Query 029844
Match_columns 186
No_of_seqs 105 out of 479
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 04:33:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029844.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029844hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3330 Transport protein part 100.0 1.1E-56 2.4E-61 353.1 11.1 180 6-185 3-183 (183)
2 PTZ00391 transport protein par 100.0 1.7E-51 3.7E-56 330.6 15.3 157 19-178 1-162 (168)
3 PF04051 TRAPP: Transport prot 100.0 4E-47 8.6E-52 300.8 16.8 149 23-174 1-151 (152)
4 KOG3315 Transport protein part 100.0 8.7E-45 1.9E-49 288.9 12.9 164 7-178 15-184 (191)
5 COG5128 Transport protein part 100.0 3.6E-41 7.9E-46 268.2 12.9 175 3-178 19-202 (208)
6 KOG3316 Transport protein part 100.0 4.8E-36 1E-40 234.9 12.9 146 21-174 4-162 (163)
7 COG1719 Predicted hydrocarbon 95.0 0.38 8.2E-06 38.4 10.3 109 46-174 48-157 (158)
8 TIGR02019 BchJ bacteriochlorop 92.3 0.74 1.6E-05 38.0 7.5 136 19-170 44-188 (188)
9 PF02830 V4R: V4R domain; Int 91.7 0.44 9.5E-06 31.8 4.6 40 132-171 21-61 (62)
10 PF14196 ATC_hydrolase: L-2-am 80.6 22 0.00048 26.8 9.4 133 20-169 13-148 (149)
11 COG2345 Predicted transcriptio 74.9 26 0.00056 29.6 8.6 148 8-174 64-215 (218)
12 PF09536 DUF2378: Protein of u 73.9 6.6 0.00014 32.0 4.7 39 130-171 137-176 (178)
13 TIGR02265 Mxa_TIGR02265 Myxoco 66.9 7.4 0.00016 31.8 3.6 39 130-171 138-177 (179)
14 PF06505 XylR_N: Activator of 61.7 21 0.00045 26.6 4.8 46 15-65 21-66 (103)
15 smart00843 Ftsk_gamma This dom 60.9 21 0.00045 24.4 4.3 39 27-67 6-46 (63)
16 PF05266 DUF724: Protein of un 56.8 53 0.0012 27.0 6.9 50 19-68 43-103 (190)
17 PF09397 Ftsk_gamma: Ftsk gamm 53.8 30 0.00064 23.7 4.2 39 27-67 7-47 (65)
18 KOG0037 Ca2+-binding protein, 52.0 36 0.00078 28.9 5.2 52 15-67 107-168 (221)
19 PF13314 DUF4083: Domain of un 51.5 58 0.0013 21.9 5.1 32 20-51 15-50 (58)
20 PF14056 DUF4250: Domain of un 50.4 13 0.00029 24.7 1.9 22 34-55 25-47 (55)
21 PRK14741 spoVM stage V sporula 48.9 11 0.00024 21.1 1.2 14 134-147 10-23 (26)
22 PF07700 HNOB: Heme NO binding 47.2 1.4E+02 0.003 23.5 8.2 99 46-157 64-167 (171)
23 PF07530 PRE_C2HC: Associated 38.6 66 0.0014 22.0 4.1 40 137-176 1-41 (68)
24 COG5558 Transposase [DNA repli 37.5 75 0.0016 26.8 4.9 76 23-112 25-100 (261)
25 PF11565 PorB: Alpha helical P 36.0 26 0.00056 26.1 1.7 20 130-149 15-34 (98)
26 PF07524 Bromo_TP: Bromodomain 35.9 68 0.0015 21.9 3.8 17 41-57 60-76 (77)
27 PF11848 DUF3368: Domain of un 33.8 47 0.001 20.9 2.5 27 41-67 20-46 (48)
28 KOG0766 Predicted mitochondria 32.2 41 0.00088 29.0 2.6 55 93-147 165-229 (297)
29 PF08183 SpoV: Stage V sporula 26.5 41 0.00088 19.0 1.1 15 134-148 10-24 (26)
30 COG4009 Uncharacterized protei 26.3 38 0.00083 24.4 1.2 18 40-57 60-77 (88)
31 smart00415 HSF heat shock fact 25.7 45 0.00099 24.4 1.6 62 81-150 4-66 (105)
32 smart00576 BTP Bromodomain tra 24.1 1.5E+02 0.0034 20.3 4.0 17 46-62 33-49 (77)
33 PF09413 DUF2007: Domain of un 23.7 70 0.0015 20.9 2.1 23 133-155 8-30 (67)
34 PF10026 DUF2268: Predicted Zn 23.7 60 0.0013 26.3 2.1 18 51-68 161-178 (195)
35 PF00447 HSF_DNA-bind: HSF-typ 22.8 38 0.00082 24.5 0.7 62 81-150 1-63 (103)
36 PF11333 DUF3135: Protein of u 22.2 3E+02 0.0065 19.6 7.5 67 15-93 11-77 (83)
37 PF05119 Terminase_4: Phage te 22.1 1E+02 0.0023 21.6 2.9 34 22-55 16-49 (100)
38 PF01316 Arg_repressor: Argini 22.0 1.8E+02 0.004 20.0 4.0 35 31-65 9-45 (70)
39 PF12854 PPR_1: PPR repeat 20.9 1.8E+02 0.0039 16.5 3.6 27 25-52 7-33 (34)
40 COG5169 HSF1 Heat shock transc 20.8 1.1E+02 0.0024 26.8 3.3 35 79-115 10-45 (282)
No 1
>KOG3330 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=1.1e-56 Score=353.07 Aligned_cols=180 Identities=59% Similarity=0.983 Sum_probs=174.8
Q ss_pred CCchhhhhhchhhhHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHhhhhHHHHHHHHHHhhcCCCCCCCHHHHHHHHHH
Q 029844 6 PRSGDAIFANVERVNAELFTLTYGATVRQLLTDLEEVEEVNKQLDQMGYNIGIRLIDEFLAKSNVTRCVDFRETAEVIAK 85 (186)
Q Consensus 6 ~~~~~~~~~~~~~vs~~~f~~l~~e~V~q~~~~~~~~~ev~~~Le~mGy~IG~RLiE~~~~r~~~~R~~~~ld~l~fI~k 85 (186)
++.|+++|++..+||+++|.++||+||+|+|+|+++.++||++|++||||||.||+|.|++|++.|||.|++++.+.|||
T Consensus 3 ~~~g~~i~~~~~k~naELFtLTYGaiV~ql~kDyed~e~Vn~qLdkMGyNiG~RLiedFLAks~vpRC~dfretaevlak 82 (183)
T KOG3330|consen 3 KAIGQAIAKKSKKMNAELFTLTYGAIVTQLCKDYEDPEDVNKQLDKMGYNIGIRLIEDFLAKSNVPRCVDFRETAEVLAK 82 (183)
T ss_pred hhHHHHHHHHHHhhhhhhhhhhHHHHHHHHHHhhcCHHHHHHHHHhccchhhHHHHHHHHhhcCCchhhhHHHHHHHHHH
Confidence 56899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhcCccccccccCCCCCeEEEeecCCcccccccCCCc-cCCCcchhhhhHHHHHHhhcCCceEEEEEeecccCCCC
Q 029844 86 VGFKMFLGVTATVSNWDADGTCCSIILEDNPLVDFVELPDT-CQGLYYCNILSGVIRGALEMVSMKTEVTWIRDVLRGDD 164 (186)
Q Consensus 86 ~~Wk~lfgk~ad~l~~t~~~~~y~L~~d~npl~~fv~lp~~-~~~l~y~~~~cGiIrGaL~~lg~~~~v~~~~d~~~g~~ 164 (186)
.++|+++|+++....|+.++++|.|++++|||++||+.|++ .+.|||++++||+|||||++++|+|+|.|++|.++||.
T Consensus 83 ~afkmyLgitpsitswss~~~efsliLe~NPL~efVe~p~d~~ssL~YsnlLcGviRGALEmV~m~~dv~f~~d~lrGd~ 162 (183)
T KOG3330|consen 83 VAFKMYLGITPSITSWSSDGNEFSLILEDNPLVEFVEEPPDARSSLWYSNLLCGVIRGALEMVQMKVDVVFLSDTLRGDS 162 (183)
T ss_pred hhhheeeecccceeeecCCCCEEEEEecCCcHHHHHHhCHHHhhhHHHHHHHHHHHHhHHHHHhhhheeeeeeehhcCCC
Confidence 99999999999999999999999999999999999987766 56799999999999999999999999999999999999
Q ss_pred ceEEEEEecccccccCCCCCC
Q 029844 165 AYELQVKLLKQVPEEYPYKDD 185 (186)
Q Consensus 165 ~t~~~Ikf~~~~~~~~~~~~~ 185 (186)
.|+|+|+|.+.++|++|+++|
T Consensus 163 ~tEIrv~f~r~lkde~P~ged 183 (183)
T KOG3330|consen 163 VTEIRVRFLRILKDELPAGED 183 (183)
T ss_pred ceeeeeeHHHHHhhhcCCCCC
Confidence 999999999999999999986
No 2
>PTZ00391 transport protein particle component (TRAPP) superfamily; Provisional
Probab=100.00 E-value=1.7e-51 Score=330.62 Aligned_cols=157 Identities=17% Similarity=0.263 Sum_probs=141.3
Q ss_pred hHHHHHHHHHHHHHHHHHhccc-cHHHHHHHHHHhhhhHHHHHHHHHHhhc-CCCCCCCHHHHHHHHHHhhhhhhcCccc
Q 029844 19 VNAELFTLTYGATVRQLLTDLE-EVEEVNKQLDQMGYNIGIRLIDEFLAKS-NVTRCVDFRETAEVIAKVGFKMFLGVTA 96 (186)
Q Consensus 19 vs~~~f~~l~~e~V~q~~~~~~-~~~ev~~~Le~mGy~IG~RLiE~~~~r~-~~~R~~~~ld~l~fI~k~~Wk~lfgk~a 96 (186)
||+|+|+|||+||| ||++++. +.++++++|++|||+||.||+|++..|+ +.+|+++++++|+|||+++|+.+||||+
T Consensus 1 vslsafafLf~EmV-~y~~~~~~~~~ele~rL~~~G~~VG~rllE~l~~r~~~~~R~~~~L~iLkFI~~~~W~~lFgk~a 79 (168)
T PTZ00391 1 VSLSSFAFLFSEIV-QYCLSKSKRGYRLEDKLHEMGLRVGYKLNELLPYREKNQKRETKILSILTFISKHVWKYLFGHSS 79 (168)
T ss_pred CCHHHHHHHHHHHH-HHHHhcCCcHHHHHHHHHHHhHHHhHHHHHHHHHhccCCCccchHHHHHHHHHHHHHHHHhCchh
Confidence 79999999999999 7887765 8889999999999999999999999886 4689999999999999999999999999
Q ss_pred cccccCCCCCeEEEeecCCcc-cccccCCCccCCCcchhhhhHHHHHHhhcCCceEE--EEEeecccCCCCceEEEEEec
Q 029844 97 TVSNWDADGTCCSIILEDNPL-VDFVELPDTCQGLYYCNILSGVIRGALEMVSMKTE--VTWIRDVLRGDDAYELQVKLL 173 (186)
Q Consensus 97 d~l~~t~~~~~y~L~~d~npl-~~fv~lp~~~~~l~y~~~~cGiIrGaL~~lg~~~~--v~~~~d~~~g~~~t~~~Ikf~ 173 (186)
|+|++++|+|+|||+ |++|+ ++|+|+|++++.++|++|+||||||||+++||+|+ ||+++++- .+.+|+|.|||+
T Consensus 80 D~Lkt~d~~~~Y~i~-Dn~~~~~~~iS~p~~~~~~~~~aF~~GII~G~L~~~Gf~a~VTA~~~~~~~-~~~~t~~likf~ 157 (168)
T PTZ00391 80 DLLKSQDSDDEYMIN-DKNLLLNKFISVPKDLGHINCAAFAAGIVEGILCSAEFPANVTAHTVEDTP-KNFSTTILIKFY 157 (168)
T ss_pred hhhcccCCCCeEEEE-eCchhheeeeeccccccccchhhhhHHHHHHHHhhCCCCcEEEEEeccCCC-CCCceEEEEEec
Confidence 999855789999999 99997 66999999999999999999999999999999875 45554432 244999999999
Q ss_pred ccccc
Q 029844 174 KQVPE 178 (186)
Q Consensus 174 ~~~~~ 178 (186)
++|.+
T Consensus 158 ~~v~~ 162 (168)
T PTZ00391 158 PEVIE 162 (168)
T ss_pred HHHHH
Confidence 99976
No 3
>PF04051 TRAPP: Transport protein particle (TRAPP) component; InterPro: IPR007194 TRAPP plays a key role in the targeting and/or fusion of ER-to-Golgi transport vesicles with their acceptor compartment. TRAPP is a large multimeric protein that contains at least 10 subunits. This family contains many TRAPP family proteins. The Bet3 subunit is one of the better characterised TRAPP proteins and has a dimeric structure [] with hydrophobic channels. The channel entrances are located on a putative membrane-interacting surface that is distinctively flat, wide and decorated with positively charged residues. Bet3 is proposed to localise TRAPP to the Golgi [].; PDB: 2J3R_A 1WC9_A 2J3T_A 2PWN_A 2J3W_E 1WC8_A 3CUE_N 2C0J_B 3KXC_A 2CFH_A ....
Probab=100.00 E-value=4e-47 Score=300.75 Aligned_cols=149 Identities=38% Similarity=0.561 Sum_probs=133.4
Q ss_pred HHHHHHHHHHHHHHhccccHHHHHHHHHHhhhhHHHHHHHHHHhh-cCCCCCCCHHHHHHHHHHhhhhhhcCcccccccc
Q 029844 23 LFTLTYGATVRQLLTDLEEVEEVNKQLDQMGYNIGIRLIDEFLAK-SNVTRCVDFRETAEVIAKVGFKMFLGVTATVSNW 101 (186)
Q Consensus 23 ~f~~l~~e~V~q~~~~~~~~~ev~~~Le~mGy~IG~RLiE~~~~r-~~~~R~~~~ld~l~fI~k~~Wk~lfgk~ad~l~~ 101 (186)
+|+|||+|||+++.+ +++.++++++|++|||+||.||+|+++.+ ...+||.+++|+++||||++|+++||||+|+|+
T Consensus 1 ~f~~l~~e~V~~~~~-~~~~~e~~~~Le~~G~~vG~rl~E~~~~~~~~~~r~~~~~~~~~fI~k~~W~~~fgk~~d~l~- 78 (152)
T PF04051_consen 1 AFALLFGEMVQYLLR-REDVEEVNKRLERMGYNVGQRLAERLLRRRKNSPRFTDILDILKFICKDFWKMLFGKQADNLK- 78 (152)
T ss_dssp HHHHHHHHHHHHHHH-CSSHHHHHHHHHHHHHHHHHHHHHHHHHHCSSTCSTSSHHHHHHHHHHHHHHHHHSS--SEEE-
T ss_pred CHHHHHHHHHHHHHH-hCCHHHHHHHHHHHHHHHhHHHHHHHHHHhccCcccCCHHHHHHHHHHHHHHHHhCCCCcccc-
Confidence 699999999966665 66999999999999999999999999998 567999999999999999999999999999999
Q ss_pred CCC-CCeEEEeecCCcccccccCCCccCCCcchhhhhHHHHHHhhcCCceEEEEEeecccCCCCceEEEEEecc
Q 029844 102 DAD-GTCCSIILEDNPLVDFVELPDTCQGLYYCNILSGVIRGALEMVSMKTEVTWIRDVLRGDDAYELQVKLLK 174 (186)
Q Consensus 102 t~~-~~~y~L~~d~npl~~fv~lp~~~~~l~y~~~~cGiIrGaL~~lg~~~~v~~~~d~~~g~~~t~~~Ikf~~ 174 (186)
+|| +|+|+|+..++|+++|+++|++++.++|++|+||||||||+++||+|+|+...+.+ .+|+|+|.|||++
T Consensus 79 ~n~~~~~y~i~d~~~~~~~~v~~p~~~~~l~~~~f~~GiIrGaL~~lg~~~~Vta~~~~~-~~~~~~f~Ik~~~ 151 (152)
T PF04051_consen 79 TNHDRGEYVITDNDFPLNQFVSLPEEYEGLNYLAFPCGIIRGALESLGFPAEVTAESDPL-NGPQTTFQIKFEK 151 (152)
T ss_dssp EETTSTEEEEEEST-CCCTTSTTCGCGTTSHTTHHHHHHHHHHHHHTTEEEEEEEEECCC-GTTEEEEEEEEEH
T ss_pred ccCCCCeEEEecCccchhhhhccchhhccCchhhhHHHHHHHHHHHCCCceEEEEEEecc-CCCCeEEEEEEec
Confidence 555 99999984446789999999988899999999999999999999999999998887 4478999999986
No 4
>KOG3315 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=8.7e-45 Score=288.85 Aligned_cols=164 Identities=19% Similarity=0.342 Sum_probs=150.2
Q ss_pred CchhhhhhchhhhHHHHHHHHHHHHHHHHHhccc-cHHHHHHHHHHhhhhHHHHHHHHHHhhc-CCCCCCCHHHHHHHHH
Q 029844 7 RSGDAIFANVERVNAELFTLTYGATVRQLLTDLE-EVEEVNKQLDQMGYNIGIRLIDEFLAKS-NVTRCVDFRETAEVIA 84 (186)
Q Consensus 7 ~~~~~~~~~~~~vs~~~f~~l~~e~V~q~~~~~~-~~~ev~~~Le~mGy~IG~RLiE~~~~r~-~~~R~~~~ld~l~fI~ 84 (186)
.+.+++-.+.++||+|+|+|||+||| ||++... ++.|++.+|.++||+||.||+|++.+|+ +.+|+++++.++.||+
T Consensus 15 il~~~L~~~rtEvslS~fA~Lfsemi-qy~q~qv~tv~d~e~kL~~~G~~VG~rllel~~~rEr~~kREtkilgiL~fi~ 93 (191)
T KOG3315|consen 15 ILDKSLSKGRTEVSLSAFAFLFSEMI-QYLQSQVFTVADLETKLADYGYQVGIRLLELLNFRERGQKRETKILGILQFIH 93 (191)
T ss_pred hhhhhhhccCccccHHHHHHHHHHHH-HHHHHhcccHHHHHHHHHHHHHHHhHHHHHHHHHHhhcchhHHHHHHHHHHHH
Confidence 35566666778999999999999999 8998885 9999999999999999999999999997 6789999999999999
Q ss_pred HhhhhhhcCccccccc-cCCCCCeEEEeecCCcc-cccccCCCccCCCcchhhhhHHHHHHhhcCCceE--EEEEeeccc
Q 029844 85 KVGFKMFLGVTATVSN-WDADGTCCSIILEDNPL-VDFVELPDTCQGLYYCNILSGVIRGALEMVSMKT--EVTWIRDVL 160 (186)
Q Consensus 85 k~~Wk~lfgk~ad~l~-~t~~~~~y~L~~d~npl-~~fv~lp~~~~~l~y~~~~cGiIrGaL~~lg~~~--~v~~~~d~~ 160 (186)
.++||.+|||.+|.|+ .+++.++|+|+ |++|+ ++|+|+|++++.++|.+|+||||+|+|.+.||+| ||||+|
T Consensus 94 ~tvwk~Lfgk~ad~LEka~d~~~tYmii-d~~pl~n~fISVPke~~~lnc~~fvaGIiea~L~~agfpckVTAh~~P--- 169 (191)
T KOG3315|consen 94 STVWKYLFGKEADKLEKANDDDRTYMII-DKEPLVNTFISVPKENGTLNCAAFVAGIIEAVLDNAGFPCKVTAHWHP--- 169 (191)
T ss_pred HHHHHHHhcchHHHHHhcccccceEEEE-cCcchhhhceecccccCcccHHHHHHHHHHHHHHhCCCCCceeeeecC---
Confidence 9999999999999995 47789999999 99998 6699999999999999999999999999999977 778886
Q ss_pred CCCCceEEEEEecccccc
Q 029844 161 RGDDAYELQVKLLKQVPE 178 (186)
Q Consensus 161 ~g~~~t~~~Ikf~~~~~~ 178 (186)
.+|+++|||++.|.+
T Consensus 170 ---~gt~~~IkF~~~Via 184 (191)
T KOG3315|consen 170 ---EGTTYLIKFDESVIA 184 (191)
T ss_pred ---CCCeEEEEecHHHHh
Confidence 259999999999865
No 5
>COG5128 Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion]
Probab=100.00 E-value=3.6e-41 Score=268.17 Aligned_cols=175 Identities=18% Similarity=0.298 Sum_probs=156.2
Q ss_pred CCCCCchhhhhh-----chhhhHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHhhhhHHHHHHHHHHhhc-CCCCCCCH
Q 029844 3 PVGPRSGDAIFA-----NVERVNAELFTLTYGATVRQLLTDLEEVEEVNKQLDQMGYNIGIRLIDEFLAKS-NVTRCVDF 76 (186)
Q Consensus 3 ~~~~~~~~~~~~-----~~~~vs~~~f~~l~~e~V~q~~~~~~~~~ev~~~Le~mGy~IG~RLiE~~~~r~-~~~R~~~~ 76 (186)
+.++-+|++++. ++.+||+|+|+|||+||+.++....+...+++.+|.++||+||+||+|++.+|. +++|..++
T Consensus 19 s~a~~m~~~vy~qnl~~~~~ev~lStmaflf~emI~~l~~q~s~~~dfE~kL~~~Gy~vGikLlEL~nfr~rnpkre~rI 98 (208)
T COG5128 19 STAPLMGKSVYEQNLKIMKREVPLSTMAFLFCEMIEYLMEQRSGIQDFEAKLKSIGYEVGIKLLELCNFRRRNPKREVRI 98 (208)
T ss_pred ccccccchhHHHHhHHHHhccCchHHHHHHHHHHHHHHHHHhhhhHhHHHHHHHhhHHHHHHHHHHHHHhhhCccchhhH
Confidence 457778888883 577899999999999999656566668999999999999999999999999987 78899999
Q ss_pred HHHHHHHHHhhhhhhcCccccccc-cCCCCCeEEEeecCCcc-cccccCCCccCCCcchhhhhHHHHHHhhcCCceEEEE
Q 029844 77 RETAEVIAKVGFKMFLGVTATVSN-WDADGTCCSIILEDNPL-VDFVELPDTCQGLYYCNILSGVIRGALEMVSMKTEVT 154 (186)
Q Consensus 77 ld~l~fI~k~~Wk~lfgk~ad~l~-~t~~~~~y~L~~d~npl-~~fv~lp~~~~~l~y~~~~cGiIrGaL~~lg~~~~v~ 154 (186)
++++++|+-++|+++||+.+|.|+ +.+..++|||+ |++|+ ++|+++|+++++++|.+|+||||+|+|.+.||+|.|+
T Consensus 99 l~iLq~ih~~lwsylf~~~~d~leKs~e~d~eYmiv-Dn~plls~FIsvP~E~n~lsc~~~vcGiI~gfL~~agfpc~vt 177 (208)
T COG5128 99 LTILQRIHFDLWSYLFGDSDDRLEKSREVDREYMIV-DNDPLLSRFISVPDEWNGLSCDSIVCGIIQGFLMAAGFPCEVT 177 (208)
T ss_pred HHHHHHHHHHHHHHHhccchHHHHHhhhcCceeEEe-cCchHHHHHhcCcchhcCcchHHHHHHHHHHHHHhcCCCCcce
Confidence 999999999999999999999995 45678999999 99997 7899999999999999999999999999999999776
Q ss_pred EeecccCCCC-ceEEEEEecccccc
Q 029844 155 WIRDVLRGDD-AYELQVKLLKQVPE 178 (186)
Q Consensus 155 ~~~d~~~g~~-~t~~~Ikf~~~~~~ 178 (186)
-.+.+..+.| +|+|+|+|++.|.+
T Consensus 178 Ah~~P~~~~p~Rtv~lI~~d~~vi~ 202 (208)
T COG5128 178 AHPEPSENLPNRTVFLIRIDDLVIA 202 (208)
T ss_pred eccCcccCCCcceEEEEEecHHHHh
Confidence 6666666655 99999999998865
No 6
>KOG3316 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.8e-36 Score=234.87 Aligned_cols=146 Identities=16% Similarity=0.195 Sum_probs=115.1
Q ss_pred HHHHHHHHHHHHHHHHhcc---c------cHHHHHHHHHHhhhhHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhhh
Q 029844 21 AELFTLTYGATVRQLLTDL---E------EVEEVNKQLDQMGYNIGIRLIDEFLAKSNVTRCVDFRETAEVIAKVGFKMF 91 (186)
Q Consensus 21 ~~~f~~l~~e~V~q~~~~~---~------~~~ev~~~Le~mGy~IG~RLiE~~~~r~~~~R~~~~ld~l~fI~k~~Wk~l 91 (186)
.-+|++|+.|||+...... + ...+..++||.|||+||.+|.|+++. +.+|+.+.+|+|||||||+|+..
T Consensus 4 ~v~f~~Lh~EmV~~~~~~e~d~e~g~~~~~k~~~~~~LE~IGFqVG~~L~Erl~~--e~~rf~deLeimKFiCkDfW~~V 81 (163)
T KOG3316|consen 4 EVLFDFLHNEMVHTALRSEEDSENGRASIEKSHDLARLESIGFQVGRKLSERLTR--ERNRFKDELEIMKFICKDFWSIV 81 (163)
T ss_pred hHHHHHHHHHHHHHHHHhcchhhcccccccchHHHHHHHHhhhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHHHHHHHH
Confidence 3469999999995443321 1 23346789999999999999999995 46799999999999999999999
Q ss_pred cCccccccccCCCCCeEEEeecCCcccccccCCCc----cCCCcchhhhhHHHHHHhhcCCceEEEEEeecccCCCCceE
Q 029844 92 LGVTATVSNWDADGTCCSIILEDNPLVDFVELPDT----CQGLYYCNILSGVIRGALEMVSMKTEVTWIRDVLRGDDAYE 167 (186)
Q Consensus 92 fgk~ad~l~~t~~~~~y~L~~d~npl~~fv~lp~~----~~~l~y~~~~cGiIrGaL~~lg~~~~v~~~~d~~~g~~~t~ 167 (186)
||||+|||| |||+|+|||+ |+. +.-+.++|+. .....|++|+||+|||+|.++|+++.|+--- ...|.+-
T Consensus 82 F~KQiDNLr-TNhrG~yVlq-D~~-Fr~l~~~s~G~~~~~~a~~flaFpcGliRGvLs~LGi~siVtA~v---~slPtck 155 (163)
T KOG3316|consen 82 FKKQIDNLR-TNHRGTYVLQ-DNK-FRWLTSMSPGTQYLEEAPKFLAFPCGLIRGVLSNLGISSIVTASV---SSLPTCK 155 (163)
T ss_pred Hhhhhhhcc-ccCCceEEEe-cCc-eeeeeecCchhHHHHhcCCeEEeehhHHHHHHhhCCCceEEeeec---CCCCceE
Confidence 999999999 9999999998 553 2222233332 2345899999999999999999998664422 2347899
Q ss_pred EEEEecc
Q 029844 168 LQVKLLK 174 (186)
Q Consensus 168 ~~Ikf~~ 174 (186)
|.|++.+
T Consensus 156 FhV~v~~ 162 (163)
T KOG3316|consen 156 FHVQVQP 162 (163)
T ss_pred EEEEecC
Confidence 9998864
No 7
>COG1719 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]
Probab=95.04 E-value=0.38 Score=38.37 Aligned_cols=109 Identities=23% Similarity=0.276 Sum_probs=68.3
Q ss_pred HHHHHHhhhhHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhhhcCccccccccCCCCCeEEEeecCCcccccccCCC
Q 029844 46 NKQLDQMGYNIGIRLIDEFLAKSNVTRCVDFRETAEVIAKVGFKMFLGVTATVSNWDADGTCCSIILEDNPLVDFVELPD 125 (186)
Q Consensus 46 ~~~Le~mGy~IG~RLiE~~~~r~~~~R~~~~ld~l~fI~k~~Wk~lfgk~ad~l~~t~~~~~y~L~~d~npl~~fv~lp~ 125 (186)
...+..+|+.+|..++. ...+.++.+|+.- |....+.-.+.- .+......+. |..+-.. +|.
T Consensus 48 ~~~~y~~G~~~G~~l~~----------~~~~~~~~~f~~~--~~~~~~~v~~~~--~~~~~~v~v~-~c~~c~~---~p~ 109 (158)
T COG1719 48 EPVLYEAGKEIGKALIK----------EKLIEELENFLEF--WEEVGGGVLEVE--EEEPLVVEVY-DCIECAG---LPG 109 (158)
T ss_pred HHHHHHHHHHHHHHhcc----------hhchHHHHHHHHH--HHhhcceEEEcc--cCCCceEEEE-cCchhhc---CCC
Confidence 46788999999998886 2233444444422 665555333321 1112333432 3332232 443
Q ss_pred ccCCCcchhhhhHHHHHHhhcCCc-eEEEEEeecccCCCCceEEEEEecc
Q 029844 126 TCQGLYYCNILSGVIRGALEMVSM-KTEVTWIRDVLRGDDAYELQVKLLK 174 (186)
Q Consensus 126 ~~~~l~y~~~~cGiIrGaL~~lg~-~~~v~~~~d~~~g~~~t~~~Ikf~~ 174 (186)
.+-.-+.+.+|+|.|+|+...= ++.|.=++....|++.++|+|+...
T Consensus 110 --~~ePvC~~~aG~iag~l~~~~~k~~~v~Et~C~~~G~~~C~F~i~~~~ 157 (158)
T COG1719 110 --IGEPVCHLEAGFIAGFLEEILGKKVEVEETECAAEGDDRCVFEIRLKD 157 (158)
T ss_pred --CCCcchhHHhhHHHHHHHHHhCCCeEEEEEEEeecCCCceEEEEEecC
Confidence 2334578999999999998655 5677777887889999999998754
No 8
>TIGR02019 BchJ bacteriochlorophyll 4-vinyl reductase. This model represents the component of bacteriochlorophyll synthetase responsible for reduction of the B-ring pendant ethylene (4-vinyl) group. It appears that this step must precede the reduction of ring D, at least by the "dark" protochlorophyllide reductase enzymes BchN, BchB and BchL. This family appears to be present in photosynthetic bacteria except for the cyanobacterial clade. Cyanobacteria must use a non-orthologous gene to carry out this required step for the biosynthesis of both bacteriochlorophyll and chlorophyll.
Probab=92.33 E-value=0.74 Score=37.98 Aligned_cols=136 Identities=14% Similarity=0.113 Sum_probs=73.8
Q ss_pred hHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHhhhhHHHHH-HHHHHhhcCCCCCCCHHHH-------HHHHHHhhhhh
Q 029844 19 VNAELFTLTYGATVRQLLTDLEEVEEVNKQLDQMGYNIGIRL-IDEFLAKSNVTRCVDFRET-------AEVIAKVGFKM 90 (186)
Q Consensus 19 vs~~~f~~l~~e~V~q~~~~~~~~~ev~~~Le~mGy~IG~RL-iE~~~~r~~~~R~~~~ld~-------l~fI~k~~Wk~ 90 (186)
|+.+.|.-||.++=. .-..+.-..-|.+.|.+.|.++ .+++.. -..+..+.+++ +.-|.|++|+
T Consensus 44 v~E~~~~aL~~aL~~-----elG~~aa~~vl~~~G~~ta~y~l~~rIp~--~~q~~Lr~lp~~~~~r~l~~aI~k~aWt- 115 (188)
T TIGR02019 44 LPESQFSTLHRWLRD-----TLGETAAARLLRESGLATADYILANRIPP--PAQRLIRALPAGLAARVLLTAIAKHAWT- 115 (188)
T ss_pred CCHHHHHHHHHHHHH-----HhCHHHHHHHHHHHhHHHHHHHHHHHhhH--HHHHHHHHCChHHHHHHHHHHHHHHHHh-
Confidence 566666666655441 1133344566777777777666 333321 01122333333 3446889995
Q ss_pred hcCccccccccCCCCCeEEEeecCCcccccccCCCccCCCcchhhhhHHHHHHhhcC-CceEEEEEeecccCCCCceEEE
Q 029844 91 FLGVTATVSNWDADGTCCSIILEDNPLVDFVELPDTCQGLYYCNILSGVIRGALEMV-SMKTEVTWIRDVLRGDDAYELQ 169 (186)
Q Consensus 91 lfgk~ad~l~~t~~~~~y~L~~d~npl~~fv~lp~~~~~l~y~~~~cGiIrGaL~~l-g~~~~v~~~~d~~~g~~~t~~~ 169 (186)
+-|--- +. -..++.-+|...++|...- +|. +.+. ++|-+|+++|.++.+ +=+++|.-+...-.|++.+.|.
T Consensus 116 f~G~G~--fs-~~~~~~l~i~I~ds~~a~~--~~~--~~P~-C~~~aGife~lFs~lv~~~~~v~Et~C~a~G~~~C~F~ 187 (188)
T TIGR02019 116 FAGSGK--FR-YVSGPPLSFEIARNPVVAG--ESS--DTPV-CHWYAAVFERLLRRLVWPHVAVRETACCAKGAPRCRFE 187 (188)
T ss_pred hcccce--EE-EeeCCCeEEEEecChhhhc--CCC--CCce-eeeeHHHHHHHHHHHhCCCceEEeehHhhcCCCcceee
Confidence 222110 11 1122223333345555331 121 3344 668899999998764 5567787778888899999887
Q ss_pred E
Q 029844 170 V 170 (186)
Q Consensus 170 I 170 (186)
|
T Consensus 188 ~ 188 (188)
T TIGR02019 188 L 188 (188)
T ss_pred C
Confidence 4
No 9
>PF02830 V4R: V4R domain; InterPro: IPR004096 Central cellular functions such as metabolism, solute transport and signal transduction are regulated, in part, via binding of small molecules by specialised domains. The 4-vinyl reductase (4VR) domain is a predicted small molecular binding domain, that may bind to hydrocarbons []. Proteins that contain this domain include a regulator of the phenol catabolic pathway and a protein involved in chlorophyll biosynthesis.; PDB: 2OSD_A 2OSO_A.
Probab=91.68 E-value=0.44 Score=31.82 Aligned_cols=40 Identities=23% Similarity=0.361 Sum_probs=31.7
Q ss_pred chhhhhHHHHHHhhc-CCceEEEEEeecccCCCCceEEEEE
Q 029844 132 YCNILSGVIRGALEM-VSMKTEVTWIRDVLRGDDAYELQVK 171 (186)
Q Consensus 132 y~~~~cGiIrGaL~~-lg~~~~v~~~~d~~~g~~~t~~~Ik 171 (186)
-.+|.+|++.|+++. .|-+++|+=++..-.|++..+|.|+
T Consensus 21 ~C~~~~G~~~G~~~~~~~~~~~v~E~~C~a~G~~~C~F~i~ 61 (62)
T PF02830_consen 21 VCWFTAGYLAGFFSALFGKEVEVEETKCQAMGDDHCEFVIR 61 (62)
T ss_dssp --HHHHHHHHHHHHHHHSSEEEEEEEE-GGGT-SSEEEEEE
T ss_pred eEHHHHHHHHHHHHHHhCCceEEEEeEEEcCCCCeeEEEEE
Confidence 447999999999965 4668899889999999999999986
No 10
>PF14196 ATC_hydrolase: L-2-amino-thiazoline-4-carboxylic acid hydrolase
Probab=80.60 E-value=22 Score=26.79 Aligned_cols=133 Identities=18% Similarity=0.210 Sum_probs=72.0
Q ss_pred HHHHHHHHHHHHHHHHHhccccHHHHHHHHHHhhhhHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhhhcCcccccc
Q 029844 20 NAELFTLTYGATVRQLLTDLEEVEEVNKQLDQMGYNIGIRLIDEFLAKSNVTRCVDFRETAEVIAKVGFKMFLGVTATVS 99 (186)
Q Consensus 20 s~~~f~~l~~e~V~q~~~~~~~~~ev~~~Le~mGy~IG~RLiE~~~~r~~~~R~~~~ld~l~fI~k~~Wk~lfgk~ad~l 99 (186)
.+..|..+|-++...+-. .+..+-+.+-+...|...|.++.++... + ..++....+.....-+...|. ...
T Consensus 13 ~a~~~~~ly~~~~~~~~~-e~~~~~~~~a~~~~~~~~g~~~~~~~~~----~-~~~~~~~~~~~~~~~~~~~~~---~~~ 83 (149)
T PF14196_consen 13 RAFWFYALYKALIEEMGP-EEAEEIIREAIRRFGRKRGKALAERMRR----K-PDDFEKFAEMMKDYPSDWVFE---EVV 83 (149)
T ss_pred HHHHHHHHHHHHHHHCCH-HHHHHHHHHHHHHHHHHHHHHHHHHhhh----c-hhhHHHHHHHHhcCCccccce---eee
Confidence 344445555555522211 1122334566888888888887776652 1 334444444121211222222 222
Q ss_pred ccCCCCCeEEEeecCCcccc-cccCCCccCCCcchhhhhHHHHHHhhcC--CceEEEEEeecccCCCCceEEE
Q 029844 100 NWDADGTCCSIILEDNPLVD-FVELPDTCQGLYYCNILSGVIRGALEMV--SMKTEVTWIRDVLRGDDAYELQ 169 (186)
Q Consensus 100 ~~t~~~~~y~L~~d~npl~~-fv~lp~~~~~l~y~~~~cGiIrGaL~~l--g~~~~v~~~~d~~~g~~~t~~~ 169 (186)
..+.+.|.+.+-.-|+.+ +.. ++..-+..++|-+=+++.+.+ |++.+-+ +.--.|++.+.|+
T Consensus 84 --~~~~~~~~~~~~~Cp~~~~~k~----~G~~e~~~~~C~~D~~~~~~~~~~~~l~r~--~tla~G~~~Cdf~ 148 (149)
T PF14196_consen 84 --EDDEDEFEFDFTRCPYAEFWKE----YGLPELGPIYCDIDYAMAEGFNPGIRLERT--KTLADGDDCCDFR 148 (149)
T ss_pred --cCCCCeEEEEEEeChHHHHHHH----cCCchHHhHhhhhhHHHHHhCCCCcEEEEe--eEEeCCCCcCccC
Confidence 355667777767889866 333 344567777888888888888 6655322 2223477777764
No 11
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=74.86 E-value=26 Score=29.62 Aligned_cols=148 Identities=20% Similarity=0.239 Sum_probs=86.8
Q ss_pred chhhhh-hchhhhHHHHHHHHHHHHHHHHHhccc---cHHHHHHHHHHhhhhHHHHHHHHHHhhcCCCCCCCHHHHHHHH
Q 029844 8 SGDAIF-ANVERVNAELFTLTYGATVRQLLTDLE---EVEEVNKQLDQMGYNIGIRLIDEFLAKSNVTRCVDFRETAEVI 83 (186)
Q Consensus 8 ~~~~~~-~~~~~vs~~~f~~l~~e~V~q~~~~~~---~~~ev~~~Le~mGy~IG~RLiE~~~~r~~~~R~~~~ld~l~fI 83 (186)
.|++.+ -+.++-..+.|.--|+++..+++..-+ +.+.++.-|++.+-++| +.+..... + -.+..+.++-+
T Consensus 64 ~GRP~~~y~Lt~~g~~~f~~~y~~l~~~~l~~l~~~~G~~~l~~~l~~r~~~~~----~~~~~~~~-~-~~~~ee~~e~L 137 (218)
T COG2345 64 RGRPAKLYRLTEKGREQFPKRYGELALALLDALEETGGEEALNAFLEKRAQAIG----AQYRPAMG-G-DADLEEKVERL 137 (218)
T ss_pred CCCCceeeeecccchhhcchhhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHH----HHHhhcCC-C-CCCHHHHHHHH
Confidence 455544 344455666888889988877665443 55566666666555444 44432211 1 34444444444
Q ss_pred HHhhhhhhcCccccccccCCCCCeEEEeecCCcccccccCCCccCCCcchhhhhHHHHHHhhcCCceEEEEEeecccCCC
Q 029844 84 AKVGFKMFLGVTATVSNWDADGTCCSIILEDNPLVDFVELPDTCQGLYYCNILSGVIRGALEMVSMKTEVTWIRDVLRGD 163 (186)
Q Consensus 84 ~k~~Wk~lfgk~ad~l~~t~~~~~y~L~~d~npl~~fv~lp~~~~~l~y~~~~cGiIrGaL~~lg~~~~v~~~~d~~~g~ 163 (186)
..-. .=.|.-+..-. -+.+.|.|+--|.|+..-.. ....-++.-+++++++|....++.+++.+. |.
T Consensus 138 v~l~--~~~gy~~e~~~--~~~~~~~l~e~nCPi~~vA~-----~~~~~C~~e~~~~~~~Lg~~~v~~~~~~~~----g~ 204 (218)
T COG2345 138 VELL--SDLGYMPELRP--VDNGRVQLIEHNCPISAVAE-----EFPVACESELALFAEVLGTAHVERTEHILD----GP 204 (218)
T ss_pred HHHH--HhCCccccccc--cCCCceEEEecCCchHHHHH-----HhHHHHHHHHHHHHHHhccCCccceeeeec----CC
Confidence 3211 22444444432 23577888745668755222 234456777888999988877777765553 56
Q ss_pred CceEEEEEecc
Q 029844 164 DAYELQVKLLK 174 (186)
Q Consensus 164 ~~t~~~Ikf~~ 174 (186)
..++|.|+..+
T Consensus 205 ~~C~~~v~~~~ 215 (218)
T COG2345 205 GRCTYHVKLES 215 (218)
T ss_pred CceEEEeecCC
Confidence 79999998764
No 12
>PF09536 DUF2378: Protein of unknown function (DUF2378); InterPro: IPR011751 This family consists of a set of at least 17 paralogous proteins in Myxococcus xanthus (strain DK 1622). Members are about 200 amino acids in length. No other homologs are known; the function is unknown.
Probab=73.86 E-value=6.6 Score=32.00 Aligned_cols=39 Identities=23% Similarity=0.332 Sum_probs=30.4
Q ss_pred CcchhhhhHHHHHHhhcCCce-EEEEEeecccCCCCceEEEEE
Q 029844 130 LYYCNILSGVIRGALEMVSMK-TEVTWIRDVLRGDDAYELQVK 171 (186)
Q Consensus 130 l~y~~~~cGiIrGaL~~lg~~-~~v~~~~d~~~g~~~t~~~Ik 171 (186)
...-.|.+|+++++|+..|-+ ++|+-... +...++|+|.
T Consensus 137 ~~~p~f~~G~l~~~L~~~Ga~~~~V~~~~~---~~~~~~y~i~ 176 (178)
T PF09536_consen 137 FMPPAFHEGVLEAALEAAGARGPRVRVRER---GGDDAEYRIR 176 (178)
T ss_pred CCChHHHHHHHHHHHHHcCCCCCEEEEEec---CCCceEEEEE
Confidence 446679999999999999998 57765543 3468999886
No 13
>TIGR02265 Mxa_TIGR02265 Myxococcus xanthus paralogous family TIGR02265. This family consists of a set of at least 17 paralogous proteins in Myxococcus xanthus DK 1622. Members are about 200 amino acids in length. No other homologs are known; the function is unknown.
Probab=66.90 E-value=7.4 Score=31.81 Aligned_cols=39 Identities=18% Similarity=0.117 Sum_probs=29.4
Q ss_pred CcchhhhhHHHHHHhhcCCc-eEEEEEeecccCCCCceEEEEE
Q 029844 130 LYYCNILSGVIRGALEMVSM-KTEVTWIRDVLRGDDAYELQVK 171 (186)
Q Consensus 130 l~y~~~~cGiIrGaL~~lg~-~~~v~~~~d~~~g~~~t~~~Ik 171 (186)
.....|.+|+++|+|+..|= .++|+-.. .|...++|+|.
T Consensus 138 ~~~~~f~~G~l~~aLe~~Ga~~~~V~~~~---~g~~~~~y~i~ 177 (179)
T TIGR02265 138 FMPPAYHEGVLHAALRAVGARDVRVRGRA---FGGLDATYRLS 177 (179)
T ss_pred CCchHHHHHHHHHHHHHcCCCCCEEEEEe---cCCCCceEEEE
Confidence 34478999999999999995 35665433 34578999986
No 14
>PF06505 XylR_N: Activator of aromatic catabolism; InterPro: IPR010523 This domain is found at the N terminus of a subset of sigma54-dependent transcriptional activators in several proteobacteria, including activators of phenol degradation such as XylR. It is found adjacent to IPR004096 from INTERPRO.
Probab=61.71 E-value=21 Score=26.59 Aligned_cols=46 Identities=20% Similarity=0.174 Sum_probs=36.5
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHhhhhHHHHHHHHHH
Q 029844 15 NVERVNAELFTLTYGATVRQLLTDLEEVEEVNKQLDQMGYNIGIRLIDEFL 65 (186)
Q Consensus 15 ~~~~vs~~~f~~l~~e~V~q~~~~~~~~~ev~~~Le~mGy~IG~RLiE~~~ 65 (186)
++-=+.++++..|.-|+|..+ ..+....-|-++||.-|.|-+|.+.
T Consensus 21 RmlL~~~~alg~LRkELi~~l-----G~~~AR~iltR~Gy~~G~~DAe~~~ 66 (103)
T PF06505_consen 21 RMLLMHASALGALRKELIETL-----GEERARGILTRMGYASGWRDAELAR 66 (103)
T ss_pred EEEEEchhHHHHHHHHHHHHh-----CHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444478999999999999433 3444567899999999999999775
No 15
>smart00843 Ftsk_gamma This domain directs oriented DNA translocation and forms a winged helix structure. Mutated proteins with substitutions in the FtsK gamma DNA-recognition helix are impaired in DNA binding.
Probab=60.91 E-value=21 Score=24.37 Aligned_cols=39 Identities=28% Similarity=0.577 Sum_probs=28.4
Q ss_pred HHHHHHHHHHhcc-c-cHHHHHHHHHHhhhhHHHHHHHHHHhh
Q 029844 27 TYGATVRQLLTDL-E-EVEEVNKQLDQMGYNIGIRLIDEFLAK 67 (186)
Q Consensus 27 l~~e~V~q~~~~~-~-~~~ev~~~Le~mGy~IG~RLiE~~~~r 67 (186)
||-+.+ +++... . +.+-+.++| ++||+-..||+|.+-..
T Consensus 6 ly~~a~-~~V~~~~~~S~S~lQR~~-~IGynrAariid~lE~~ 46 (63)
T smart00843 6 LYDEAV-ELVIETQKASTSLLQRRL-RIGYNRAARLIDQLEEE 46 (63)
T ss_pred HHHHHH-HHHHHhCCCChHHHHHHH-hcchhHHHHHHHHHHHC
Confidence 677777 555443 3 777766665 68999999999998754
No 16
>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana.
Probab=56.81 E-value=53 Score=26.98 Aligned_cols=50 Identities=16% Similarity=0.136 Sum_probs=34.0
Q ss_pred hHHHHHHHHHHHHHHHHHhccc--cHHHH------HHHHHHhhhhHH---HHHHHHHHhhc
Q 029844 19 VNAELFTLTYGATVRQLLTDLE--EVEEV------NKQLDQMGYNIG---IRLIDEFLAKS 68 (186)
Q Consensus 19 vs~~~f~~l~~e~V~q~~~~~~--~~~ev------~~~Le~mGy~IG---~RLiE~~~~r~ 68 (186)
-.+.-.-++|..+|-.+-+-.. +.+.+ -..||.+||+|+ .||.+++..++
T Consensus 43 g~A~Glm~~f~~l~e~v~~l~idd~~~~f~~~~~tl~~LE~~GFnV~~l~~RL~kLL~lk~ 103 (190)
T PF05266_consen 43 GMAVGLMVTFANLAEKVKKLQIDDSRSSFESLMKTLSELEEHGFNVKFLRSRLNKLLSLKD 103 (190)
T ss_pred HHHHHHHHHHHHHHHHHHHcccCCcHHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHH
Confidence 4555666888888855433221 22222 377999999999 68999888875
No 17
>PF09397 Ftsk_gamma: Ftsk gamma domain; InterPro: IPR018541 This domain directs oriented DNA translocation and forms a winged helix structure []. Mutated proteins with substitutions in the FtsK gamma DNA-recognition helix are impaired in DNA binding []. ; PDB: 2VE9_B 2VE8_E 2J5O_A 2J5P_A.
Probab=53.83 E-value=30 Score=23.68 Aligned_cols=39 Identities=21% Similarity=0.538 Sum_probs=25.1
Q ss_pred HHHHHHHHHHhcc-c-cHHHHHHHHHHhhhhHHHHHHHHHHhh
Q 029844 27 TYGATVRQLLTDL-E-EVEEVNKQLDQMGYNIGIRLIDEFLAK 67 (186)
Q Consensus 27 l~~e~V~q~~~~~-~-~~~ev~~~Le~mGy~IG~RLiE~~~~r 67 (186)
||-+.+ +++... . +.+-+.++| ++||+=..||+|.+-..
T Consensus 7 ly~~a~-~~V~~~~~~S~S~lQR~~-rIGynrAariid~LE~~ 47 (65)
T PF09397_consen 7 LYEEAV-EFVIEEGKASISLLQRKF-RIGYNRAARIIDQLEEE 47 (65)
T ss_dssp THHHHH-HHHHHCTCECHHHHHHHH-T--HHHHHHHHHHHHHC
T ss_pred HHHHHH-HHHHHcCCccHHHHHHHh-CCCHHHHHHHHHHHHHC
Confidence 455666 454433 3 777665555 78999999999998743
No 18
>KOG0037 consensus Ca2+-binding protein, EF-Hand protein superfamily [Signal transduction mechanisms]
Probab=52.00 E-value=36 Score=28.87 Aligned_cols=52 Identities=19% Similarity=0.318 Sum_probs=40.9
Q ss_pred chhhhHHHHHHHHHHHHHHHHHh-------ccc---cHHHHHHHHHHhhhhHHHHHHHHHHhh
Q 029844 15 NVERVNAELFTLTYGATVRQLLT-------DLE---EVEEVNKQLDQMGYNIGIRLIDEFLAK 67 (186)
Q Consensus 15 ~~~~vs~~~f~~l~~e~V~q~~~-------~~~---~~~ev~~~Le~mGy~IG~RLiE~~~~r 67 (186)
.+-+|+..-|.-|+--|= ++-+ |++ +..|+.+.|..|||++-.-+.+.+..|
T Consensus 107 ~~G~i~f~EF~~Lw~~i~-~Wr~vF~~~D~D~SG~I~~sEL~~Al~~~Gy~Lspq~~~~lv~k 168 (221)
T KOG0037|consen 107 NSGTIGFKEFKALWKYIN-QWRNVFRTYDRDRSGTIDSSELRQALTQLGYRLSPQFYNLLVRK 168 (221)
T ss_pred CCCccCHHHHHHHHHHHH-HHHHHHHhcccCCCCcccHHHHHHHHHHcCcCCCHHHHHHHHHH
Confidence 455688889999988655 4422 333 788999999999999999999988765
No 19
>PF13314 DUF4083: Domain of unknown function (DUF4083)
Probab=51.52 E-value=58 Score=21.93 Aligned_cols=32 Identities=22% Similarity=0.483 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHhccc----cHHHHHHHHHH
Q 029844 20 NAELFTLTYGATVRQLLTDLE----EVEEVNKQLDQ 51 (186)
Q Consensus 20 s~~~f~~l~~e~V~q~~~~~~----~~~ev~~~Le~ 51 (186)
=.-+|-+.|+-+++.+...+. +..++|+||++
T Consensus 15 l~vl~~~~Ftl~IRri~~~s~~kkq~~~~~eqKLDr 50 (58)
T PF13314_consen 15 LIVLFGASFTLFIRRILINSNAKKQDVDSMEQKLDR 50 (58)
T ss_pred HHHHHHHHHHHHHHHHHHhccccccchhHHHHHHHH
Confidence 345666777778877665532 66689999996
No 20
>PF14056 DUF4250: Domain of unknown function (DUF4250)
Probab=50.44 E-value=13 Score=24.71 Aligned_cols=22 Identities=32% Similarity=0.682 Sum_probs=17.4
Q ss_pred HHHhccc-cHHHHHHHHHHhhhh
Q 029844 34 QLLTDLE-EVEEVNKQLDQMGYN 55 (186)
Q Consensus 34 q~~~~~~-~~~ev~~~Le~mGy~ 55 (186)
.+|.+.. +.+++.++|..+||.
T Consensus 25 ~Lc~~~~id~~~l~~kL~~~Gy~ 47 (55)
T PF14056_consen 25 ELCYDYDIDKEELEEKLASIGYE 47 (55)
T ss_pred HHHHHhCCCHHHHHHHHHHcCCe
Confidence 3455555 889999999999985
No 21
>PRK14741 spoVM stage V sporulation protein M; Provisional
Probab=48.94 E-value=11 Score=21.08 Aligned_cols=14 Identities=29% Similarity=0.605 Sum_probs=11.8
Q ss_pred hhhhHHHHHHhhcC
Q 029844 134 NILSGVIRGALEMV 147 (186)
Q Consensus 134 ~~~cGiIrGaL~~l 147 (186)
-|+.|++|++|.++
T Consensus 10 kflgg~vra~l~~f 23 (26)
T PRK14741 10 KFLGGIVRAMLGSF 23 (26)
T ss_pred HHHHHHHHHHHHHh
Confidence 47899999999875
No 22
>PF07700 HNOB: Heme NO binding; InterPro: IPR011644 This ligand-binding domain is found in soluble guanylate cyclases. In soluble guanylate cyclases this domain binds heme via a covalent linkage to histidine []. Soluble guanylate cyclases are nitric oxide-responsive signaling proteins.; GO: 0020037 heme binding; PDB: 3TFE_A 2O0C_B 3TFA_A 2O09_B 2O0G_B 3L6J_A 3TFG_B 3TF8_A 3TFF_A 3TF9_B ....
Probab=47.17 E-value=1.4e+02 Score=23.47 Aligned_cols=99 Identities=15% Similarity=0.156 Sum_probs=61.3
Q ss_pred HHHHHHhhhhHHHHHHHHHHh---hcCCCCCCCHHHHHHHHHHhhhhhhcCccccccccC-CCCCeEEEeecCCcccccc
Q 029844 46 NKQLDQMGYNIGIRLIDEFLA---KSNVTRCVDFRETAEVIAKVGFKMFLGVTATVSNWD-ADGTCCSIILEDNPLVDFV 121 (186)
Q Consensus 46 ~~~Le~mGy~IG~RLiE~~~~---r~~~~R~~~~ld~l~fI~k~~Wk~lfgk~ad~l~~t-~~~~~y~L~~d~npl~~fv 121 (186)
..-|+..|.-.=..+.+.... +...+.+.+++.-+.-|+..+=+.+-+..+-..+.+ .++++..|. |.
T Consensus 64 ~~~l~~fG~~~~~~~~~~~~~~~l~~~g~~~~~FL~~ld~iH~~v~~~~p~~~~P~f~~~~~~~~~l~l~--------Y~ 135 (171)
T PF07700_consen 64 EELLEEFGEYFFDFLSESGYERLLRFLGRDLFDFLNNLDNIHEEVRKLYPDAKPPSFRCEEEDDNELTLH--------YR 135 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHCCHHHHHCTCSSHHHHHHHHHHHHHHHHHHSTTSS--EEEEEEEETTEEEEE--------EE
T ss_pred HHHHHHHHHHHHHHHHHhCcHHHHHhcCCCHHHHHHhHHHHHHHHHHhCCCCcCCeEEEEECCCCEEEEE--------EE
Confidence 345666665554444444332 233456778888888888888777777666666532 234444444 33
Q ss_pred cCCCccCCCcchhhhhHHHHHHhhcCCc-eEEEEEee
Q 029844 122 ELPDTCQGLYYCNILSGVIRGALEMVSM-KTEVTWIR 157 (186)
Q Consensus 122 ~lp~~~~~l~y~~~~cGiIrGaL~~lg~-~~~v~~~~ 157 (186)
| ....++.++-|+|+|+-..++= ++++.-++
T Consensus 136 S-----~R~gl~~~~~Gli~g~A~~f~~~~v~i~~~~ 167 (171)
T PF07700_consen 136 S-----PRPGLCPYVIGLIRGAAKHFFELDVEIEHVE 167 (171)
T ss_dssp E-----SSSSTHHHHHHHHHHHHHHTTEEEEEEEEEE
T ss_pred C-----CCcCHHHHHHHHHHHHHHHhCCCCeEEEEec
Confidence 3 2346889999999999998876 66665554
No 23
>PF07530 PRE_C2HC: Associated with zinc fingers; InterPro: IPR006579 This domain is present in proteins found exclusively in the arthropods, including a number of Drosophila species, the silk moth and the gypsy moth. These proteins are possibly involved in RNA binding or single strand DNA binding.
Probab=38.62 E-value=66 Score=21.98 Aligned_cols=40 Identities=10% Similarity=-0.002 Sum_probs=30.5
Q ss_pred hHHHHHHhhcCCceE-EEEEeecccCCCCceEEEEEecccc
Q 029844 137 SGVIRGALEMVSMKT-EVTWIRDVLRGDDAYELQVKLLKQV 176 (186)
Q Consensus 137 cGiIrGaL~~lg~~~-~v~~~~d~~~g~~~t~~~Ikf~~~~ 176 (186)
|--|+-+|...|+++ .++-........|..-|.|.+++..
T Consensus 1 ~~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~ 41 (68)
T PF07530_consen 1 CEEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKP 41 (68)
T ss_pred CHHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCc
Confidence 446889999999988 6666666555567888888887764
No 24
>COG5558 Transposase [DNA replication, recombination, and repair]
Probab=37.45 E-value=75 Score=26.82 Aligned_cols=76 Identities=14% Similarity=0.325 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHHHHhccccHHHHHHHHHHhhhhHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhhhcCccccccccC
Q 029844 23 LFTLTYGATVRQLLTDLEEVEEVNKQLDQMGYNIGIRLIDEFLAKSNVTRCVDFRETAEVIAKVGFKMFLGVTATVSNWD 102 (186)
Q Consensus 23 ~f~~l~~e~V~q~~~~~~~~~ev~~~Le~mGy~IG~RLiE~~~~r~~~~R~~~~ld~l~fI~k~~Wk~lfgk~ad~l~~t 102 (186)
+.-+||.+|.. +.+.+.+++- .|-.|||.|..+-+|++...+ .+..+--..|--++.+..-.....
T Consensus 25 ~~l~l~~~l~d---~snr~~~~ll-~l~~~~~~vsyktierlysde----------~v~m~lhn~fil~~k~~gv~~~~~ 90 (261)
T COG5558 25 VMLFLFARLMD---KSNRDIEELL-ELFEFGIKVSYKTIERLYSDE----------EVRMALHNLFILLLREEGVSGDFS 90 (261)
T ss_pred HHHHHHHHHhh---hccccHHHHH-HHhccceEeehhhHHHHhchh----------HHHHHHhhhheeeehhcCcccccc
Confidence 45577787772 1223566543 455699999999999998542 223333444555555544333445
Q ss_pred CCCCeEEEee
Q 029844 103 ADGTCCSIIL 112 (186)
Q Consensus 103 ~~~~~y~L~~ 112 (186)
.++..|.|+.
T Consensus 91 ~d~tgyslti 100 (261)
T COG5558 91 GDGTGYSLTI 100 (261)
T ss_pred CCCCcceEEe
Confidence 6778898873
No 25
>PF11565 PorB: Alpha helical Porin B; InterPro: IPR021114 This entry represents the putative cell wall channel-forming proteins porin B and porin C from Corynebacterium sp. Porin B from Corynebacterium glutamicum (Brevibacterium flavum) allows the exchange of material across the mycolic acid layer, which is the protective nonpolar barrier. Porin B has an alpha helical core structure consisting of four alpha-helices surrounding a nonpolar interior. There is a disulphide bridge between helices 1 and 4 to form a stable covalently bound ring []. The channel of PorB is oligomeric [].; PDB: 2VQG_G 2VQL_C 2VQK_A 2VQH_A.
Probab=36.03 E-value=26 Score=26.07 Aligned_cols=20 Identities=20% Similarity=0.300 Sum_probs=17.4
Q ss_pred CcchhhhhHHHHHHhhcCCc
Q 029844 130 LYYCNILSGVIRGALEMVSM 149 (186)
Q Consensus 130 l~y~~~~cGiIrGaL~~lg~ 149 (186)
-.+.++-||++|++|...|+
T Consensus 15 ~~i~~~dC~~lr~~L~~~Gl 34 (98)
T PF11565_consen 15 QLIDNADCGILRTGLKATGL 34 (98)
T ss_dssp GGGSHHHHHHHHHHHHHTT-
T ss_pred cccCcccccHHHhhhhhhcc
Confidence 45889999999999999985
No 26
>PF07524 Bromo_TP: Bromodomain associated; InterPro: IPR006565 This bromodomain is found in eukaryotic transcription factors and PHD domain containing proteins (IPR001965 from INTERPRO). The tandem PHD finger-bromodomain is found in many chromatin-associated proteins. It is involved in gene silencing by the human co-repressor KRAB-associated protein 1 (KAP1). The tandem PHD finger-bromodomain of KAP1 has a distinct structure that joins the two protein modules. The first helix, alpha(Z), of an atypical bromodomain forms the central hydrophobic core that anchors the other three helices of the bromodomain on one side and the zinc binding PHD finger on the other []. The Rap1 GTPase-activating protein, Sipa1, is modulated by the cellular bromodomain protein, Brd4. Brd4 belongs to the BET family and is a multifunctional protein involved in transcription, replication, the signal transduction pathway, and cell cycle progression. All of these functions are linked to its association with acetylated chromatin. It has tandem bromodomains []. The dysregulation of the Brd4-associated pathways may play an important role in breast cancer progression []. Bovine papillomavirus type 1 E2 also binds to chromosomes in a complex with Brd4. Interaction with Brd4 is additionally important for E2-mediated transcriptional regulation [, ].
Probab=35.86 E-value=68 Score=21.90 Aligned_cols=17 Identities=24% Similarity=0.700 Sum_probs=10.7
Q ss_pred cHHHHHHHHHHhhhhHH
Q 029844 41 EVEEVNKQLDQMGYNIG 57 (186)
Q Consensus 41 ~~~ev~~~Le~mGy~IG 57 (186)
+..++..-|+.||.+|+
T Consensus 60 ~~~Dv~~al~~~gi~v~ 76 (77)
T PF07524_consen 60 NLQDVEQALEEMGISVN 76 (77)
T ss_pred CHHHHHHHHHHhCCCCC
Confidence 55666666666666654
No 27
>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised. This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.
Probab=33.78 E-value=47 Score=20.94 Aligned_cols=27 Identities=37% Similarity=0.658 Sum_probs=22.4
Q ss_pred cHHHHHHHHHHhhhhHHHHHHHHHHhh
Q 029844 41 EVEEVNKQLDQMGYNIGIRLIDEFLAK 67 (186)
Q Consensus 41 ~~~ev~~~Le~mGy~IG~RLiE~~~~r 67 (186)
+..+.-++|.+.|++|+.++++.++.+
T Consensus 20 ~~~~~l~~l~~~g~~is~~l~~~~L~~ 46 (48)
T PF11848_consen 20 EVKPLLDRLQQAGFRISPKLIEEILRR 46 (48)
T ss_pred hHHHHHHHHHHcCcccCHHHHHHHHHH
Confidence 466667889999999999999988753
No 28
>KOG0766 consensus Predicted mitochondrial carrier protein [Energy production and conversion]
Probab=32.23 E-value=41 Score=29.04 Aligned_cols=55 Identities=22% Similarity=0.278 Sum_probs=37.3
Q ss_pred CccccccccCCCCCeEEEeecCC----cc---cccc-cCCCc--cCCCcchhhhhHHHHHHhhcC
Q 029844 93 GVTATVSNWDADGTCCSIILEDN----PL---VDFV-ELPDT--CQGLYYCNILSGVIRGALEMV 147 (186)
Q Consensus 93 gk~ad~l~~t~~~~~y~L~~d~n----pl---~~fv-~lp~~--~~~l~y~~~~cGiIrGaL~~l 147 (186)
|-.|..|+-.++.|-|++.++.. |. .+|. +.|.. ...-+-.++.|||+.|+|..+
T Consensus 165 GfgaT~LRDAP~aGlYv~fYe~sKq~lph~l~drf~~~~p~~g~v~~~nivN~~sgi~sg~lAt~ 229 (297)
T KOG0766|consen 165 GFGATLLRDAPFAGLYVMFYEQSKQILPHDLVDRFLPSIPVQGTVPHRNIVNFSSGIFSGILATL 229 (297)
T ss_pred cchhhHhccCCccceeeeehhhhhhccchhhhhhcccCCCCCCcccccceeehhHHHHHHHHHHH
Confidence 55789998678999999876542 32 3344 24432 112357889999999999874
No 29
>PF08183 SpoV: Stage V sporulation protein family; InterPro: IPR012609 This family consists of the stage V sporulation (SpoV) proteins of Bacillus subtilis which includes SpoVM. SpoVM is an small, 26 residue-long protein that is produced in the mother cell chamber of the sporangium during the process of sporulation in B. subtilis. SpoVM forms an amphipathic alpha-helix and is recruited to the polar septum shortly after the sporangium undergoes asymmetric division. The function of SpoVM depends on proper subcellular localisation [].
Probab=26.52 E-value=41 Score=19.02 Aligned_cols=15 Identities=33% Similarity=0.494 Sum_probs=12.0
Q ss_pred hhhhHHHHHHhhcCC
Q 029844 134 NILSGVIRGALEMVS 148 (186)
Q Consensus 134 ~~~cGiIrGaL~~lg 148 (186)
-|+.|+|++.|.++.
T Consensus 10 kf~Gg~v~~~L~sf~ 24 (26)
T PF08183_consen 10 KFLGGVVRALLFSFK 24 (26)
T ss_pred HHHhHHHHHHHHHHh
Confidence 368899999998753
No 30
>COG4009 Uncharacterized protein conserved in archaea [Function unknown]
Probab=26.27 E-value=38 Score=24.40 Aligned_cols=18 Identities=44% Similarity=0.730 Sum_probs=15.8
Q ss_pred ccHHHHHHHHHHhhhhHH
Q 029844 40 EEVEEVNKQLDQMGYNIG 57 (186)
Q Consensus 40 ~~~~ev~~~Le~mGy~IG 57 (186)
++.+++++.|++||.+|-
T Consensus 60 ~s~eev~~ele~mga~in 77 (88)
T COG4009 60 ESEEEVERELEDMGAEIN 77 (88)
T ss_pred CCHHHHHHHHHHhCchhc
Confidence 478999999999999875
No 31
>smart00415 HSF heat shock factor.
Probab=25.69 E-value=45 Score=24.35 Aligned_cols=62 Identities=13% Similarity=0.292 Sum_probs=40.8
Q ss_pred HHHHHhhhhhhcCcccc-ccccCCCCCeEEEeecCCcccccccCCCccCCCcchhhhhHHHHHHhhcCCce
Q 029844 81 EVIAKVGFKMFLGVTAT-VSNWDADGTCCSIILEDNPLVDFVELPDTCQGLYYCNILSGVIRGALEMVSMK 150 (186)
Q Consensus 81 ~fI~k~~Wk~lfgk~ad-~l~~t~~~~~y~L~~d~npl~~fv~lp~~~~~l~y~~~~cGiIrGaL~~lg~~ 150 (186)
.|++| +|.++=....+ .+.|++++..|+|. |...+..- .+|.-...-+|.+|.-- |..-||.
T Consensus 4 ~F~~k-L~~~l~~~~~~~iI~W~~~G~~f~I~-d~~~f~~~-vLp~~Fk~~~~~SF~Rq-----Ln~yGF~ 66 (105)
T smart00415 4 PFLTK-LYLLVEDPSTDKIISWSPSGKSFVIW-DPEEFAKN-LLPRYFKHNNFSSFVRQ-----LNMYGFR 66 (105)
T ss_pred cHHHH-HHHHHhCCCCCCEEEECCCCCEEEEc-CHHHHHHH-HHHHhcCCCCHHHHHHH-----HHhcCCE
Confidence 46755 78887776665 66899999999976 54433221 25654455566666533 8899994
No 32
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=24.13 E-value=1.5e+02 Score=20.26 Aligned_cols=17 Identities=12% Similarity=0.053 Sum_probs=8.4
Q ss_pred HHHHHHhhhhHHHHHHH
Q 029844 46 NKQLDQMGYNIGIRLID 62 (186)
Q Consensus 46 ~~~Le~mGy~IG~RLiE 62 (186)
...+++.--.+|.....
T Consensus 33 tdi~~~yl~~l~~~~~~ 49 (77)
T smart00576 33 TDILQSYIQELGRTAHS 49 (77)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34455555555554444
No 33
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=23.74 E-value=70 Score=20.93 Aligned_cols=23 Identities=26% Similarity=0.199 Sum_probs=15.7
Q ss_pred hhhhhHHHHHHhhcCCceEEEEE
Q 029844 133 CNILSGVIRGALEMVSMKTEVTW 155 (186)
Q Consensus 133 ~~~~cGiIrGaL~~lg~~~~v~~ 155 (186)
..+-+.+|++.|++-|++|.+.-
T Consensus 8 ~~~ea~~i~~~L~~~gI~~~v~~ 30 (67)
T PF09413_consen 8 DPIEAELIKGLLEENGIPAFVKN 30 (67)
T ss_dssp -HHHHHHHHHHHHHTT--EE--S
T ss_pred CHHHHHHHHHHHHhCCCcEEEEC
Confidence 35778999999999999987643
No 34
>PF10026 DUF2268: Predicted Zn-dependent protease (DUF2268); InterPro: IPR018728 This domain, found in various hypothetical bacterial proteins, as well as predicted zinc dependent proteases, has no known function.
Probab=23.67 E-value=60 Score=26.35 Aligned_cols=18 Identities=33% Similarity=0.853 Sum_probs=15.9
Q ss_pred HhhhhHHHHHHHHHHhhc
Q 029844 51 QMGYNIGIRLIDEFLAKS 68 (186)
Q Consensus 51 ~mGy~IG~RLiE~~~~r~ 68 (186)
.+||-+|.+|+..++.+.
T Consensus 161 ~~GY~~GY~iVk~yl~~~ 178 (195)
T PF10026_consen 161 WLGYALGYRIVKAYLEKH 178 (195)
T ss_pred cchHHHHHHHHHHHHHHC
Confidence 389999999999999764
No 35
>PF00447 HSF_DNA-bind: HSF-type DNA-binding; InterPro: IPR000232 Heat shock factor (HSF) is a transcriptional activator of heat shock genes []: it binds specifically to heat shock promoter elements, which are palindromic sequences rich with repetitive purine and pyrimidine motifs []. Under normal conditions, HSF is a homo-trimeric cytoplasmic protein, but heat shock activation results in relocalisation to the nucleus []. Each HSF monomer contains one C-terminal and three N-terminal leucine zipper repeats []. Point mutations in these regions result in disruption of cellular localisation, rendering the protein constitutively nuclear []. Two sequences flanking the N-terminal zippers fit the consensus of a bi- partite nuclear localisation signal (NLS). Interaction between the N- and C-terminal zippers may result in a structure that masks the NLS sequences: following activation of HSF, these may then be unmasked, resulting in relocalisation of the protein to the nucleus []. The DNA-binding component of HSF lies to the N terminus of the first NLS region, and is referred to as the HSF domain.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1FBQ_B 1FYL_B 1FBS_A 1FYM_B 3HTS_B 2HTS_A 3HSF_A 1FBU_B 1FYK_A 2LDU_A ....
Probab=22.79 E-value=38 Score=24.50 Aligned_cols=62 Identities=18% Similarity=0.363 Sum_probs=36.9
Q ss_pred HHHHHhhhhhhcCcc-ccccccCCCCCeEEEeecCCcccccccCCCccCCCcchhhhhHHHHHHhhcCCce
Q 029844 81 EVIAKVGFKMFLGVT-ATVSNWDADGTCCSIILEDNPLVDFVELPDTCQGLYYCNILSGVIRGALEMVSMK 150 (186)
Q Consensus 81 ~fI~k~~Wk~lfgk~-ad~l~~t~~~~~y~L~~d~npl~~fv~lp~~~~~l~y~~~~cGiIrGaL~~lg~~ 150 (186)
+|+.| +|.++=... .+.++|+++++.|+|. |.+-+.. .-+|.-...-++++|+- =|..-||.
T Consensus 1 ~F~~k-L~~~l~~~~~~~~I~W~~~G~~fiI~-d~~~f~~-~vLp~~F~~~~~~SF~R-----QLn~yGF~ 63 (103)
T PF00447_consen 1 KFLSK-LYEMLEDPENSDIIRWSPDGDSFIIH-DPEEFEK-EVLPKYFKHSNFSSFVR-----QLNMYGFK 63 (103)
T ss_dssp HHHHH-HHHHHCTTTTTTTCEECTTSSEEEES--HHHHHH-HTHHHHSST--HHHHHH-----HHHHTTEE
T ss_pred ChHHH-HHHHHcCCCCCCEEEEeCCCCEEEEe-ecHHHhh-hccccccCccccceeee-----EeeeeeeE
Confidence 46744 888777654 4557999999999975 5332322 12454445556777642 36777884
No 36
>PF11333 DUF3135: Protein of unknown function (DUF3135); InterPro: IPR021482 This family of proteins with unkown function appears to be restricted to Proteobacteria.
Probab=22.21 E-value=3e+02 Score=19.61 Aligned_cols=67 Identities=13% Similarity=0.357 Sum_probs=51.2
Q ss_pred chhhhHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHhhhhHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhhhcC
Q 029844 15 NVERVNAELFTLTYGATVRQLLTDLEEVEEVNKQLDQMGYNIGIRLIDEFLAKSNVTRCVDFRETAEVIAKVGFKMFLG 93 (186)
Q Consensus 15 ~~~~vs~~~f~~l~~e~V~q~~~~~~~~~ev~~~Le~mGy~IG~RLiE~~~~r~~~~R~~~~ld~l~fI~k~~Wk~lfg 93 (186)
...+-+.+.|+-+--+++.+++... .++...+|..+=+.|=..+ .||.++...+.-|.+.+|..+.+
T Consensus 11 ~LA~~dPe~fe~lr~~~~ee~I~~a--~~~~q~rL~~lQ~~Id~~~----------~~~knP~~~~~~l~~~m~~~~~~ 77 (83)
T PF11333_consen 11 ELAQNDPEAFEQLRQELIEEMIESA--PEEMQPRLRALQFHIDMQR----------SRCKNPLHRCVLLSRMMYEQFYK 77 (83)
T ss_pred HHHHhCHHHHHHHHHHHHHHHHHhC--CHHHHHHHHHHHHHHHHHH----------HHcCChHHHHHHHHHHHHHHHHH
Confidence 4556688999999999997787643 4455678888888764332 47999999999999999987754
No 37
>PF05119 Terminase_4: Phage terminase, small subunit; InterPro: IPR006448 This entry is represented by Streptococcus phage 7201, Orf21. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This group of sequences describe the distinct family of phage (and integrated prophage) putative terminase small subunit sequnces. Members tend to be encoded by the gene adjacent to the phage terminase large subunit gene.
Probab=22.10 E-value=1e+02 Score=21.58 Aligned_cols=34 Identities=12% Similarity=0.186 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHhccccHHHHHHHHHHhhhh
Q 029844 22 ELFTLTYGATVRQLLTDLEEVEEVNKQLDQMGYN 55 (186)
Q Consensus 22 ~~f~~l~~e~V~q~~~~~~~~~ev~~~Le~mGy~ 55 (186)
..+.-+...++..||.......+.++.|++.|+-
T Consensus 16 ~~l~~~D~~~l~~yc~~~~~~~~~~~~l~~~G~~ 49 (100)
T PF05119_consen 16 GILSNLDVPLLERYCEAYSRYREAEKELKKEGFV 49 (100)
T ss_pred CCCcHhHHHHHHHHHHHHHHHHHHHHHHHHcCce
Confidence 3577777888888888777788888889998876
No 38
>PF01316 Arg_repressor: Arginine repressor, DNA binding domain; InterPro: IPR020900 The arginine dihydrolase (AD) pathway is found in many prokaryotes and some primitive eukaryotes, an example of the latter being Giardia lamblia (Giardia intestinalis) []. The three-enzyme anaerobic pathway breaks down L-arginine to form 1 mol of ATP, carbon dioxide and ammonia. In simpler bacteria, the first enzyme, arginine deiminase, can account for up to 10% of total cell protein []. Most prokaryotic arginine deiminase pathways are under the control of a repressor gene, termed ArgR []. This is a negative regulator, and will only release the arginine deiminase operon for expression in the presence of arginine []. The crystal structure of apo-ArgR from Bacillus stearothermophilus has been determined to 2.5A by means of X-ray crystallography []. The protein exists as a hexamer of identical subunits, and is shown to have six DNA-binding domains, clustered around a central oligomeric core when bound to arginine. It predominantly interacts with A.T residues in ARG boxes. This hexameric protein binds DNA at its N terminus to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbour-joining tree, some of these paralogous sequences show long branches and differ significantly from the well-conserved C-terminal region. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0006525 arginine metabolic process; PDB: 1AOY_A 3V4G_A 3LAJ_D 3FHZ_A 3LAP_B 3ERE_D 2P5L_C 1F9N_D 2P5K_A 1B4A_A ....
Probab=22.04 E-value=1.8e+02 Score=19.97 Aligned_cols=35 Identities=23% Similarity=0.380 Sum_probs=22.8
Q ss_pred HHHHHHhccc--cHHHHHHHHHHhhhhHHHHHHHHHH
Q 029844 31 TVRQLLTDLE--EVEEVNKQLDQMGYNIGIRLIDEFL 65 (186)
Q Consensus 31 ~V~q~~~~~~--~~~ev~~~Le~mGy~IG~RLiE~~~ 65 (186)
++.++++... +-+++-..|++.|+.|-+.=+-+-+
T Consensus 9 ~I~~li~~~~i~sQ~eL~~~L~~~Gi~vTQaTiSRDL 45 (70)
T PF01316_consen 9 LIKELISEHEISSQEELVELLEEEGIEVTQATISRDL 45 (70)
T ss_dssp HHHHHHHHS---SHHHHHHHHHHTT-T--HHHHHHHH
T ss_pred HHHHHHHHCCcCCHHHHHHHHHHcCCCcchhHHHHHH
Confidence 4446666654 8889999999999999876665443
No 39
>PF12854 PPR_1: PPR repeat
Probab=20.88 E-value=1.8e+02 Score=16.53 Aligned_cols=27 Identities=22% Similarity=0.334 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHhccccHHHHHHHHHHh
Q 029844 25 TLTYGATVRQLLTDLEEVEEVNKQLDQM 52 (186)
Q Consensus 25 ~~l~~e~V~q~~~~~~~~~ev~~~Le~m 52 (186)
..+|..||.-||+.. ..++..+-+++|
T Consensus 7 ~~ty~~lI~~~Ck~G-~~~~A~~l~~~M 33 (34)
T PF12854_consen 7 VVTYNTLIDGYCKAG-RVDEAFELFDEM 33 (34)
T ss_pred HhHHHHHHHHHHHCC-CHHHHHHHHHhC
Confidence 357888998888754 344444445444
No 40
>COG5169 HSF1 Heat shock transcription factor [Transcription]
Probab=20.79 E-value=1.1e+02 Score=26.79 Aligned_cols=35 Identities=17% Similarity=0.392 Sum_probs=26.6
Q ss_pred HHHHHHHhhhhhhcCc-cccccccCCCCCeEEEeecCC
Q 029844 79 TAEVIAKVGFKMFLGV-TATVSNWDADGTCCSIILEDN 115 (186)
Q Consensus 79 ~l~fI~k~~Wk~lfgk-~ad~l~~t~~~~~y~L~~d~n 115 (186)
+-+||.| +|.++-+= .-+.++|++++..|+|. |.+
T Consensus 10 ~~~FV~K-Ly~iLe~~e~~k~I~Ws~~G~sfvI~-~~~ 45 (282)
T COG5169 10 PKEFVHK-LYQILEEPEYYKLIQWSPDGRSFVIL-DPE 45 (282)
T ss_pred hhHHHHH-HHHHhcCcccCCceEECCCCCEEEEe-Ccc
Confidence 4478866 99999884 44555999999999987 643
Done!