Query 032584
Match_columns 137
No_of_seqs 131 out of 164
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 03:20:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032584.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032584hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02777 photosystem I P subun 100.0 5.5E-39 1.2E-43 252.9 8.7 128 6-136 9-139 (167)
2 PF14159 CAAD: CAAD domains of 99.8 8E-20 1.7E-24 131.1 2.4 59 78-136 2-64 (90)
3 PF06072 Herpes_US9: Alphaherp 61.0 42 0.00091 23.1 5.8 46 70-115 8-56 (60)
4 PF08606 Prp19: Prp19/Pso4-lik 56.5 11 0.00025 26.5 2.5 18 70-87 3-20 (70)
5 PRK07193 fliF flagellar MS-rin 48.3 36 0.00078 31.7 5.0 49 73-121 5-58 (552)
6 TIGR00766 ribonuclease, putati 48.3 39 0.00084 27.2 4.7 39 74-113 64-102 (263)
7 PF12911 OppC_N: N-terminal TM 41.0 57 0.0012 20.2 3.7 24 79-102 4-28 (56)
8 PF11190 DUF2976: Protein of u 39.6 60 0.0013 23.5 4.1 43 72-117 11-53 (87)
9 PF04418 DUF543: Domain of unk 38.6 44 0.00096 23.4 3.2 29 79-107 17-48 (75)
10 PF10031 DUF2273: Small integr 37.7 57 0.0012 21.2 3.4 32 81-114 1-33 (51)
11 PF14242 DUF4342: Domain of un 30.7 1.4E+02 0.0031 21.2 4.8 21 67-87 9-29 (84)
12 PF10864 DUF2663: Protein of u 29.9 1E+02 0.0022 23.9 4.2 26 81-106 10-35 (130)
13 PF14159 CAAD: CAAD domains of 28.9 1.3E+02 0.0028 21.5 4.4 7 79-85 7-13 (90)
14 TIGR00765 yihY_not_rbn YihY fa 27.7 90 0.002 25.2 3.8 19 96-114 85-103 (259)
15 COG1295 Rbn Ribonuclease BN fa 27.0 1E+02 0.0022 26.0 4.1 32 84-115 91-122 (303)
16 PF06295 DUF1043: Protein of u 26.7 59 0.0013 24.3 2.4 19 91-109 1-19 (128)
17 TIGR02240 PHA_depoly_arom poly 25.5 74 0.0016 24.8 2.8 46 72-117 73-119 (276)
18 TIGR03745 conj_TIGR03745 integ 25.1 1.8E+02 0.0039 21.9 4.7 44 71-117 26-69 (104)
19 PF03904 DUF334: Domain of unk 24.9 1.8E+02 0.0039 24.7 5.1 44 71-114 127-170 (230)
20 PF10192 GpcrRhopsn4: Rhodopsi 24.9 20 0.00043 29.3 -0.5 50 87-136 170-221 (257)
21 PRK09304 arginine exporter pro 24.0 28 0.0006 27.3 0.2 41 95-135 40-83 (207)
22 PF13124 DUF3963: Protein of u 23.0 1.6E+02 0.0035 18.6 3.4 19 88-106 21-39 (40)
23 PRK06007 fliF flagellar MS-rin 22.0 1.7E+02 0.0038 27.0 4.9 50 73-122 5-56 (542)
24 PLN02953 phosphatidate cytidyl 21.8 74 0.0016 29.0 2.4 34 49-83 52-88 (403)
25 KOG2927 Membrane component of 20.7 50 0.0011 29.8 1.1 35 98-132 225-271 (372)
26 PF09889 DUF2116: Uncharacteri 20.7 1.7E+02 0.0038 19.7 3.5 29 80-108 24-56 (59)
27 TIGR00206 fliF flagellar basal 20.4 2.2E+02 0.0047 26.5 5.2 17 73-89 5-21 (555)
28 KOG4452 Predicted membrane pro 20.0 8.5 0.00018 27.5 -3.1 20 117-136 18-37 (79)
No 1
>PLN02777 photosystem I P subunit (PSI-P)
Probab=100.00 E-value=5.5e-39 Score=252.89 Aligned_cols=128 Identities=23% Similarity=0.443 Sum_probs=112.7
Q ss_pred hhhhhCCCCCccccccccCcccccCcCCCCCCCCCCCCCCcccccccccch-hhhhhhccCcc--CcccchHHHHHHHHH
Q 032584 6 YAAVLTPRVPSTTTVKVKSSHCFALPCLPPRSSTPPFSSSIKQVSESRRFP-LLQVRASSSEE--TSTVDADELFSDLKE 82 (137)
Q Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~p~lp~r~~~~~~~~p~k~~~~~~~~~-~~~~~Asse~~--~ss~~~~e~~~~l~e 82 (137)
++.+...+.|.... ++|+||+++|.||+.. -..|++|+|.+++||++. ++.+||++|+. .++++.+|+++++||
T Consensus 9 ~~~~~~~~~~~~~~--a~~~~~~~lp~lppp~-~~~~~~~~~~~~~c~~~~r~vv~~a~ge~s~~~~~~~~~ei~k~~~e 85 (167)
T PLN02777 9 SSTLIDSKAPRSSA--AASPQCVSLPTLPPPP-VQSHNRPAKATAYCRKIARNVVTMATGEAPAEVETTELPEIVKTVQE 85 (167)
T ss_pred ccccccCCCCCcCc--ccCCccccCCCCCCCC-cccCCCcchhHHHHHHhHHHHHHHhccCCCcccccccHHHHHHHHHH
Confidence 34445666676654 3689999999998755 346899999999999999 89999998743 335677899999999
Q ss_pred HHHhhcchhhhHHHHHHHHHHHHHHHHHHhhhccCcCcccchhhccceeEeeee
Q 032584 83 KWDAVENKSTVLLYGGGAIVAVWLSSTIVGAINSVPLVCNFQISLPLSFFVMFR 136 (137)
Q Consensus 83 kWd~~Edk~tvl~l~~gaiValwvs~aVl~AId~iPLlp~~lELVGlgYs~WF~ 136 (137)
+||++|||+++++++++++|++|++.+||+|||+|||+|++||||||||++||+
T Consensus 86 ~Wd~~EdK~av~~l~~aaiVal~v~~~VL~AId~lPLlP~lLELVGigYs~WF~ 139 (167)
T PLN02777 86 AWDKVEDKYAVSSLAFAGVVALWGSAGMISAIDRLPLVPGVLELVGIGYTGWFA 139 (167)
T ss_pred HHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHhccccccchHHHhhhhhhhhhh
Confidence 999999999999999999999999999999999999999999999999999996
No 2
>PF14159 CAAD: CAAD domains of cyanobacterial aminoacyl-tRNA synthetase
Probab=99.77 E-value=8e-20 Score=131.10 Aligned_cols=59 Identities=31% Similarity=0.423 Sum_probs=48.0
Q ss_pred HHHHHHHHhhcchh----hhHHHHHHHHHHHHHHHHHHhhhccCcCcccchhhccceeEeeee
Q 032584 78 SDLKEKWDAVENKS----TVLLYGGGAIVAVWLSSTIVGAINSVPLVCNFQISLPLSFFVMFR 136 (137)
Q Consensus 78 ~~l~ekWd~~Edk~----tvl~l~~gaiValwvs~aVl~AId~iPLlp~~lELVGlgYs~WF~ 136 (137)
++++++|++.++++ ..+++++++++++|++.++++|||+|||+|++||+||+||++||+
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~ii~~iv~l~v~~~vl~aIn~iPll~~llElvGlgyt~wF~ 64 (90)
T PF14159_consen 2 SKLPEYWGEFFDKYKRPLLTIGAIIAVIVALWVSAAVLDAINSIPLLPGLLELVGLGYTGWFV 64 (90)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcchHHHHHHHHHHHHhHHH
Confidence 34555555555555 455555666999999999999999999999999999999999996
No 3
>PF06072 Herpes_US9: Alphaherpesvirus tegument protein US9; InterPro: IPR009278 This family consists of several US9 and related proteins from the Alphaherpesviruses. The function of the US9 protein is unknown although in Bovine herpesvirus 5 Us9 is essential for the anterograde spread of the virus from the olfactory mucosa to the bulb [].; GO: 0019033 viral tegument
Probab=61.03 E-value=42 Score=23.08 Aligned_cols=46 Identities=20% Similarity=0.116 Sum_probs=28.4
Q ss_pred ccchHHHHHHHHHHHHhhcc--hhhh-HHHHHHHHHHHHHHHHHHhhhc
Q 032584 70 TVDADELFSDLKEKWDAVEN--KSTV-LLYGGGAIVAVWLSSTIVGAIN 115 (137)
Q Consensus 70 s~~~~e~~~~l~ekWd~~Ed--k~tv-l~l~~gaiValwvs~aVl~AId 115 (137)
.+.++||+..+..+=.+... +... ...++.+++.+-+.++.++++-
T Consensus 8 nETA~~FL~RvGr~q~~~r~RrRrc~~~v~~v~~~~~~c~~S~~lG~~~ 56 (60)
T PF06072_consen 8 NETATEFLRRVGRQQHASRRRRRRCRLAVAIVFAVVALCVLSGGLGALV 56 (60)
T ss_pred cccHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33457999999765433333 3344 3333445568888888888863
No 4
>PF08606 Prp19: Prp19/Pso4-like; InterPro: IPR013915 This region is found specifically in PRP19-like protein. The region represented by this protein covers the sequence implicated in self-interaction and a coiled-coiled motif []. PRP19-like proteins form an oligomer that is necessary for spliceosome assembly [].
Probab=56.51 E-value=11 Score=26.45 Aligned_cols=18 Identities=33% Similarity=0.717 Sum_probs=15.3
Q ss_pred ccchHHHHHHHHHHHHhh
Q 032584 70 TVDADELFSDLKEKWDAV 87 (137)
Q Consensus 70 s~~~~e~~~~l~ekWd~~ 87 (137)
.++.+.+++.+|+.||.+
T Consensus 3 ~~SIP~lL~~lQnEWDa~ 20 (70)
T PF08606_consen 3 ATSIPSLLSTLQNEWDAL 20 (70)
T ss_pred cCcHHHHHHHHHHHHHHH
Confidence 456789999999999965
No 5
>PRK07193 fliF flagellar MS-ring protein; Reviewed
Probab=48.31 E-value=36 Score=31.66 Aligned_cols=49 Identities=22% Similarity=0.373 Sum_probs=28.0
Q ss_pred hHHHHHHHHHHHHhhc----chhhhHHHHHHHHHHHHHHHHHH-hhhccCcCcc
Q 032584 73 ADELFSDLKEKWDAVE----NKSTVLLYGGGAIVAVWLSSTIV-GAINSVPLVC 121 (137)
Q Consensus 73 ~~e~~~~l~ekWd~~E----dk~tvl~l~~gaiValwvs~aVl-~AId~iPLlp 121 (137)
.++++++++++|.++. .|..+++.++++++++-+...+. ..=+-.||+.
T Consensus 5 ~~~~~~~l~~~w~~l~~l~~~r~~~l~~~~~~~va~~~~~~~~~~~p~Y~~Lys 58 (552)
T PRK07193 5 MNDMLDKLKQKWSPFQLLRGNRKLILLALLALLVAAAIVLSLWRSSQGYRPLYG 58 (552)
T ss_pred HHHHHHHHHHHHHhhccccchhhHHHHHHHHHHHHHHHHHHHhhcCCCeeeccc
Confidence 4688999999999884 44444444444444433333322 3344455554
No 6
>TIGR00766 ribonuclease, putative. This family shows similarity to ribonuclease BN
Probab=48.25 E-value=39 Score=27.25 Aligned_cols=39 Identities=18% Similarity=0.157 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHhhcchhhhHHHHHHHHHHHHHHHHHHhh
Q 032584 74 DELFSDLKEKWDAVENKSTVLLYGGGAIVAVWLSSTIVGA 113 (137)
Q Consensus 74 ~e~~~~l~ekWd~~Edk~tvl~l~~gaiValwvs~aVl~A 113 (137)
+|..+.+++..++.-++... ..++|.++.+|.++..+++
T Consensus 64 ~~~~~~v~~~l~~~~~~~~~-l~~ig~~~ll~tas~~~~~ 102 (263)
T TIGR00766 64 PALAQTLKNTMNTAVDARTT-VGLIGLATALYSGLNWMGN 102 (263)
T ss_pred HHHHHHHHHHHHHHHhcccH-HHHHHHHHHHHHHHHHHHH
Confidence 34445555556555333332 2446667788876655443
No 7
>PF12911 OppC_N: N-terminal TM domain of oligopeptide transport permease C
Probab=41.05 E-value=57 Score=20.24 Aligned_cols=24 Identities=25% Similarity=0.230 Sum_probs=15.3
Q ss_pred HHHHHHHhh-cchhhhHHHHHHHHH
Q 032584 79 DLKEKWDAV-ENKSTVLLYGGGAIV 102 (137)
Q Consensus 79 ~l~ekWd~~-Edk~tvl~l~~gaiV 102 (137)
..|+.|.++ +||.+++++++-.++
T Consensus 4 ~~~~~~~~f~~nk~a~~gl~il~~~ 28 (56)
T PF12911_consen 4 PWKDAWRRFRRNKLAVIGLIILLIL 28 (56)
T ss_pred HHHHHHHHHHhCchHHHHHHHHHHH
Confidence 346667765 567777777655543
No 8
>PF11190 DUF2976: Protein of unknown function (DUF2976); InterPro: IPR021356 Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in a region flanked by markers of conjugative transfer and/or transposition.
Probab=39.64 E-value=60 Score=23.50 Aligned_cols=43 Identities=9% Similarity=0.091 Sum_probs=33.5
Q ss_pred chHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHHHHHHHHhhhccC
Q 032584 72 DADELFSDLKEKWDAVENKSTVLLYGGGAIVAVWLSSTIVGAINSV 117 (137)
Q Consensus 72 ~~~e~~~~l~ekWd~~Edk~tvl~l~~gaiValwvs~aVl~AId~i 117 (137)
+..++++.+|..- .|-..+++++++++..+++..+.++.-|++
T Consensus 11 ~~~~~~~~i~~y~---~d~~~l~gLv~~a~afi~Va~~~i~~y~ei 53 (87)
T PF11190_consen 11 GGGGIMETIKGYA---KDGVLLLGLVLAAAAFIVVAKAAISTYNEI 53 (87)
T ss_pred CCCCHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4457777777753 456788899999999999999998887764
No 9
>PF04418 DUF543: Domain of unknown function (DUF543); InterPro: IPR007512 This family of short eukaryotic proteins has no known function. Most of the members of this family are only 80 amino acid residues long. However the Arabidopsis homologue is over 300 residues long. These proteins contain a conserved N-terminal cysteine and a conserved motif GXGXGXG in the carboxy terminal half that may be functionally important.
Probab=38.63 E-value=44 Score=23.45 Aligned_cols=29 Identities=31% Similarity=0.562 Sum_probs=21.3
Q ss_pred HHHHHHHhh-cc--hhhhHHHHHHHHHHHHHH
Q 032584 79 DLKEKWDAV-EN--KSTVLLYGGGAIVAVWLS 107 (137)
Q Consensus 79 ~l~ekWd~~-Ed--k~tvl~l~~gaiValwvs 107 (137)
.+.+|||+- +| +.+.+++++|++.++++.
T Consensus 17 ~~~~kwD~cl~~~l~k~~~G~~~G~~~s~l~f 48 (75)
T PF04418_consen 17 ELGEKWDRCLSDTLVKTGLGFGIGVVFSLLFF 48 (75)
T ss_pred HHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence 789999965 44 456777778887777664
No 10
>PF10031 DUF2273: Small integral membrane protein (DUF2273); InterPro: IPR018730 Members of this family of hypothetical bacterial proteins have no known function.
Probab=37.70 E-value=57 Score=21.23 Aligned_cols=32 Identities=19% Similarity=0.233 Sum_probs=17.2
Q ss_pred HHHHHhhcchhhhHHHHHHHHHHH-HHHHHHHhhh
Q 032584 81 KEKWDAVENKSTVLLYGGGAIVAV-WLSSTIVGAI 114 (137)
Q Consensus 81 ~ekWd~~Edk~tvl~l~~gaiVal-wvs~aVl~AI 114 (137)
+|.|++ +|..+++.++|.++++ ++..+.-.++
T Consensus 1 ~e~~~~--~~~~iiG~~~G~ila~l~l~~GF~~tl 33 (51)
T PF10031_consen 1 MEFWKN--HRGKIIGGLIGLILALLILTFGFWKTL 33 (51)
T ss_pred ChHHHH--CcchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356774 4555566666665444 5555544443
No 11
>PF14242 DUF4342: Domain of unknown function (DUF4342)
Probab=30.74 E-value=1.4e+02 Score=21.16 Aligned_cols=21 Identities=29% Similarity=0.303 Sum_probs=17.0
Q ss_pred cCcccchHHHHHHHHHHHHhh
Q 032584 67 ETSTVDADELFSDLKEKWDAV 87 (137)
Q Consensus 67 ~~ss~~~~e~~~~l~ekWd~~ 87 (137)
|+-+.+.+|+++.+|+-|.+=
T Consensus 9 e~~~~~g~~~~~~iK~li~kG 29 (84)
T PF14242_consen 9 EEFQVKGEELVDKIKELIKKG 29 (84)
T ss_pred ceeeecHHHHHHHHHHHHHhc
Confidence 445567799999999999875
No 12
>PF10864 DUF2663: Protein of unknown function (DUF2663); InterPro: IPR020210 This entry represents a group of uncharacterised transmembrane proteins.
Probab=29.89 E-value=1e+02 Score=23.91 Aligned_cols=26 Identities=15% Similarity=0.268 Sum_probs=16.3
Q ss_pred HHHHHhhcchhhhHHHHHHHHHHHHH
Q 032584 81 KEKWDAVENKSTVLLYGGGAIVAVWL 106 (137)
Q Consensus 81 ~ekWd~~Edk~tvl~l~~gaiValwv 106 (137)
|+|||+++.+-....+......++.+
T Consensus 10 K~K~e~l~k~~~~~~~~~l~~~~~~~ 35 (130)
T PF10864_consen 10 KEKWERLKKQHLFWQWLFLFSLFLFF 35 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 88999999876555444444333333
No 13
>PF14159 CAAD: CAAD domains of cyanobacterial aminoacyl-tRNA synthetase
Probab=28.92 E-value=1.3e+02 Score=21.46 Aligned_cols=7 Identities=29% Similarity=0.193 Sum_probs=2.7
Q ss_pred HHHHHHH
Q 032584 79 DLKEKWD 85 (137)
Q Consensus 79 ~l~ekWd 85 (137)
++++.|+
T Consensus 7 ~~~~~~~ 13 (90)
T PF14159_consen 7 YWGEFFD 13 (90)
T ss_pred HHHHHHH
Confidence 3333333
No 14
>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=27.70 E-value=90 Score=25.19 Aligned_cols=19 Identities=11% Similarity=0.158 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 032584 96 YGGGAIVAVWLSSTIVGAI 114 (137)
Q Consensus 96 l~~gaiValwvs~aVl~AI 114 (137)
..+|.++++|.++..++++
T Consensus 85 ~~ig~~~~lwsas~~~~~l 103 (259)
T TIGR00765 85 TAVGIVSLIVTALLLINNI 103 (259)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4566778888877766554
No 15
>COG1295 Rbn Ribonuclease BN family enzyme [Replication, recombination, and repair]
Probab=27.03 E-value=1e+02 Score=25.97 Aligned_cols=32 Identities=25% Similarity=0.331 Sum_probs=19.0
Q ss_pred HHhhcchhhhHHHHHHHHHHHHHHHHHHhhhc
Q 032584 84 WDAVENKSTVLLYGGGAIVAVWLSSTIVGAIN 115 (137)
Q Consensus 84 Wd~~Edk~tvl~l~~gaiValwvs~aVl~AId 115 (137)
-++...+..-....+|.++++|..+..+++++
T Consensus 91 l~~~~~~~~~~~~~~g~~~~lwtas~~~~al~ 122 (303)
T COG1295 91 LKNFLSQSRGSLLSLGLVVALWTASNGMSALR 122 (303)
T ss_pred HHHHhcCCCCCcHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333388889999887777664
No 16
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=26.73 E-value=59 Score=24.31 Aligned_cols=19 Identities=11% Similarity=0.137 Sum_probs=14.0
Q ss_pred hhhHHHHHHHHHHHHHHHH
Q 032584 91 STVLLYGGGAIVAVWLSST 109 (137)
Q Consensus 91 ~tvl~l~~gaiValwvs~a 109 (137)
|+++++++|.+|++++.-.
T Consensus 1 y~~i~lvvG~iiG~~~~r~ 19 (128)
T PF06295_consen 1 YAIIGLVVGLIIGFLIGRL 19 (128)
T ss_pred ChHHHHHHHHHHHHHHHHH
Confidence 5678888888888776543
No 17
>TIGR02240 PHA_depoly_arom poly(3-hydroxyalkanoate) depolymerase. This family consists of the polyhydroxyalkanoic acid (PHA) depolymerase of Pseudomonas oleovorans, Pseudomonas putida BM01, and related species. This enzyme is part of polyester storage and mobilization system as in many bacteria. However, species containing this enzyme are unusual in their capacity to produce aromatic polyesters when grown on carbon sources such as benzoic acid or phenylacetic acid.
Probab=25.52 E-value=74 Score=24.80 Aligned_cols=46 Identities=9% Similarity=-0.001 Sum_probs=34.7
Q ss_pred chHHHHHHHHHHHHhhc-chhhhHHHHHHHHHHHHHHHHHHhhhccC
Q 032584 72 DADELFSDLKEKWDAVE-NKSTVLLYGGGAIVAVWLSSTIVGAINSV 117 (137)
Q Consensus 72 ~~~e~~~~l~ekWd~~E-dk~tvl~l~~gaiValwvs~aVl~AId~i 117 (137)
+.+++.+++.+..+..+ ++..++|.-.|+.+++.++.--=+-|+++
T Consensus 73 ~~~~~~~~~~~~i~~l~~~~~~LvG~S~GG~va~~~a~~~p~~v~~l 119 (276)
T TIGR02240 73 RFPGLAKLAARMLDYLDYGQVNAIGVSWGGALAQQFAHDYPERCKKL 119 (276)
T ss_pred cHHHHHHHHHHHHHHhCcCceEEEEECHHHHHHHHHHHHCHHHhhhe
Confidence 46788889888888886 67889999999999998875533334433
No 18
>TIGR03745 conj_TIGR03745 integrating conjugative element membrane protein, PFL_4702 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in a region flanked by markers of conjugative transfer and/or transposition.
Probab=25.14 E-value=1.8e+02 Score=21.90 Aligned_cols=44 Identities=11% Similarity=0.074 Sum_probs=33.6
Q ss_pred cchHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHHHHHHHHhhhccC
Q 032584 71 VDADELFSDLKEKWDAVENKSTVLLYGGGAIVAVWLSSTIVGAINSV 117 (137)
Q Consensus 71 ~~~~e~~~~l~ekWd~~Edk~tvl~l~~gaiValwvs~aVl~AId~i 117 (137)
.+...+++.+|+.-. |-..++++.++++..+++..+.+..-+++
T Consensus 26 G~g~g~~~tik~Y~~---dg~~llgL~i~a~aFi~Va~~a~~ty~Ei 69 (104)
T TIGR03745 26 GGGSGIMQTIKNYGY---DGGILLGLLIAAIAFIGVAYHALGTYHEI 69 (104)
T ss_pred CCCcCHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344568888888754 56788899999999999888887776543
No 19
>PF03904 DUF334: Domain of unknown function (DUF334); InterPro: IPR005602 This is a family of proteins found in Staphylococcus aureus plasmid with no characterised function.
Probab=24.88 E-value=1.8e+02 Score=24.72 Aligned_cols=44 Identities=16% Similarity=0.359 Sum_probs=35.5
Q ss_pred cchHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHHHHHHHHhhh
Q 032584 71 VDADELFSDLKEKWDAVENKSTVLLYGGGAIVAVWLSSTIVGAI 114 (137)
Q Consensus 71 ~~~~e~~~~l~ekWd~~Edk~tvl~l~~gaiValwvs~aVl~AI 114 (137)
.+.+..+++++..-|+++..+-.+..|++++..+.+..+++-.+
T Consensus 127 ~e~~~ml~evK~~~E~y~k~~k~~~~gi~aml~Vf~LF~lvmt~ 170 (230)
T PF03904_consen 127 EENKSMLQEVKQSHEKYQKRQKSMYKGIGAMLFVFMLFALVMTI 170 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Confidence 34566777788888999999999999999988888887777654
No 20
>PF10192 GpcrRhopsn4: Rhodopsin-like GPCR transmembrane domain; InterPro: IPR019336 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). This region of 270 amino acids is the seven transmembrane alpha-helical domains included within five GPCRRHODOPSN4 motifs of a G-protein-coupled-receptor (GPCR) protein, conserved from nematodes to humans [].
Probab=24.88 E-value=20 Score=29.26 Aligned_cols=50 Identities=16% Similarity=0.296 Sum_probs=38.9
Q ss_pred hcchhhhHHHHHHHHHHHHHHHHHHhhh--ccCcCcccchhhccceeEeeee
Q 032584 87 VENKSTVLLYGGGAIVAVWLSSTIVGAI--NSVPLVCNFQISLPLSFFVMFR 136 (137)
Q Consensus 87 ~Edk~tvl~l~~gaiValwvs~aVl~AI--d~iPLlp~~lELVGlgYs~WF~ 136 (137)
+|..+..+.+++=.++++|...+....+ .+=|.--+++-.-|++|+.||.
T Consensus 170 y~s~pGy~li~lri~~~~~F~~~~~~t~~~~~~~~k~~Fy~~f~~~~~lWFl 221 (257)
T PF10192_consen 170 YDSWPGYILIALRIVLAIWFIYGLYQTISKEKDPEKRKFYLPFGIIFSLWFL 221 (257)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444568889899999988 8889999999999999999984
No 21
>PRK09304 arginine exporter protein; Provisional
Probab=23.99 E-value=28 Score=27.29 Aligned_cols=41 Identities=10% Similarity=0.006 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHH--HHHhh-hccCcCcccchhhccceeEeee
Q 032584 95 LYGGGAIVAVWLSS--TIVGA-INSVPLVCNFQISLPLSFFVMF 135 (137)
Q Consensus 95 ~l~~gaiValwvs~--aVl~A-Id~iPLlp~~lELVGlgYs~WF 135 (137)
++|+..-..+|+.. .-+++ ++..|.+-.++.++|-.|-.|.
T Consensus 40 ~~Gi~~g~~~~~~la~~Gl~~Ll~~~p~~~~~l~~~Ga~YLlyL 83 (207)
T PRK09304 40 ALLCALSDLVLICAGIFGGSALLMQSPWLLALVTWGGVAFLLWY 83 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333344445443 33333 7899999999999999998875
No 22
>PF13124 DUF3963: Protein of unknown function (DUF3963)
Probab=23.04 E-value=1.6e+02 Score=18.63 Aligned_cols=19 Identities=16% Similarity=0.307 Sum_probs=13.6
Q ss_pred cchhhhHHHHHHHHHHHHH
Q 032584 88 ENKSTVLLYGGGAIVAVWL 106 (137)
Q Consensus 88 Edk~tvl~l~~gaiValwv 106 (137)
.|---.+++.+.++|++|+
T Consensus 21 rnit~cfal~vv~lvslwi 39 (40)
T PF13124_consen 21 RNITFCFALLVVVLVSLWI 39 (40)
T ss_pred HHHHHHHHHHHHHHHHHHc
Confidence 3445566777888899996
No 23
>PRK06007 fliF flagellar MS-ring protein; Reviewed
Probab=21.95 E-value=1.7e+02 Score=26.95 Aligned_cols=50 Identities=24% Similarity=0.228 Sum_probs=26.3
Q ss_pred hHHHHHHHHHHHHhhcchh-hhHHHHHHH-HHHHHHHHHHHhhhccCcCccc
Q 032584 73 ADELFSDLKEKWDAVENKS-TVLLYGGGA-IVAVWLSSTIVGAINSVPLVCN 122 (137)
Q Consensus 73 ~~e~~~~l~ekWd~~Edk~-tvl~l~~ga-iValwvs~aVl~AId~iPLlp~ 122 (137)
..++++++++.|.+...+. .+++.++++ ++++-+..-..+-=+-.||+.+
T Consensus 5 ~~~~~~~~~~~~~~l~~~qk~~l~~~~~~~v~~~~~l~~~~~~p~y~~Ly~~ 56 (542)
T PRK06007 5 LKELMEKLKEFLQKLSKKRKIALIGAGAAVVAAIVALVLWASRPDYRVLYSN 56 (542)
T ss_pred HHHHHHHHHHHHHhcChhhHHHHHHHHHHHHHHHHHHHHhhCCCCeeehhcC
Confidence 4678899999999876432 323333333 3332222333334455566554
No 24
>PLN02953 phosphatidate cytidylyltransferase
Probab=21.85 E-value=74 Score=28.98 Aligned_cols=34 Identities=29% Similarity=0.460 Sum_probs=18.7
Q ss_pred ccccccchhhhhhhccC---ccCcccchHHHHHHHHHH
Q 032584 49 VSESRRFPLLQVRASSS---EETSTVDADELFSDLKEK 83 (137)
Q Consensus 49 ~~~~~~~~~~~~~Asse---~~~ss~~~~e~~~~l~ek 83 (137)
.+..|++....+||.++ +|+.+.|.+.+ +++|++
T Consensus 52 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ 88 (403)
T PLN02953 52 ISVKRRFLTAVARAESDQLGDDDHAKEIDRI-HDLQNV 88 (403)
T ss_pred hhHHHHHHHHHHHhhhhhccCCCccchhhhh-cccccc
Confidence 34456666667778765 33444444333 666654
No 25
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=20.73 E-value=50 Score=29.82 Aligned_cols=35 Identities=23% Similarity=0.159 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHhhh------------ccCcCcccchhhccceeE
Q 032584 98 GGAIVAVWLSSTIVGAI------------NSVPLVCNFQISLPLSFF 132 (137)
Q Consensus 98 ~gaiValwvs~aVl~AI------------d~iPLlp~~lELVGlgYs 132 (137)
+|+|+++.++.+|+-.| -.+=++|.++|=||+.=+
T Consensus 225 ~~gfl~~IlvLaIvRlILF~I~~il~~g~~g~W~FPNL~eDvGfleS 271 (372)
T KOG2927|consen 225 AGGFLAFILVLAIVRLILFGITWILTGGKHGFWLFPNLTEDVGFLES 271 (372)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhCCCCceEeccchhhhhhHHHh
Confidence 34455555555555444 445688888888887533
No 26
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=20.66 E-value=1.7e+02 Score=19.66 Aligned_cols=29 Identities=14% Similarity=0.232 Sum_probs=15.9
Q ss_pred HHHHHHhhcch----hhhHHHHHHHHHHHHHHH
Q 032584 80 LKEKWDAVENK----STVLLYGGGAIVAVWLSS 108 (137)
Q Consensus 80 l~ekWd~~Edk----~tvl~l~~gaiValwvs~ 108 (137)
=+++|.+-..+ ..++.+++.+++++|+..
T Consensus 24 C~~~~~k~qk~~~~~~~i~~~~~i~~l~v~~~~ 56 (59)
T PF09889_consen 24 CREEYRKRQKRMRKTQYIFFGIFILFLAVWIFM 56 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445443333 445555566667777754
No 27
>TIGR00206 fliF flagellar basal-body M-ring protein/flagellar hook-basal body protein (fliF). Component of the M (cytoplasmic associated) ring, one of four rings (L,P,S,M) which make up the flagellar hook-basal body which is a major portion of the flagellar organelle. Although the basic structure of the flagella appears to be similar for all bacteria, additional rings and structures surrounding the basal body have been observed for some bacteria (eg Vibrio cholerae and Treponema pallidum).
Probab=20.41 E-value=2.2e+02 Score=26.48 Aligned_cols=17 Identities=12% Similarity=0.128 Sum_probs=13.0
Q ss_pred hHHHHHHHHHHHHhhcc
Q 032584 73 ADELFSDLKEKWDAVEN 89 (137)
Q Consensus 73 ~~e~~~~l~ekWd~~Ed 89 (137)
...+.+++++.|.+...
T Consensus 5 ~~~~~~~~~~~~~~l~~ 21 (555)
T TIGR00206 5 FTQFKVSAKEFFKKLSK 21 (555)
T ss_pred HHHHHHHHHHHHHhcCh
Confidence 35677888999998764
No 28
>KOG4452 consensus Predicted membrane protein [Function unknown]
Probab=20.01 E-value=8.5 Score=27.52 Aligned_cols=20 Identities=20% Similarity=0.325 Sum_probs=15.3
Q ss_pred CcCcccchhhccceeEeeee
Q 032584 117 VPLVCNFQISLPLSFFVMFR 136 (137)
Q Consensus 117 iPLlp~~lELVGlgYs~WF~ 136 (137)
.|.+..++--||+.++.||.
T Consensus 18 fPhLttvLl~iG~fftAwFf 37 (79)
T KOG4452|consen 18 FPHLTTVLLGIGLFFTAWFF 37 (79)
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 57777777788888888873
Done!