 EQTKSSMEQTKSFMEQTESSMEQTKSSMEQTKNSMEQTKSFMEQTKNSMEQTKSSMEQNKSSMEQTKRFMEQTKSTMEQT 88 (180)
Q Consensus 9 ~Q~~sSl~Q~~ssl~Qt~sSl~Q~asSl~Q~~sSl~Qs~sSl~Q~~sSl~Q~~sSl~Q~~sSldQ~~sSl~Q~asSl~Q~ 88 (180)
+++...+++....+......++++..-++..+.-.+--.....++...++........+..--+++...|..........
T Consensus 31 ~~lg~~l~~l~~~l~~ln~~~~~l~~~l~~l~~v~~~~a~aapdL~~~l~~~~~~s~tL~~~~~~L~~lL~~~~~~a~~~ 110 (267)
T PF11887_consen 31 EQLGETLDDLNTLLATLNPRLPQLREDLRNLADVADTYADAAPDLLDALDNLTTTSRTLVDQRQQLDALLLSATGLADTG 110 (267)
T ss_pred hhHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q ss_pred hHHHHHhHHhHhhhhhhHHhhhhhHHHhHHHHHhh
Q psy5171 89 KSFMEQTKNSMEQTKSSMEQTKSSMEQTKRFMEQT 123 (180)
Q Consensus 89 ~ssl~Q~asSl~Qt~sSl~Q~asSl~Q~assl~Q~ 123 (180)
..+++.-..-|-..-..|.-+..-|..-...+..+
T Consensus 111 ~~~l~~n~~~L~~~~~~L~p~~~lL~~~~p~l~c~ 145 (267)
T PF11887_consen 111 TDFLADNRDNLIRALDDLRPTTDLLAKYSPELPCT 145 (267)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHhCchHHHH
Done!