Query gi|254780136|ref|YP_003064549.1| ribonucleotide-diphosphate reductase subunit beta [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 125
No_of_seqs 106 out of 1338
Neff 7.1
Searched_HMMs 39220
Date Sun May 29 15:11:24 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780136.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK07209 ribonucleotide-diphos 100.0 1.4E-45 0 299.5 13.5 125 1-125 267-391 (391)
2 PRK12759 bifunctional gluaredo 100.0 7.4E-42 0 275.3 13.1 125 1-125 279-405 (410)
3 PRK09101 nrdB ribonucleotide-d 100.0 3.1E-35 7.8E-40 235.1 12.0 121 1-121 236-362 (376)
4 PTZ00211 ribonucleotide reduct 100.0 1.2E-34 3E-39 231.5 12.9 115 1-124 204-318 (330)
5 COG0208 NrdF Ribonucleotide re 100.0 4.8E-34 1.2E-38 227.8 12.6 121 1-122 218-338 (348)
6 PRK09614 nrdF ribonucleotide-d 100.0 1.2E-32 3E-37 219.3 12.6 122 1-125 197-320 (325)
7 PRK13966 nrdF2 ribonucleotide- 100.0 9.3E-31 2.4E-35 207.8 12.0 120 1-123 194-316 (324)
8 PRK13965 ribonucleotide-diphos 100.0 7E-29 1.8E-33 196.4 11.8 122 1-125 207-332 (337)
9 KOG1567 consensus 100.0 7E-29 1.8E-33 196.4 9.1 113 2-123 219-331 (344)
10 PRK13967 nrdF1 ribonucleotide- 100.0 3.3E-28 8.5E-33 192.3 11.2 119 1-122 192-313 (322)
11 cd01049 RNRR2 Ribonucleotide R 99.9 4.3E-26 1.1E-30 179.4 12.2 100 1-100 187-287 (288)
12 pfam00268 Ribonuc_red_sm Ribon 99.9 3.4E-22 8.7E-27 155.8 10.2 88 1-94 191-278 (281)
13 cd07911 RNRR2_Rv0233_like Ribo 99.5 1.4E-13 3.6E-18 103.4 9.0 84 1-86 187-270 (280)
14 PRK08326 ribonucleotide-diphos 99.0 4.4E-09 1.1E-13 76.1 8.8 97 1-99 206-307 (318)
15 cd07911 RNRR2_Rv0233_like Ribo 94.9 0.056 1.4E-06 32.9 4.9 57 30-86 211-267 (280)
16 pfam11266 DUF3066 Protein of u 92.4 0.81 2.1E-05 25.8 7.2 76 1-84 131-207 (219)
17 TIGR01647 ATPase-IIIA_H plasma 90.5 0.35 9E-06 28.0 3.7 27 73-99 7-44 (835)
18 TIGR00289 TIGR00289 conserved 82.4 1.3 3.3E-05 24.6 2.9 74 31-116 72-146 (227)
19 pfam10603 consensus 71.3 9.2 0.00023 19.4 5.0 40 35-75 2-41 (55)
20 pfam02007 MtrH Tetrahydrometha 58.4 16 0.00041 17.9 3.9 44 31-75 46-89 (296)
21 TIGR00956 3a01205 Pleiotropic 45.6 26 0.00067 16.6 3.7 55 56-118 1051-1111(1466)
22 PRK00979 tetrahydromethanopter 44.8 27 0.00069 16.6 4.3 44 31-75 51-94 (310)
23 pfam08671 SinI Anti-repressor 43.5 10 0.00025 19.2 0.9 27 45-71 2-28 (30)
24 TIGR01125 TIGR01125 MiaB-like 41.8 8.1 0.00021 19.7 0.3 51 43-93 321-374 (475)
25 KOG2067 consensus 36.0 28 0.00071 16.5 2.2 53 20-73 147-201 (472)
26 cd01050 Acyl_ACP_Desat Acyl AC 35.6 38 0.00096 15.7 4.1 23 2-24 189-211 (297)
27 TIGR02094 more_P_ylases alpha- 35.1 25 0.00064 16.8 1.9 110 5-120 280-418 (618)
28 TIGR01502 B_methylAsp_ase meth 33.5 26 0.00066 16.7 1.7 59 32-101 179-248 (414)
29 pfam11251 DUF3050 Protein of u 32.5 42 0.0011 15.4 4.0 71 11-83 31-122 (232)
30 TIGR00988 hip integration host 29.9 47 0.0012 15.1 3.9 32 12-43 4-35 (94)
31 pfam03405 FA_desaturase_2 Fatt 27.0 53 0.0013 14.8 3.4 23 2-24 195-217 (330)
32 pfam07132 consensus 25.7 54 0.0014 14.8 2.3 62 12-76 271-333 (377)
33 PRK10853 hypothetical protein; 25.6 46 0.0012 15.2 1.9 43 75-117 18-63 (118)
34 TIGR00693 thiE thiamine-phosph 22.3 16 0.0004 18.0 -1.0 45 44-88 93-141 (210)
35 pfam11583 AurF P-aminobenzoate 21.8 66 0.0017 14.2 4.8 21 1-21 115-135 (295)
36 TIGR01114 mtrH N5-methyltetrah 21.1 51 0.0013 14.9 1.4 50 21-74 44-93 (323)
37 PRK06267 hypothetical protein; 20.2 63 0.0016 14.3 1.7 53 32-89 153-208 (324)
No 1
>PRK07209 ribonucleotide-diphosphate reductase subunit beta; Validated
Probab=100.00 E-value=1.4e-45 Score=299.52 Aligned_cols=125 Identities=68% Similarity=1.164 Sum_probs=123.0
Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf 94037899999999999996770003112299999999999999999857630876018899999999999999999985
Q gi|254780136|r 1 MRDESLHLNFGIDVINQIKIENPHLWTKEFQQKSRTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIANRRCHQI 80 (125)
Q Consensus 1 ~RDE~lH~~~~~~l~~~l~~e~pe~~~~~~~~~i~~~~~eave~E~~~~~~~~~~~~~Gl~~~~~~~Yiky~an~rL~~l 80 (125)
+|||++|+.|++.||++++.|+|++||++++++|++|+++||++|.+|+++++|.|++|||++++++||+|+|||||.+|
T Consensus 267 ~RDEslH~~f~~~li~~i~~EnP~l~t~e~~~~i~~~~~eAVelE~~f~~d~lp~gilGlna~~~~~YI~yiAdrRL~qL 346 (391)
T PRK07209 267 LRDESMHLNFGIDLINQIKLENPHLWTAEFQAEIRELILEAVELEYRYARDTMPRGVLGLNASMFKDYLRFIANRRLQQI 346 (391)
T ss_pred HCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHC
T ss_conf 20278899999999999874184227778999999999999999999999754688789899999999999998999987
Q ss_pred CCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCHHHHHHHCCCCCC
Q ss_conf 978788987888689999834665732131003333430657789
Q gi|254780136|r 81 GLEPLFKYTENPFPWMSEVIDLKKEKNFFETRVTEYQQGAELKWD 125 (125)
Q Consensus 81 Gl~~~f~~~~nPl~W~~~~~~~~~~~nFFE~r~t~Y~k~~~~~~D 125 (125)
|++|+|+.++||||||++.+++++++||||+|||+||+||+++||
T Consensus 347 Gl~~~y~~~~NPfpWm~e~idl~~~tNFFE~RVteYq~~g~l~wd 391 (391)
T PRK07209 347 GLDPLYPGTENPFPWMSEMIDLKKEKNFFETRVIEYQTGGALSWD 391 (391)
T ss_pred CCCCCCCCCCCCCCHHHHHHCCCCCCCCCCCCHHHHHCCCCCCCC
T ss_conf 999878999998007998627332135133208776206657889
No 2
>PRK12759 bifunctional gluaredoxin/ribonucleoside-diphosphate reductase subunit beta; Provisional
Probab=100.00 E-value=7.4e-42 Score=275.29 Aligned_cols=125 Identities=32% Similarity=0.582 Sum_probs=120.0
Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC-CCCHHHHHHHHHHHHHHHHHH
Q ss_conf 9403789999999999999677000311229999999999999999985763087601-889999999999999999998
Q gi|254780136|r 1 MRDESLHLNFGIDVINQIKIENPHLWTKEFQQKSRTMLHEATLLEIAYAHETMPKGFV-GLNAPSCEQYMQFIANRRCHQ 79 (125)
Q Consensus 1 ~RDE~lH~~~~~~l~~~l~~e~pe~~~~~~~~~i~~~~~eave~E~~~~~~~~~~~~~-Gl~~~~~~~Yiky~an~rL~~ 79 (125)
+|||++|++|+|.||+++++|+|++++++++++|++++++||++|.+|++.++|.+.+ |||+++|++||+|+|||||.+
T Consensus 279 ~RDEglH~eFa~~Lf~~~~~e~p~i~~~~~~~~I~~ii~eAVeiE~~Fi~~alp~~~I~Gmn~~~m~qYIeyVADRlL~q 358 (410)
T PRK12759 279 IRDESMHVEGNAALFRIYCQENPYIVDNEFKKEIYLMASKAVELEDRFIELAYELGTIEGLKADEVKQYIRHITDRRLNQ 358 (410)
T ss_pred ECCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf 12013368999999999976371207778999999999999999999999746667789989999999999999999998
Q ss_pred CCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCHHHHHHHC-CCCCC
Q ss_conf 59787889878886899998346657321310033334306-57789
Q gi|254780136|r 80 IGLEPLFKYTENPFPWMSEVIDLKKEKNFFETRVTEYQQGA-ELKWD 125 (125)
Q Consensus 80 lGl~~~f~~~~nPl~W~~~~~~~~~~~nFFE~r~t~Y~k~~-~~~~D 125 (125)
||++|+|++++||+|||++.+++.++|||||+|||+||||| +++||
T Consensus 359 LG~~kiy~~~~NPf~wMe~il~~~~ktNFFE~RVtEYqkagv~g~wd 405 (410)
T PRK12759 359 LGLKEIYNIEKNPLTWLEWILNGADHTNFFENRVTEYEVAGLTGSWD 405 (410)
T ss_pred CCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCHHHHHHCCCCCCHH
T ss_conf 69998789999982799998767555775677688776277576488
No 3
>PRK09101 nrdB ribonucleotide-diphosphate reductase subunit beta; Reviewed
Probab=100.00 E-value=3.1e-35 Score=235.05 Aligned_cols=121 Identities=27% Similarity=0.470 Sum_probs=112.7
Q ss_pred CCHHHHHHHHHHHHHHHHH--HHCCCCC--CHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-CCCCCHHHHHHHHHHHHHH
Q ss_conf 9403789999999999999--6770003--112299999999999999999857630876-0188999999999999999
Q gi|254780136|r 1 MRDESLHLNFGIDVINQIK--IENPHLW--TKEFQQKSRTMLHEATLLEIAYAHETMPKG-FVGLNAPSCEQYMQFIANR 75 (125)
Q Consensus 1 ~RDE~lH~~~~~~l~~~l~--~e~pe~~--~~~~~~~i~~~~~eave~E~~~~~~~~~~~-~~Gl~~~~~~~Yiky~an~ 75 (125)
.|||++|+.+++.+|+.++ +++|++. ++++++++++|+++||++|++|++|+|++| ++|||++.|++||+|+||+
T Consensus 236 ~rDE~~Hl~~~~~ii~~l~~~~e~pe~~~~~~e~~~~v~~m~~~ave~E~~wa~ylf~~G~iiGLn~~~l~~Yi~ylan~ 315 (376)
T PRK09101 236 ARDEALHLTGTQHMLNLMRSGKDDPEMAEIAEECKQECYDLFVQAAEQEKEWADYLFKDGSMIGLNKDILCQYVEYITNI 315 (376)
T ss_pred HHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHH
T ss_conf 97199899999999999985389827889999999999999999999999999996669971688999999999999999
Q ss_pred HHHHCCCCCCCCCCCCCHHHHHHHHCCCC-CCCCCCCCHHHHHHHCC
Q ss_conf 99985978788987888689999834665-73213100333343065
Q gi|254780136|r 76 RCHQIGLEPLFKYTENPFPWMSEVIDLKK-EKNFFETRVTEYQQGAE 121 (125)
Q Consensus 76 rL~~lGl~~~f~~~~nPl~W~~~~~~~~~-~~nFFE~r~t~Y~k~~~ 121 (125)
||++||++|+|+..+||+|||+.|+++++ ++||||+++|+|.+|+.
T Consensus 316 Rl~~lGl~~~y~~~~NPlpWm~~~~~~~~~q~a~qE~evtsY~~g~~ 362 (376)
T PRK09101 316 RMQAVGLDLPFQTRSNPIPWINTWLVSDNVQVAPQEVEVSSYLVGQI 362 (376)
T ss_pred HHHHCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCEEEECC
T ss_conf 99976999999999998458999865576746731201300112142
No 4
>PTZ00211 ribonucleotide reductase small subunit; Provisional
Probab=100.00 E-value=1.2e-34 Score=231.48 Aligned_cols=115 Identities=30% Similarity=0.648 Sum_probs=106.8
Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf 94037899999999999996770003112299999999999999999857630876018899999999999999999985
Q gi|254780136|r 1 MRDESLHLNFGIDVINQIKIENPHLWTKEFQQKSRTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIANRRCHQI 80 (125)
Q Consensus 1 ~RDE~lH~~~~~~l~~~l~~e~pe~~~~~~~~~i~~~~~eave~E~~~~~~~~~~~~~Gl~~~~~~~Yiky~an~rL~~l 80 (125)
.|||++|+.|++.|++.++.+.| ++.+++|+++||++|.+|+.++++.+++|||++++++||+|+||+||++|
T Consensus 204 ~RDE~~H~~f~~~l~~~l~~e~~-------~e~v~~~~~eAvelE~~f~~~~~~~~~iGl~~e~l~~Yi~y~An~rL~~L 276 (330)
T PTZ00211 204 SRDEGLHTDFACLLYSHLKNKLP-------RERVQEIIKDAVEIEREFICDALPVDLIGMNSRLMAQYIEFVADRLLVSL 276 (330)
T ss_pred HCCHHHHHHHHHHHHHHHHHCCC-------HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHC
T ss_conf 82099999999999999756299-------99999999999999999999873678669999999999999999999987
Q ss_pred CCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCHHHHHHHCCCCC
Q ss_conf 97878898788868999983466573213100333343065778
Q gi|254780136|r 81 GLEPLFKYTENPFPWMSEVIDLKKEKNFFETRVTEYQQGAELKW 124 (125)
Q Consensus 81 Gl~~~f~~~~nPl~W~~~~~~~~~~~nFFE~r~t~Y~k~~~~~~ 124 (125)
|++|+|++ +||+|||+ .+++.+++||||+|||+|+|||++.+
T Consensus 277 G~~~~f~~-~nP~~w~~-~~~~~~ktnFFE~r~t~Y~kag~~~~ 318 (330)
T PTZ00211 277 GYEKIYNS-KNPFDWME-MISLQGKTNFFEKKVGEYQKAGVMSE 318 (330)
T ss_pred CCCCCCCC-CCCCHHHH-HHCCCCCCCCCCCCHHHHHHCCCCCC
T ss_conf 99988899-99845899-85468888876677888877035645
No 5
>COG0208 NrdF Ribonucleotide reductase, beta subunit [Nucleotide transport and metabolism]
Probab=100.00 E-value=4.8e-34 Score=227.80 Aligned_cols=121 Identities=40% Similarity=0.742 Sum_probs=116.2
Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf 94037899999999999996770003112299999999999999999857630876018899999999999999999985
Q gi|254780136|r 1 MRDESLHLNFGIDVINQIKIENPHLWTKEFQQKSRTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIANRRCHQI 80 (125)
Q Consensus 1 ~RDE~lH~~~~~~l~~~l~~e~pe~~~~~~~~~i~~~~~eave~E~~~~~~~~~~~~~Gl~~~~~~~Yiky~an~rL~~l 80 (125)
+|||++|+.+++.+|+.++.+.|+++++++++.+++++.+||++|++|+.++++ |++|||.+++++||+|+||+||++|
T Consensus 218 ~RDE~~H~~~~~~l~~~~~~e~~~~~t~e~~~~~~~l~~~ave~E~~y~~~~~~-~~~Glt~d~~~~Yi~y~ankrL~~l 296 (348)
T COG0208 218 IRDEALHLYFIGYLIQRLVAENPELWTAELKDEIYDLFKEAVELEKEYAEYLYP-GILGLTEDLVKQYIRYNANKRLQNL 296 (348)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCCCCHHHHHHHHHHHHHHHHHHC
T ss_conf 977999998999999999873838556888999999999999999999998735-6579988999999999987999975
Q ss_pred CCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCHHHHHHHCCC
Q ss_conf 978788987888689999834665732131003333430657
Q gi|254780136|r 81 GLEPLFKYTENPFPWMSEVIDLKKEKNFFETRVTEYQQGAEL 122 (125)
Q Consensus 81 Gl~~~f~~~~nPl~W~~~~~~~~~~~nFFE~r~t~Y~k~~~~ 122 (125)
|++|+|+...||+||++.++++++++||||+|+++|+||+..
T Consensus 297 G~~~~y~~~~NP~~~~~~~~~~~~~~dFFe~~~ssY~~~~~~ 338 (348)
T COG0208 297 GLEPLYPAEENPIPWIELSLSADEKTDFFEGRVSSYQKGSVA 338 (348)
T ss_pred CCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCCCHHHHHHCC
T ss_conf 999889987896579986234333577500464167761045
No 6
>PRK09614 nrdF ribonucleotide-diphosphate reductase subunit beta; Reviewed
Probab=100.00 E-value=1.2e-32 Score=219.33 Aligned_cols=122 Identities=28% Similarity=0.425 Sum_probs=108.4
Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf 94037899999999999996770003112299999999999999999857630876018899999999999999999985
Q gi|254780136|r 1 MRDESLHLNFGIDVINQIKIENPHLWTKEFQQKSRTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIANRRCHQI 80 (125)
Q Consensus 1 ~RDE~lH~~~~~~l~~~l~~e~pe~~~~~~~~~i~~~~~eave~E~~~~~~~~~~~~~Gl~~~~~~~Yiky~an~rL~~l 80 (125)
+|||++|+.+++.|++++++|+|++++++++++|++|+++||++|++|++++++ ++|+ +++|++||+|+||+||++|
T Consensus 197 ~RDE~lH~~~~~~l~~~l~~e~p~~~~~~~~~~i~~~~~eave~E~~~~~~~~~--~~Gl-~~~~~~Yi~y~an~~L~~l 273 (325)
T PRK09614 197 IRDESLHGYYIGYLFQAGLEELPELEQEELKDEIYDLLYELYENEEAYTELLYD--ILGL-TEDVKKYIRYNANKALMNL 273 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCC-HHHHHHHHHHHHHHHHHHC
T ss_conf 987888899999999999863988557999999999999999999999999855--4787-8999999999999999977
Q ss_pred CCCCCCCCCCCCHHHHHHHH-CCCCCCCCCCCCHHHHHHHCCC-CCC
Q ss_conf 97878898788868999983-4665732131003333430657-789
Q gi|254780136|r 81 GLEPLFKYTENPFPWMSEVI-DLKKEKNFFETRVTEYQQGAEL-KWD 125 (125)
Q Consensus 81 Gl~~~f~~~~nPl~W~~~~~-~~~~~~nFFE~r~t~Y~k~~~~-~~D 125 (125)
|++|+|+...+|.+||+.+. ++.+++||||+|||+|+||+.. .||
T Consensus 274 G~~~~f~~~~~~p~w~~~~~~~~~~~tnFFE~r~t~Y~k~~~~~~~D 320 (325)
T PRK09614 274 GLEPLYPEEEVNPIWLNGLSNNADENHDFFEGKGTSYSKGSVEATFD 320 (325)
T ss_pred CCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCHHHHHHCCCCCCCC
T ss_conf 99988999889977999988577804589878711323156678843
No 7
>PRK13966 nrdF2 ribonucleotide-diphosphate reductase subunit beta; Provisional
Probab=99.97 E-value=9.3e-31 Score=207.82 Aligned_cols=120 Identities=20% Similarity=0.294 Sum_probs=110.2
Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf 94037899999999999996770003112299999999999999999857630876018899999999999999999985
Q gi|254780136|r 1 MRDESLHLNFGIDVINQIKIENPHLWTKEFQQKSRTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIANRRCHQI 80 (125)
Q Consensus 1 ~RDE~lH~~~~~~l~~~l~~e~pe~~~~~~~~~i~~~~~eave~E~~~~~~~~~~~~~Gl~~~~~~~Yiky~an~rL~~l 80 (125)
+|||++|+.+...+++....+.|+.+++++++.+++++.++|++|++|++++++. +||+. ++++||+|+||+||++|
T Consensus 194 ~RDEs~H~~~~~~l~~~~~~~~~~~~~~e~~~~i~~~~~~~v~~E~~~~~~l~~~--~GL~~-dv~~Yi~Y~ANrrL~~L 270 (324)
T PRK13966 194 IRDEAVHGYYIGYKFQRGLALVDDVTRAELKDYTYELLFELYDNEVEYTQDLYDE--VGLTE-DVKKFLRYNANKALMNL 270 (324)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CCCHH-HHHHHHHHHHHHHHHHC
T ss_conf 9837888879999999988854877689999999999999999999999987523--79489-99999999999999978
Q ss_pred CCCCCCCCC---CCCHHHHHHHHCCCCCCCCCCCCHHHHHHHCCCC
Q ss_conf 978788987---8886899998346657321310033334306577
Q gi|254780136|r 81 GLEPLFKYT---ENPFPWMSEVIDLKKEKNFFETRVTEYQQGAELK 123 (125)
Q Consensus 81 Gl~~~f~~~---~nPl~W~~~~~~~~~~~nFFE~r~t~Y~k~~~~~ 123 (125)
|++|+|+.. .||++|+....++.+++||||+|||+|++|++..
T Consensus 271 Gl~~~fp~~~~~~nP~~~~~~~~~~~~~~nFFE~r~t~Y~~g~~~~ 316 (324)
T PRK13966 271 GYEALFPRDETDVNPAILSALSPNADENHDFFSGSGSSYVIGKAVV 316 (324)
T ss_pred CCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCHHHHHHCCCCC
T ss_conf 8998899745788946699862256753786788700214165667
No 8
>PRK13965 ribonucleotide-diphosphate reductase subunit beta; Provisional
Probab=99.96 E-value=7e-29 Score=196.42 Aligned_cols=122 Identities=20% Similarity=0.209 Sum_probs=100.5
Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf 94037899999999999996770003112299999999999999999857630876018899999999999999999985
Q gi|254780136|r 1 MRDESLHLNFGIDVINQIKIENPHLWTKEFQQKSRTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIANRRCHQI 80 (125)
Q Consensus 1 ~RDE~lH~~~~~~l~~~l~~e~pe~~~~~~~~~i~~~~~eave~E~~~~~~~~~~~~~Gl~~~~~~~Yiky~an~rL~~l 80 (125)
+|||++|+.+++.+++...++.+...+++++++|++|+++||++|++|++++++. +|++ +++++||+|+||+||.+|
T Consensus 207 ~RDEslH~~~~~~~~~~~~~~~~~e~~~e~~~~v~~~~~~aVelE~~~~~~~~~~--~gl~-~~l~~YI~YiANrrL~~L 283 (337)
T PRK13965 207 LRDKVIHNYYSGYKYQQKVARLSPEKQAEMKAFVFDLLYELIDLEKAYLRELYAG--FDLA-EDAIRFSLYNAGKFLQNL 283 (337)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--CCHH-HHHHHHHHHHHHHHHHHC
T ss_conf 8704888889999999998742987789999999999999999999999999836--7769-999999999999999977
Q ss_pred CCCCCCCCCC-CCHHHHHHHHCCC--CCCCCCCCCHHHHHHHCCC-CCC
Q ss_conf 9787889878-8868999983466--5732131003333430657-789
Q gi|254780136|r 81 GLEPLFKYTE-NPFPWMSEVIDLK--KEKNFFETRVTEYQQGAEL-KWD 125 (125)
Q Consensus 81 Gl~~~f~~~~-nPl~W~~~~~~~~--~~~nFFE~r~t~Y~k~~~~-~~D 125 (125)
|++|+|++.+ +|.||+..+++.. +++||||+|||+|+||++- .||
T Consensus 284 Gl~~~y~~~~~~~~P~~~~~~~~~~~~~~dFFE~r~t~Y~~g~~~~~~d 332 (337)
T PRK13965 284 GYESPFTEEETRVSPEVFAQLSARADENHDFFSGNGSSYVMGITEETTD 332 (337)
T ss_pred CCCCCCCCCCCCCCCHHHHHHCCCCCCCCCCCCCCCCHHHHEECCCCCC
T ss_conf 9988899867888814589760478867785477721002100578823
No 9
>KOG1567 consensus
Probab=99.96 E-value=7e-29 Score=196.40 Aligned_cols=113 Identities=34% Similarity=0.625 Sum_probs=106.1
Q ss_pred CHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCC
Q ss_conf 40378999999999999967700031122999999999999999998576308760188999999999999999999859
Q gi|254780136|r 2 RDESLHLNFGIDVINQIKIENPHLWTKEFQQKSRTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIANRRCHQIG 81 (125)
Q Consensus 2 RDE~lH~~~~~~l~~~l~~e~pe~~~~~~~~~i~~~~~eave~E~~~~~~~~~~~~~Gl~~~~~~~Yiky~an~rL~~lG 81 (125)
|||.+|+.|+|.++..+++ ++..+.|++++.+||++|.+|....+|..++|+|+..|++||+|+||+.|..||
T Consensus 219 rdeglh~dFacll~~~l~~-------kp~~~ri~eII~eAV~IEqef~~eaLPv~liGMN~~lM~qYIEFVADrLL~~lG 291 (344)
T KOG1567 219 RDEGLHCDFACLLFSHLKK-------KPNEERIEEIITEAVEIEQEFLTEALPVNLIGMNCDLMSQYIEFVADRLLVELG 291 (344)
T ss_pred HCCCCCCCHHHHHHHHHHH-------CCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHCCCHHHHHHHHHHHHHHHHHHHC
T ss_conf 0247761199999999860-------897899999999999999999871165455345788999999999999999848
Q ss_pred CCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCHHHHHHHCCCC
Q ss_conf 787889878886899998346657321310033334306577
Q gi|254780136|r 82 LEPLFKYTENPFPWMSEVIDLKKEKNFFETRVTEYQQGAELK 123 (125)
Q Consensus 82 l~~~f~~~~nPl~W~~~~~~~~~~~nFFE~r~t~Y~k~~~~~ 123 (125)
+++.|++ +||++||+ .+...++|||||+||++||++|+.+
T Consensus 292 ~~K~Yn~-~NPFdfME-nISl~GKTNFFEKrVseYQk~~vMs 331 (344)
T KOG1567 292 NEKYYNA-ENPFDFME-NISLAGKTNFFEKRVSEYQKAGVMS 331 (344)
T ss_pred CCCEECC-CCCHHHHH-HHHHCCCCCHHHHHHHHHHHCHHCC
T ss_conf 5502057-88168888-7353254415776567765010024
No 10
>PRK13967 nrdF1 ribonucleotide-diphosphate reductase subunit beta; Provisional
Probab=99.95 E-value=3.3e-28 Score=192.30 Aligned_cols=119 Identities=21% Similarity=0.328 Sum_probs=101.9
Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf 94037899999999999996770003112299999999999999999857630876018899999999999999999985
Q gi|254780136|r 1 MRDESLHLNFGIDVINQIKIENPHLWTKEFQQKSRTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIANRRCHQI 80 (125)
Q Consensus 1 ~RDE~lH~~~~~~l~~~l~~e~pe~~~~~~~~~i~~~~~eave~E~~~~~~~~~~~~~Gl~~~~~~~Yiky~an~rL~~l 80 (125)
+|||++|+.+...+++....+.|+..++++++.+.++++++|++|++|+.++++. +|++. ++.+||+|+||+||.+|
T Consensus 192 ~RDEslH~~~~~~~~~~~~~~~~~~~~~e~~e~~~~~~~~~v~~Ei~~~~~l~~~--lGl~~-dv~~YI~YiANrrL~~L 268 (322)
T PRK13967 192 IRDEAVHGYYIGYKCQRGLADLTDAERADHREYTCELLHTLYANEIDYAHDLYDE--LGWTD-DVLPYMRYNANKALANL 268 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCHH-HHHHHHHHHHHHHHHHC
T ss_conf 9828888999999999874523787789999999999999999999999998712--28689-99999989999999978
Q ss_pred CCCCCCCCCC-CCHHHHHHHHC--CCCCCCCCCCCHHHHHHHCCC
Q ss_conf 9787889878-88689999834--665732131003333430657
Q gi|254780136|r 81 GLEPLFKYTE-NPFPWMSEVID--LKKEKNFFETRVTEYQQGAEL 122 (125)
Q Consensus 81 Gl~~~f~~~~-nPl~W~~~~~~--~~~~~nFFE~r~t~Y~k~~~~ 122 (125)
|++|+|+... +|.||+...++ +.+++||||+|+|+|+||++-
T Consensus 269 Gl~p~y~~~~~~~nP~~~~~~~~~~~~~~dFFe~r~t~Y~k~~~~ 313 (322)
T PRK13967 269 GYQPAFDRDTCQVNPAVRAALDPGAGENHDFFSGSGSSYVMGTHQ 313 (322)
T ss_pred CCCCCCCCCCCCCCCHHHHHHCCCCCCCCCCCCCCCCCCHHCCCC
T ss_conf 899999985577883668875768763268557886400432566
No 11
>cd01049 RNRR2 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain. Ribonucleotide Reductase, R2/beta subunit (RNRR2) is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The RNR protein catalyzes the conversion of ribonucleotides to deoxyribonucleotides and is found in all eukaryotes, many prokaryotes, several viruses, and few archaea. The catalytically active form of RNR is a proposed alpha2-beta2 tetramer. The homodimeric alpha subunit (R1) contains the active site and redox active cysteines as well as the allosteric binding sites. The beta subunit (R2) contains a diiron cluster that, in its reduced state, reacts with dioxygen to form a stable tyrosyl radical and a diiron(III) cluster. This essential tyrosyl radical is proposed to generate a thiyl radical, located on a cysteine residue in the R1 active site that initiates ribonucleotide reduction. The beta subunit is composed of 10-13 helices, the 8 longest helices form an alpha-
Probab=99.94 E-value=4.3e-26 Score=179.45 Aligned_cols=100 Identities=41% Similarity=0.762 Sum_probs=95.9
Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf 94037899999999999996770003112299999999999999999857630876018899999999999999999985
Q gi|254780136|r 1 MRDESLHLNFGIDVINQIKIENPHLWTKEFQQKSRTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIANRRCHQI 80 (125)
Q Consensus 1 ~RDE~lH~~~~~~l~~~l~~e~pe~~~~~~~~~i~~~~~eave~E~~~~~~~~~~~~~Gl~~~~~~~Yiky~an~rL~~l 80 (125)
.|||++|+.|++.+++++++++|+++++++++.|++++++||++|.+|++++++.|++|++++++++||+|+||+||.+|
T Consensus 187 ~rDE~lH~~f~~~l~~~l~~e~~~~~~~~~~~~i~~~~~eav~~E~~~~~~~~~~~i~gl~~~~~~~yi~y~an~~l~~l 266 (288)
T cd01049 187 SRDESLHGDFACLLIRELLNENPELFTEEFKEEVYELIKEAVELEKEFARDLLPDGILGLNKEDMKQYIEYVANRRLENL 266 (288)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHC
T ss_conf 99899999999999999886298856566799999999999999999999980688689899999999999999999977
Q ss_pred CCCCCCCCC-CCCHHHHHHHH
Q ss_conf 978788987-88868999983
Q gi|254780136|r 81 GLEPLFKYT-ENPFPWMSEVI 100 (125)
Q Consensus 81 Gl~~~f~~~-~nPl~W~~~~~ 100 (125)
|++|+|++. +||+|||+...
T Consensus 267 G~~~~f~~~~~nP~~~~~~~~ 287 (288)
T cd01049 267 GLEKLFNVEDKNPFDWMELIS 287 (288)
T ss_pred CCCCCCCCCCCCCHHHHHHHC
T ss_conf 999999999999777998751
No 12
>pfam00268 Ribonuc_red_sm Ribonucleotide reductase, small chain.
Probab=99.88 E-value=3.4e-22 Score=155.77 Aligned_cols=88 Identities=31% Similarity=0.460 Sum_probs=80.9
Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf 94037899999999999996770003112299999999999999999857630876018899999999999999999985
Q gi|254780136|r 1 MRDESLHLNFGIDVINQIKIENPHLWTKEFQQKSRTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIANRRCHQI 80 (125)
Q Consensus 1 ~RDE~lH~~~~~~l~~~l~~e~pe~~~~~~~~~i~~~~~eave~E~~~~~~~~~~~~~Gl~~~~~~~Yiky~an~rL~~l 80 (125)
+|||++|+.|++.||+++++++ ++.++.|++++++||++|++|++++++.+++|||+++|++||+|+||+||++|
T Consensus 191 ~RDE~lH~~f~~~l~~~~~~~~-----~~~~~~v~~~~~eave~E~~~~~~~~~~~~~gl~~~~~~~Yi~y~an~~L~~L 265 (281)
T pfam00268 191 SRDEALHTDAACLLYNNYLGLE-----KPEPKRIYKLFREAVEIEIEFIEAAAPVDVHGMNVRAIKQYIEFSADRLLVAI 265 (281)
T ss_pred HHHHHHHHHHHHHHHHHHHHHC-----CCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHC
T ss_conf 9989999999999999998735-----85499999999999999999999867788389799999999999999999977
Q ss_pred CCCCCCCCCCCCHH
Q ss_conf 97878898788868
Q gi|254780136|r 81 GLEPLFKYTENPFP 94 (125)
Q Consensus 81 Gl~~~f~~~~nPl~ 94 (125)
|++|+|++ +||+.
T Consensus 266 G~~~~f~~-~NPf~ 278 (281)
T pfam00268 266 GYKPLFNV-PNPFF 278 (281)
T ss_pred CCCCCCCC-CCCCC
T ss_conf 99998999-89899
No 13
>cd07911 RNRR2_Rv0233_like Ribonucleotide Reductase R2-like protein, ferritin-like diiron-binding domain. Rv0233 is a Mycobacterium tuberculosis ribonucleotide reductase R2 protein with a heterodinuclear manganese/iron-carboxylate cofactor located in its metal center. The Rv0233-like family may represent a structural/functional counterpart of the evolutionary ancestor of the RNRR2's (Ribonucleotide Reductase, R2/beta subunit) and the bacterial multicomponent monooxygenases. RNRR2s belong to a broad superfamily of ferritin-like diiron-carboxylate proteins. The RNR protein catalyzes the conversion of ribonucleotides to deoxyribonucleotides and is found in prokaryotes and archaea. The catalytically active form of RNR is a proposed alpha2-beta2 tetramer. The homodimeric alpha subunit (R1) contains the active site and redox active cysteines as well as the allosteric binding sites.
Probab=99.50 E-value=1.4e-13 Score=103.36 Aligned_cols=84 Identities=20% Similarity=0.169 Sum_probs=75.7
Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf 94037899999999999996770003112299999999999999999857630876018899999999999999999985
Q gi|254780136|r 1 MRDESLHLNFGIDVINQIKIENPHLWTKEFQQKSRTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIANRRCHQI 80 (125)
Q Consensus 1 ~RDE~lH~~~~~~l~~~l~~e~pe~~~~~~~~~i~~~~~eave~E~~~~~~~~~~~~~Gl~~~~~~~Yiky~an~rL~~l 80 (125)
.|||++|+.||+.+++.++.|+|++| +.+++.+.+++..|++++ +++..+++.+++|++++.+.+|+.++|++||..|
T Consensus 187 ~RDE~~H~~fg~~l~~~l~~e~p~~~-d~~~e~~~el~~~av~~~-~~~~~~~~~~~~g~~~~~f~~Y~~~~a~~rLg~i 264 (280)
T cd07911 187 GDDESRHIAWGTFTCRRLVAADDANW-DVFEERMNELVPHALGLI-DEIFELYDEMPFGLDPDELMQYAVDQFQRRLGYI 264 (280)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCHHHH-HHHHHHHHHHHHHHHHHH-HHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf 98899999999999999998695678-999999999999999999-9998515655668899999999999999874488
Q ss_pred CCCCCC
Q ss_conf 978788
Q gi|254780136|r 81 GLEPLF 86 (125)
Q Consensus 81 Gl~~~f 86 (125)
+-.+-.
T Consensus 265 ~~~~~~ 270 (280)
T cd07911 265 ERARGQ 270 (280)
T ss_pred HHHCCC
T ss_conf 785299
No 14
>PRK08326 ribonucleotide-diphosphate reductase subunit beta; Validated
Probab=98.96 E-value=4.4e-09 Score=76.07 Aligned_cols=97 Identities=22% Similarity=0.253 Sum_probs=80.6
Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf 94037899999999999996770003112299999999999999999857630876018899999999999999999985
Q gi|254780136|r 1 MRDESLHLNFGIDVINQIKIENPHLWTKEFQQKSRTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIANRRCHQI 80 (125)
Q Consensus 1 ~RDE~lH~~~~~~l~~~l~~e~pe~~~~~~~~~i~~~~~eave~E~~~~~~~~~~~~~Gl~~~~~~~Yiky~an~rL~~l 80 (125)
.|||+.|+.||.++++.++.|+|++| +.+.+.+.+++..|+-+ .+|+..+++.-..||+.+.+.+|+++++++||..|
T Consensus 206 ~RDE~rHi~~g~~~~~rlv~e~~~~~-~~~~e~~~el~~~a~~~-~~~~~~~~~~~~~~l~~~~~~~ya~~~~~~Rl~~i 283 (318)
T PRK08326 206 GDDESRHIAFGTYTCRRLVAADDSNW-DVFEERMNELIPLALGL-IDEGFALYDVIPFGLSKDEFMQYAADKGQRRLGTI 283 (318)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCHHHH-HHHHHHHHHHHHHHHHH-HHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf 61599999999999999986088889-99999999999999877-52441036668889998999999999998889999
Q ss_pred C---CCCCCCC--CCCCHHHHHHH
Q ss_conf 9---7878898--78886899998
Q gi|254780136|r 81 G---LEPLFKY--TENPFPWMSEV 99 (125)
Q Consensus 81 G---l~~~f~~--~~nPl~W~~~~ 99 (125)
+ ..|+... +..|..+-+..
T Consensus 284 ~~ar~~~~~~~~~~~~~~~~~~~~ 307 (318)
T PRK08326 284 SRARGRPLAEIDLDYSPLQLEDTF 307 (318)
T ss_pred HHHCCCCCHHCCCCCCHHHHHHHH
T ss_conf 974199700305778989999886
No 15
>cd07911 RNRR2_Rv0233_like Ribonucleotide Reductase R2-like protein, ferritin-like diiron-binding domain. Rv0233 is a Mycobacterium tuberculosis ribonucleotide reductase R2 protein with a heterodinuclear manganese/iron-carboxylate cofactor located in its metal center. The Rv0233-like family may represent a structural/functional counterpart of the evolutionary ancestor of the RNRR2's (Ribonucleotide Reductase, R2/beta subunit) and the bacterial multicomponent monooxygenases. RNRR2s belong to a broad superfamily of ferritin-like diiron-carboxylate proteins. The RNR protein catalyzes the conversion of ribonucleotides to deoxyribonucleotides and is found in prokaryotes and archaea. The catalytically active form of RNR is a proposed alpha2-beta2 tetramer. The homodimeric alpha subunit (R1) contains the active site and redox active cysteines as well as the allosteric binding sites.
Probab=94.88 E-value=0.056 Score=32.89 Aligned_cols=57 Identities=9% Similarity=-0.054 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCC
Q ss_conf 299999999999999999857630876018899999999999999999985978788
Q gi|254780136|r 30 FQQKSRTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIANRRCHQIGLEPLF 86 (125)
Q Consensus 30 ~~~~i~~~~~eave~E~~~~~~~~~~~~~Gl~~~~~~~Yiky~an~rL~~lGl~~~f 86 (125)
..+.+.+.+.+.++.+.+++.++.+....|+-..+...|++|++|+.++.||+-.-.
T Consensus 211 ~~d~~~e~~~el~~~av~~~~~~~~~~~~~~~g~~~~~f~~Y~~~~a~~rLg~i~~~ 267 (280)
T cd07911 211 NWDVFEERMNELVPHALGLIDEIFELYDEMPFGLDPDELMQYAVDQFQRRLGYIERA 267 (280)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 789999999999999999999998515655668899999999999999874488785
No 16
>pfam11266 DUF3066 Protein of unknown function (DUF3066). This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=92.45 E-value=0.81 Score=25.81 Aligned_cols=76 Identities=16% Similarity=0.219 Sum_probs=42.0
Q ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CCCCCCHHHHHHHHHHHHHHHHHH
Q ss_conf 9403789999999999999677000311229999999999999999985763087-601889999999999999999998
Q gi|254780136|r 1 MRDESLHLNFGIDVINQIKIENPHLWTKEFQQKSRTMLHEATLLEIAYAHETMPK-GFVGLNAPSCEQYMQFIANRRCHQ 79 (125)
Q Consensus 1 ~RDE~lH~~~~~~l~~~l~~e~pe~~~~~~~~~i~~~~~eave~E~~~~~~~~~~-~~~Gl~~~~~~~Yiky~an~rL~~ 79 (125)
|+||.+|+.||..-++.-. +.+++++.+.-++..-+-..-.+.+-++ .++|+.++.+.+=.--.-...|..
T Consensus 131 VkDEy~HLN~Ge~WLk~~f--------~~~k~el~~AN~~nLPlv~~ML~qV~~Da~vL~Meke~lvedFmi~Y~eAL~~ 202 (219)
T pfam11266 131 VKDEYTHLNFGEEWLKANF--------ETSKEELEEANRENLPLVWKMLNQVADDAAVLGMDKEALVEDFMIAYGEALTN 202 (219)
T ss_pred HHHHHHHCCHHHHHHHHHH--------HHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
T ss_conf 7447776026899999999--------99999999988861639999999998789997788999999999999999997
Q ss_pred CCCCC
Q ss_conf 59787
Q gi|254780136|r 80 IGLEP 84 (125)
Q Consensus 80 lGl~~ 84 (125)
||+..
T Consensus 203 IGf~~ 207 (219)
T pfam11266 203 IGFTT 207 (219)
T ss_pred CCCCH
T ss_conf 59758
No 17
>TIGR01647 ATPase-IIIA_H plasma-membrane proton-efflux P-type ATPase; InterPro: IPR006534 These sequences represent the plasma membrane proton efflux P-type ATPase found in plants, fungi, protozoa, slime molds and archaea. The best studied representative is from yeast . ; GO: 0016887 ATPase activity, 0015992 proton transport, 0016021 integral to membrane.
Probab=90.54 E-value=0.35 Score=28.03 Aligned_cols=27 Identities=30% Similarity=0.534 Sum_probs=21.6
Q ss_pred HHHHHHHCCCCCCCCCCC-----------CCHHHHHHH
Q ss_conf 999999859787889878-----------886899998
Q gi|254780136|r 73 ANRRCHQIGLEPLFKYTE-----------NPFPWMSEV 99 (125)
Q Consensus 73 an~rL~~lGl~~~f~~~~-----------nPl~W~~~~ 99 (125)
|.+||..-|...+.+.+. ||||||-|.
T Consensus 7 A~~RL~~yGpN~l~Ekk~~~ll~FL~f~WnPlsWvmE~ 44 (835)
T TIGR01647 7 AKKRLAKYGPNELPEKKVSPLLKFLSFMWNPLSWVMEA 44 (835)
T ss_pred HHHHHHHCCCCCCCCCCCCHHHHHHHHHHCHHHHHHHH
T ss_conf 99999742888785534225999977520724899999
No 18
>TIGR00289 TIGR00289 conserved hypothetical protein TIGR00289; InterPro: IPR005237 This family of conserved hypothetical proteins has no known function. Homologous proteins related to MJ0570 of Methanococcus jannaschii include both the apparent orthologs in the family, the much longer protein YLR143W from Saccharomyces cerevisiae (Baker's yeast), and second homologous proteins from Archaeoglobus fulgidus and Pyrococcus horikoshii that appear to represent a second orthologous group..
Probab=82.37 E-value=1.3 Score=24.57 Aligned_cols=74 Identities=12% Similarity=0.273 Sum_probs=46.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCC-CCCCHHHHHHHHCCCCCCCCC
Q ss_conf 9999999999999999985763087601889999999999999999998597878898-788868999983466573213
Q gi|254780136|r 31 QQKSRTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIANRRCHQIGLEPLFKY-TENPFPWMSEVIDLKKEKNFF 109 (125)
Q Consensus 31 ~~~i~~~~~eave~E~~~~~~~~~~~~~Gl~~~~~~~Yiky~an~rL~~lGl~~~f~~-~~nPl~W~~~~~~~~~~~nFF 109 (125)
+++|-++..+.-++...=++-+... ..-=+|=|-|.|+.|+.+|++.+=|- .+||++||...++ --|
T Consensus 72 EkEVedLag~l~~lderGvea~~~G-------a~~S~YQK~Rid~vCrelGlks~APLW~~dPle~~~~~V~-----e~F 139 (227)
T TIGR00289 72 EKEVEDLAGQLEELDERGVEAVVIG-------AIESEYQKSRIDKVCRELGLKSIAPLWHKDPLEYLLEEVA-----EKF 139 (227)
T ss_pred CCHHHHHHHHHHHHHHCCCCEEEEC-------CEECCHHHHHHHHHHHHHCCHHCCCCCCCCHHHHHHHHHH-----CCC
T ss_conf 2117666215544553054547885-------3410112335778877714100276013481799999862-----336
Q ss_pred CCCHHHH
Q ss_conf 1003333
Q gi|254780136|r 110 ETRVTEY 116 (125)
Q Consensus 110 E~r~t~Y 116 (125)
+.++++=
T Consensus 140 ~v~iv~V 146 (227)
T TIGR00289 140 EVIIVSV 146 (227)
T ss_pred EEEEEEE
T ss_conf 0899999
No 19
>pfam10603 consensus
Probab=71.29 E-value=9.2 Score=19.40 Aligned_cols=40 Identities=10% Similarity=0.029 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf 99999999999998576308760188999999999999999
Q gi|254780136|r 35 RTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIANR 75 (125)
Q Consensus 35 ~~~~~eave~E~~~~~~~~~~~~~Gl~~~~~~~Yiky~an~ 75 (125)
++++..|..+|.+|..|.- .=+.|-|.++++.-|+-+.+.
T Consensus 2 kk~yerA~KlEqef~e~Ft-aiVqGdt~e~i~~qvK~vI~~ 41 (55)
T pfam10603 2 KKTYERALKLEQEFGEYFT-AIVQGDSLEEIYTQIKSVIEE 41 (55)
T ss_pred CHHHHHHHHHHHHHHHHCE-EEEECCCHHHHHHHHHHHHHH
T ss_conf 0699999999999998712-545089899999999999998
No 20
>pfam02007 MtrH Tetrahydromethanopterin S-methyltransferase MtrH subunit. The enzyme tetrahydromethanopterin S-methyltransferase EC:2.1.1.86 is composed of eight subunits. The enzyme is a membrane- associated enzyme complex which catalyses an energy-conserving, sodium-ion-translocating step in methanogenesis from hydrogen and carbon dioxide.
Probab=58.40 E-value=16 Score=17.93 Aligned_cols=44 Identities=11% Similarity=0.262 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf 999999999999999998576308760188999999999999999
Q gi|254780136|r 31 QQKSRTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIANR 75 (125)
Q Consensus 31 ~~~i~~~~~eave~E~~~~~~~~~~~~~Gl~~~~~~~Yiky~an~ 75 (125)
++....++....++......-.+ .+++|-|.+.|..||+|+++.
T Consensus 46 k~~Ae~Lin~q~elsd~TGnp~~-~qI~g~t~EA~~kYidfv~~i 89 (296)
T pfam02007 46 REAAEALINTQEELSDETGNPYL-VQIFGETPEAIIRYIDFVADV 89 (296)
T ss_pred HHHHHHHHHHHHHHHHHHCCCEE-EEEECCCHHHHHHHHHHHHCC
T ss_conf 89999999999988775589657-776448989999988876325
No 21
>TIGR00956 3a01205 Pleiotropic Drug Resistance (PDR) Family protein; InterPro: IPR005285 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain . The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyze ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarize the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site , , . The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis , , , , , . Proteins known to belong to this family are classified in several functional subfamilies depending on the substrate used (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). This family includes transporters, whose physiological function is not yet established. These proteins are thought to confer resistance to the chemicals cycloheximide and sulphomethuron methyl, BFA, azole antifungal agents, other antifungal agents: amorolfine and terbinafine. Some of them could serve as an efflux pump of various antibiotics..
Probab=45.62 E-value=26 Score=16.65 Aligned_cols=55 Identities=31% Similarity=0.486 Sum_probs=40.1
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHCC----CCCCCCCCC--CHHHHHH
Q ss_conf 60188999999999999999999859787889878886899998346----657321310--0333343
Q gi|254780136|r 56 GFVGLNAPSCEQYMQFIANRRCHQIGLEPLFKYTENPFPWMSEVIDL----KKEKNFFET--RVTEYQQ 118 (125)
Q Consensus 56 ~~~Gl~~~~~~~Yiky~an~rL~~lGl~~~f~~~~nPl~W~~~~~~~----~~~~nFFE~--r~t~Y~k 118 (125)
|.+|=|...|.+|-+- .-|-.|.= .+.||-.||-+.+.+ .-++||||. .+++|+.
T Consensus 1051 GdlG~n~~T~inYFEa-------~hGA~kCp-~~~NPAEwmLeViGAApga~~~~Dy~E~W~nS~ey~~ 1111 (1466)
T TIGR00956 1051 GDLGENSKTLINYFEA-------KHGAPKCP-EDANPAEWMLEVIGAAPGAKANQDYHEVWRNSSEYQA 1111 (1466)
T ss_pred CCCCHHHHHHHHHHHH-------HCCCCCCC-CCCCCHHHHHHHHCCCCCCCCCCHHHHHHCCCHHHHH
T ss_conf 7513135899988866-------53788985-8876345587774468777633006756258388999
No 22
>PRK00979 tetrahydromethanopterin S-methyltransferase subunit H; Provisional
Probab=44.80 E-value=27 Score=16.57 Aligned_cols=44 Identities=11% Similarity=0.286 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf 999999999999999998576308760188999999999999999
Q gi|254780136|r 31 QQKSRTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIANR 75 (125)
Q Consensus 31 ~~~i~~~~~eave~E~~~~~~~~~~~~~Gl~~~~~~~Yiky~an~ 75 (125)
++....++....++......-.+ .+++|-|.+.+..||+|+++.
T Consensus 51 k~~Ae~Lin~q~elsd~tGnp~~-~qI~g~t~EA~~kYidfv~~~ 94 (310)
T PRK00979 51 KEAAEALINRQAELSDITGNPYI-LQIFGETGEAIEKYIDFVSEI 94 (310)
T ss_pred HHHHHHHHHHHHHHHHHHCCCEE-EEEECCCHHHHHHHHHHHHHC
T ss_conf 89999999999988774589657-776448989999998877404
No 23
>pfam08671 SinI Anti-repressor SinI. SinR is a pleiotropic regulator of several late growth processes. It is a tetrameric DNA binding protein whose activity is down-regulated thorough the formation of a SinI:SinR protein complex. When complexed with SinI, the SinR tetramer is disrupted such that is no longer able to bind DNA.
Probab=43.54 E-value=10 Score=19.20 Aligned_cols=27 Identities=11% Similarity=0.272 Sum_probs=20.7
Q ss_pred HHHHHHHHCCCCCCCCCHHHHHHHHHH
Q ss_conf 999857630876018899999999999
Q gi|254780136|r 45 EIAYAHETMPKGFVGLNAPSCEQYMQF 71 (125)
Q Consensus 45 E~~~~~~~~~~~~~Gl~~~~~~~Yiky 71 (125)
..+|...+..--..|++++++.+|+.+
T Consensus 2 D~EW~~Li~EA~~~Gis~ee~r~fL~~ 28 (30)
T pfam08671 2 DQEWVQLIKEAMEAGLSKEEFREFLEF 28 (30)
T ss_pred CHHHHHHHHHHHHCCCCHHHHHHHHHC
T ss_conf 579999999999814679999999850
No 24
>TIGR01125 TIGR01125 MiaB-like tRNA modifying enzyme YliG, TIGR01125; InterPro: IPR005840 This is a family of mainly hypothetical proteins of unknown function. .
Probab=41.85 E-value=8.1 Score=19.73 Aligned_cols=51 Identities=16% Similarity=0.259 Sum_probs=38.0
Q ss_pred HHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCCC---CCCCCCCCCCH
Q ss_conf 9999985763087601889999999999999999998597---87889878886
Q gi|254780136|r 43 LLEIAYAHETMPKGFVGLNAPSCEQYMQFIANRRCHQIGL---EPLFKYTENPF 93 (125)
Q Consensus 43 e~E~~~~~~~~~~~~~Gl~~~~~~~Yiky~an~rL~~lGl---~~~f~~~~nPl 93 (125)
..+...++-.|=.|.+|=|.|+...=.+|+-.-++..+|. .|.-+...++|
T Consensus 321 ~~P~~vlRttfIVGFPGETEEdF~eL~~Fv~e~~~D~lG~F~YS~eEgt~A~~L 374 (475)
T TIGR01125 321 KVPDAVLRTTFIVGFPGETEEDFQELLDFVEEGQFDRLGVFTYSPEEGTDAFAL 374 (475)
T ss_pred HCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCCCHHHCC
T ss_conf 556617722468868899878899999998520215000020783236603507
No 25
>KOG2067 consensus
Probab=36.02 E-value=28 Score=16.47 Aligned_cols=53 Identities=17% Similarity=0.316 Sum_probs=27.9
Q ss_pred HHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCCCCCCHHHHHHHHHHHH
Q ss_conf 6770003112299999999999999999857630--87601889999999999999
Q gi|254780136|r 20 IENPHLWTKEFQQKSRTMLHEATLLEIAYAHETM--PKGFVGLNAPSCEQYMQFIA 73 (125)
Q Consensus 20 ~e~pe~~~~~~~~~i~~~~~eave~E~~~~~~~~--~~~~~Gl~~~~~~~Yiky~a 73 (125)
-|..++|+++ +--..+|+.+|.=..-..+.-.+ ...+.+||.+.+.+|++|.-
T Consensus 147 ~E~~el~~~P-e~lL~e~iH~Aay~~ntlg~pl~cp~~~i~~I~~~~l~~yl~~~y 201 (472)
T KOG2067 147 YEIEELWMRP-EPLLTEMIHSAAYSGNTLGLPLLCPEENIDKINREVLEEYLKYFY 201 (472)
T ss_pred HECCCCCCCC-HHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCC
T ss_conf 0112002482-366999999987356765555538745531303999999998617
No 26
>cd01050 Acyl_ACP_Desat Acyl ACP desaturase, ferritin-like diiron-binding domain. Acyl-Acyl Carrier Protein Desaturase (Acyl_ACP_Desat) is a mu-oxo-bridged diiron-carboxylate enzyme, which belongs to a broad superfamily of ferritin-like proteins and catalyzes the NADPH and O2-dependent formation of a cis-double bond in acyl-ACPs. Acyl-ACP desaturases are found in higher plants and a few bacterial species (Mycobacterium tuberculosis, M. leprae, M. avium and Streptomyces avermitilis, S. coelicolor). In plants, Acyl-ACP desaturase is a plastid-localized, covalently ACP linked, soluble desaturase that introduces the first double bound into saturated fatty acids, resulting in the corresponding monounsaturated fatty acid. Members of this class of soluble desaturases are specific for a particular substrate chain length and introduce the double bond between specific carbon atoms. For example, delta 9 stearoyl-ACP is specific for stearic acid and introduces a double bond between carbon 9 and 1
Probab=35.58 E-value=38 Score=15.69 Aligned_cols=23 Identities=26% Similarity=0.377 Sum_probs=19.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf 40378999999999999967700
Q gi|254780136|r 2 RDESLHLNFGIDVINQIKIENPH 24 (125)
Q Consensus 2 RDE~lH~~~~~~l~~~l~~e~pe 24 (125)
.||++|..|..+++..+.+=.|.
T Consensus 189 ~DE~rH~~fYr~iv~~~le~dPd 211 (297)
T cd01050 189 ADEARHEAFYRDIVEALFELDPD 211 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHCCH
T ss_conf 16889999999999999833936
No 27
>TIGR02094 more_P_ylases alpha-glucan phosphorylases; InterPro: IPR011834 This family consists of known phosphorylases, and homologues believed to share the function of using inorganic phosphate to cleave an alpha 1,4 linkage between the terminal glucose residue and the rest of the polymer (maltodextrin, glycogen, etc.). The name of the glucose storage polymer substrate, and therefore the name of this enzyme, depends on the chain lengths and branching patterns. A number of the members of this family have been shown to operate on small maltodextrins, as may be obtained by utilization of exogenous sources. This family represents a distinct clade from the related families: Glycogen/starch/alpha-glucan phosphorylase and Glycosyl transferase, family 35.; GO: 0004645 phosphorylase activity, 0030170 pyridoxal phosphate binding, 0005975 carbohydrate metabolic process.
Probab=35.13 E-value=25 Score=16.76 Aligned_cols=110 Identities=11% Similarity=0.101 Sum_probs=72.2
Q ss_pred HHHHHHHHHHHHHHHHHCCCC---------------CC-----HHHHHHHHHHHH-HHHHHHHHHH-HHHCCCCCC----
Q ss_conf 789999999999999677000---------------31-----122999999999-9999999985-763087601----
Q gi|254780136|r 5 SLHLNFGIDVINQIKIENPHL---------------WT-----KEFQQKSRTMLH-EATLLEIAYA-HETMPKGFV---- 58 (125)
Q Consensus 5 ~lH~~~~~~l~~~l~~e~pe~---------------~~-----~~~~~~i~~~~~-eave~E~~~~-~~~~~~~~~---- 58 (125)
-||...+++|+..|=...|+- |. +.++...-+.++ +-...+.-|. -+-+|+..+
T Consensus 280 kLHg~VSr~Mw~~Lyp~~~p~EvPI~~vTNGVH~pTW~~~~~~~L~~~~~g~~w~W~~~~~~~~w~~~~~iPDeeLW~~h 359 (618)
T TIGR02094 280 KLHGEVSRKMWADLYPGVEPEEVPIGYVTNGVHLPTWVAPELAELYERYLGENWRWEDLASEEIWEAIDDIPDEELWEVH 359 (618)
T ss_pred HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCEEECCCCHHHHHHHHCCCHHHHHHHH
T ss_conf 88899999986311688780204356311885675537878999998507864223047876799874118968999999
Q ss_pred CCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHC---CCCCCCCCCCCHHHHHHHC
Q ss_conf 8899999999999999999985978788987888689999834---6657321310033334306
Q gi|254780136|r 59 GLNAPSCEQYMQFIANRRCHQIGLEPLFKYTENPFPWMSEVID---LKKEKNFFETRVTEYQQGA 120 (125)
Q Consensus 59 Gl~~~~~~~Yiky~an~rL~~lGl~~~f~~~~nPl~W~~~~~~---~~~~~nFFE~r~t~Y~k~~ 120 (125)
.-.+..|..|||..+..++..=|. +..++.+....+| .+..|==|..|.+.|..+.
T Consensus 360 ~~~K~~Li~~ir~~~~~~~~~~~~------~~~~~~~~~~~lD~~~p~~LtIGFARRfAtYKRa~ 418 (618)
T TIGR02094 360 LKLKAELIDYIRRRLREQLLRRGA------DAAELKATDRLLDAKSPDVLTIGFARRFATYKRAT 418 (618)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCC------CHHHHHHHHHHCCCCCCCCCEECHHHCCCCCCCHH
T ss_conf 998999999999999998885036------86688888641464578852522122276002613
No 28
>TIGR01502 B_methylAsp_ase methylaspartate ammonia-lyase; InterPro: IPR006395 These sequences describe methylaspartate ammonia-lyase, also called beta-methylaspartase. It follows methylaspartate mutase (composed of S and E subunits) in one of several possible pathways of glutamate fermentation. .
Probab=33.47 E-value=26 Score=16.67 Aligned_cols=59 Identities=19% Similarity=0.543 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCC-------CCCCHHHHHHHHHHHHHHHHHHCC----CCCCCCCCCCCHHHHHHHH
Q ss_conf 99999999999999998576308760-------188999999999999999999859----7878898788868999983
Q gi|254780136|r 32 QKSRTMLHEATLLEIAYAHETMPKGF-------VGLNAPSCEQYMQFIANRRCHQIG----LEPLFKYTENPFPWMSEVI 100 (125)
Q Consensus 32 ~~i~~~~~eave~E~~~~~~~~~~~~-------~Gl~~~~~~~Yiky~an~rL~~lG----l~~~f~~~~nPl~W~~~~~ 100 (125)
..+-+|+-..| .+||-|+ +|+.-+.+-+||+|+.+|. .+|| |.|+|-+ .-+=|+=+.+
T Consensus 179 ~nvdkMilK~v--------dVLPHgLiNsve~k~G~dG~~l~EyvkWl~~R~-~~lgv~~gY~P~fH~--DVYG~iGe~f 247 (414)
T TIGR01502 179 RNVDKMILKEV--------DVLPHGLINSVEKKLGLDGEKLLEYVKWLSERI-AKLGVSEGYRPVFHV--DVYGTIGEEF 247 (414)
T ss_pred HCHHHHHHHHC--------CCCCCCHHCCHHHHCCCCCHHHHHHHHHHHHHH-HHCCCCCCCCCEEEE--EECCHHHHHC
T ss_conf 13344223002--------557640120203222887115577888899988-750678898406887--5032334323
Q ss_pred C
Q ss_conf 4
Q gi|254780136|r 101 D 101 (125)
Q Consensus 101 ~ 101 (125)
+
T Consensus 248 g 248 (414)
T TIGR01502 248 G 248 (414)
T ss_pred C
T ss_conf 8
No 29
>pfam11251 DUF3050 Protein of unknown function (DUF3050). This bacterial family of proteins has no known function.
Probab=32.54 E-value=42 Score=15.39 Aligned_cols=71 Identities=15% Similarity=0.282 Sum_probs=41.3
Q ss_pred HHHHHHHHHHH-----CCCCCCHHHHHHHHHHHHHHHHHHH-----------HHHHHHCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf 99999999967-----7000311229999999999999999-----------9857630876018899999999999999
Q gi|254780136|r 11 GIDVINQIKIE-----NPHLWTKEFQQKSRTMLHEATLLEI-----------AYAHETMPKGFVGLNAPSCEQYMQFIAN 74 (125)
Q Consensus 11 ~~~l~~~l~~e-----~pe~~~~~~~~~i~~~~~eave~E~-----------~~~~~~~~~~~~Gl~~~~~~~Yiky~an 74 (125)
+..|++.++.+ -| |.+.-...++..+.|.|--|. -|--|+-...-+|-+...+..||+.+.+
T Consensus 31 FMSLlK~LQ~~ltc~~~P--W~P~~~~~~~RlINEIVl~EESD~~~~g~~~SHFElYl~AM~e~GA~t~~I~~fi~~l~~ 108 (232)
T pfam11251 31 FMSLLKALQQQLTCTTVP--WVPPGNPELRRLINEIVLAEESDENLDGEHQSHFELYLDAMREVGADTSKIEAFLKLVQS 108 (232)
T ss_pred HHHHHHHHHHHHCCCCCC--CCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHC
T ss_conf 989999999853378888--789998159999999986530365779881149999999999938991789999999875
Q ss_pred -----HHHHHCCCC
Q ss_conf -----999985978
Q gi|254780136|r 75 -----RRCHQIGLE 83 (125)
Q Consensus 75 -----~rL~~lGl~ 83 (125)
..|...+++
T Consensus 109 g~~~~~al~~~~~p 122 (232)
T pfam11251 109 GTSVFEALAQADLP 122 (232)
T ss_pred CCCHHHHHHHCCCC
T ss_conf 89999998764899
No 30
>TIGR00988 hip integration host factor, beta subunit; InterPro: IPR005685 Integration host factor (IHF) is a heterodimeric protein consisting of alpha (IPR005684 from INTERPRO) and beta subunits. IHF binds the minor groove of DNA in a sequence-specific manner to induce a large bend. This bending stabilises distinct DNA conformations that are required during several bacterial processes, such as recombination, transposition, replication and transcription .; GO: 0003677 DNA binding, 0005694 chromosome.
Probab=29.87 E-value=47 Score=15.11 Aligned_cols=32 Identities=31% Similarity=0.544 Sum_probs=26.4
Q ss_pred HHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf 99999999677000311229999999999999
Q gi|254780136|r 12 IDVINQIKIENPHLWTKEFQQKSRTMLHEATL 43 (125)
Q Consensus 12 ~~l~~~l~~e~pe~~~~~~~~~i~~~~~eave 43 (125)
..||..+..++|++..+..+..|..|+.+..+
T Consensus 4 SELI~~i~~~~~~l~~k~VE~~v~~~lE~~~~ 35 (94)
T TIGR00988 4 SELIERIATEQSHLFAKDVEKAVKTMLEEMIE 35 (94)
T ss_pred HHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHH
T ss_conf 78889987407875533389999999999999
No 31
>pfam03405 FA_desaturase_2 Fatty acid desaturase.
Probab=26.98 E-value=53 Score=14.80 Aligned_cols=23 Identities=17% Similarity=0.235 Sum_probs=19.6
Q ss_pred CHHHHHHHHHHHHHHHHHHHCCC
Q ss_conf 40378999999999999967700
Q gi|254780136|r 2 RDESLHLNFGIDVINQIKIENPH 24 (125)
Q Consensus 2 RDE~lH~~~~~~l~~~l~~e~pe 24 (125)
-||++|-.|..+++..+.+-.|.
T Consensus 195 aDE~rH~~fYr~iv~~~~eldPd 217 (330)
T pfam03405 195 SDEKRHETAYTKIVEKLFELDPD 217 (330)
T ss_pred HHHHHHHHHHHHHHHHHHHHCCH
T ss_conf 33778999999999999802932
No 32
>pfam07132 consensus
Probab=25.75 E-value=54 Score=14.75 Aligned_cols=62 Identities=19% Similarity=0.184 Sum_probs=40.5
Q ss_pred HHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCC-CCCCCHHHHHHHHHHHHHHH
Q ss_conf 999999996770003112299999999999999999857630876-01889999999999999999
Q gi|254780136|r 12 IDVINQIKIENPHLWTKEFQQKSRTMLHEATLLEIAYAHETMPKG-FVGLNAPSCEQYMQFIANRR 76 (125)
Q Consensus 12 ~~l~~~l~~e~pe~~~~~~~~~i~~~~~eave~E~~~~~~~~~~~-~~Gl~~~~~~~Yiky~an~r 76 (125)
++=|-.+..++||+|-|+-.++ .-..++-.-.+.|++ ++.+. -.|+|+..|.+|-|-..-..
T Consensus 271 AKEiGQFMDQYPEvFGKPqYQK--~~~s~~KtDdKSWAk-ALSkPDDDGMT~aSMdqF~kA~GMIK 333 (377)
T pfam07132 271 AKEIGQFMDQYPEIFGKPQYQK--DPWSSVKTDDKSWAK-ALSKPDDDGMTPASMEQFNKAKGMIK 333 (377)
T ss_pred HHHHHHHHHHCHHHCCCCCCCC--CCCCCCCCCCHHHHH-HHCCCCCCCCCHHHHHHHHHHHHHHH
T ss_conf 9999888764524308842236--887544545378999-72798767886340999999876788
No 33
>PRK10853 hypothetical protein; Provisional
Probab=25.62 E-value=46 Score=15.16 Aligned_cols=43 Identities=19% Similarity=0.282 Sum_probs=16.8
Q ss_pred HHHHHCCCCCCC-CCCCCCHH--HHHHHHCCCCCCCCCCCCHHHHH
Q ss_conf 999985978788-98788868--99998346657321310033334
Q gi|254780136|r 75 RRCHQIGLEPLF-KYTENPFP--WMSEVIDLKKEKNFFETRVTEYQ 117 (125)
Q Consensus 75 ~rL~~lGl~~~f-~~~~nPl~--W~~~~~~~~~~~nFFE~r~t~Y~ 117 (125)
+.|.+-|++-.| ++.++|++ -+..|+...+...+|-+|++.|-
T Consensus 18 kwL~~~~i~y~f~D~k~~~~~~~~l~~wl~~~G~~~liN~rgtt~R 63 (118)
T PRK10853 18 RWLEENGIDYRFHDYRVDGLDSELLNGFIAELGWEALLNTRGTTWR 63 (118)
T ss_pred HHHHHCCCCCEEEECCCCCCCHHHHHHHHHHCCHHHHHCCCCCHHH
T ss_conf 9999879981896311469899999999996298987516663566
No 34
>TIGR00693 thiE thiamine-phosphate pyrophosphorylase; InterPro: IPR003733 Thiamine monophosphate synthase (TMP) (2.5.1.3 from EC) catalyzes the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta-hydroxyethyl)thiazole phosphate to yield thiamine phosphate in the thiamine biosynthesis pathway . TENI, a protein from Bacillus subtilis that regulates the production of several extracellular enzymes by reducing alkaline protease production belongs to this group .; GO: 0004789 thiamin-phosphate diphosphorylase activity, 0009228 thiamin biosynthetic process.
Probab=22.34 E-value=16 Score=17.98 Aligned_cols=45 Identities=20% Similarity=0.389 Sum_probs=39.5
Q ss_pred HHHHHHHHHCCCC-CCCCCHHHHHHHHHHHH---HHHHHHCCCCCCCCC
Q ss_conf 9999857630876-01889999999999999---999998597878898
Q gi|254780136|r 44 LEIAYAHETMPKG-FVGLNAPSCEQYMQFIA---NRRCHQIGLEPLFKY 88 (125)
Q Consensus 44 ~E~~~~~~~~~~~-~~Gl~~~~~~~Yiky~a---n~rL~~lGl~~~f~~ 88 (125)
+..+.++.++|.. ++|+|...+.+-.+..+ +....=||+.|+|+-
T Consensus 93 ~p~~~aR~l~G~~~iiG~S~~~~~e~~~a~~C~~~~gaDY~G~Gp~fpT 141 (210)
T TIGR00693 93 LPVSEARKLLGPDKIIGVSTHNLEELAEAAACELKEGADYIGVGPIFPT 141 (210)
T ss_pred CCHHHHHHHCCCCCEEEEEECCHHHHHHHHHHHHHCCCCEEEECCCCCC
T ss_conf 9989999853899579853379899999998764078988886371158
No 35
>pfam11583 AurF P-aminobenzoate N-oxygenase AurF. AurF is a metalloenzyme which is involved in the biosynthesis of antibiotic aureothin by catalysing the formation of p-nitrobenzoic acid from p-aminobenzoic acid. AurF is a non-heme di-iron monooxygenase which creates nitroarenes via the sequential oxidation of aminoarenes.
Probab=21.83 E-value=66 Score=14.20 Aligned_cols=21 Identities=29% Similarity=0.226 Sum_probs=15.7
Q ss_pred CCHHHHHHHHHHHHHHHHHHH
Q ss_conf 940378999999999999967
Q gi|254780136|r 1 MRDESLHLNFGIDVINQIKIE 21 (125)
Q Consensus 1 ~RDE~lH~~~~~~l~~~l~~e 21 (125)
+.||.-|+.+++.+++.+...
T Consensus 115 ~~DE~~H~~mf~~~~~~~g~~ 135 (295)
T pfam11583 115 IVDECYHALMFQDAIERIGRL 135 (295)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
T ss_conf 999998999999999998764
No 36
>TIGR01114 mtrH N5-methyltetrahydromethanopterin:coenzyme M methyltransferase subunit H; InterPro: IPR002856 This family of methyltransferases occurs in both archaea and bacteria. In archaea, members of this family (MtrH) are involved in the energy conservation step of methanogenesis, while in prokaryotes, members of this family whose function has been defined (CmuB) are involved in the metabolism of chloromethane. In archaea the enzyme tetrahydromethanopterin S-methyltransferase is composed of eight subunits, MtrA-H. The enzyme is a membrane- associated enzyme complex which catalyzes an energy-conserving, sodium-ion-translocating step in methanogenesis from hydrogen and carbon dioxide . Subunit MtrH catalyzes the methylation reaction and was shown to exhibit methyltetrahydromethanopterin:cob(I)alamin methyltransferase activity . CH3-H4MPT + cob(I)alamin --> H4MPT + CH3-cob(III)alamin (H4MPT = tetrahydromethanopterin) In bacteria, the pathway of chloromethane utilisation allows the microorganisms that possess it to grow with chloromethane as the sole carbon and energy source. It is initiated by a corrinoid-dependent methyltransferase system involving methyltransferase I (CmuA) and methyltransferase II (CmuB), which transfer the methyl group of chloromethane onto tetrahydrofolate . The methyl group of chloromethane is first transferred by the protein CmuA to its corrinoid moiety, from where it is transferred to tetrahydrofolate by CmuB, thereby yielding methyltetrahydrofolate , . CmuB has methylcobalamin:tetrahydrofolate methyltransferase activity, and catalyzes the conversion of methylcobalamin and tetrahydrofolate to cob(I)alamin and methyltetrahydrofolate. CH3-cob(III)alamin + H4F --> CH3-H4F + cob(I)alamin (H4F = tetrahydromethanopterin); GO: 0008168 methyltransferase activity, 0006730 one-carbon compound metabolic process.
Probab=21.12 E-value=51 Score=14.88 Aligned_cols=50 Identities=12% Similarity=0.280 Sum_probs=27.7
Q ss_pred HCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf 770003112299999999999999999857630876018899999999999999
Q gi|254780136|r 21 ENPHLWTKEFQQKSRTMLHEATLLEIAYAHETMPKGFVGLNAPSCEQYMQFIAN 74 (125)
Q Consensus 21 e~pe~~~~~~~~~i~~~~~eave~E~~~~~~~~~~~~~Gl~~~~~~~Yiky~an 74 (125)
|..-+|+++ ...+++..-++++..=.+=.+ ..+.|=|.|.+..||+|+++
T Consensus 44 E~kGiFD~~---aAE~Li~~q~el~D~TGnP~~-~qi~G~tpEai~~Yldwv~~ 93 (323)
T TIGR01114 44 EDKGIFDKA---AAEELIKTQEELSDVTGNPYV-VQIFGETPEAIVRYLDWVAD 93 (323)
T ss_pred CCCCCCCHH---HHHHHHHHHHHHCCCCCCCEE-EEECCCCHHHHHHHHHHHEE
T ss_conf 667876478---999987421210356879604-53227887898877453031
No 37
>PRK06267 hypothetical protein; Provisional
Probab=20.23 E-value=63 Score=14.35 Aligned_cols=53 Identities=19% Similarity=0.206 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCCC-CC--CCCHHHHHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf 9999999999999999857630876-01--8899999999999999999985978788987
Q gi|254780136|r 32 QKSRTMLHEATLLEIAYAHETMPKG-FV--GLNAPSCEQYMQFIANRRCHQIGLEPLFKYT 89 (125)
Q Consensus 32 ~~i~~~~~eave~E~~~~~~~~~~~-~~--Gl~~~~~~~Yiky~an~rL~~lGl~~~f~~~ 89 (125)
+.-.++++.+-++-.+-+ -| |+ |=|.+++..-+.++-..-+.++|+.|.-++.
T Consensus 153 e~Ri~~l~~lk~~G~e~g-----sG~ivGlGET~ed~~~~~~~lkel~~d~I~I~~f~P~~ 208 (324)
T PRK06267 153 DKIKEMLKKAKDLGLKTG-----ITIILGLGETEDDIELLLNLIEELNLDRITFYSLNPQK 208 (324)
T ss_pred HHHHHHHHHHHHCCCCEE-----EEEEEECCCCHHHHHHHHHHHHHCCCCEEEECCCCCCC
T ss_conf 999999999998398320-----04687379889999999999997699976325845899
Done!