Query 029904
Match_columns 185
No_of_seqs 104 out of 482
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 05:29:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029904.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029904hhsearch_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 3.9E-58 8.4E-63 361.7 10.4 179 6-184 3-183 (183)
2 PTZ00391 transport protein par 100.0 4E-50 8.7E-55 322.8 15.4 157 19-177 2-162 (168)
3 PF04051 TRAPP: Transport prot 100.0 3.8E-47 8.3E-52 300.8 16.9 150 22-174 1-152 (152)
4 KOG3315 Transport protein part 100.0 8.7E-43 1.9E-47 277.7 12.9 164 6-177 9-184 (191)
5 COG5128 Transport protein part 100.0 3.8E-40 8.3E-45 262.6 13.2 174 3-177 19-202 (208)
6 KOG3316 Transport protein part 100.0 4.5E-35 9.7E-40 229.6 12.5 145 21-173 5-162 (163)
7 COG1719 Predicted hydrocarbon 95.5 0.54 1.2E-05 37.5 12.5 132 19-173 25-157 (158)
8 PF02830 V4R: V4R domain; Int 92.3 0.33 7.1E-06 32.5 4.6 40 131-170 21-61 (62)
9 TIGR02019 BchJ bacteriochlorop 89.2 2.2 4.7E-05 35.2 7.5 117 42-169 63-188 (188)
10 COG2345 Predicted transcriptio 87.6 4.7 0.0001 34.1 8.6 143 12-173 70-215 (218)
11 PF14196 ATC_hydrolase: L-2-am 86.2 9.9 0.00021 28.8 9.3 133 19-168 13-148 (149)
12 PF09536 DUF2378: Protein of u 73.3 6.9 0.00015 31.9 4.7 39 129-170 137-176 (178)
13 smart00843 Ftsk_gamma This dom 66.6 14 0.00031 25.2 4.3 39 26-66 6-46 (63)
14 TIGR02265 Mxa_TIGR02265 Myxoco 65.0 11 0.00024 30.9 4.2 39 129-170 138-177 (179)
15 PF07700 HNOB: Heme NO binding 62.3 62 0.0013 25.5 8.1 99 45-156 64-167 (171)
16 PF09397 Ftsk_gamma: Ftsk gamm 60.3 20 0.00043 24.6 4.2 39 26-66 7-47 (65)
17 smart00415 HSF heat shock fact 60.1 5.2 0.00011 29.4 1.4 62 80-149 4-66 (105)
18 PF05266 DUF724: Protein of un 57.4 16 0.00034 30.2 3.8 47 21-67 46-103 (190)
19 PF06505 XylR_N: Activator of 57.1 28 0.0006 26.0 4.8 54 6-64 10-66 (103)
20 PF13314 DUF4083: Domain of un 57.0 26 0.00056 23.6 4.1 30 22-51 18-51 (58)
21 COG5169 HSF1 Heat shock transc 56.5 13 0.00029 32.5 3.5 63 78-148 10-73 (282)
22 PF14056 DUF4250: Domain of un 55.5 11 0.00023 25.2 2.1 22 33-54 25-47 (55)
23 PF00447 HSF_DNA-bind: HSF-typ 53.0 4.9 0.00011 29.3 0.2 62 80-149 1-63 (103)
24 PRK14741 spoVM stage V sporula 43.2 16 0.00034 20.6 1.2 14 133-146 10-23 (26)
25 PF05119 Terminase_4: Phage te 40.5 21 0.00045 25.3 1.9 46 9-54 1-49 (100)
26 KOG0037 Ca2+-binding protein, 37.1 92 0.002 26.5 5.4 47 19-66 112-168 (221)
27 PF11848 DUF3368: Domain of un 34.5 48 0.001 20.9 2.7 27 40-66 20-46 (48)
28 PF11565 PorB: Alpha helical P 34.0 29 0.00063 25.8 1.7 20 129-148 15-34 (98)
29 PF07524 Bromo_TP: Bromodomain 33.1 86 0.0019 21.4 4.0 16 40-55 60-75 (77)
30 COG5558 Transposase [DNA repli 32.6 93 0.002 26.3 4.7 85 13-111 13-100 (261)
31 COG4009 Uncharacterized protei 29.1 32 0.00069 24.8 1.2 18 39-56 60-77 (88)
32 PF07530 PRE_C2HC: Associated 29.0 1.2E+02 0.0026 20.7 4.1 40 136-175 1-41 (68)
33 COG1693 Repressor of nif and g 28.8 98 0.0021 27.6 4.4 40 27-66 8-49 (325)
34 PF01535 PPR: PPR repeat; Int 27.7 77 0.0017 16.6 2.5 27 26-52 2-30 (31)
35 PF10026 DUF2268: Predicted Zn 24.7 55 0.0012 26.5 2.1 18 50-67 161-178 (195)
36 PF01316 Arg_repressor: Argini 24.7 1.5E+02 0.0033 20.4 4.0 34 30-63 9-44 (70)
37 smart00576 BTP Bromodomain tra 24.6 1.6E+02 0.0035 20.2 4.2 58 22-82 4-68 (77)
38 PF13040 DUF3901: Protein of u 24.3 79 0.0017 19.7 2.2 26 25-50 6-35 (40)
39 PHA03081 putative metalloprote 22.8 13 0.00028 35.2 -2.1 13 129-141 498-510 (595)
40 PF09413 DUF2007: Domain of un 22.6 76 0.0016 20.8 2.1 23 132-154 8-30 (67)
41 COG2733 Predicted membrane pro 22.6 80 0.0017 29.2 2.8 97 34-142 306-405 (415)
42 PF03410 Peptidase_M44: Protei 22.4 13 0.00029 35.2 -2.2 14 129-142 494-507 (590)
43 KOG0766 Predicted mitochondria 21.2 85 0.0018 27.1 2.6 57 90-146 163-229 (297)
44 PF08183 SpoV: Stage V sporula 20.9 61 0.0013 18.3 1.1 14 134-147 11-24 (26)
45 PF12854 PPR_1: PPR repeat 20.7 1.8E+02 0.0039 16.5 3.7 27 24-51 7-33 (34)
46 PRK14086 dnaA chromosomal repl 20.4 2.9E+02 0.0062 27.0 6.3 70 29-103 469-549 (617)
No 1
>KOG3330 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=3.9e-58 Score=361.66 Aligned_cols=179 Identities=60% Similarity=0.985 Sum_probs=173.8
Q ss_pred CCcchhhhhccch-hhhHHHHHHHHHHHHHHhccccHHHHHHHHHHhhhhHHHHHHHHHHhhcCCCCCCCHHHHHHHHHH
Q 029904 6 PRSGDAIFANVER-NAELFTLTYGATVRQLLTDLEEVEEVNKQLDQMGYNIGIRLIDEFLAKSNVTRCVDFRETAEVIAK 84 (185)
Q Consensus 6 ~~~g~~~~~~~~~-s~~~f~ll~~elV~q~~~~~~~~~ev~~~Le~mGy~IG~RL~E~~~~r~~~~R~~~~ld~l~fI~k 84 (185)
++.|+++|++.+| |+|+|.+|||+||+|+|+|+++.++||++|++||||||.||+|+|++|++.|||.|++++.+.|||
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 4689999999999 999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhcCccccccccCCCCCeEEEEecCCcccccccCCCc-cCCCcchhhhhHHHHHHhhcCCceEEEEEeecccCCCC
Q 029904 85 VGFKMFLGVTATVSNWDADGTCCSIILEDNPLVDFVELPDT-CQGLYYCNILSGVIRGALEMVSMKTEVTWIRDVLRGDD 163 (185)
Q Consensus 85 ~~Wk~~fgk~ad~l~~t~~~~~y~L~~d~npl~~fvslP~~-~~~l~y~~~~cGiIrGaL~~lg~~~~v~~~~d~l~g~~ 163 (185)
.+||||+|+++....|++++++|+|++++|||.+||+.|++ .+.+||++++||+|||||++++|+|.|.|++|.++||.
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 029904 164 AYELQVKLLKQVPEEYPYKDD 184 (185)
Q Consensus 164 ~t~~~Ikf~~~~~~~~~~~~~ 184 (185)
.|+|+|+|.+++.|++|+++|
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=4e-50 Score=322.78 Aligned_cols=157 Identities=17% Similarity=0.242 Sum_probs=142.3
Q ss_pred hhhHHHHHHHHHHHHHHhccc-cHHHHHHHHHHhhhhHHHHHHHHHHhhc-CCCCCCCHHHHHHHHHHhhhhhhcCcccc
Q 029904 19 NAELFTLTYGATVRQLLTDLE-EVEEVNKQLDQMGYNIGIRLIDEFLAKS-NVTRCVDFRETAEVIAKVGFKMFLGVTAT 96 (185)
Q Consensus 19 s~~~f~ll~~elV~q~~~~~~-~~~ev~~~Le~mGy~IG~RL~E~~~~r~-~~~R~~~~ld~l~fI~k~~Wk~~fgk~ad 96 (185)
|+|+|+|||+||| ||++++. +.++++++|++|||+||.||+|++..|+ +.+|+++++++|+|||+++|+.+||||+|
T Consensus 2 slsafafLf~EmV-~y~~~~~~~~~ele~rL~~~G~~VG~rllE~l~~r~~~~~R~~~~L~iLkFI~~~~W~~lFgk~aD 80 (168)
T PTZ00391 2 SLSSFAFLFSEIV-QYCLSKSKRGYRLEDKLHEMGLRVGYKLNELLPYREKNQKRETKILSILTFISKHVWKYLFGHSSD 80 (168)
T ss_pred CHHHHHHHHHHHH-HHHHhcCCcHHHHHHHHHHHhHHHhHHHHHHHHHhccCCCccchHHHHHHHHHHHHHHHHhCchhh
Confidence 7899999999999 7888776 8889999999999999999999999886 46899999999999999999999999999
Q ss_pred ccccCCCCCeEEEEecCCcc-cccccCCCccCCCcchhhhhHHHHHHhhcCCceEEEEEeecccCCCC-ceEEEEEeccc
Q 029904 97 VSNWDADGTCCSIILEDNPL-VDFVELPDTCQGLYYCNILSGVIRGALEMVSMKTEVTWIRDVLRGDD-AYELQVKLLKQ 174 (185)
Q Consensus 97 ~l~~t~~~~~y~L~~d~npl-~~fvslP~~~~~l~y~~~~cGiIrGaL~~lg~~~~v~~~~d~l~g~~-~t~~~Ikf~~~ 174 (185)
+|+.++++|+|||+ |++|+ ++|+|+|++++.++|++|+||||||||+++||+|+|+....+..+.| +|+|.|||+++
T Consensus 81 ~Lkt~d~~~~Y~i~-Dn~~~~~~~iS~p~~~~~~~~~aF~~GII~G~L~~~Gf~a~VTA~~~~~~~~~~~t~~likf~~~ 159 (168)
T PTZ00391 81 LLKSQDSDDEYMIN-DKNLLLNKFISVPKDLGHINCAAFAAGIVEGILCSAEFPANVTAHTVEDTPKNFSTTILIKFYPE 159 (168)
T ss_pred hhcccCCCCeEEEE-eCchhheeeeeccccccccchhhhhHHHHHHHHhhCCCCcEEEEEeccCCCCCCceEEEEEecHH
Confidence 99855789999999 99997 67999999999999999999999999999999886666555444544 99999999999
Q ss_pred ccc
Q 029904 175 VPE 177 (185)
Q Consensus 175 ~~~ 177 (185)
|.+
T Consensus 160 v~~ 162 (168)
T PTZ00391 160 VIE 162 (168)
T ss_pred HHH
Confidence 875
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=3.8e-47 Score=300.79 Aligned_cols=150 Identities=39% Similarity=0.563 Sum_probs=134.8
Q ss_pred HHHHHHHHHHHHHHhccccHHHHHHHHHHhhhhHHHHHHHHHHhh-cCCCCCCCHHHHHHHHHHhhhhhhcCcccccccc
Q 029904 22 LFTLTYGATVRQLLTDLEEVEEVNKQLDQMGYNIGIRLIDEFLAK-SNVTRCVDFRETAEVIAKVGFKMFLGVTATVSNW 100 (185)
Q Consensus 22 ~f~ll~~elV~q~~~~~~~~~ev~~~Le~mGy~IG~RL~E~~~~r-~~~~R~~~~ld~l~fI~k~~Wk~~fgk~ad~l~~ 100 (185)
+|+|||+|||+++.+ +++.++++++|++|||+||.||+|+++.+ ...+||.+++|+++||||++|+++||||+|+|+
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 699999999966666 55999999999999999999999999998 567999999999999999999999999999999
Q ss_pred CCC-CCeEEEEecCCcccccccCCCccCCCcchhhhhHHHHHHhhcCCceEEEEEeecccCCCCceEEEEEeccc
Q 029904 101 DAD-GTCCSIILEDNPLVDFVELPDTCQGLYYCNILSGVIRGALEMVSMKTEVTWIRDVLRGDDAYELQVKLLKQ 174 (185)
Q Consensus 101 t~~-~~~y~L~~d~npl~~fvslP~~~~~l~y~~~~cGiIrGaL~~lg~~~~v~~~~d~l~g~~~t~~~Ikf~~~ 174 (185)
+|| +|+|+|+..++|+++|+++|++++.++|++|+||||||||+++||+|+|++..+.+ .+|.++|.|||+++
T Consensus 79 ~n~~~~~y~i~d~~~~~~~~v~~p~~~~~l~~~~f~~GiIrGaL~~lg~~~~Vta~~~~~-~~~~~~f~Ik~~~~ 152 (152)
T PF04051_consen 79 TNHDRGEYVITDNDFPLNQFVSLPEEYEGLNYLAFPCGIIRGALESLGFPAEVTAESDPL-NGPQTTFQIKFEKQ 152 (152)
T ss_dssp EETTSTEEEEEEST-CCCTTSTTCGCGTTSHTTHHHHHHHHHHHHHTTEEEEEEEEECCC-GTTEEEEEEEEEHH
T ss_pred ccCCCCeEEEecCccchhhhhccchhhccCchhhhHHHHHHHHHHHCCCceEEEEEEecc-CCCCeEEEEEEecC
Confidence 555 99999995557789999999988899999999999999999999999999999988 34789999999863
No 4
>KOG3315 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=8.7e-43 Score=277.65 Aligned_cols=164 Identities=20% Similarity=0.359 Sum_probs=147.0
Q ss_pred CCcchhhhhc------cchhhhHHHHHHHHHHHHHHhccc-cHHHHHHHHHHhhhhHHHHHHHHHHhhc-CCCCCCCHHH
Q 029904 6 PRSGDAIFAN------VERNAELFTLTYGATVRQLLTDLE-EVEEVNKQLDQMGYNIGIRLIDEFLAKS-NVTRCVDFRE 77 (185)
Q Consensus 6 ~~~g~~~~~~------~~~s~~~f~ll~~elV~q~~~~~~-~~~ev~~~Le~mGy~IG~RL~E~~~~r~-~~~R~~~~ld 77 (185)
.+.+.+|+++ ++.|+|+|||||+||| ||++... ++.+++.+|.++||+||.||+|.+..|+ +.+|+++++.
T Consensus 9 ~~~~s~il~~~L~~~rtEvslS~fA~Lfsemi-qy~q~qv~tv~d~e~kL~~~G~~VG~rllel~~~rEr~~kREtkilg 87 (191)
T KOG3315|consen 9 MRIPSNILDKSLSKGRTEVSLSAFAFLFSEMI-QYLQSQVFTVADLETKLADYGYQVGIRLLELLNFRERGQKRETKILG 87 (191)
T ss_pred cccccchhhhhhhccCccccHHHHHHHHHHHH-HHHHHhcccHHHHHHHHHHHHHHHhHHHHHHHHHHhhcchhHHHHHH
Confidence 3445555543 3449999999999999 8999886 9999999999999999999999999997 6789999999
Q ss_pred HHHHHHHhhhhhhcCccccccc-cCCCCCeEEEEecCCcc-cccccCCCccCCCcchhhhhHHHHHHhhcCCceE--EEE
Q 029904 78 TAEVIAKVGFKMFLGVTATVSN-WDADGTCCSIILEDNPL-VDFVELPDTCQGLYYCNILSGVIRGALEMVSMKT--EVT 153 (185)
Q Consensus 78 ~l~fI~k~~Wk~~fgk~ad~l~-~t~~~~~y~L~~d~npl-~~fvslP~~~~~l~y~~~~cGiIrGaL~~lg~~~--~v~ 153 (185)
++.||+.++||++|||.+|.|+ .+++.++|+|+ |++|+ ++|+|+|++++.++|.+|+||||+|+|.+.||+| |||
T Consensus 88 iL~fi~~tvwk~Lfgk~ad~LEka~d~~~tYmii-d~~pl~n~fISVPke~~~lnc~~fvaGIiea~L~~agfpckVTAh 166 (191)
T KOG3315|consen 88 ILQFIHSTVWKYLFGKEADKLEKANDDDRTYMII-DKEPLVNTFISVPKENGTLNCAAFVAGIIEAVLDNAGFPCKVTAH 166 (191)
T ss_pred HHHHHHHHHHHHHhcchHHHHHhcccccceEEEE-cCcchhhhceecccccCcccHHHHHHHHHHHHHHhCCCCCceeee
Confidence 9999999999999999999995 57889999999 99998 6699999999999999999999999999999977 777
Q ss_pred EeecccCCCCceEEEEEecccccc
Q 029904 154 WIRDVLRGDDAYELQVKLLKQVPE 177 (185)
Q Consensus 154 ~~~d~l~g~~~t~~~Ikf~~~~~~ 177 (185)
|++ .+|+++|||++.|.+
T Consensus 167 ~~P------~gt~~~IkF~~~Via 184 (191)
T KOG3315|consen 167 WHP------EGTTYLIKFDESVIA 184 (191)
T ss_pred ecC------CCCeEEEEecHHHHh
Confidence 776 249999999999865
No 5
>COG5128 Transport protein particle (TRAPP) complex subunit [Intracellular trafficking and secretion]
Probab=100.00 E-value=3.8e-40 Score=262.59 Aligned_cols=174 Identities=18% Similarity=0.300 Sum_probs=155.8
Q ss_pred CCCCCcchhhhhc------cchhhhHHHHHHHHHHHHHHhccccHHHHHHHHHHhhhhHHHHHHHHHHhhc-CCCCCCCH
Q 029904 3 PVGPRSGDAIFAN------VERNAELFTLTYGATVRQLLTDLEEVEEVNKQLDQMGYNIGIRLIDEFLAKS-NVTRCVDF 75 (185)
Q Consensus 3 ~~~~~~g~~~~~~------~~~s~~~f~ll~~elV~q~~~~~~~~~ev~~~Le~mGy~IG~RL~E~~~~r~-~~~R~~~~ 75 (185)
+.++-+|+.+|.. .+.++|+|+|+|.||+.++........+++.+|.++||+||+||+|++.+|. +.+|+.++
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 4578899999853 2339999999999999666656668999999999999999999999999987 78899999
Q ss_pred HHHHHHHHHhhhhhhcCccccccc-cCCCCCeEEEEecCCcc-cccccCCCccCCCcchhhhhHHHHHHhhcCCceEEEE
Q 029904 76 RETAEVIAKVGFKMFLGVTATVSN-WDADGTCCSIILEDNPL-VDFVELPDTCQGLYYCNILSGVIRGALEMVSMKTEVT 153 (185)
Q Consensus 76 ld~l~fI~k~~Wk~~fgk~ad~l~-~t~~~~~y~L~~d~npl-~~fvslP~~~~~l~y~~~~cGiIrGaL~~lg~~~~v~ 153 (185)
++++++|+-++|+++||+.+|.+. +.+..++|||+ |++|+ ++|+|+|+++++++|.+|+||||+|+|.+.||+|.|+
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 999999999999999999999994 46778999999 99997 7899999999999999999999999999999999888
Q ss_pred EeecccCCCC-ceEEEEEecccccc
Q 029904 154 WIRDVLRGDD-AYELQVKLLKQVPE 177 (185)
Q Consensus 154 ~~~d~l~g~~-~t~~~Ikf~~~~~~ 177 (185)
..+.+..+.| +|+|+|++++.|.+
T Consensus 178 Ah~~P~~~~p~Rtv~lI~~d~~vi~ 202 (208)
T COG5128 178 AHPEPSENLPNRTVFLIRIDDLVIA 202 (208)
T ss_pred eccCcccCCCcceEEEEEecHHHHh
Confidence 8777777755 99999999998864
No 6
>KOG3316 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.5e-35 Score=229.63 Aligned_cols=145 Identities=16% Similarity=0.174 Sum_probs=115.4
Q ss_pred hHHHHHHHHHHHHHHhccc----------cHHHHHHHHHHhhhhHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhhh
Q 029904 21 ELFTLTYGATVRQLLTDLE----------EVEEVNKQLDQMGYNIGIRLIDEFLAKSNVTRCVDFRETAEVIAKVGFKMF 90 (185)
Q Consensus 21 ~~f~ll~~elV~q~~~~~~----------~~~ev~~~Le~mGy~IG~RL~E~~~~r~~~~R~~~~ld~l~fI~k~~Wk~~ 90 (185)
-+|++|+.|||+ ++...+ ...+..++||.|||+||.+|.|+++. +++|+.+.+|+|||||||+|+..
T Consensus 5 v~f~~Lh~EmV~-~~~~~e~d~e~g~~~~~k~~~~~~LE~IGFqVG~~L~Erl~~--e~~rf~deLeimKFiCkDfW~~V 81 (163)
T KOG3316|consen 5 VLFDFLHNEMVH-TALRSEEDSENGRASIEKSHDLARLESIGFQVGRKLSERLTR--ERNRFKDELEIMKFICKDFWSIV 81 (163)
T ss_pred HHHHHHHHHHHH-HHHHhcchhhcccccccchHHHHHHHHhhhHHHHHHHHHHhh--hhhhHHHHHHHHHHHHHHHHHHH
Confidence 369999999995 444331 23346799999999999999999995 46799999999999999999999
Q ss_pred cCccccccccCCCCCeEEEEecCC--cccccccCCCc-cCCCcchhhhhHHHHHHhhcCCceEEEEEeecccCCCCceEE
Q 029904 91 LGVTATVSNWDADGTCCSIILEDN--PLVDFVELPDT-CQGLYYCNILSGVIRGALEMVSMKTEVTWIRDVLRGDDAYEL 167 (185)
Q Consensus 91 fgk~ad~l~~t~~~~~y~L~~d~n--pl~~fvslP~~-~~~l~y~~~~cGiIrGaL~~lg~~~~v~~~~d~l~g~~~t~~ 167 (185)
|+||+|||| |||+|+|||+ |+. +|+++..--+. .....|++|+||+|||+|+++|+++.|+..-. .-|.+-|
T Consensus 82 F~KQiDNLr-TNhrG~yVlq-D~~Fr~l~~~s~G~~~~~~a~~flaFpcGliRGvLs~LGi~siVtA~v~---slPtckF 156 (163)
T KOG3316|consen 82 FKKQIDNLR-TNHRGTYVLQ-DNKFRWLTSMSPGTQYLEEAPKFLAFPCGLIRGVLSNLGISSIVTASVS---SLPTCKF 156 (163)
T ss_pred Hhhhhhhcc-ccCCceEEEe-cCceeeeeecCchhHHHHhcCCeEEeehhHHHHHHhhCCCceEEeeecC---CCCceEE
Confidence 999999999 9999999998 553 34444321111 23458999999999999999999987765332 2378999
Q ss_pred EEEecc
Q 029904 168 QVKLLK 173 (185)
Q Consensus 168 ~Ikf~~ 173 (185)
+|++.+
T Consensus 157 hV~v~~ 162 (163)
T KOG3316|consen 157 HVQVQP 162 (163)
T ss_pred EEEecC
Confidence 998764
No 7
>COG1719 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]
Probab=95.50 E-value=0.54 Score=37.49 Aligned_cols=132 Identities=22% Similarity=0.232 Sum_probs=78.4
Q ss_pred hhhHHHHHHHHHHHHHHhccccHHHHHHHHHHhhhhHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhhhcCcccccc
Q 029904 19 NAELFTLTYGATVRQLLTDLEEVEEVNKQLDQMGYNIGIRLIDEFLAKSNVTRCVDFRETAEVIAKVGFKMFLGVTATVS 98 (185)
Q Consensus 19 s~~~f~ll~~elV~q~~~~~~~~~ev~~~Le~mGy~IG~RL~E~~~~r~~~~R~~~~ld~l~fI~k~~Wk~~fgk~ad~l 98 (185)
..+..++.++.+. -+..... ......+.++|+.+|..++. ...+.++..|+.- |....+...+.-
T Consensus 25 ~~~~~~~~~~~~~-~~~~~~~--~~~~~~~y~~G~~~G~~l~~----------~~~~~~~~~f~~~--~~~~~~~v~~~~ 89 (158)
T COG1719 25 DIEVDAFLIAALR-ALKKYLG--IGAEPVLYEAGKEIGKALIK----------EKLIEELENFLEF--WEEVGGGVLEVE 89 (158)
T ss_pred cccHHHHHHHHHH-HHHHHhc--cCcHHHHHHHHHHHHHHhcc----------hhchHHHHHHHHH--HHhhcceEEEcc
Confidence 4555666666555 2222222 12245788899999998886 2233444444422 665555433332
Q ss_pred ccCCCCCeEEEEecCCcccccccCCCccCCCcchhhhhHHHHHHhhcCCc-eEEEEEeecccCCCCceEEEEEecc
Q 029904 99 NWDADGTCCSIILEDNPLVDFVELPDTCQGLYYCNILSGVIRGALEMVSM-KTEVTWIRDVLRGDDAYELQVKLLK 173 (185)
Q Consensus 99 ~~t~~~~~y~L~~d~npl~~fvslP~~~~~l~y~~~~cGiIrGaL~~lg~-~~~v~~~~d~l~g~~~t~~~Ikf~~ 173 (185)
.+......+. +..+-.. +|. .+-.-+.+.+|+|.|+|+...= ++.|.=++....|++.++|+|+...
T Consensus 90 --~~~~~~v~v~-~c~~c~~---~p~--~~ePvC~~~aG~iag~l~~~~~k~~~v~Et~C~~~G~~~C~F~i~~~~ 157 (158)
T COG1719 90 --EEEPLVVEVY-DCIECAG---LPG--IGEPVCHLEAGFIAGFLEEILGKKVEVEETECAAEGDDRCVFEIRLKD 157 (158)
T ss_pred --cCCCceEEEE-cCchhhc---CCC--CCCcchhHHhhHHHHHHHHHhCCCeEEEEEEEeecCCCceEEEEEecC
Confidence 1112333332 3332233 443 2334578999999999998655 5678778888889999999998754
No 8
>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=92.34 E-value=0.33 Score=32.46 Aligned_cols=40 Identities=23% Similarity=0.361 Sum_probs=31.9
Q ss_pred chhhhhHHHHHHhhc-CCceEEEEEeecccCCCCceEEEEE
Q 029904 131 YCNILSGVIRGALEM-VSMKTEVTWIRDVLRGDDAYELQVK 170 (185)
Q Consensus 131 y~~~~cGiIrGaL~~-lg~~~~v~~~~d~l~g~~~t~~~Ik 170 (185)
-.+|.+|++.|+++. .|-+++|+=++....|++..+|.|+
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 457999999999965 4668899999999999999999986
No 9
>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=89.18 E-value=2.2 Score=35.24 Aligned_cols=117 Identities=15% Similarity=0.160 Sum_probs=63.6
Q ss_pred HHHHHHHHHhhhhHHHHH-HHHHHhhcCCCCCCCHHH-------HHHHHHHhhhhhhcCccccccccCCCCCeEEEEecC
Q 029904 42 EEVNKQLDQMGYNIGIRL-IDEFLAKSNVTRCVDFRE-------TAEVIAKVGFKMFLGVTATVSNWDADGTCCSIILED 113 (185)
Q Consensus 42 ~ev~~~Le~mGy~IG~RL-~E~~~~r~~~~R~~~~ld-------~l~fI~k~~Wk~~fgk~ad~l~~t~~~~~y~L~~d~ 113 (185)
+.-..-|.+.|.+.|.++ .+++-. -..+..+.++ .+.-|.|++|+ +-|--- +. -..++.-+|...+
T Consensus 63 ~aa~~vl~~~G~~ta~y~l~~rIp~--~~q~~Lr~lp~~~~~r~l~~aI~k~aWt-f~G~G~--fs-~~~~~~l~i~I~d 136 (188)
T TIGR02019 63 TAAARLLRESGLATADYILANRIPP--PAQRLIRALPAGLAARVLLTAIAKHAWT-FAGSGK--FR-YVSGPPLSFEIAR 136 (188)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHhhH--HHHHHHHHCChHHHHHHHHHHHHHHHHh-hcccce--EE-EeeCCCeEEEEec
Confidence 344566777777666666 333221 0111222222 34456899996 322111 21 1122223333355
Q ss_pred CcccccccCCCccCCCcchhhhhHHHHHHhhcC-CceEEEEEeecccCCCCceEEEE
Q 029904 114 NPLVDFVELPDTCQGLYYCNILSGVIRGALEMV-SMKTEVTWIRDVLRGDDAYELQV 169 (185)
Q Consensus 114 npl~~fvslP~~~~~l~y~~~~cGiIrGaL~~l-g~~~~v~~~~d~l~g~~~t~~~I 169 (185)
+|...- +|. +... +.|-+|+++|.++.+ +=+++|.-+...-.|++.+.|.|
T Consensus 137 s~~a~~--~~~--~~P~-C~~~aGife~lFs~lv~~~~~v~Et~C~a~G~~~C~F~~ 188 (188)
T TIGR02019 137 NPVVAG--ESS--DTPV-CHWYAAVFERLLRRLVWPHVAVRETACCAKGAPRCRFEL 188 (188)
T ss_pred Chhhhc--CCC--CCce-eeeeHHHHHHHHHHHhCCCceEEeehHhhcCCCcceeeC
Confidence 555432 121 3333 668899999998864 55778888888888999988864
No 10
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=87.58 E-value=4.7 Score=34.09 Aligned_cols=143 Identities=19% Similarity=0.241 Sum_probs=88.1
Q ss_pred hhhccchhhhHHHHHHHHHHHHHHhccc---cHHHHHHHHHHhhhhHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhh
Q 029904 12 IFANVERNAELFTLTYGATVRQLLTDLE---EVEEVNKQLDQMGYNIGIRLIDEFLAKSNVTRCVDFRETAEVIAKVGFK 88 (185)
Q Consensus 12 ~~~~~~~s~~~f~ll~~elV~q~~~~~~---~~~ev~~~Le~mGy~IG~RL~E~~~~r~~~~R~~~~ld~l~fI~k~~Wk 88 (185)
+|+-+++..+.|.--|+++..+++...+ +.+.++.-|++.+-+ +++.+..... + ..+.-+.++-+..-.
T Consensus 70 ~y~Lt~~g~~~f~~~y~~l~~~~l~~l~~~~G~~~l~~~l~~r~~~----~~~~~~~~~~-~-~~~~ee~~e~Lv~l~-- 141 (218)
T COG2345 70 LYRLTEKGREQFPKRYGELALALLDALEETGGEEALNAFLEKRAQA----IGAQYRPAMG-G-DADLEEKVERLVELL-- 141 (218)
T ss_pred eeeecccchhhcchhhHHHHHHHHHHHHHhccHHHHHHHHHHHHHH----HHHHHhhcCC-C-CCCHHHHHHHHHHHH--
Confidence 4566677666999999999987776644 555666666665554 4444443211 1 344444444443211
Q ss_pred hhcCccccccccCCCCCeEEEEecCCcccccccCCCccCCCcchhhhhHHHHHHhhcCCceEEEEEeecccCCCCceEEE
Q 029904 89 MFLGVTATVSNWDADGTCCSIILEDNPLVDFVELPDTCQGLYYCNILSGVIRGALEMVSMKTEVTWIRDVLRGDDAYELQ 168 (185)
Q Consensus 89 ~~fgk~ad~l~~t~~~~~y~L~~d~npl~~fvslP~~~~~l~y~~~~cGiIrGaL~~lg~~~~v~~~~d~l~g~~~t~~~ 168 (185)
.=.|.-+..-. -+.+.|.|+--|.|+..-.. ....-++.-+++++++|....+..+++.+. |...+++.
T Consensus 142 ~~~gy~~e~~~--~~~~~~~l~e~nCPi~~vA~-----~~~~~C~~e~~~~~~~Lg~~~v~~~~~~~~----g~~~C~~~ 210 (218)
T COG2345 142 SDLGYMPELRP--VDNGRVQLIEHNCPISAVAE-----EFPVACESELALFAEVLGTAHVERTEHILD----GPGRCTYH 210 (218)
T ss_pred HhCCccccccc--cCCCceEEEecCCchHHHHH-----HhHHHHHHHHHHHHHHhccCCccceeeeec----CCCceEEE
Confidence 22444444432 33577888856679755322 234566777888999998877777766554 66799999
Q ss_pred EEecc
Q 029904 169 VKLLK 173 (185)
Q Consensus 169 Ikf~~ 173 (185)
|+..+
T Consensus 211 v~~~~ 215 (218)
T COG2345 211 VKLES 215 (218)
T ss_pred eecCC
Confidence 98764
No 11
>PF14196 ATC_hydrolase: L-2-amino-thiazoline-4-carboxylic acid hydrolase
Probab=86.20 E-value=9.9 Score=28.76 Aligned_cols=133 Identities=17% Similarity=0.202 Sum_probs=72.9
Q ss_pred hhhHHHHHHHHHHHHHHhccccHHHHHHHHHHhhhhHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhhhcCcccccc
Q 029904 19 NAELFTLTYGATVRQLLTDLEEVEEVNKQLDQMGYNIGIRLIDEFLAKSNVTRCVDFRETAEVIAKVGFKMFLGVTATVS 98 (185)
Q Consensus 19 s~~~f~ll~~elV~q~~~~~~~~~ev~~~Le~mGy~IG~RL~E~~~~r~~~~R~~~~ld~l~fI~k~~Wk~~fgk~ad~l 98 (185)
.+..|..+|-++...+-. .+-.+-+.+-+.+.|...|.++.++... + ..++....+.....-+...|. ...
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 344444444444422211 1123345678888888888887776653 1 333333333111111222222 222
Q ss_pred ccCCCCCeEEEEecCCcccc-cccCCCccCCCcchhhhhHHHHHHhhcC--CceEEEEEeecccCCCCceEEE
Q 029904 99 NWDADGTCCSIILEDNPLVD-FVELPDTCQGLYYCNILSGVIRGALEMV--SMKTEVTWIRDVLRGDDAYELQ 168 (185)
Q Consensus 99 ~~t~~~~~y~L~~d~npl~~-fvslP~~~~~l~y~~~~cGiIrGaL~~l--g~~~~v~~~~d~l~g~~~t~~~ 168 (185)
..+.+.|.+.+-..|+.+ +.+ ++...+..+.|-+=+++.+.+ |++.+- .+.-..|++.+.|+
T Consensus 84 --~~~~~~~~~~~~~Cp~~~~~k~----~G~~e~~~~~C~~D~~~~~~~~~~~~l~r--~~tla~G~~~Cdf~ 148 (149)
T PF14196_consen 84 --EDDEDEFEFDFTRCPYAEFWKE----YGLPELGPIYCDIDYAMAEGFNPGIRLER--TKTLADGDDCCDFR 148 (149)
T ss_pred --cCCCCeEEEEEEeChHHHHHHH----cCCchHHhHhhhhhHHHHHhCCCCcEEEE--eeEEeCCCCcCccC
Confidence 355667777777899866 343 344567777888888888888 665432 23344578877764
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=73.35 E-value=6.9 Score=31.89 Aligned_cols=39 Identities=23% Similarity=0.332 Sum_probs=30.2
Q ss_pred CcchhhhhHHHHHHhhcCCce-EEEEEeecccCCCCceEEEEE
Q 029904 129 LYYCNILSGVIRGALEMVSMK-TEVTWIRDVLRGDDAYELQVK 170 (185)
Q Consensus 129 l~y~~~~cGiIrGaL~~lg~~-~~v~~~~d~l~g~~~t~~~Ik 170 (185)
...-.|.+|+++++|+..|-+ ++|+-... +...++|+|.
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 346679999999999999998 58765554 3357899886
No 13
>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=66.55 E-value=14 Score=25.22 Aligned_cols=39 Identities=28% Similarity=0.581 Sum_probs=29.1
Q ss_pred HHHHHHHHHHhccc--cHHHHHHHHHHhhhhHHHHHHHHHHhh
Q 029904 26 TYGATVRQLLTDLE--EVEEVNKQLDQMGYNIGIRLIDEFLAK 66 (185)
Q Consensus 26 l~~elV~q~~~~~~--~~~ev~~~Le~mGy~IG~RL~E~~~~r 66 (185)
||-+.+ +++.... +..-+..+| ++||+-..||+|.+-..
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 5555433 777776665 68999999999998754
No 14
>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=65.02 E-value=11 Score=30.85 Aligned_cols=39 Identities=18% Similarity=0.117 Sum_probs=29.0
Q ss_pred CcchhhhhHHHHHHhhcCCc-eEEEEEeecccCCCCceEEEEE
Q 029904 129 LYYCNILSGVIRGALEMVSM-KTEVTWIRDVLRGDDAYELQVK 170 (185)
Q Consensus 129 l~y~~~~cGiIrGaL~~lg~-~~~v~~~~d~l~g~~~t~~~Ik 170 (185)
.....|.+|+++|+|+..|= .++|+-.. .|...++|+|.
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 34478999999999999994 45665433 34467999886
No 15
>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=62.31 E-value=62 Score=25.52 Aligned_cols=99 Identities=15% Similarity=0.156 Sum_probs=63.0
Q ss_pred HHHHHHhhhhHHHHHHHHHHh---hcCCCCCCCHHHHHHHHHHhhhhhhcCccccccccC-CCCCeEEEEecCCcccccc
Q 029904 45 NKQLDQMGYNIGIRLIDEFLA---KSNVTRCVDFRETAEVIAKVGFKMFLGVTATVSNWD-ADGTCCSIILEDNPLVDFV 120 (185)
Q Consensus 45 ~~~Le~mGy~IG~RL~E~~~~---r~~~~R~~~~ld~l~fI~k~~Wk~~fgk~ad~l~~t-~~~~~y~L~~d~npl~~fv 120 (185)
+.-|+..|.-.=..+.+.... +...+.+.+++.-+.-|+..+=+.+-+..+-..+.+ .++++..|+ |.
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 446667776655555554332 233456778888888898888888877666666532 234444444 33
Q ss_pred cCCCccCCCcchhhhhHHHHHHhhcCCc-eEEEEEee
Q 029904 121 ELPDTCQGLYYCNILSGVIRGALEMVSM-KTEVTWIR 156 (185)
Q Consensus 121 slP~~~~~l~y~~~~cGiIrGaL~~lg~-~~~v~~~~ 156 (185)
| ....++.++-|+|+|+-..++= ++++.-+.
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 2336889999999999998876 66665544
No 16
>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=60.28 E-value=20 Score=24.57 Aligned_cols=39 Identities=21% Similarity=0.538 Sum_probs=25.9
Q ss_pred HHHHHHHHHHhcc-c-cHHHHHHHHHHhhhhHHHHHHHHHHhh
Q 029904 26 TYGATVRQLLTDL-E-EVEEVNKQLDQMGYNIGIRLIDEFLAK 66 (185)
Q Consensus 26 l~~elV~q~~~~~-~-~~~ev~~~Le~mGy~IG~RL~E~~~~r 66 (185)
||-+.| +++... . +..-+..+| ++||+=..||+|.+-..
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 466667 454443 3 777765555 78999999999998753
No 17
>smart00415 HSF heat shock factor.
Probab=60.06 E-value=5.2 Score=29.45 Aligned_cols=62 Identities=13% Similarity=0.317 Sum_probs=41.8
Q ss_pred HHHHHhhhhhhcCcccc-ccccCCCCCeEEEEecCCcccccccCCCccCCCcchhhhhHHHHHHhhcCCce
Q 029904 80 EVIAKVGFKMFLGVTAT-VSNWDADGTCCSIILEDNPLVDFVELPDTCQGLYYCNILSGVIRGALEMVSMK 149 (185)
Q Consensus 80 ~fI~k~~Wk~~fgk~ad-~l~~t~~~~~y~L~~d~npl~~fvslP~~~~~l~y~~~~cGiIrGaL~~lg~~ 149 (185)
.|++| +|.++=....+ .+.|++++..|+|. |...+..-+ +|.-...-+|.+|+-- |.+-||+
T Consensus 4 ~F~~k-L~~~l~~~~~~~iI~W~~~G~~f~I~-d~~~f~~~v-Lp~~Fk~~~~~SF~Rq-----Ln~yGF~ 66 (105)
T smart00415 4 PFLTK-LYLLVEDPSTDKIISWSPSGKSFVIW-DPEEFAKNL-LPRYFKHNNFSSFVRQ-----LNMYGFR 66 (105)
T ss_pred cHHHH-HHHHHhCCCCCCEEEECCCCCEEEEc-CHHHHHHHH-HHHhcCCCCHHHHHHH-----HHhcCCE
Confidence 46755 78887776665 66899999999976 544343322 6665556667666543 8888994
No 18
>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana.
Probab=57.40 E-value=16 Score=30.17 Aligned_cols=47 Identities=15% Similarity=0.167 Sum_probs=32.0
Q ss_pred hHHHHHHHHHHHHHHhccc--cHHHH------HHHHHHhhhhHH---HHHHHHHHhhc
Q 029904 21 ELFTLTYGATVRQLLTDLE--EVEEV------NKQLDQMGYNIG---IRLIDEFLAKS 67 (185)
Q Consensus 21 ~~f~ll~~elV~q~~~~~~--~~~ev------~~~Le~mGy~IG---~RL~E~~~~r~ 67 (185)
--.-++|..+|..+-.-.. +.+.+ -..||.+||||+ .||.+++..++
T Consensus 46 ~Glm~~f~~l~e~v~~l~idd~~~~f~~~~~tl~~LE~~GFnV~~l~~RL~kLL~lk~ 103 (190)
T PF05266_consen 46 VGLMVTFANLAEKVKKLQIDDSRSSFESLMKTLSELEEHGFNVKFLRSRLNKLLSLKD 103 (190)
T ss_pred HHHHHHHHHHHHHHHHcccCCcHHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHHHHH
Confidence 3344788888855544322 22333 378999999999 78888888775
No 19
>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=57.11 E-value=28 Score=25.95 Aligned_cols=54 Identities=20% Similarity=0.224 Sum_probs=39.9
Q ss_pred CCcchhhhh--ccch-hhhHHHHHHHHHHHHHHhccccHHHHHHHHHHhhhhHHHHHHHHHH
Q 029904 6 PRSGDAIFA--NVER-NAELFTLTYGATVRQLLTDLEEVEEVNKQLDQMGYNIGIRLIDEFL 64 (185)
Q Consensus 6 ~~~g~~~~~--~~~~-s~~~f~ll~~elV~q~~~~~~~~~ev~~~Le~mGy~IG~RL~E~~~ 64 (185)
|..|.--+. |+=. .++++..|.-|+|..+ ..+....-|-++||.-|.|-+|.+.
T Consensus 10 p~~G~Iwl~~~RmlL~~~~alg~LRkELi~~l-----G~~~AR~iltR~Gy~~G~~DAe~~~ 66 (103)
T PF06505_consen 10 PEDGRIWLNGQRMLLMHASALGALRKELIETL-----GEERARGILTRMGYASGWRDAELAR 66 (103)
T ss_pred CCCCeEEECCEEEEEEchhHHHHHHHHHHHHh-----CHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444443 3333 8999999999999544 4555668899999999999999775
No 20
>PF13314 DUF4083: Domain of unknown function (DUF4083)
Probab=56.97 E-value=26 Score=23.64 Aligned_cols=30 Identities=23% Similarity=0.606 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHhccc----cHHHHHHHHHHh
Q 029904 22 LFTLTYGATVRQLLTDLE----EVEEVNKQLDQM 51 (185)
Q Consensus 22 ~f~ll~~elV~q~~~~~~----~~~ev~~~Le~m 51 (185)
+|-+.|+-+++.+...+. +..++|++|+++
T Consensus 18 l~~~~Ftl~IRri~~~s~~kkq~~~~~eqKLDrI 51 (58)
T PF13314_consen 18 LFGASFTLFIRRILINSNAKKQDVDSMEQKLDRI 51 (58)
T ss_pred HHHHHHHHHHHHHHHhccccccchhHHHHHHHHH
Confidence 456667777877766532 666899999963
No 21
>COG5169 HSF1 Heat shock transcription factor [Transcription]
Probab=56.51 E-value=13 Score=32.54 Aligned_cols=63 Identities=14% Similarity=0.332 Sum_probs=43.3
Q ss_pred HHHHHHHhhhhhhcCc-cccccccCCCCCeEEEEecCCcccccccCCCccCCCcchhhhhHHHHHHhhcCCc
Q 029904 78 TAEVIAKVGFKMFLGV-TATVSNWDADGTCCSIILEDNPLVDFVELPDTCQGLYYCNILSGVIRGALEMVSM 148 (185)
Q Consensus 78 ~l~fI~k~~Wk~~fgk-~ad~l~~t~~~~~y~L~~d~npl~~fvslP~~~~~l~y~~~~cGiIrGaL~~lg~ 148 (185)
+-+||.| +|.++-+= --+.+.|++++..|+|. |.+-++..| ||.-...-++++|+- -|.+-||
T Consensus 10 ~~~FV~K-Ly~iLe~~e~~k~I~Ws~~G~sfvI~-~~~~F~~~i-Lpr~FKh~NfaSFVR-----QLN~YgF 73 (282)
T COG5169 10 PKEFVHK-LYQILEEPEYYKLIQWSPDGRSFVIL-DPEEFTKVI-LPRYFKHGNFASFVR-----QLNKYGF 73 (282)
T ss_pred hhHHHHH-HHHHhcCcccCCceEECCCCCEEEEe-Ccchhhhhh-hhhhhcccCHHHHHH-----HHHhcCc
Confidence 4578866 99999884 44555899999999977 644444433 776545556666653 4677777
No 22
>PF14056 DUF4250: Domain of unknown function (DUF4250)
Probab=55.46 E-value=11 Score=25.19 Aligned_cols=22 Identities=32% Similarity=0.682 Sum_probs=18.2
Q ss_pred HHHhccc-cHHHHHHHHHHhhhh
Q 029904 33 QLLTDLE-EVEEVNKQLDQMGYN 54 (185)
Q Consensus 33 q~~~~~~-~~~ev~~~Le~mGy~ 54 (185)
.+|.+.. +.+++.++|..+||.
T Consensus 25 ~Lc~~~~id~~~l~~kL~~~Gy~ 47 (55)
T PF14056_consen 25 ELCYDYDIDKEELEEKLASIGYE 47 (55)
T ss_pred HHHHHhCCCHHHHHHHHHHcCCe
Confidence 4566666 899999999999985
No 23
>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=53.03 E-value=4.9 Score=29.26 Aligned_cols=62 Identities=19% Similarity=0.381 Sum_probs=37.6
Q ss_pred HHHHHhhhhhhcCcc-ccccccCCCCCeEEEEecCCcccccccCCCccCCCcchhhhhHHHHHHhhcCCce
Q 029904 80 EVIAKVGFKMFLGVT-ATVSNWDADGTCCSIILEDNPLVDFVELPDTCQGLYYCNILSGVIRGALEMVSMK 149 (185)
Q Consensus 80 ~fI~k~~Wk~~fgk~-ad~l~~t~~~~~y~L~~d~npl~~fvslP~~~~~l~y~~~~cGiIrGaL~~lg~~ 149 (185)
+||.| +|.++=.-. .+.+.|+++++.|+|. |.+-+..-| ||.-...-+|++|+- =|.+-||+
T Consensus 1 ~F~~k-L~~~l~~~~~~~~I~W~~~G~~fiI~-d~~~f~~~v-Lp~~F~~~~~~SF~R-----QLn~yGF~ 63 (103)
T PF00447_consen 1 KFLSK-LYEMLEDPENSDIIRWSPDGDSFIIH-DPEEFEKEV-LPKYFKHSNFSSFVR-----QLNMYGFK 63 (103)
T ss_dssp HHHHH-HHHHHCTTTTTTTCEECTTSSEEEES--HHHHHHHT-HHHHSST--HHHHHH-----HHHHTTEE
T ss_pred ChHHH-HHHHHcCCCCCCEEEEeCCCCEEEEe-ecHHHhhhc-cccccCccccceeee-----EeeeeeeE
Confidence 46744 888777654 4557999999999975 533333322 565555567777742 36777774
No 24
>PRK14741 spoVM stage V sporulation protein M; Provisional
Probab=43.18 E-value=16 Score=20.55 Aligned_cols=14 Identities=29% Similarity=0.605 Sum_probs=11.7
Q ss_pred hhhhHHHHHHhhcC
Q 029904 133 NILSGVIRGALEMV 146 (185)
Q Consensus 133 ~~~cGiIrGaL~~l 146 (185)
-|+.|++|++|.++
T Consensus 10 kflgg~vra~l~~f 23 (26)
T PRK14741 10 KFLGGIVRAMLGSF 23 (26)
T ss_pred HHHHHHHHHHHHHh
Confidence 37899999999875
No 25
>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=40.52 E-value=21 Score=25.33 Aligned_cols=46 Identities=9% Similarity=0.148 Sum_probs=36.1
Q ss_pred chhhhhccch---hhhHHHHHHHHHHHHHHhccccHHHHHHHHHHhhhh
Q 029904 9 GDAIFANVER---NAELFTLTYGATVRQLLTDLEEVEEVNKQLDQMGYN 54 (185)
Q Consensus 9 g~~~~~~~~~---s~~~f~ll~~elV~q~~~~~~~~~ev~~~Le~mGy~ 54 (185)
++.+|.+.-. ....+.-+...++..||.......+.++.|++.|+-
T Consensus 1 Ak~~w~~i~~~L~~~~~l~~~D~~~l~~yc~~~~~~~~~~~~l~~~G~~ 49 (100)
T PF05119_consen 1 AKKEWKRIVPELKELGILSNLDVPLLERYCEAYSRYREAEKELKKEGFV 49 (100)
T ss_pred ChHHHHHHHHHHHHcCCCcHhHHHHHHHHHHHHHHHHHHHHHHHHcCce
Confidence 3556766432 566788888899989998888888889999998886
No 26
>KOG0037 consensus Ca2+-binding protein, EF-Hand protein superfamily [Signal transduction mechanisms]
Probab=37.06 E-value=92 Score=26.47 Aligned_cols=47 Identities=19% Similarity=0.316 Sum_probs=36.1
Q ss_pred hhhHHHHHHHHHHHHHHh-------ccc---cHHHHHHHHHHhhhhHHHHHHHHHHhh
Q 029904 19 NAELFTLTYGATVRQLLT-------DLE---EVEEVNKQLDQMGYNIGIRLIDEFLAK 66 (185)
Q Consensus 19 s~~~f~ll~~elV~q~~~-------~~~---~~~ev~~~Le~mGy~IG~RL~E~~~~r 66 (185)
+-.-|.-|+--|= ++-+ |++ +..|+.+.|..|||++-.-+.+.+..|
T Consensus 112 ~f~EF~~Lw~~i~-~Wr~vF~~~D~D~SG~I~~sEL~~Al~~~Gy~Lspq~~~~lv~k 168 (221)
T KOG0037|consen 112 GFKEFKALWKYIN-QWRNVFRTYDRDRSGTIDSSELRQALTQLGYRLSPQFYNLLVRK 168 (221)
T ss_pred CHHHHHHHHHHHH-HHHHHHHhcccCCCCcccHHHHHHHHHHcCcCCCHHHHHHHHHH
Confidence 7777888887654 3322 333 788999999999999999999887765
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=34.50 E-value=48 Score=20.91 Aligned_cols=27 Identities=37% Similarity=0.658 Sum_probs=22.4
Q ss_pred cHHHHHHHHHHhhhhHHHHHHHHHHhh
Q 029904 40 EVEEVNKQLDQMGYNIGIRLIDEFLAK 66 (185)
Q Consensus 40 ~~~ev~~~Le~mGy~IG~RL~E~~~~r 66 (185)
+..++-++|.+.|++|+.++++.++.+
T Consensus 20 ~~~~~l~~l~~~g~~is~~l~~~~L~~ 46 (48)
T PF11848_consen 20 EVKPLLDRLQQAGFRISPKLIEEILRR 46 (48)
T ss_pred hHHHHHHHHHHcCcccCHHHHHHHHHH
Confidence 466667888999999999999988754
No 28
>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=33.96 E-value=29 Score=25.81 Aligned_cols=20 Identities=20% Similarity=0.300 Sum_probs=17.3
Q ss_pred CcchhhhhHHHHHHhhcCCc
Q 029904 129 LYYCNILSGVIRGALEMVSM 148 (185)
Q Consensus 129 l~y~~~~cGiIrGaL~~lg~ 148 (185)
-.+.++-||++|++|...|+
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 29
>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=33.15 E-value=86 Score=21.38 Aligned_cols=16 Identities=25% Similarity=0.735 Sum_probs=7.2
Q ss_pred cHHHHHHHHHHhhhhH
Q 029904 40 EVEEVNKQLDQMGYNI 55 (185)
Q Consensus 40 ~~~ev~~~Le~mGy~I 55 (185)
+..++..-|..||.+|
T Consensus 60 ~~~Dv~~al~~~gi~v 75 (77)
T PF07524_consen 60 NLQDVEQALEEMGISV 75 (77)
T ss_pred CHHHHHHHHHHhCCCC
Confidence 3344444444444443
No 30
>COG5558 Transposase [DNA replication, recombination, and repair]
Probab=32.64 E-value=93 Score=26.29 Aligned_cols=85 Identities=13% Similarity=0.300 Sum_probs=49.4
Q ss_pred hhccch-hh--hHHHHHHHHHHHHHHhccccHHHHHHHHHHhhhhHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhh
Q 029904 13 FANVER-NA--ELFTLTYGATVRQLLTDLEEVEEVNKQLDQMGYNIGIRLIDEFLAKSNVTRCVDFRETAEVIAKVGFKM 89 (185)
Q Consensus 13 ~~~~~~-s~--~~f~ll~~elV~q~~~~~~~~~ev~~~Le~mGy~IG~RL~E~~~~r~~~~R~~~~ld~l~fI~k~~Wk~ 89 (185)
+.++++ .. -..-+||.+|.. . ++-+.+++- .|-.||+.|..+-+|++...+ .+..+--..|-.
T Consensus 13 ~grp~~v~~~~r~~l~l~~~l~d-~--snr~~~~ll-~l~~~~~~vsyktierlysde----------~v~m~lhn~fil 78 (261)
T COG5558 13 VGRPKKVDLEKRVMLFLFARLMD-K--SNRDIEELL-ELFEFGIKVSYKTIERLYSDE----------EVRMALHNLFIL 78 (261)
T ss_pred cCCCccccHHHHHHHHHHHHHhh-h--ccccHHHHH-HHhccceEeehhhHHHHhchh----------HHHHHHhhhhee
Confidence 445544 22 344566776661 1 222666654 455599999999999998642 223333444545
Q ss_pred hcCccccccccCCCCCeEEEEe
Q 029904 90 FLGVTATVSNWDADGTCCSIIL 111 (185)
Q Consensus 90 ~fgk~ad~l~~t~~~~~y~L~~ 111 (185)
++.+..-......++..|.|+.
T Consensus 79 ~~k~~gv~~~~~~d~tgyslti 100 (261)
T COG5558 79 LLREEGVSGDFSGDGTGYSLTI 100 (261)
T ss_pred eehhcCccccccCCCCcceEEe
Confidence 5555443334456777898873
No 31
>COG4009 Uncharacterized protein conserved in archaea [Function unknown]
Probab=29.06 E-value=32 Score=24.84 Aligned_cols=18 Identities=44% Similarity=0.730 Sum_probs=15.9
Q ss_pred ccHHHHHHHHHHhhhhHH
Q 029904 39 EEVEEVNKQLDQMGYNIG 56 (185)
Q Consensus 39 ~~~~ev~~~Le~mGy~IG 56 (185)
++.+++++.|++||.+|-
T Consensus 60 ~s~eev~~ele~mga~in 77 (88)
T COG4009 60 ESEEEVERELEDMGAEIN 77 (88)
T ss_pred CCHHHHHHHHHHhCchhc
Confidence 488999999999999875
No 32
>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=28.98 E-value=1.2e+02 Score=20.72 Aligned_cols=40 Identities=10% Similarity=-0.002 Sum_probs=29.2
Q ss_pred hHHHHHHhhcCCceE-EEEEeecccCCCCceEEEEEecccc
Q 029904 136 SGVIRGALEMVSMKT-EVTWIRDVLRGDDAYELQVKLLKQV 175 (185)
Q Consensus 136 cGiIrGaL~~lg~~~-~v~~~~d~l~g~~~t~~~Ikf~~~~ 175 (185)
|--|+-+|...|+++ .++-....-...|..-|.|.+.+..
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 6665555444567788888887663
No 33
>COG1693 Repressor of nif and glnA expression [Transcription]
Probab=28.83 E-value=98 Score=27.58 Aligned_cols=40 Identities=30% Similarity=0.355 Sum_probs=28.9
Q ss_pred HHHHHHHHHhccc--cHHHHHHHHHHhhhhHHHHHHHHHHhh
Q 029904 27 YGATVRQLLTDLE--EVEEVNKQLDQMGYNIGIRLIDEFLAK 66 (185)
Q Consensus 27 ~~elV~q~~~~~~--~~~ev~~~Le~mGy~IG~RL~E~~~~r 66 (185)
-.||.+-+.++.+ ....+...|++-||+||.|-+-..+.+
T Consensus 8 ~ieIl~il~esd~plgak~Ia~el~kRGy~igeRavRYhlk~ 49 (325)
T COG1693 8 LIEILRILAESDEPLGAKIIALELRKRGYNIGERAVRYHLKK 49 (325)
T ss_pred HHHHHHHHHhcCCccchHHHHHHHHhcccchhHHHHHHHHHH
Confidence 3566644444443 677888999999999999988766643
No 34
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=27.74 E-value=77 Score=16.59 Aligned_cols=27 Identities=22% Similarity=0.266 Sum_probs=15.2
Q ss_pred HHHHHHHHHHhccc--cHHHHHHHHHHhh
Q 029904 26 TYGATVRQLLTDLE--EVEEVNKQLDQMG 52 (185)
Q Consensus 26 l~~elV~q~~~~~~--~~~ev~~~Le~mG 52 (185)
+|..|++.|++... ...++-+++.+.|
T Consensus 2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g 30 (31)
T PF01535_consen 2 TYNSLISGYCKMGQFEEALEVFDEMRERG 30 (31)
T ss_pred cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence 57778866666544 4444445544444
No 35
>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=24.73 E-value=55 Score=26.54 Aligned_cols=18 Identities=33% Similarity=0.853 Sum_probs=15.9
Q ss_pred HhhhhHHHHHHHHHHhhc
Q 029904 50 QMGYNIGIRLIDEFLAKS 67 (185)
Q Consensus 50 ~mGy~IG~RL~E~~~~r~ 67 (185)
.+||-+|.+|+..++.+.
T Consensus 161 ~~GY~~GY~iVk~yl~~~ 178 (195)
T PF10026_consen 161 WLGYALGYRIVKAYLEKH 178 (195)
T ss_pred cchHHHHHHHHHHHHHHC
Confidence 489999999999999764
No 36
>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=24.68 E-value=1.5e+02 Score=20.40 Aligned_cols=34 Identities=21% Similarity=0.352 Sum_probs=22.7
Q ss_pred HHHHHHhccc--cHHHHHHHHHHhhhhHHHHHHHHH
Q 029904 30 TVRQLLTDLE--EVEEVNKQLDQMGYNIGIRLIDEF 63 (185)
Q Consensus 30 lV~q~~~~~~--~~~ev~~~Le~mGy~IG~RL~E~~ 63 (185)
++.++++... +-+|+-..|++.|+.|-+.=+-+-
T Consensus 9 ~I~~li~~~~i~sQ~eL~~~L~~~Gi~vTQaTiSRD 44 (70)
T PF01316_consen 9 LIKELISEHEISSQEELVELLEEEGIEVTQATISRD 44 (70)
T ss_dssp HHHHHHHHS---SHHHHHHHHHHTT-T--HHHHHHH
T ss_pred HHHHHHHHCCcCCHHHHHHHHHHcCCCcchhHHHHH
Confidence 4557777665 889999999999999887655543
No 37
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=24.61 E-value=1.6e+02 Score=20.17 Aligned_cols=58 Identities=14% Similarity=0.100 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHhcc--c-----cHHHHHHHHHHhhhhHHHHHHHHHHhhcCCCCCCCHHHHHHHH
Q 029904 22 LFTLTYGATVRQLLTDL--E-----EVEEVNKQLDQMGYNIGIRLIDEFLAKSNVTRCVDFRETAEVI 82 (185)
Q Consensus 22 ~f~ll~~elV~q~~~~~--~-----~~~ev~~~Le~mGy~IG~RL~E~~~~r~~~~R~~~~ld~l~fI 82 (185)
.++++.-.+. |+++.. + -.+.+...+++.-..+|........ ..++ ...++.|+..-+
T Consensus 4 ~~~ll~~~Va-qil~~~Gf~~~~~sale~ltdi~~~yl~~l~~~~~~~a~-~agR-~~~~~~Dv~~Al 68 (77)
T smart00576 4 AFALLRIAVA-QILESAGFDSFQESALETLTDILQSYIQELGRTAHSYAE-LAGR-TEPNLGDVVLAL 68 (77)
T ss_pred HHHHHHHHHH-HHHHHcCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHH-HcCC-CCCCHHHHHHHH
Confidence 4556665444 788752 2 2334445666666666665554332 2222 224466665433
No 38
>PF13040 DUF3901: Protein of unknown function (DUF3901)
Probab=24.34 E-value=79 Score=19.68 Aligned_cols=26 Identities=27% Similarity=0.606 Sum_probs=16.9
Q ss_pred HHHHHHHH----HHHhccccHHHHHHHHHH
Q 029904 25 LTYGATVR----QLLTDLEEVEEVNKQLDQ 50 (185)
Q Consensus 25 ll~~elV~----q~~~~~~~~~ev~~~Le~ 50 (185)
..|-+||. +++.|.+-.+.++.+|+.
T Consensus 6 ~sFeeLV~eNK~ell~d~~~me~Ieerie~ 35 (40)
T PF13040_consen 6 KSFEELVRENKQELLNDKEAMEKIEERIEE 35 (40)
T ss_pred cCHHHHHHHHHHHHHcCHHHHHHHHHHHHH
Confidence 35677776 466666666677777664
No 39
>PHA03081 putative metalloprotease; Provisional
Probab=22.80 E-value=13 Score=35.24 Aligned_cols=13 Identities=15% Similarity=0.531 Sum_probs=11.7
Q ss_pred CcchhhhhHHHHH
Q 029904 129 LYYCNILSGVIRG 141 (185)
Q Consensus 129 l~y~~~~cGiIrG 141 (185)
.-+++|+|||+||
T Consensus 498 ~T~SsFVCGivKG 510 (595)
T PHA03081 498 TTKSSFVCGIVKG 510 (595)
T ss_pred EEeccEEEEEeec
Confidence 4689999999999
No 40
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=22.62 E-value=76 Score=20.76 Aligned_cols=23 Identities=26% Similarity=0.199 Sum_probs=15.9
Q ss_pred hhhhhHHHHHHhhcCCceEEEEE
Q 029904 132 CNILSGVIRGALEMVSMKTEVTW 154 (185)
Q Consensus 132 ~~~~cGiIrGaL~~lg~~~~v~~ 154 (185)
..+-|.+|++.|+.-|++|.+..
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 35778999999999999997754
No 41
>COG2733 Predicted membrane protein [Function unknown]
Probab=22.57 E-value=80 Score=29.19 Aligned_cols=97 Identities=20% Similarity=0.163 Sum_probs=58.0
Q ss_pred HHhccc-cHHHHHHHHHHhhhhHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHhhhhhhcCccccccccCCCCCeEEEEec
Q 029904 34 LLTDLE-EVEEVNKQLDQMGYNIGIRLIDEFLAKSNVTRCVDFRETAEVIAKVGFKMFLGVTATVSNWDADGTCCSIILE 112 (185)
Q Consensus 34 ~~~~~~-~~~ev~~~Le~mGy~IG~RL~E~~~~r~~~~R~~~~ld~l~fI~k~~Wk~~fgk~ad~l~~t~~~~~y~L~~d 112 (185)
+.+|.+ ..+-+.++|.+++-++|..|+++=..|+ +-+..+..++..|....=..+-+.-.|.++ -+|
T Consensus 306 l~~D~e~~~s~l~~~l~~~~~~~Ge~l~~D~~lr~--kln~~~~~aa~~l~e~~~~~it~~I~dTv~----------~wD 373 (415)
T COG2733 306 LKEDYESEDSMLRKRLARAVQSVGEELIADDALRA--KLNEHLVQAAERLAEEKHAEITKHISDTVK----------RWD 373 (415)
T ss_pred HHhcccCchhHHHHHHHHHHHHHHHHHhccHHHHH--HHHHHHHHHHHHHHHHHhHHHHHHHHHHHh----------hcC
Confidence 344555 5556789999999999999987666664 456677778877765544444333445554 225
Q ss_pred CCcccccccCC--CccCCCcchhhhhHHHHHH
Q 029904 113 DNPLVDFVELP--DTCQGLYYCNILSGVIRGA 142 (185)
Q Consensus 113 ~npl~~fvslP--~~~~~l~y~~~~cGiIrGa 142 (185)
..-+++++++- .|++-...-.-+-|-+-|.
T Consensus 374 ~~elsr~iel~vG~DLQ~IRiNGtvVGG~~Gl 405 (415)
T COG2733 374 AEELSRQIELNVGKDLQFIRINGTVVGGIAGL 405 (415)
T ss_pred HHHHHHHHHHhcCCceeEEeEcCchHHHHHHH
Confidence 55567766644 4443333333333333343
No 42
>PF03410 Peptidase_M44: Protein G1; InterPro: IPR005072 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M44 (clan ME). The active site residues for members of this family and family M16 occur in the motif HXXEHProtein. The type example is the vaccinia virus-type metalloendopeptidase G1 from vaccinia virus, it is a metalloendopeptidase expressed by many Poxviridae which appears to play a role in the maturation of viral proteins.; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0019067 viral assembly, maturation, egress, and release
Probab=22.36 E-value=13 Score=35.15 Aligned_cols=14 Identities=14% Similarity=0.558 Sum_probs=12.3
Q ss_pred CcchhhhhHHHHHH
Q 029904 129 LYYCNILSGVIRGA 142 (185)
Q Consensus 129 l~y~~~~cGiIrGa 142 (185)
..+++|+|||++|-
T Consensus 494 ~t~SsFVCGivKG~ 507 (590)
T PF03410_consen 494 VTKSSFVCGIVKGK 507 (590)
T ss_pred EEecceEEEEeecc
Confidence 46899999999995
No 43
>KOG0766 consensus Predicted mitochondrial carrier protein [Energy production and conversion]
Probab=21.18 E-value=85 Score=27.15 Aligned_cols=57 Identities=23% Similarity=0.292 Sum_probs=37.8
Q ss_pred hcCccccccccCCCCCeEEEEecCC----cc---ccccc-CCCc--cCCCcchhhhhHHHHHHhhcC
Q 029904 90 FLGVTATVSNWDADGTCCSIILEDN----PL---VDFVE-LPDT--CQGLYYCNILSGVIRGALEMV 146 (185)
Q Consensus 90 ~fgk~ad~l~~t~~~~~y~L~~d~n----pl---~~fvs-lP~~--~~~l~y~~~~cGiIrGaL~~l 146 (185)
|=|-.|..|+-.++.|-|++.++.. |. .+|+. .|.. ...-+-.++.|||+.|+|..+
T Consensus 163 FrGfgaT~LRDAP~aGlYv~fYe~sKq~lph~l~drf~~~~p~~g~v~~~nivN~~sgi~sg~lAt~ 229 (297)
T KOG0766|consen 163 FRGFGATLLRDAPFAGLYVMFYEQSKQILPHDLVDRFLPSIPVQGTVPHRNIVNFSSGIFSGILATL 229 (297)
T ss_pred hhcchhhHhccCCccceeeeehhhhhhccchhhhhhcccCCCCCCcccccceeehhHHHHHHHHHHH
Confidence 3456788998778999999876542 21 33442 3322 112257889999999999875
No 44
>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=20.88 E-value=61 Score=18.35 Aligned_cols=14 Identities=36% Similarity=0.510 Sum_probs=11.3
Q ss_pred hhhHHHHHHhhcCC
Q 029904 134 ILSGVIRGALEMVS 147 (185)
Q Consensus 134 ~~cGiIrGaL~~lg 147 (185)
|+.|+|++.|.++.
T Consensus 11 f~Gg~v~~~L~sf~ 24 (26)
T PF08183_consen 11 FLGGVVRALLFSFK 24 (26)
T ss_pred HHhHHHHHHHHHHh
Confidence 67899999998753
No 45
>PF12854 PPR_1: PPR repeat
Probab=20.68 E-value=1.8e+02 Score=16.52 Aligned_cols=27 Identities=22% Similarity=0.334 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHhccccHHHHHHHHHHh
Q 029904 24 TLTYGATVRQLLTDLEEVEEVNKQLDQM 51 (185)
Q Consensus 24 ~ll~~elV~q~~~~~~~~~ev~~~Le~m 51 (185)
..+|..||.-||+... .++..+-+++|
T Consensus 7 ~~ty~~lI~~~Ck~G~-~~~A~~l~~~M 33 (34)
T PF12854_consen 7 VVTYNTLIDGYCKAGR-VDEAFELFDEM 33 (34)
T ss_pred HhHHHHHHHHHHHCCC-HHHHHHHHHhC
Confidence 4688999988988654 33334444443
No 46
>PRK14086 dnaA chromosomal replication initiation protein; Provisional
Probab=20.43 E-value=2.9e+02 Score=27.01 Aligned_cols=70 Identities=10% Similarity=0.154 Sum_probs=43.7
Q ss_pred HHHHHHHhccc-cHHHHHHHHHHh-------hhhHHHHHHHHHHhhc---CCCCCCCHHHHHHHHHHhhhhhhcCccccc
Q 029904 29 ATVRQLLTDLE-EVEEVNKQLDQM-------GYNIGIRLIDEFLAKS---NVTRCVDFRETAEVIAKVGFKMFLGVTATV 97 (185)
Q Consensus 29 elV~q~~~~~~-~~~ev~~~Le~m-------Gy~IG~RL~E~~~~r~---~~~R~~~~ld~l~fI~k~~Wk~~fgk~ad~ 97 (185)
+++..+.+... +..+++..|.++ |..|-..+++.++..- ..++..++.+|++.||+ +||+..+.
T Consensus 469 eVi~yLa~r~~rnvR~LegaL~rL~a~a~~~~~~itl~la~~vL~~~~~~~~~~~it~d~I~~~Va~-----~f~v~~~d 543 (617)
T PRK14086 469 EVLEFIASRISRNIRELEGALIRVTAFASLNRQPVDLGLTEIVLRDLIPEDSAPEITAAAIMAATAD-----YFGLTVED 543 (617)
T ss_pred HHHHHHHHhccCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccccCCcCCHHHHHHHHHH-----HhCCCHHH
Confidence 34433334334 666666555554 3456667777666321 12345788999999998 88999998
Q ss_pred cccCCC
Q 029904 98 SNWDAD 103 (185)
Q Consensus 98 l~~t~~ 103 (185)
+.....
T Consensus 544 l~s~~R 549 (617)
T PRK14086 544 LCGTSR 549 (617)
T ss_pred HhCCCC
Confidence 864333
Done!