Query 016910
Match_columns 380
No_of_seqs 161 out of 546
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 03:54:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016910.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016910hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01571 A_thal_Cys_rich unch 100.0 7.6E-29 1.6E-33 208.0 9.4 102 149-285 1-104 (104)
2 PF04749 PLAC8: PLAC8 family; 99.9 2.2E-26 4.7E-31 188.5 6.6 106 151-283 1-106 (106)
3 PF12273 RCR: Chitin synthesis 33.8 35 0.00076 29.6 2.6 8 369-376 122-129 (130)
4 PF05835 Synaphin: Synaphin pr 29.9 29 0.00062 31.5 1.4 14 240-253 64-77 (139)
5 PF06570 DUF1129: Protein of u 29.7 92 0.002 29.1 4.8 44 40-85 79-122 (206)
6 COG2941 CAT5 Ubiquinone biosyn 28.5 71 0.0015 30.8 3.8 39 48-93 84-122 (204)
7 PRK12495 hypothetical protein; 27.5 1.1E+02 0.0023 30.1 4.8 39 240-282 9-69 (226)
8 PF04749 PLAC8: PLAC8 family; 26.3 66 0.0014 26.0 2.8 27 261-287 11-37 (106)
9 PF02468 PsbN: Photosystem II 26.1 71 0.0015 23.8 2.6 34 72-105 3-36 (43)
10 PF03203 MerC: MerC mercury re 25.9 76 0.0016 27.1 3.2 42 36-83 35-76 (116)
11 PF15471 TMEM171: Transmembran 23.0 60 0.0013 32.9 2.3 14 240-253 178-191 (319)
12 PRK13183 psbN photosystem II r 20.5 70 0.0015 24.2 1.7 34 72-105 6-39 (46)
No 1
>TIGR01571 A_thal_Cys_rich uncharacterized Cys-rich domain. This model describes an uncharacterized domain of about 100 residues. It is common in plants but found also in Homo sapiens, Dictyostelium, and Leishmania; at least 12 distinct members are found in Arabidopsis. Most members of this family contain more than 10 per cent Cys, but no Cys residue is invariant across the family.
Probab=99.95 E-value=7.6e-29 Score=207.97 Aligned_cols=102 Identities=34% Similarity=0.594 Sum_probs=84.2
Q ss_pred CCccccccccccchhhhhhHhcchhhHHhHhHHHhCCCc--chhHHHHHHhhhccchhhhhhhcccccchhHHHHHHhhh
Q 016910 149 PLWRGGLFDIWEDIAVSYLSLFFSFCVFGWNMERLGFGN--MYVHIATFLLLCTAPFWVFNFAAVNIDNETVREVLKLTG 226 (380)
Q Consensus 149 ~eWstGLfDCfdD~~lC~ls~fCPCcvfG~NaeRLG~g~--~~~h~~~flllc~aP~~if~laA~nid~~~~~~~l~~~G 226 (380)
++|++|||||++|+++|++++||||++||+|+||++.++ +....+++++ .
T Consensus 1 ~~W~~gL~dC~~d~~~C~~~~~CPc~~~g~~~~~~~~~~~~C~~~~~~~~~----------------------------~ 52 (104)
T TIGR01571 1 SNWSTGLFDCCEDIRLCLCGLFCPCCLFGQIAETLGTFAGECLCGGLTAIA----------------------------M 52 (104)
T ss_pred CCCCCCCccccCChhHHHHHHHHHHHHHHHHHHHhCCCCCchhhHHHHHHH----------------------------H
Confidence 589999999999999999999999999999999999543 3322211110 0
Q ss_pred hHHHHhhhhhhhHHHHHHHHHcCCCCCCCCCCCCchhhhHHHhcchhhHHHHHHHhhhh
Q 016910 227 LVLCIFGLLYGGFWRIQMRKRFNLPANNSCCGKPAIADFAQWLFCCWCSLAQEVRTADY 285 (380)
Q Consensus 227 i~Lc~~g~lYgg~~R~qmRkRYgIpGs~~ccg~~~~~DC~~~~cC~pCALcQE~RElk~ 285 (380)
..++.++++|.+..|++||+||||+|+ .++||+.++||+||+||||+||+|+
T Consensus 53 ~~~~~~~~~~~~~~R~~~R~ry~i~gs-------~~~D~~~~~~C~~C~lcQ~~RElk~ 104 (104)
T TIGR01571 53 SALCGFCGCYTCFIRIKLREKYGIQGA-------PCDDCLTHLFCCFCALCQEHRELKM 104 (104)
T ss_pred HHHHhHHHHHHHHHHHHHHHHhCCCCC-------CcccchHHHHhhhHHHHHHHHHHhC
Confidence 112335678889999999999999999 8999999999999999999999984
No 2
>PF04749 PLAC8: PLAC8 family; InterPro: IPR006461 This group of sequences are described by a region of about 170 amino acids. These proteins have highly divergent N-terminal regions rich in low complexity sequence. PSI-BLAST reveals no clear similarity to any characterised protein. It is common in plants but found also in Homo sapiens (Human), Dictyostelium, and Leishmania; at least 12 distinct members are found in Arabidopsis. Most members of this family contain more than 10 per cent Cys, but no Cys residue is invariant across the family.
Probab=99.93 E-value=2.2e-26 Score=188.49 Aligned_cols=106 Identities=34% Similarity=0.514 Sum_probs=81.5
Q ss_pred ccccccccccchhhhhhHhcchhhHHhHhHHHhCCCcchhHHHHHHhhhccchhhhhhhcccccchhHHHHHHhhhhHHH
Q 016910 151 WRGGLFDIWEDIAVSYLSLFFSFCVFGWNMERLGFGNMYVHIATFLLLCTAPFWVFNFAAVNIDNETVREVLKLTGLVLC 230 (380)
Q Consensus 151 WstGLfDCfdD~~lC~ls~fCPCcvfG~NaeRLG~g~~~~h~~~flllc~aP~~if~laA~nid~~~~~~~l~~~Gi~Lc 230 (380)
|++|||||++|+++|++++||||+++|+|++|++.+....+.. ...|...++++.++ ..+
T Consensus 1 W~~gl~~C~~d~~~c~~~~~cPc~~~~~~~~~l~~~~~~~~~~--~~~C~~~~~~~~~~-----------------~~~- 60 (106)
T PF04749_consen 1 WSTGLCDCFSDPGSCCLACFCPCCSFGQNAERLGDGPRSRGPA--FGSCCLCFCCFGCA-----------------ACL- 60 (106)
T ss_pred CCCCCCCcCCChHHHHHHHHHHHHHHHHHHHHhccCCccCCCC--CccHHHHHHHHHHH-----------------HHH-
Confidence 9999999999999999999999999999999999765332211 00111122211111 011
Q ss_pred HhhhhhhhHHHHHHHHHcCCCCCCCCCCCCchhhhHHHhcchhhHHHHHHHhh
Q 016910 231 IFGLLYGGFWRIQMRKRFNLPANNSCCGKPAIADFAQWLFCCWCSLAQEVRTA 283 (380)
Q Consensus 231 ~~g~lYgg~~R~qmRkRYgIpGs~~ccg~~~~~DC~~~~cC~pCALcQE~REl 283 (380)
.+.++|++..|++||+||||+|+ .++||+.++||+||||+||.||+
T Consensus 61 ~l~~~~~~~~R~~iR~ry~I~g~-------~~~D~~~~~~C~~Cal~Q~~rEl 106 (106)
T PF04749_consen 61 GLGWCYGCSLRQQIRERYGIQGS-------CCEDCCCSCCCPPCALCQEAREL 106 (106)
T ss_pred HHhHhhhhhHHHHHHHHhCCCCC-------ChhhhHHHHHHHHHHHHHHHhhC
Confidence 22444888999999999999999 99999999999999999999996
No 3
>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=33.80 E-value=35 Score=29.63 Aligned_cols=8 Identities=38% Similarity=0.721 Sum_probs=4.0
Q ss_pred cCCCCCCC
Q 016910 369 LMKPPVRP 376 (380)
Q Consensus 369 ~~~~p~~~ 376 (380)
...|+.||
T Consensus 122 y~pP~GPP 129 (130)
T PF12273_consen 122 YAPPPGPP 129 (130)
T ss_pred CCCCCCcC
Confidence 34455554
No 4
>PF05835 Synaphin: Synaphin protein; InterPro: IPR008849 This family consists of several eukaryotic synaphin 1 and 2 proteins. Synaphin/complexin is a cytosolic protein that preferentially binds to syntaxin within the SNARE complex. Synaphin promotes SNAREs to form precomplexes that oligomerise into higher order structures. A peptide from the central, syntaxin binding domain of synaphin competitively inhibits these two proteins from interacting and prevents SNARE complexes from oligomerising. It is thought that oligomerisation of SNARE complexes into a higher order structure creates a SNARE scaffold for efficient, regulated fusion of synaptic vesicles []. Synaphin promotes neuronal exocytosis by promoting interaction between the complementary syntaxin and synaptobrevin transmembrane regions that reside in opposing membranes prior to fusion [].; GO: 0019905 syntaxin binding, 0006836 neurotransmitter transport; PDB: 3RL0_m 3RK3_E 1L4A_E 1KIL_E.
Probab=29.94 E-value=29 Score=31.53 Aligned_cols=14 Identities=21% Similarity=0.541 Sum_probs=9.5
Q ss_pred HHHHHHHHcCCCCC
Q 016910 240 WRIQMRKRFNLPAN 253 (380)
Q Consensus 240 ~R~qmRkRYgIpGs 253 (380)
.|++||.||||+-+
T Consensus 64 mRq~IRdKY~l~k~ 77 (139)
T PF05835_consen 64 MRQHIRDKYGLKKK 77 (139)
T ss_dssp HHHHHHHHHT----
T ss_pred HHHHHHhhcccccc
Confidence 69999999999998
No 5
>PF06570 DUF1129: Protein of unknown function (DUF1129); InterPro: IPR009214 There are currently no experimental data for members of this group or their homologues. However, these proteins contain predicted integral membrane proteins (with several transmembrane segments).
Probab=29.66 E-value=92 Score=29.06 Aligned_cols=44 Identities=18% Similarity=0.184 Sum_probs=25.0
Q ss_pred chhhHHHHHHHHHHHHHHHHhhhcccCCCCCCCchhhhhHHHHHhh
Q 016910 40 THMMVVVVLLHVNCFAQYTLCGLNWGYKRSERPAIGVGICLSVAVA 85 (380)
Q Consensus 40 ~hm~~Vv~llh~nc~~Qy~lcgl~wgy~r~~RP~~~~~~~~~~~~~ 85 (380)
+.|.+...|+-+-.|. .+-|++.-++..++...+....+.+++.
T Consensus 79 ~~~~ld~~L~~~~if~--~~~gi~~~f~~~~~~~~gi~tli~~~i~ 122 (206)
T PF06570_consen 79 WLMALDNSLLFFGIFS--LLFGIMGFFSPKNSNQYGIITLILVSIV 122 (206)
T ss_pred HHHHHHHHHHHHHHHH--HHHHHHHHHhhcccccccHHHHHHHHHH
Confidence 3366666566565554 5567777667666655554444444443
No 6
>COG2941 CAT5 Ubiquinone biosynthesis protein COQ7 [Coenzyme metabolism]
Probab=28.55 E-value=71 Score=30.79 Aligned_cols=39 Identities=28% Similarity=0.302 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHhhhcccCCCCCCCchhhhhHHHHHhhhhHHhHhh
Q 016910 48 LLHVNCFAQYTLCGLNWGYKRSERPAIGVGICLSVAVAAPAIAGVY 93 (380)
Q Consensus 48 llh~nc~~Qy~lcgl~wgy~r~~RP~~~~~~~~~~~~~~~~~Ag~y 93 (380)
-.|+|.|.|+-+ .+..||++..-+..+.|++..+.||+.
T Consensus 84 ~~HL~~f~~~l~-------e~~vRPsll~P~W~~~~FalGA~a~Ll 122 (204)
T COG2941 84 IDHLAWFEQRLL-------ELGVRPSLLNPLWYAAAFALGAGAGLL 122 (204)
T ss_pred HHHHHHHHHHHH-------HccCCccHHHHHHHHHHHHHHHHHhhc
Confidence 369999999987 789999999999999999999999985
No 7
>PRK12495 hypothetical protein; Provisional
Probab=27.53 E-value=1.1e+02 Score=30.12 Aligned_cols=39 Identities=23% Similarity=0.489 Sum_probs=26.4
Q ss_pred HHHHHHHHcCCCCC----------------C----CC--CCCCchhhhHHHhcchhhHHHHHHHh
Q 016910 240 WRIQMRKRFNLPAN----------------N----SC--CGKPAIADFAQWLFCCWCSLAQEVRT 282 (380)
Q Consensus 240 ~R~qmRkRYgIpGs----------------~----~c--cg~~~~~DC~~~~cC~pCALcQE~RE 282 (380)
-|.+||+||.=.-. . .| ||.|.. ..--|..|..||+.-+
T Consensus 9 EREkLREKye~d~~~R~~~~~ma~lL~~gatmsa~hC~~CG~PIp----a~pG~~~Cp~CQ~~~~ 69 (226)
T PRK12495 9 EREKLREKYEQDEQKREATERMSELLLQGATMTNAHCDECGDPIF----RHDGQEFCPTCQQPVT 69 (226)
T ss_pred HHHHHHHHHhhhHHHHHHHHHHHHHHHhhcccchhhcccccCccc----CCCCeeECCCCCCccc
Confidence 48899999975322 1 24 666665 4467888999998754
No 8
>PF04749 PLAC8: PLAC8 family; InterPro: IPR006461 This group of sequences are described by a region of about 170 amino acids. These proteins have highly divergent N-terminal regions rich in low complexity sequence. PSI-BLAST reveals no clear similarity to any characterised protein. It is common in plants but found also in Homo sapiens (Human), Dictyostelium, and Leishmania; at least 12 distinct members are found in Arabidopsis. Most members of this family contain more than 10 per cent Cys, but no Cys residue is invariant across the family.
Probab=26.31 E-value=66 Score=26.03 Aligned_cols=27 Identities=19% Similarity=0.212 Sum_probs=22.8
Q ss_pred chhhhHHHhcchhhHHHHHHHhhhhcc
Q 016910 261 AIADFAQWLFCCWCSLAQEVRTADYYD 287 (380)
Q Consensus 261 ~~~DC~~~~cC~pCALcQE~RElk~~~ 287 (380)
..+-|+..+||++++++|.++.++...
T Consensus 11 d~~~c~~~~~cPc~~~~~~~~~l~~~~ 37 (106)
T PF04749_consen 11 DPGSCCLACFCPCCSFGQNAERLGDGP 37 (106)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 666888899999999999999987654
No 9
>PF02468 PsbN: Photosystem II reaction centre N protein (psbN); InterPro: IPR003398 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbN found in PSII. PsbN may have a role in PSII stability, however its actual function unknown. PsbN does not appear to be essential for photoautotrophic growth or normal PSII function.; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane
Probab=26.08 E-value=71 Score=23.80 Aligned_cols=34 Identities=18% Similarity=0.286 Sum_probs=25.1
Q ss_pred CchhhhhHHHHHhhhhHHhHhhhhhccCCCCCCC
Q 016910 72 PAIGVGICLSVAVAAPAIAGVYSVISPLGKDYNS 105 (380)
Q Consensus 72 P~~~~~~~~~~~~~~~~~Ag~y~~~splg~~~~~ 105 (380)
|+..++++|+.-+..-..=|+|+.+.|--|+...
T Consensus 3 ~a~~~~i~i~~~lv~~Tgy~iYtaFGppSk~LrD 36 (43)
T PF02468_consen 3 TATVLAIFISCLLVSITGYAIYTAFGPPSKELRD 36 (43)
T ss_pred ceeeHHHHHHHHHHHHHhhhhhheeCCCccccCC
Confidence 6667777777766666667899999888877553
No 10
>PF03203 MerC: MerC mercury resistance protein
Probab=25.93 E-value=76 Score=27.13 Aligned_cols=42 Identities=26% Similarity=0.409 Sum_probs=26.6
Q ss_pred CCccchhhHHHHHHHHHHHHHHHHhhhcccCCCCCCCchhhhhHHHHH
Q 016910 36 PHEWTHMMVVVVLLHVNCFAQYTLCGLNWGYKRSERPAIGVGICLSVA 83 (380)
Q Consensus 36 p~e~~hm~~Vv~llh~nc~~Qy~lcgl~wgy~r~~RP~~~~~~~~~~~ 83 (380)
-+||.|...+++.+-+ ++-++.+||+|..|.-..+-..+|++
T Consensus 35 ~~~~~h~~ll~~~~~i------~~~al~~g~r~h~~~~~~~l~~~G~~ 76 (116)
T PF03203_consen 35 ENEWFHWLLLYLFLPI------ALLALFRGYRRHRRWLPLALGVIGLA 76 (116)
T ss_pred hccHHHHHHHHHHHHH------HHHHHHHHHhhccchHHHHHHHHHHH
Confidence 4688886666555444 44567899999887665544444433
No 11
>PF15471 TMEM171: Transmembrane protein family 171
Probab=22.95 E-value=60 Score=32.90 Aligned_cols=14 Identities=29% Similarity=0.316 Sum_probs=11.2
Q ss_pred HHHHHHHHcCCCCC
Q 016910 240 WRIQMRKRFNLPAN 253 (380)
Q Consensus 240 ~R~qmRkRYgIpGs 253 (380)
.=..++||.|+.++
T Consensus 178 VVAHvKKr~nln~~ 191 (319)
T PF15471_consen 178 VVAHVKKRNNLNGS 191 (319)
T ss_pred heeeeeeccCCCcc
Confidence 34578899999988
No 12
>PRK13183 psbN photosystem II reaction center protein N; Provisional
Probab=20.53 E-value=70 Score=24.21 Aligned_cols=34 Identities=24% Similarity=0.474 Sum_probs=23.8
Q ss_pred CchhhhhHHHHHhhhhHHhHhhhhhccCCCCCCC
Q 016910 72 PAIGVGICLSVAVAAPAIAGVYSVISPLGKDYNS 105 (380)
Q Consensus 72 P~~~~~~~~~~~~~~~~~Ag~y~~~splg~~~~~ 105 (380)
|+..+.|+|+.-+..-..=|+|+.+.|--|+...
T Consensus 6 ~A~~~~i~i~~lL~~~TgyaiYtaFGppSk~LrD 39 (46)
T PRK13183 6 PALSLAITILAILLALTGFGIYTAFGPPSKELDD 39 (46)
T ss_pred hhHHHHHHHHHHHHHHhhheeeeccCCcccccCC
Confidence 5666666666655555556889999998887653
Done!