Query psy16139
Match_columns 466
No_of_seqs 144 out of 605
Neff 4.5
Searched_HMMs 46136
Date Fri Aug 16 21:49:46 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16139.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16139hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG2379 GckA Putative glycerat 100.0 3.6E-92 7.8E-97 715.3 34.7 307 2-330 8-321 (422)
2 PF13660 DUF4147: Domain of un 100.0 5.4E-82 1.2E-86 613.6 23.2 238 2-248 1-238 (238)
3 KOG3935|consensus 100.0 3.2E-48 6.8E-53 387.2 20.8 258 53-330 48-338 (446)
4 PRK08674 bifunctional phosphog 84.8 17 0.00038 37.3 12.9 148 124-313 77-225 (337)
5 PF00627 UBA: UBA/TS-N domain; 82.2 0.46 1E-05 33.7 0.2 31 427-458 3-33 (37)
6 TIGR00601 rad23 UV excision re 80.3 0.85 1.9E-05 48.4 1.5 33 427-460 157-189 (378)
7 cd00194 UBA Ubiquitin Associat 78.9 1.2 2.7E-05 31.2 1.5 28 430-458 5-32 (38)
8 smart00165 UBA Ubiquitin assoc 74.7 1.5 3.3E-05 30.7 1.0 28 430-458 5-32 (37)
9 PF01949 DUF99: Protein of unk 68.5 21 0.00045 34.6 7.5 119 107-243 44-172 (187)
10 PRK11657 dsbG disulfide isomer 63.7 3.5 7.7E-05 41.0 1.3 54 327-380 80-138 (251)
11 PRK10954 periplasmic protein d 63.6 2.4 5.2E-05 40.5 0.1 15 364-378 42-56 (207)
12 PRK12361 hypothetical protein; 58.8 59 0.0013 35.7 9.7 100 220-329 204-310 (547)
13 PRK13337 putative lipid kinase 58.1 21 0.00046 35.9 5.8 50 273-329 21-70 (304)
14 PRK10886 DnaA initiator-associ 57.0 1.2E+02 0.0027 29.2 10.5 51 121-190 105-155 (196)
15 PF03610 EIIA-man: PTS system 56.9 77 0.0017 27.4 8.3 69 44-138 1-70 (116)
16 TIGR03702 lip_kinase_YegS lipi 56.7 22 0.00048 35.6 5.6 51 272-329 15-65 (293)
17 PRK11557 putative DNA-binding 56.7 1.7E+02 0.0037 28.8 11.7 93 42-189 128-220 (278)
18 PRK05562 precorrin-2 dehydroge 56.6 55 0.0012 32.5 8.2 32 44-79 27-58 (223)
19 PRK11914 diacylglycerol kinase 56.3 21 0.00046 35.8 5.4 52 271-329 26-77 (306)
20 TIGR02584 cas_NE0113 CRISPR-as 56.2 18 0.00039 35.8 4.7 45 92-136 77-128 (209)
21 PF00070 Pyr_redox: Pyridine n 53.5 44 0.00096 26.7 5.9 20 44-63 1-20 (80)
22 cd07949 PCA_45_Doxase_B_like_1 53.0 65 0.0014 32.8 8.3 70 102-173 154-224 (276)
23 KOG0011|consensus 52.8 9.6 0.00021 40.1 2.3 33 427-460 136-168 (340)
24 PF07005 DUF1537: Protein of u 52.7 14 0.00031 35.3 3.3 32 298-329 176-208 (223)
25 PRK11337 DNA-binding transcrip 51.9 2.5E+02 0.0055 27.8 12.2 106 2-167 112-217 (292)
26 PF06258 Mito_fiss_Elm1: Mitoc 50.4 94 0.002 32.1 9.1 105 43-160 57-174 (311)
27 KOG3217|consensus 45.7 38 0.00082 32.2 4.8 64 401-465 21-120 (159)
28 TIGR00736 nifR3_rel_arch TIM-b 44.1 33 0.00071 34.2 4.5 90 112-234 122-214 (231)
29 PF05161 MOFRL: MOFRL family; 43.3 11 0.00023 33.7 0.8 14 318-331 1-14 (107)
30 cd03019 DsbA_DsbA DsbA family, 42.3 9 0.0002 34.4 0.2 14 366-379 22-35 (178)
31 PRK13057 putative lipid kinase 42.1 40 0.00087 33.6 4.8 31 273-303 15-45 (287)
32 cd05017 SIS_PGI_PMI_1 The memb 41.5 2.1E+02 0.0045 24.7 8.6 22 44-66 1-22 (119)
33 PRK13054 lipid kinase; Reviewe 39.7 63 0.0014 32.5 5.8 27 277-303 24-50 (300)
34 PF09587 PGA_cap: Bacterial ca 39.7 86 0.0019 30.6 6.6 48 114-167 171-219 (250)
35 cd03023 DsbA_Com1_like DsbA fa 39.7 9 0.0002 33.1 -0.2 13 366-378 12-24 (154)
36 PRK13364 protocatechuate 4,5-d 37.7 1.2E+02 0.0026 31.0 7.4 72 101-174 153-225 (278)
37 COG0794 GutQ Predicted sugar p 36.6 1.6E+02 0.0035 29.1 7.8 103 42-203 39-141 (202)
38 COG3395 Uncharacterized protei 35.8 36 0.00077 37.0 3.4 33 298-330 328-360 (413)
39 COG1597 LCB5 Sphingosine kinas 35.3 78 0.0017 32.4 5.7 92 236-344 19-117 (301)
40 TIGR00824 EIIA-man PTS system, 34.9 2.2E+02 0.0048 24.9 7.8 68 44-138 3-72 (116)
41 COG1454 EutG Alcohol dehydroge 34.7 77 0.0017 34.0 5.7 109 48-176 10-124 (377)
42 TIGR00147 lipid kinase, YegS/R 34.6 93 0.002 30.9 6.0 53 271-330 19-71 (293)
43 PF04122 CW_binding_2: Putativ 34.6 1.3E+02 0.0028 24.9 5.9 59 261-330 25-86 (92)
44 cd01012 YcaC_related YcaC rela 33.7 41 0.00088 30.6 3.1 39 261-299 88-128 (157)
45 COG2515 Acd 1-aminocyclopropan 33.6 64 0.0014 34.0 4.7 50 92-141 147-197 (323)
46 PF13462 Thioredoxin_4: Thiore 33.2 9.6 0.00021 33.6 -1.1 13 366-378 19-31 (162)
47 TIGR03830 CxxCG_CxxCG_HTH puta 32.9 80 0.0017 27.3 4.7 86 368-456 31-121 (127)
48 cd07938 DRE_TIM_HMGL 3-hydroxy 32.4 5.4E+02 0.012 26.0 11.4 25 146-170 15-39 (274)
49 COG1105 FruK Fructose-1-phosph 30.8 3.6E+02 0.0077 28.4 9.6 123 44-219 52-184 (310)
50 PRK13365 protocatechuate 4,5-d 30.4 1.8E+02 0.0039 29.7 7.3 73 101-175 154-227 (279)
51 PF02310 B12-binding: B12 bind 30.2 1.2E+02 0.0026 25.6 5.2 50 274-327 41-90 (121)
52 PF15109 TMEM125: TMEM125 prot 30.1 33 0.00071 30.6 1.7 37 150-188 60-98 (112)
53 PF13446 RPT: A repeated domai 29.7 73 0.0016 24.8 3.5 50 407-457 4-53 (62)
54 cd05014 SIS_Kpsf KpsF-like pro 29.6 3.5E+02 0.0076 23.0 10.4 22 44-66 2-23 (128)
55 cd02201 FtsZ_type1 FtsZ is a G 29.2 1.9E+02 0.004 29.6 7.3 90 44-139 2-99 (304)
56 PF13241 NAD_binding_7: Putati 29.1 60 0.0013 27.6 3.2 35 40-78 4-39 (103)
57 PRK00861 putative lipid kinase 29.1 1.1E+02 0.0024 30.7 5.5 26 317-342 82-112 (300)
58 PF01910 DUF77: Domain of unkn 29.1 1.6E+02 0.0034 25.3 5.7 73 269-341 15-90 (92)
59 TIGR00106 uncharacterized prot 28.3 3.1E+02 0.0067 23.8 7.4 73 270-342 18-93 (97)
60 TIGR01316 gltA glutamate synth 28.2 3.3E+02 0.0071 29.1 9.2 162 44-290 135-301 (449)
61 PRK05638 threonine synthase; V 28.2 1.1E+02 0.0025 32.7 5.7 65 123-187 341-417 (442)
62 PF02787 CPSase_L_D3: Carbamoy 27.8 44 0.00095 30.2 2.2 15 427-441 62-76 (123)
63 PRK13055 putative lipid kinase 27.6 1.2E+02 0.0026 31.2 5.6 49 273-328 22-71 (334)
64 TIGR03642 cas_csx13 CRISPR-ass 26.9 67 0.0015 29.3 3.2 36 103-138 60-102 (124)
65 TIGR00274 N-acetylmuramic acid 26.7 1.5E+02 0.0033 30.4 6.1 49 122-189 123-171 (291)
66 CHL00162 thiG thiamin biosynth 26.5 3.1E+02 0.0068 28.3 8.1 124 30-167 6-140 (267)
67 PRK13366 protocatechuate 4,5-d 26.2 2.8E+02 0.0061 28.5 7.9 73 101-175 154-227 (284)
68 PRK14615 4-diphosphocytidyl-2- 25.6 1.1E+02 0.0023 31.2 4.8 45 115-165 245-289 (296)
69 COG1611 Predicted Rossmann fol 25.6 91 0.002 30.5 4.1 50 92-147 15-65 (205)
70 PRK09533 bifunctional transald 25.6 1.3E+03 0.028 28.1 15.5 64 43-138 456-519 (948)
71 PF11015 DUF2853: Protein of u 25.0 36 0.00079 30.3 1.1 35 415-452 40-74 (102)
72 TIGR01470 cysG_Nterm siroheme 25.0 65 0.0014 31.1 2.9 33 43-79 10-42 (205)
73 PRK06703 flavodoxin; Provision 25.0 3.1E+02 0.0066 24.5 7.1 28 262-289 84-118 (151)
74 PF01927 Mut7-C: Mut7-C RNAse 24.7 37 0.00081 31.1 1.2 20 274-293 10-29 (147)
75 PRK13059 putative lipid kinase 24.6 1.6E+02 0.0034 29.7 5.7 17 274-290 22-38 (295)
76 PRK13373 putative dioxygenase; 24.3 1.5E+02 0.0033 31.6 5.7 47 94-140 145-193 (344)
77 cd06312 PBP1_ABC_sugar_binding 24.2 6.1E+02 0.013 23.9 9.6 68 261-330 58-138 (271)
78 KOG3857|consensus 24.1 2E+02 0.0043 31.3 6.4 96 48-164 51-153 (465)
79 cd02972 DsbA_family DsbA famil 23.7 25 0.00054 27.4 -0.1 14 367-380 5-18 (98)
80 PRK15408 autoinducer 2-binding 23.5 5.1E+02 0.011 26.6 9.3 67 261-327 81-159 (336)
81 COG1453 Predicted oxidoreducta 23.3 1.7E+02 0.0038 31.6 5.9 152 150-346 92-269 (391)
82 TIGR03822 AblA_like_2 lysine-2 23.1 2.3E+02 0.0049 29.2 6.6 131 113-290 121-264 (321)
83 cd02067 B12-binding B12 bindin 23.0 2.7E+02 0.0059 23.7 6.2 53 271-327 37-90 (119)
84 PF00781 DAGK_cat: Diacylglyce 22.7 1.5E+02 0.0031 25.9 4.5 49 273-329 17-67 (130)
85 COG0074 SucD Succinyl-CoA synt 22.7 4.9E+02 0.011 27.3 8.8 100 41-165 7-117 (293)
86 PRK13938 phosphoheptose isomer 22.6 4.3E+02 0.0094 25.5 8.1 23 42-65 45-67 (196)
87 cd03174 DRE_TIM_metallolyase D 22.5 7E+02 0.015 24.0 10.1 51 269-322 113-165 (265)
88 PRK10434 srlR DNA-bindng trans 22.5 2.7E+02 0.0058 27.7 6.8 54 261-328 92-146 (256)
89 PRK06719 precorrin-2 dehydroge 22.2 78 0.0017 29.3 2.8 23 41-63 11-34 (157)
90 KOG3022|consensus 22.2 71 0.0015 33.3 2.7 47 368-414 222-291 (300)
91 cd07950 Gallate_Doxase_N The N 21.9 3E+02 0.0065 28.0 7.1 72 101-175 154-227 (277)
92 cd05007 SIS_Etherase N-acetylm 21.7 4E+02 0.0086 26.7 7.9 50 121-189 114-163 (257)
93 PF01488 Shikimate_DH: Shikima 21.4 82 0.0018 28.1 2.7 22 43-64 13-34 (135)
94 TIGR02638 lactal_redase lactal 21.0 4.4E+02 0.0096 27.6 8.4 101 50-170 12-120 (379)
95 cd01457 vWA_ORF176_type VWA OR 20.6 4.9E+02 0.011 24.3 7.8 87 107-202 28-117 (199)
96 cd01461 vWA_interalpha_trypsin 20.3 5E+02 0.011 22.8 7.5 84 111-202 22-109 (171)
97 PRK10696 tRNA 2-thiocytidine b 20.2 73 0.0016 31.6 2.3 19 122-140 25-43 (258)
98 cd03020 DsbA_DsbC_DsbG DsbA fa 20.0 60 0.0013 30.4 1.6 16 366-381 84-99 (197)
No 1
>COG2379 GckA Putative glycerate kinase [Carbohydrate transport and metabolism]
Probab=100.00 E-value=3.6e-92 Score=715.29 Aligned_cols=307 Identities=37% Similarity=0.526 Sum_probs=290.6
Q ss_pred hHHHHHHHHHHHccCchhHHHhhcccccceeeeecceeccCCCEEEEEechhHHHHHHHHHHHhCCCCcceEEEecCCCc
Q psy16139 2 QEIKLIYEAAVSAVNGQNLIQANVHLEKNKLIIRDQTVLIKNNVYLIGFGKAVLGMAVEIEAMFRPQRLKGILSVPFGSV 81 (466)
Q Consensus 2 ~~a~~If~aal~AVdP~~~v~~al~~~~~~L~I~~~~~~l~~~i~VVg~GKAA~~MA~aae~~LG~~i~~GiVvtp~g~~ 81 (466)
+.+.++|+++|+++||+++++.+|... +..+|++||||||||++||++++++| +....|+||+|||+.
T Consensus 8 ~~l~~~~~aav~aadP~r~~~~~lp~~-----------~p~gr~~Vig~GKAs~~MA~a~~~~~-~~~~~GvVVt~~g~~ 75 (422)
T COG2379 8 AFLLELFDAAVAAADPYRALAAHLPVL-----------PPKGRTIVIGAGKASAEMARAFEEHW-KGPLAGVVVTPYGYG 75 (422)
T ss_pred HHHHHHHHHHHHhcCHHHHHHhhCCCC-----------CCCCceEEEecchhHHHHHHHHHHHh-ccccCceEeccCccC
Confidence 467899999999999999999999762 12469999999999999999999999 556789999999986
Q ss_pred cCccCCCCCCCceEEEecCCCCCCCHhhHHHHHHHHHHHhcCCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHH
Q psy16139 82 GILKPQFNKNSEIEIRECARNNLPDEASCQNTQLIQNFVKHCTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLV 161 (466)
Q Consensus 82 ~~~~~~~~~~~~I~V~egA~HPlPDe~Sv~Aa~~ILelv~~l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL 161 (466)
.+.++|+|+|+ +||+||++|+.|+++++++++.++++|+||+||||||||||++|.+||||+|++.+|+.||
T Consensus 76 -------~~~~~ieViea-~HPvPDe~s~~asrrlL~~v~~l~e~D~Vi~LISGGGSaL~e~P~eGitL~d~~avn~~LL 147 (422)
T COG2379 76 -------GPCPRIEVIEA-GHPVPDEASLKASRRLLELVSGLTEDDLVIVLISGGGSALLELPAEGITLEDLIAVNRALL 147 (422)
T ss_pred -------CCCCceeEEeC-CCCCCCchhHHHHHHHHHHhcCCCCCcEEEEEEeCCchhhccCCccCCCHHHHHHHHHHHH
Confidence 35568999997 5999999999999999999999999999999999999999999999999999999999999
Q ss_pred hCCCChHHHHHHHHhhcccccchHhhhhcCCeEEEEEEecCCCCCCCccccCccccCCCCHHHHHHHHHHhCCCccchHH
Q psy16139 162 QSGANIKELNKVRKKLSDVKGGQLAEIVYPATLVSLIISDIVGDPLQDIASGPTVLNEDLWSDARDIVIKYGLQNKVSKS 241 (466)
Q Consensus 162 ~sGA~I~EINtVRKhLS~VKGGrLA~~a~pA~vvsLIlSDV~GDdL~~IASGPTvPD~sT~~DAl~IL~ky~L~~~lP~s 241 (466)
+|||+|+||||||||||+|||||||++++|++|++||+||||||++++||||||+||+||++||++||++|++| +|++
T Consensus 148 ~sGA~I~emNtVRkhLS~VKGGrLA~a~~pA~VvsliiSDVpGDd~~~IASGPTv~D~tt~~DAlavl~ry~i~--~p~~ 225 (422)
T COG2379 148 KSGAPISEMNTVRKHLSRVKGGRLAAAAKPAKVVSLIISDVPGDDPSVIASGPTVPDPTTREDALAVLERYGIA--LPES 225 (422)
T ss_pred HcCCChHHHHHHHHHHhhccchHHHHhcCCCeEEEEEEccCCCCCHhhcccCCCCCCCCchHHHHHHHHHhccc--ccHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999997 9999
Q ss_pred HHHHHcc---CCCCCCCCCCCCeeEEEEecHHHHHHHHHHHHHhCCCcEEecCCCccccHHHHHHHHHHHHHHHHHhcCC
Q psy16139 242 VMTILSH---ETPHQDTKYFENVHNHIIGNNRAALLGAKWKAESLGFQTVILSSDIEGLGDDICRGYVDLVAWIDQLRKQ 318 (466)
Q Consensus 242 V~~~L~~---~~~~~~~~~f~~v~n~IIgsN~~Al~AA~~~A~~lGy~~~ILss~l~GEArevar~laaia~~i~~~~~~ 318 (466)
|+.||+. .+|++.+++|++++|+||+||..+|++|++.|+++||+++||++.++|||||+|+++|+|++++.++++|
T Consensus 226 v~~~l~~~~~~t~~~~d~~~~~v~~~iIasn~~sleaaa~~~~~~G~~a~Il~d~ieGEArevg~v~asiarev~~~g~P 305 (422)
T COG2379 226 VRAHLESERAETPKPGDERFANVENRIIASNRLSLEAAASEARALGFKAVILGDTIEGEAREVGRVHASIAREVARRGRP 305 (422)
T ss_pred HHHHHhhhcccCCCCCccccccceeEEEechHHHHHHHHHHHHhcCCeeEEeeccccccHHHHHHHHHHHHHHHHHcCCC
Confidence 9999995 2456666899999999999999999999999999999999999999999999999999999999999988
Q ss_pred c----EEEecCccccc
Q psy16139 319 R----TIQVGKDKNNI 330 (466)
Q Consensus 319 ~----~il~gge~~~~ 330 (466)
| +||+||||||-
T Consensus 306 f~~P~~llsGGETTVT 321 (422)
T COG2379 306 FKKPVVLLSGGETTVT 321 (422)
T ss_pred CCCCEEEEECCceEEE
Confidence 7 99999999985
No 2
>PF13660 DUF4147: Domain of unknown function (DUF4147); PDB: 1X3L_A 2B8N_A.
Probab=100.00 E-value=5.4e-82 Score=613.64 Aligned_cols=238 Identities=44% Similarity=0.648 Sum_probs=197.2
Q ss_pred hHHHHHHHHHHHccCchhHHHhhcccccceeeeecceeccCCCEEEEEechhHHHHHHHHHHHhCCCCcceEEEecCCCc
Q psy16139 2 QEIKLIYEAAVSAVNGQNLIQANVHLEKNKLIIRDQTVLIKNNVYLIGFGKAVLGMAVEIEAMFRPQRLKGILSVPFGSV 81 (466)
Q Consensus 2 ~~a~~If~aal~AVdP~~~v~~al~~~~~~L~I~~~~~~l~~~i~VVg~GKAA~~MA~aae~~LG~~i~~GiVvtp~g~~ 81 (466)
+++++||++||++++|+++++++++.+++.|. ....++..+++|||||||||.+||+++++++|+++.+|+|++|+|+.
T Consensus 1 ~~~~~i~~a~l~av~P~~~v~~~l~~~~~~l~-~~~~~~~~~~i~vvg~GKAa~~MA~a~~~~lg~~i~~G~vv~~~g~~ 79 (238)
T PF13660_consen 1 EDALAIFEAALEAVDPYRAVRRALRLEGNSLI-RQYDLSKYGRIYVVGFGKAAAPMAEAAEEILGDRIVGGLVVVPYGHE 79 (238)
T ss_dssp --HHHHHHHHHHCTSHHHHHHCCCCCHSSEEE-TTEEEE--SSEEEEEESTTHHHHHHHHHHHCGGCEEEEEEEEETT--
T ss_pred ChHHHHHHHHHHHhCHHHHHHHHcCCcccccc-cccccCCCCCEEEEEeCHHHHHHHHHHHHHhcccccCceEEeCCccc
Confidence 57999999999999999999999999998888 44444455699999999999999999999999999999999999986
Q ss_pred cCccCCCCCCCceEEEecCCCCCCCHhhHHHHHHHHHHHhcCCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHH
Q psy16139 82 GILKPQFNKNSEIEIRECARNNLPDEASCQNTQLIQNFVKHCTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLV 161 (466)
Q Consensus 82 ~~~~~~~~~~~~I~V~egA~HPlPDe~Sv~Aa~~ILelv~~l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL 161 (466)
. +.++++|++|+ ||+||++|++|+++|++++++++++|+||||||||||||||+|.+||||+||+++|++|+
T Consensus 80 ~-------~~~~i~v~~~~-HP~Pd~~s~~aa~~il~~~~~~~~~dlvl~LiSGGgSALl~~P~~gisLed~~~~~~~Ll 151 (238)
T PF13660_consen 80 S-------PLPRIEVLEGG-HPLPDENSVRAARRILELARELTEDDLVLVLISGGGSALLELPADGISLEDKQELTKLLL 151 (238)
T ss_dssp ----------TTSEEEEE--SSS--HHHHHHHHHHHHHHCC--TTSEEEEEE-TTHHHHS--B-TT--HHHHHHHHHHHH
T ss_pred C-------CCCCEEEEECC-CCCCCHHHHHHHHHHHHHHhcCCCCCeEEEEecCChHHhhcCCCCCCCHHHHHHHHHHHH
Confidence 2 45689999985 999999999999999999999999999999999999999999999999999999999999
Q ss_pred hCCCChHHHHHHHHhhcccccchHhhhhcCCeEEEEEEecCCCCCCCccccCccccCCCCHHHHHHHHHHhCCCccchHH
Q psy16139 162 QSGANIKELNKVRKKLSDVKGGQLAEIVYPATLVSLIISDIVGDPLQDIASGPTVLNEDLWSDARDIVIKYGLQNKVSKS 241 (466)
Q Consensus 162 ~sGA~I~EINtVRKhLS~VKGGrLA~~a~pA~vvsLIlSDV~GDdL~~IASGPTvPD~sT~~DAl~IL~ky~L~~~lP~s 241 (466)
+|||+|+|||+||||||+|||||||++++|+++++||+||||||||++||||||+||++|++||++||++|++|+++|++
T Consensus 152 ~sGa~I~EiN~VRkhLS~vKGG~La~~~~~a~v~sLilSDV~Gd~l~~IaSGPt~pd~st~~da~~il~ky~l~~~lP~s 231 (238)
T PF13660_consen 152 RSGADIHEINTVRKHLSRVKGGRLARAAAPARVVSLILSDVPGDDLSVIASGPTVPDPSTFEDALAILEKYGLWDRLPES 231 (238)
T ss_dssp HCT--HHHHHHHHHTTBSSTTTHHHHCHTTSEEEEEEE--STT--TTTGGG-TTS-----HHHHHHHHHHTT-TTTS-HH
T ss_pred HCCCCHHHHHHHHHHHhcCCchHHHHHhcCCeEEEEEecCCCCCChhhcccCCccCCCCCHHHHHHHHHHcCCcccCCHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHcc
Q psy16139 242 VMTILSH 248 (466)
Q Consensus 242 V~~~L~~ 248 (466)
|+++|++
T Consensus 232 V~~~L~~ 238 (238)
T PF13660_consen 232 VRNYLER 238 (238)
T ss_dssp HHHHHHH
T ss_pred HHHHHhC
Confidence 9999973
No 3
>KOG3935|consensus
Probab=100.00 E-value=3.2e-48 Score=387.21 Aligned_cols=258 Identities=31% Similarity=0.377 Sum_probs=218.4
Q ss_pred hHHHHHHHHHHHhCCCCcceEEEecCCCccCccCCCCCCCceEEEecCCCCCCCHhhHHHHHHHHHHHhcCCCCcEEEEE
Q psy16139 53 AVLGMAVEIEAMFRPQRLKGILSVPFGSVGILKPQFNKNSEIEIRECARNNLPDEASCQNTQLIQNFVKHCTEDDVVLVL 132 (466)
Q Consensus 53 AA~~MA~aae~~LG~~i~~GiVvtp~g~~~~~~~~~~~~~~I~V~egA~HPlPDe~Sv~Aa~~ILelv~~l~~~DlVLvL 132 (466)
|+.+|| -....|+....+|.+.+|... .+ .+.+. .+.|+ -.|...+....+++.+.|++...
T Consensus 48 AVL~~~-m~~~~L~~~p~G~ql~vp~kq---Fq---~r~~~--~lvG~---------~KA~l~~~~~aee~~~q~i~~~~ 109 (446)
T KOG3935|consen 48 AVLGMA-MESFTLTNLPAGGQLTVPLKQ---FQ---SRISG--SLVGA---------AKALLYTIFDAEETRPQEICWSG 109 (446)
T ss_pred Hhccch-hhhhhhccCCCCCeeccchhh---hh---ccccc--hhhhH---------HHHHHHHHHHHHhcchhheeEEE
Confidence 778887 556666666666676666421 11 11110 11122 25666677777778888999999
Q ss_pred EeCCccccccCCCCCCCHHHHHHHHHHHHhCCCChHHHHHHHHhhcccccchHhhhhcCC-eEEEEEEecCCCCCCCccc
Q psy16139 133 ISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGANIKELNKVRKKLSDVKGGQLAEIVYPA-TLVSLIISDIVGDPLQDIA 211 (466)
Q Consensus 133 ISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA~I~EINtVRKhLS~VKGGrLA~~a~pA-~vvsLIlSDV~GDdL~~IA 211 (466)
||||||+|+++| |.|||||++++.+|.+.||+|+|+|++|+.+|.+|||+|++.++++ .+++||+|||+|||+++||
T Consensus 110 isg~G~~~~p~p--p~TLe~k~~l~~~l~krGasIqe~n~~ria~s~~kgg~la~~a~~a~~~V~lilSDviGdPvElIA 187 (446)
T KOG3935|consen 110 ISGGGSALLPMP--PRTLEAKIRLEIALCKRGASIQEFNPMRIADSFFKGGCLANVAHMAKCSVALILSDVIGDPVELIA 187 (446)
T ss_pred eecCceeccCCC--CccHHHHHHHHHHHhcCCCchhhhhhHHHHHHHhccchHHhhhhhhcceEEEEehhhcCChhhhee
Confidence 999999999998 9999999999999999999999999999999999999999999998 7899999999999999999
Q ss_pred cCccccCCCCHHHHHHHHHHhCCCccchHHHHHHHccCCCCCCCCCCCCeeEEEEecHHHHHHHHHHHHHhCCCcEEecC
Q psy16139 212 SGPTVLNEDLWSDARDIVIKYGLQNKVSKSVMTILSHETPHQDTKYFENVHNHIIGNNRAALLGAKWKAESLGFQTVILS 291 (466)
Q Consensus 212 SGPTvPD~sT~~DAl~IL~ky~L~~~lP~sV~~~L~~~~~~~~~~~f~~v~n~IIgsN~~Al~AA~~~A~~lGy~~~ILs 291 (466)
||||+.+.....+++.||++|++|..||.+|+++|++...++.+....+..|+|||||-.|+.+|+++|+.+||+++++|
T Consensus 188 sGPTv~p~h~~~~~~~IL~~~~i~~eLp~~vk~Vle~~e~~~~p~~~~h~~nfiigSNv~Al~~Aa~~ae~lGY~~~Vls 267 (446)
T KOG3935|consen 188 SGPTVIPAHQQDKFINILESLKINLELPVNVKNVLENHEKEQLPENTSHFQNFIIGSNVFALRAAAEYAESLGYNSTVLS 267 (446)
T ss_pred cCCccCchhhcchHHHHHHHcccchhcCHHHHHHHhccccccCCCCccceEEEEecccHHHHHHHHHHHHhcCCccceee
Confidence 99999998889999999999999999999999999987655555456788999999999999999999999999999999
Q ss_pred CCccccHHHHHHHHHHHHHHHHHh--------------------------------cCCcEEEecCccccc
Q psy16139 292 SDIEGLGDDICRGYVDLVAWIDQL--------------------------------RKQRTIQVGKDKNNI 330 (466)
Q Consensus 292 s~l~GEArevar~laaia~~i~~~--------------------------------~~~~~il~gge~~~~ 330 (466)
+.++||+.++|++|+.++.++... .-|+.+|.|||+|+-
T Consensus 268 ~a~qGdva~ia~~y~~l~h~~~~~~~h~~~D~QL~E~~AE~s~Pt~~~Ale~~~~~~~Pi~Ll~GGEptv~ 338 (446)
T KOG3935|consen 268 SALQGDVAEIAKKYAELIHEKSITSSHLLKDPQLREKYAERSYPTFRRALENLTIENYPIALLFGGEPTVH 338 (446)
T ss_pred hhhcccHHHHHHHHHHHHHHHHhhccccccChHHHHHHHhhcchHHHHHHHhhhhccCCeEEEeCCCceEE
Confidence 999999999999999998765432 235589999999974
No 4
>PRK08674 bifunctional phosphoglucose/phosphomannose isomerase; Validated
Probab=84.76 E-value=17 Score=37.26 Aligned_cols=148 Identities=22% Similarity=0.219 Sum_probs=76.9
Q ss_pred CCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCCCChHHHHHHHHhhcccccchHhhhhcCCeEEEEEEecCC
Q psy16139 124 TEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGANIKELNKVRKKLSDVKGGQLAEIVYPATLVSLIISDIV 203 (466)
Q Consensus 124 ~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA~I~EINtVRKhLS~VKGGrLA~~a~pA~vvsLIlSDV~ 203 (466)
+++|+||+ ||-.|+. ++.....+...+.|++| ++-..+|.|++.+.......+.+.
T Consensus 77 ~~~dlvI~-iS~SG~T-----------~e~~~a~~~a~~~ga~v---------IaIT~~~~L~~~a~~~~~~~i~ip--- 132 (337)
T PRK08674 77 DEKTLVIA-VSYSGNT-----------EETLSAVEQALKRGAKI---------IAITSGGKLKEMAKEHGLPVIIVP--- 132 (337)
T ss_pred CCCcEEEE-EcCCCCC-----------HHHHHHHHHHHHCCCeE---------EEECCCchHHHHHHhcCCeEEEeC---
Confidence 67777655 6655543 46677777778888743 333457788887654333444443
Q ss_pred CCCCCccccCccccCCCCHHHHHHHHHHhCCCccchHHHHHHHccCCCCCCCCCCCCeeEEEEecHHHHHHHHHHHHHhC
Q psy16139 204 GDPLQDIASGPTVLNEDLWSDARDIVIKYGLQNKVSKSVMTILSHETPHQDTKYFENVHNHIIGNNRAALLGAKWKAESL 283 (466)
Q Consensus 204 GDdL~~IASGPTvPD~sT~~DAl~IL~ky~L~~~lP~sV~~~L~~~~~~~~~~~f~~v~n~IIgsN~~Al~AA~~~A~~l 283 (466)
++. +|...-...+.-.+.+|...|+.+..-..+.+.++....-.+ .+... .....+.|.+.|.++
T Consensus 133 ~~~------~~r~s~~~ll~~l~~~l~~~Gl~~~~~~d~~~~~~~l~~~~~--~~~~~-------~~~~~~~A~~lA~~~ 197 (337)
T PRK08674 133 GGY------QPRAALGYLFTPLLKILEKLGLIPDKSAEVLETKIVLSELAE--GLKEK-------VPTLKNLAKRLAGKL 197 (337)
T ss_pred CCC------cchhhHHHHHHHHHHHHHHcCCCccchhhHHHHHHHHHHHHH--hhCcC-------CCcccCHHHHHHHHH
Confidence 111 333322223556778899999855222233333322100000 00000 012233556677777
Q ss_pred CC-cEEecCCCccccHHHHHHHHHHHHHHHH
Q psy16139 284 GF-QTVILSSDIEGLGDDICRGYVDLVAWID 313 (466)
Q Consensus 284 Gy-~~~ILss~l~GEArevar~laaia~~i~ 313 (466)
+. .+++.+ .|-...+|..+++...+..
T Consensus 198 ~~~~pv~~g---s~~~~~~a~~~~~~~~Ena 225 (337)
T PRK08674 198 YGRIPVIYG---SGLTLAVAYRWKTQINENA 225 (337)
T ss_pred hCCCCEEEe---CcccHHHHHHHHHHHHHhc
Confidence 75 566663 4666666666666555544
No 5
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=82.20 E-value=0.46 Score=33.73 Aligned_cols=31 Identities=32% Similarity=0.546 Sum_probs=23.2
Q ss_pred hhhhhhhhhcCcCChHHHHHHHHHhhCCCCce
Q psy16139 427 ENYLVKIKKMGFTDENEVRRALRKAANEPNHA 458 (466)
Q Consensus 427 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 458 (466)
+.-+-++..|||+.+ ++++||++.-|..+.|
T Consensus 3 ~~~v~~L~~mGf~~~-~~~~AL~~~~~nve~A 33 (37)
T PF00627_consen 3 EEKVQQLMEMGFSRE-QAREALRACNGNVERA 33 (37)
T ss_dssp HHHHHHHHHHTS-HH-HHHHHHHHTTTSHHHH
T ss_pred HHHHHHHHHcCCCHH-HHHHHHHHcCCCHHHH
Confidence 455678899999877 9999999887755443
No 6
>TIGR00601 rad23 UV excision repair protein Rad23. All proteins in this family for which functions are known are components of a multiprotein complex used for targeting nucleotide excision repair to specific parts of the genome. In humans, Rad23 complexes with the XPC protein. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=80.33 E-value=0.85 Score=48.37 Aligned_cols=33 Identities=42% Similarity=0.664 Sum_probs=28.8
Q ss_pred hhhhhhhhhcCcCChHHHHHHHHHhhCCCCceee
Q psy16139 427 ENYLVKIKKMGFTDENEVRRALRKAANEPNHACL 460 (466)
Q Consensus 427 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 460 (466)
|.-+-.|-.||| ++++|+||||.|.|.|+.|.=
T Consensus 157 e~~I~~i~eMGf-~R~qV~~ALRAafNNPdRAVE 189 (378)
T TIGR00601 157 ETTIEEIMEMGY-EREEVERALRAAFNNPDRAVE 189 (378)
T ss_pred HHHHHHHHHhCC-CHHHHHHHHHHHhCCHHHHHH
Confidence 555667889999 999999999999999998864
No 7
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=78.90 E-value=1.2 Score=31.22 Aligned_cols=28 Identities=39% Similarity=0.656 Sum_probs=22.9
Q ss_pred hhhhhhcCcCChHHHHHHHHHhhCCCCce
Q psy16139 430 LVKIKKMGFTDENEVRRALRKAANEPNHA 458 (466)
Q Consensus 430 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 458 (466)
+-.+..|||+ ++++++||++.-+..+.|
T Consensus 5 v~~L~~mGf~-~~~~~~AL~~~~~d~~~A 32 (38)
T cd00194 5 LEQLLEMGFS-REEARKALRATNNNVERA 32 (38)
T ss_pred HHHHHHcCCC-HHHHHHHHHHhCCCHHHH
Confidence 4567889999 999999999988766554
No 8
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=74.70 E-value=1.5 Score=30.66 Aligned_cols=28 Identities=36% Similarity=0.553 Sum_probs=22.2
Q ss_pred hhhhhhcCcCChHHHHHHHHHhhCCCCce
Q psy16139 430 LVKIKKMGFTDENEVRRALRKAANEPNHA 458 (466)
Q Consensus 430 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 458 (466)
+-.+..|||+.+ ++++||++.-+..+.|
T Consensus 5 v~~L~~mGf~~~-~a~~aL~~~~~d~~~A 32 (37)
T smart00165 5 IDQLLEMGFSRE-EALKALRAANGNVERA 32 (37)
T ss_pred HHHHHHcCCCHH-HHHHHHHHhCCCHHHH
Confidence 457889999866 9999999987765544
No 9
>PF01949 DUF99: Protein of unknown function DUF99; InterPro: IPR002802 The function of the archaebacterial proteins in this family is unknown.; PDB: 2QH9_A.
Probab=68.52 E-value=21 Score=34.62 Aligned_cols=119 Identities=18% Similarity=0.216 Sum_probs=66.7
Q ss_pred HhhHHHHHHHHHHHhcCCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCCCCh-----H--HHHHHHHhhcc
Q psy16139 107 EASCQNTQLIQNFVKHCTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGANI-----K--ELNKVRKKLSD 179 (466)
Q Consensus 107 e~Sv~Aa~~ILelv~~l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA~I-----~--EINtVRKhLS~ 179 (466)
-++.+||++|++++....-.|+=++|++|=.= -|..+-|..++.+.+ |.++ + ++..+++.|-+
T Consensus 44 vdG~DaT~~i~~m~~~~~r~~i~~v~LdGit~-------agFNiiD~~~l~~~t---g~PVI~V~~~~p~~~~i~~AL~~ 113 (187)
T PF01949_consen 44 VDGMDATEAIIEMVKRLFRPDIRVVMLDGITF-------AGFNIIDIERLYEET---GLPVIVVMRKEPNLEGIESALRK 113 (187)
T ss_dssp TT-S-HHHHHHHHHCCTTTTTEEEEEESSSEE-------TTTEE--HHHHHHHH------EEEEESS---HHHHHHCCTT
T ss_pred ECCchHHHHHHHHHHhcccCcceEEEECCEeE-------EeeEEecHHHHHHHH---CCCEEEEEEeCCCHHHHHHHHHH
Confidence 46789999999999998889999999998332 244455666666555 3332 1 22255555555
Q ss_pred -cccc--hHhhhhcCCeEEEEEEecCCCCCCCccccCccccCCCCHHHHHHHHHHhCCCccchHHHH
Q psy16139 180 -VKGG--QLAEIVYPATLVSLIISDIVGDPLQDIASGPTVLNEDLWSDARDIVIKYGLQNKVSKSVM 243 (466)
Q Consensus 180 -VKGG--rLA~~a~pA~vvsLIlSDV~GDdL~~IASGPTvPD~sT~~DAl~IL~ky~L~~~lP~sV~ 243 (466)
+.|. |+..+-.-....-+.+.+ |.++-+=..|- +.++|.+++++|-+..++|+.+|
T Consensus 114 hF~d~~~R~~~i~~~g~~~~v~~~~--~~~vyv~~~Gi------~~~~A~~li~~~t~~g~iPEPLR 172 (187)
T PF01949_consen 114 HFPDWEERLEIIEKLGPREPVSTPT--GGPVYVQSWGI------DLEEARELIRRTTLHGKIPEPLR 172 (187)
T ss_dssp -STTHHHHHHHHHHC---EEE-------TTEEEEEESS-------HHHHHHHHHHC-SSSSS-HHHH
T ss_pred hCCCHHHHHHHHHhCCCcEEeeecc--cccEEEEEecC------CHHHHHHHHHHHhccCCCcccHH
Confidence 4555 555443222333333333 33333333332 57899999999999999999876
No 10
>PRK11657 dsbG disulfide isomerase/thiol-disulfide oxidase; Provisional
Probab=63.73 E-value=3.5 Score=40.99 Aligned_cols=54 Identities=19% Similarity=0.253 Sum_probs=31.7
Q ss_pred ccccchhhHHHHHHHHhhhhcHHHHHhh--hhcccccccc---cccccCCCcccceeee
Q psy16139 327 KNNIKEQDMEQNLQQVANQATIDELTKK--MKVKNNKKKK---KSFDYKSPHCNQFLIQ 380 (466)
Q Consensus 327 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~---~~~~~~~~~~~~~~~~ 380 (466)
++|++++.+++....-..+..+++|.+. .+..+...|+ --+||.||+|.+|.-+
T Consensus 80 ~~nlT~~~~~~~~~~~~~~~~~~~l~~~~~i~~g~~~ak~~I~vFtDp~CpyC~kl~~~ 138 (251)
T PRK11657 80 GENLSEALLEKEVYAPMGREMWQRLEQSHWILDGKADAPRIVYVFADPNCPYCKQFWQQ 138 (251)
T ss_pred CCccCHHHHHHHhcCCccHHHHHHhhccCCccccCCCCCeEEEEEECCCChhHHHHHHH
Confidence 3588888887744333344556666644 3333222222 2379999999988543
No 11
>PRK10954 periplasmic protein disulfide isomerase I; Provisional
Probab=63.56 E-value=2.4 Score=40.46 Aligned_cols=15 Identities=40% Similarity=0.833 Sum_probs=12.5
Q ss_pred ccccccCCCccccee
Q psy16139 364 KKSFDYKSPHCNQFL 378 (466)
Q Consensus 364 ~~~~~~~~~~~~~~~ 378 (466)
-.-|||.||||.+|-
T Consensus 42 vEffdy~CphC~~~~ 56 (207)
T PRK10954 42 LEFFSFYCPHCYQFE 56 (207)
T ss_pred EEEeCCCCccHHHhc
Confidence 356999999999864
No 12
>PRK12361 hypothetical protein; Provisional
Probab=58.79 E-value=59 Score=35.72 Aligned_cols=100 Identities=9% Similarity=0.027 Sum_probs=57.3
Q ss_pred CCHHHHHHHHHHhCCCccchHHHHHHHccCCCCCCCCCCCCeeEEEEec-------HHHHHHHHHHHHHhCCCcEEecCC
Q psy16139 220 DLWSDARDIVIKYGLQNKVSKSVMTILSHETPHQDTKYFENVHNHIIGN-------NRAALLGAKWKAESLGFQTVILSS 292 (466)
Q Consensus 220 sT~~DAl~IL~ky~L~~~lP~sV~~~L~~~~~~~~~~~f~~v~n~IIgs-------N~~Al~AA~~~A~~lGy~~~ILss 292 (466)
.|.++|++.+++-.-.-.+.+.-++.|++-.... - .--+-+..+|.| .....+...+..++. +...+..+
T Consensus 204 ~~~~eA~~~vr~~Rp~v~~n~~q~~~l~~~~~~~-~-~~~~~~~~iI~NP~SG~g~~~~~~~~i~~~L~~~-~~~~v~~t 280 (547)
T PRK12361 204 LTVEEVLQQIKQIRKTARLNKRQLRALEKMLEQG-K-LNIHKRAWLIANPVSGGGKWQEYGEQIQRELKAY-FDLTVKLT 280 (547)
T ss_pred CCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHcC-C-cccCCceEEEECCCCCCCcHHHHHHHHHHHHhcC-CceEEEEC
Confidence 4789999999887765555566666665421100 0 001223445544 223445555555553 77777777
Q ss_pred CccccHHHHHHHHHHHHHHHHHhcCCcEEEecCcccc
Q psy16139 293 DIEGLGDDICRGYVDLVAWIDQLRKQRTIQVGKDKNN 329 (466)
Q Consensus 293 ~l~GEArevar~laaia~~i~~~~~~~~il~gge~~~ 329 (466)
.-.|++.+.++..+ ......++.+|||.|.
T Consensus 281 ~~~~~a~~la~~~~-------~~~~d~Viv~GGDGTl 310 (547)
T PRK12361 281 TPEISAEALAKQAR-------KAGADIVIACGGDGTV 310 (547)
T ss_pred CCCccHHHHHHHHH-------hcCCCEEEEECCCcHH
Confidence 77888887765432 2233457777887773
No 13
>PRK13337 putative lipid kinase; Reviewed
Probab=58.12 E-value=21 Score=35.91 Aligned_cols=50 Identities=20% Similarity=0.129 Sum_probs=32.8
Q ss_pred HHHHHHHHHhCCCcEEecCCCccccHHHHHHHHHHHHHHHHHhcCCcEEEecCcccc
Q psy16139 273 LLGAKWKAESLGFQTVILSSDIEGLGDDICRGYVDLVAWIDQLRKQRTIQVGKDKNN 329 (466)
Q Consensus 273 l~AA~~~A~~lGy~~~ILss~l~GEArevar~laaia~~i~~~~~~~~il~gge~~~ 329 (466)
+....+.+++.|+...+..+.-.|+++++++..+ ......++.+||+.|.
T Consensus 21 ~~~~~~~l~~~~~~~~~~~t~~~~~a~~~a~~~~-------~~~~d~vvv~GGDGTl 70 (304)
T PRK13337 21 LPDVLQKLEQAGYETSAHATTGPGDATLAAERAV-------ERKFDLVIAAGGDGTL 70 (304)
T ss_pred HHHHHHHHHHcCCEEEEEEecCCCCHHHHHHHHH-------hcCCCEEEEEcCCCHH
Confidence 4455666788888877766667788887765422 2233457778888773
No 14
>PRK10886 DnaA initiator-associating protein DiaA; Provisional
Probab=57.01 E-value=1.2e+02 Score=29.25 Aligned_cols=51 Identities=29% Similarity=0.418 Sum_probs=35.3
Q ss_pred hcCCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCCCChHHHHHHHHhhcccccchHhhhhc
Q psy16139 121 KHCTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGANIKELNKVRKKLSDVKGGQLAEIVY 190 (466)
Q Consensus 121 ~~l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA~I~EINtVRKhLS~VKGGrLA~~a~ 190 (466)
..++++|++|+ ||+.|.+ ++..+..+..-+.|+++- .++.-.+|.|++...
T Consensus 105 ~~~~~gDvli~-iS~SG~s-----------~~v~~a~~~Ak~~G~~vI-------~IT~~~~s~l~~l~~ 155 (196)
T PRK10886 105 ALGHAGDVLLA-ISTRGNS-----------RDIVKAVEAAVTRDMTIV-------ALTGYDGGELAGLLG 155 (196)
T ss_pred HcCCCCCEEEE-EeCCCCC-----------HHHHHHHHHHHHCCCEEE-------EEeCCCCChhhhccc
Confidence 34577787776 7777763 578888888888888753 455566777777653
No 15
>PF03610 EIIA-man: PTS system fructose IIA component; InterPro: IPR004701 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC []. These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose [, , , ]. The Man family is unique in several respects among PTS permease families. It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of Escherichia coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for IIA and IIB components.; GO: 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016021 integral to membrane; PDB: 3GDW_B 2JZN_A 1VSQ_A 2JZO_B 1VRC_A 1PDO_A 3GX1_A 3B48_B 3BED_B 3IPR_C ....
Probab=56.86 E-value=77 Score=27.35 Aligned_cols=69 Identities=25% Similarity=0.393 Sum_probs=49.9
Q ss_pred CEEEEEechhHHHHHHHHHHHhCCCCcceEEEecCCCccCccCCCCCCCceEEEecCCCCCCCHhhHHHHHHHHHHHhcC
Q psy16139 44 NVYLIGFGKAVLGMAVEIEAMFRPQRLKGILSVPFGSVGILKPQFNKNSEIEIRECARNNLPDEASCQNTQLIQNFVKHC 123 (466)
Q Consensus 44 ~i~VVg~GKAA~~MA~aae~~LG~~i~~GiVvtp~g~~~~~~~~~~~~~~I~V~egA~HPlPDe~Sv~Aa~~ILelv~~l 123 (466)
.++|++=|.-|.+|..+++.++|+. ..++..+..- ||...-+-.+++.+.+++.
T Consensus 1 giii~sHG~~A~g~~~~~~~i~G~~----------------------~~~i~~~~~~----~~~~~~~~~~~l~~~i~~~ 54 (116)
T PF03610_consen 1 GIIIASHGSLAEGLLESAEMILGED----------------------QDNIEAVDLY----PDESIEDFEEKLEEAIEEL 54 (116)
T ss_dssp EEEEEEETTHHHHHHHHHHHHHTST----------------------CSSEEEEEET----TTSCHHHHHHHHHHHHHHC
T ss_pred CEEEEECcHHHHHHHHHHHHHcCCC----------------------cccEEEEECc----CCCCHHHHHHHHHHHHHhc
Confidence 3688999999999999999999862 1246666542 4444455678889999999
Q ss_pred CCCcEEEEEE-eCCcc
Q psy16139 124 TEDDVVLVLI-SGGGS 138 (466)
Q Consensus 124 ~~~DlVLvLI-SGGGS 138 (466)
.++|-+|+|. -+|||
T Consensus 55 ~~~~~vlil~Dl~ggs 70 (116)
T PF03610_consen 55 DEGDGVLILTDLGGGS 70 (116)
T ss_dssp CTTSEEEEEESSTTSH
T ss_pred cCCCcEEEEeeCCCCc
Confidence 8777777774 45555
No 16
>TIGR03702 lip_kinase_YegS lipid kinase YegS. Members of this protein family are designated YegS, an apparent lipid kinase family in the Proteobacteria. Bakali, et al. report phosphatidylglycerol kinase activity for the member from Escherichia coli, but refrain from calling that activity synonymous with its biological role. Note that a broader, subfamily-type model (TIGR00147), includes this family but also multiple paralogs in some species and varied functions.
Probab=56.69 E-value=22 Score=35.58 Aligned_cols=51 Identities=16% Similarity=0.027 Sum_probs=34.2
Q ss_pred HHHHHHHHHHhCCCcEEecCCCccccHHHHHHHHHHHHHHHHHhcCCcEEEecCcccc
Q psy16139 272 ALLGAKWKAESLGFQTVILSSDIEGLGDDICRGYVDLVAWIDQLRKQRTIQVGKDKNN 329 (466)
Q Consensus 272 Al~AA~~~A~~lGy~~~ILss~l~GEArevar~laaia~~i~~~~~~~~il~gge~~~ 329 (466)
......+..++.|+...+..+.-.|++++.++..+ +.....++.+||+.|.
T Consensus 15 ~~~~~~~~l~~~g~~~~v~~t~~~~~a~~~a~~~~-------~~~~d~vv~~GGDGTi 65 (293)
T TIGR03702 15 DVREAVGDLRDEGIQLHVRVTWEKGDAQRYVAEAL-------ALGVSTVIAGGGDGTL 65 (293)
T ss_pred HHHHHHHHHHHCCCeEEEEEecCCCCHHHHHHHHH-------HcCCCEEEEEcCChHH
Confidence 34455566778888877777777888887765432 2233458888888873
No 17
>PRK11557 putative DNA-binding transcriptional regulator; Provisional
Probab=56.68 E-value=1.7e+02 Score=28.78 Aligned_cols=93 Identities=19% Similarity=0.202 Sum_probs=57.5
Q ss_pred CCCEEEEEechhHHHHHHHHHHHhCCCCcceEEEecCCCccCccCCCCCCCceEEEecCCCCCCCHhhHHHHHHHHHHHh
Q psy16139 42 KNNVYLIGFGKAVLGMAVEIEAMFRPQRLKGILSVPFGSVGILKPQFNKNSEIEIRECARNNLPDEASCQNTQLIQNFVK 121 (466)
Q Consensus 42 ~~~i~VVg~GKAA~~MA~aae~~LG~~i~~GiVvtp~g~~~~~~~~~~~~~~I~V~egA~HPlPDe~Sv~Aa~~ILelv~ 121 (466)
.++|||+|.| .+..+|..+...|.. + | +.++- .+|... ....+.
T Consensus 128 a~~I~i~G~G-~s~~~A~~~~~~l~~-~--g---------------------~~~~~-----~~d~~~------~~~~~~ 171 (278)
T PRK11557 128 ARRIILTGIG-ASGLVAQNFAWKLMK-I--G---------------------INAVA-----ERDMHA------LLATVQ 171 (278)
T ss_pred CCeEEEEecC-hhHHHHHHHHHHHhh-C--C---------------------CeEEE-----cCChHH------HHHHHH
Confidence 4599999999 567899888887631 1 1 11111 122222 123456
Q ss_pred cCCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCCCChHHHHHHHHhhcccccchHhhhh
Q psy16139 122 HCTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGANIKELNKVRKKLSDVKGGQLAEIV 189 (466)
Q Consensus 122 ~l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA~I~EINtVRKhLS~VKGGrLA~~a 189 (466)
.++++|++| .||-.|.. ++..++.+..-+.|++|- .+..-.+..+++.+
T Consensus 172 ~~~~~Dv~I-~iS~sg~~-----------~~~~~~~~~ak~~ga~iI-------~IT~~~~s~la~~a 220 (278)
T PRK11557 172 ALSPDDLLL-AISYSGER-----------RELNLAADEALRVGAKVL-------AITGFTPNALQQRA 220 (278)
T ss_pred hCCCCCEEE-EEcCCCCC-----------HHHHHHHHHHHHcCCCEE-------EEcCCCCCchHHhC
Confidence 789999655 56665532 467777888888888774 34555666666653
No 18
>PRK05562 precorrin-2 dehydrogenase; Provisional
Probab=56.57 E-value=55 Score=32.53 Aligned_cols=32 Identities=19% Similarity=-0.052 Sum_probs=23.3
Q ss_pred CEEEEEechhHHHHHHHHHHHhCCCCcceEEEecCC
Q psy16139 44 NVYLIGFGKAVLGMAVEIEAMFRPQRLKGILSVPFG 79 (466)
Q Consensus 44 ~i~VVg~GKAA~~MA~aae~~LG~~i~~GiVvtp~g 79 (466)
+|+|||.|+.|..=+..+.+ .|.+ =.|++|.-
T Consensus 27 ~VLVVGGG~VA~RK~~~Ll~-~gA~---VtVVap~i 58 (223)
T PRK05562 27 KVLIIGGGKAAFIKGKTFLK-KGCY---VYILSKKF 58 (223)
T ss_pred EEEEECCCHHHHHHHHHHHh-CCCE---EEEEcCCC
Confidence 89999999999888877776 3433 23555643
No 19
>PRK11914 diacylglycerol kinase; Reviewed
Probab=56.34 E-value=21 Score=35.82 Aligned_cols=52 Identities=13% Similarity=-0.022 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHhCCCcEEecCCCccccHHHHHHHHHHHHHHHHHhcCCcEEEecCcccc
Q psy16139 271 AALLGAKWKAESLGFQTVILSSDIEGLGDDICRGYVDLVAWIDQLRKQRTIQVGKDKNN 329 (466)
Q Consensus 271 ~Al~AA~~~A~~lGy~~~ILss~l~GEArevar~laaia~~i~~~~~~~~il~gge~~~ 329 (466)
...+...+..++.|+...+..+.-.|++.+.++.. .......++.+||+.|.
T Consensus 26 ~~~~~~~~~l~~~g~~~~~~~t~~~~~~~~~a~~~-------~~~~~d~vvv~GGDGTi 77 (306)
T PRK11914 26 HAAERAIARLHHRGVDVVEIVGTDAHDARHLVAAA-------LAKGTDALVVVGGDGVI 77 (306)
T ss_pred HHHHHHHHHHHHcCCeEEEEEeCCHHHHHHHHHHH-------HhcCCCEEEEECCchHH
Confidence 33445566777888876655555577777666432 22233457777888774
No 20
>TIGR02584 cas_NE0113 CRISPR-associated protein, NE0113 family. Members of this minor CRISPR-associated (Cas) protein family are found in cas gene clusters in Vibrio vulnificus YJ016, Nitrosomonas europaea ATCC 19718, Mannheimia succiniciproducens MBEL55E, and Verrucomicrobium spinosum.
Probab=56.22 E-value=18 Score=35.83 Aligned_cols=45 Identities=22% Similarity=0.250 Sum_probs=35.2
Q ss_pred CceEEEecC-CCCCCCHhh----HHHHHHHHHHHhcCC--CCcEEEEEEeCC
Q psy16139 92 SEIEIRECA-RNNLPDEAS----CQNTQLIQNFVKHCT--EDDVVLVLISGG 136 (466)
Q Consensus 92 ~~I~V~egA-~HPlPDe~S----v~Aa~~ILelv~~l~--~~DlVLvLISGG 136 (466)
.+|.+++.+ +-|++|-++ -.|++-|.+.+.+++ ++-.|.+.||||
T Consensus 77 ~~i~~i~~~~g~~l~Dirt~~dn~~aa~~I~~~v~~Lt~d~~~~lH~sIAGG 128 (209)
T TIGR02584 77 LRIYLIPTGQRKPLADIRTPADNEAAANFIVQTVAPLCAAQDHQLHASIAGG 128 (209)
T ss_pred ceEEEecCCCCCCccccCCHHHHHHHHHHHHHHHHHHhcCCCCEEEEEecCc
Confidence 356677542 238888877 688899999999997 556899999999
No 21
>PF00070 Pyr_redox: Pyridine nucleotide-disulphide oxidoreductase; InterPro: IPR001327 FAD flavoproteins belonging to the family of pyridine nucleotide-disulphide oxidoreductases (glutathione reductase, trypanothione reductase, lipoamide dehydrogenase, mercuric reductase, thioredoxin reductase, alkyl hydroperoxide reductase) share sequence similarity with a number of other flavoprotein oxidoreductases, in particular with ferredoxin-NAD+ reductases involved in oxidative metabolism of a variety of hydrocarbons (rubredoxin reductase, putidaredoxin reductase, terpredoxin reductase, ferredoxin-NAD+ reductase components of benzene 1,2-dioxygenase, toluene 1,2-dioxygenase, chlorobenzene dioxygenase, biphenyl dioxygenase), NADH oxidase and NADH peroxidase [, , ]. Comparison of the crystal structures of human glutathione reductase and Escherichia coli thioredoxin reductase reveals different locations of their active sites, suggesting that the enzymes diverged from an ancestral FAD/NAD(P)H reductase and acquired their disulphide reductase activities independently []. Despite functional similarities, oxidoreductases of this family show no sequence similarity with adrenodoxin reductases [] and flavoprotein pyridine nucleotide cytochrome reductases (FPNCR) []. Assuming that disulphide reductase activity emerged later, during divergent evolution, the family can be referred to as FAD-dependent pyridine nucleotide reductases, FADPNR. To date, 3D structures of glutathione reductase [], thioredoxin reductase [], mercuric reductase [], lipoamide dehydrogenase [], trypanothione reductase [] and NADH peroxidase [] have been solved. The enzymes share similar tertiary structures based on a doubly-wound alpha/beta fold, but the relative orientations of their FAD- and NAD(P)H-binding domains may vary significantly. By contrast with the FPNCR family, the folds of the FAD- and NAD(P)H-binding domains are similar, suggesting that the domains evolved by gene duplication []. This entry describes a small NADH binding domain within a larger FAD binding domain described by IPR023753 from INTERPRO. It is found in both class I and class II oxidoreductases. ; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZKQ_A 3DGZ_A 1ZDL_A 2R9Z_B 2RAB_A 2A87_B 1M6I_A 2YVG_A 2GR1_A 2GQW_A ....
Probab=53.51 E-value=44 Score=26.66 Aligned_cols=20 Identities=25% Similarity=0.287 Sum_probs=18.2
Q ss_pred CEEEEEechhHHHHHHHHHH
Q psy16139 44 NVYLIGFGKAVLGMAVEIEA 63 (466)
Q Consensus 44 ~i~VVg~GKAA~~MA~aae~ 63 (466)
++.|||.|-.+..||..+.+
T Consensus 1 ~vvViGgG~ig~E~A~~l~~ 20 (80)
T PF00070_consen 1 RVVVIGGGFIGIELAEALAE 20 (80)
T ss_dssp EEEEESSSHHHHHHHHHHHH
T ss_pred CEEEECcCHHHHHHHHHHHH
Confidence 58899999999999999965
No 22
>cd07949 PCA_45_Doxase_B_like_1 The B subunit of unknown Class III extradiol dioxygenases with similarity to Protocatechuate 4,5-dioxygenase. This subfamily is composed of proteins of unknown function with similarity to the B subunit of Protocatechuate 4,5-dioxygenase (LigAB). LigAB belongs to the class III extradiol dioxygenase family, a group of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Dioxygenases play key roles in the degradation of aromatic compounds. LigAB-like enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents the catalytic subunit, B.
Probab=52.98 E-value=65 Score=32.76 Aligned_cols=70 Identities=24% Similarity=0.166 Sum_probs=50.7
Q ss_pred CCCCC-HhhHHHHHHHHHHHhcCCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCCCChHHHHHH
Q psy16139 102 NNLPD-EASCQNTQLIQNFVKHCTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGANIKELNKV 173 (466)
Q Consensus 102 HPlPD-e~Sv~Aa~~ILelv~~l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA~I~EINtV 173 (466)
+|+|+ +...+=++.|-+++++.+.+.-|+++-|||-|==|..|..|..=++.-+..-..++ | +..++-.+
T Consensus 154 ~p~~~~~~~~~lG~al~~~i~~~~~d~rv~iiaSG~lSH~l~~~~~g~~~~~fD~~~~~~l~-~-d~~~L~~~ 224 (276)
T cd07949 154 HPLPSPKRCFKLGQAIGRAIESYPEDLRVVVLGTGGLSHQLDGERAGFINKDFDRYCLDKMV-D-NPEWLTKY 224 (276)
T ss_pred CCCCCHHHHHHHHHHHHHHHHhcCcCCCEEEEEeCccccCCCCCCcccchHHHHHHHHHHHh-c-CHHHHHcC
Confidence 78999 78899999999999998888889999999999887766444322444444444444 3 55554443
No 23
>KOG0011|consensus
Probab=52.76 E-value=9.6 Score=40.09 Aligned_cols=33 Identities=45% Similarity=0.670 Sum_probs=28.0
Q ss_pred hhhhhhhhhcCcCChHHHHHHHHHhhCCCCceee
Q psy16139 427 ENYLVKIKKMGFTDENEVRRALRKAANEPNHACL 460 (466)
Q Consensus 427 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 460 (466)
|....+|-.||| |..+|+||||-|-|.|+.|.=
T Consensus 136 e~~V~~Im~MGy-~re~V~~AlRAafNNPeRAVE 168 (340)
T KOG0011|consen 136 EQTVQQIMEMGY-DREEVERALRAAFNNPERAVE 168 (340)
T ss_pred HHHHHHHHHhCc-cHHHHHHHHHHhhCChhhhHH
Confidence 455678999995 788999999999999998863
No 24
>PF07005 DUF1537: Protein of unknown function, DUF1537; InterPro: IPR010737 This entry represents a conserved region found in a range of Proteobacteria as well as the Gram-positive Oceanobacillus iheyensis. This entry includes YgbK from Escherichia coli, which is dependent upon FlhDC, the master regulator of the flagellar genes. The ygbK gene appears to be regulated by sigmaF [].; PDB: 3DQQ_B 1YZY_B.
Probab=52.68 E-value=14 Score=35.30 Aligned_cols=32 Identities=19% Similarity=0.227 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHHh-cCCcEEEecCcccc
Q psy16139 298 GDDICRGYVDLVAWIDQL-RKQRTIQVGKDKNN 329 (466)
Q Consensus 298 Arevar~laaia~~i~~~-~~~~~il~gge~~~ 329 (466)
.+.++..++.++..+.+. ....+++.||||+.
T Consensus 176 s~~i~~~la~l~~~l~~~~~~~~li~tGGDTa~ 208 (223)
T PF07005_consen 176 SREIADALAELAARLLERVGISGLILTGGDTAS 208 (223)
T ss_dssp HHHHHHHHHHHHHHHHHC-TEEEEEEESHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhcCCCEEEEeCChHHH
Confidence 345899999999999765 34449999999974
No 25
>PRK11337 DNA-binding transcriptional repressor RpiR; Provisional
Probab=51.94 E-value=2.5e+02 Score=27.85 Aligned_cols=106 Identities=21% Similarity=0.259 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHccCchhHHHhhcccccceeeeecceeccCCCEEEEEechhHHHHHHHHHHHhCCCCcceEEEecCCCc
Q psy16139 2 QEIKLIYEAAVSAVNGQNLIQANVHLEKNKLIIRDQTVLIKNNVYLIGFGKAVLGMAVEIEAMFRPQRLKGILSVPFGSV 81 (466)
Q Consensus 2 ~~a~~If~aal~AVdP~~~v~~al~~~~~~L~I~~~~~~l~~~i~VVg~GKAA~~MA~aae~~LG~~i~~GiVvtp~g~~ 81 (466)
+...+.++.+.+..++..+-+-+=.... .++|+++|.| .+..+|..+...+-.-
T Consensus 112 ~~~~~~i~~t~~~l~~~~l~~~~~~i~~------------A~~I~i~G~G-~S~~~A~~l~~~l~~~------------- 165 (292)
T PRK11337 112 NTSLQAIEETQSILDVDEFHRAARFFYQ------------ARQRDLYGAG-GSAAIARDVQHKFLRI------------- 165 (292)
T ss_pred HHHHHHHHHHHHhcCHHHHHHHHHHHHc------------CCeEEEEEec-HHHHHHHHHHHHHhhC-------------
Q ss_pred cCccCCCCCCCceEEEecCCCCCCCHhhHHHHHHHHHHHhcCCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHH
Q psy16139 82 GILKPQFNKNSEIEIRECARNNLPDEASCQNTQLIQNFVKHCTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLV 161 (466)
Q Consensus 82 ~~~~~~~~~~~~I~V~egA~HPlPDe~Sv~Aa~~ILelv~~l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL 161 (466)
++.+..- +|....... ...++++|++|+ ||..|+. .+..++.+..-
T Consensus 166 -----------g~~~~~~-----~d~~~~~~~------~~~~~~~Dl~I~-iS~sG~t-----------~~~~~~~~~ak 211 (292)
T PRK11337 166 -----------GVRCQAY-----DDAHIMLMS------AALLQEGDVVLV-VSHSGRT-----------SDVIEAVELAK 211 (292)
T ss_pred -----------CCeEEEc-----CCHHHHHHH------HhcCCCCCEEEE-EeCCCCC-----------HHHHHHHHHHH
Q ss_pred hCCCCh
Q psy16139 162 QSGANI 167 (466)
Q Consensus 162 ~sGA~I 167 (466)
+.|++|
T Consensus 212 ~~g~~i 217 (292)
T PRK11337 212 KNGAKI 217 (292)
T ss_pred HCCCeE
No 26
>PF06258 Mito_fiss_Elm1: Mitochondrial fission ELM1; InterPro: IPR009367 This family consists of several hypothetical eukaryotic and prokaryotic proteins. The function of this family is unknown.
Probab=50.37 E-value=94 Score=32.13 Aligned_cols=105 Identities=17% Similarity=0.139 Sum_probs=71.5
Q ss_pred CCEEEEEechhHHHHHHHHHHHhCCCCcc-------------eEEEecCCCccCccCCCCCCCceEEEecCCCCCCCHhh
Q psy16139 43 NNVYLIGFGKAVLGMAVEIEAMFRPQRLK-------------GILSVPFGSVGILKPQFNKNSEIEIRECARNNLPDEAS 109 (466)
Q Consensus 43 ~~i~VVg~GKAA~~MA~aae~~LG~~i~~-------------GiVvtp~g~~~~~~~~~~~~~~I~V~egA~HPlPDe~S 109 (466)
.+-+|||.|-.+..-+.++.+..|.+... -+|++|.... .+..+++-...|+-|++-.+.-
T Consensus 57 ~pdLiIsaGr~t~~~~~~l~r~~gg~~~~V~i~~P~~~~~~FDlvi~p~HD~------~~~~~Nvl~t~ga~~~i~~~~l 130 (311)
T PF06258_consen 57 WPDLIISAGRRTAPAALALRRASGGRTKTVQIMDPRLPPRPFDLVIVPEHDR------LPRGPNVLPTLGAPNRITPERL 130 (311)
T ss_pred CCcEEEECCCchHHHHHHHHHHcCCCceEEEEcCCCCCccccCEEEECcccC------cCCCCceEecccCCCcCCHHHH
Confidence 47889999999999999999988874221 2455554321 1234577777788899888888
Q ss_pred HHHHHHHHHHHhcCCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHH
Q psy16139 110 CQNTQLIQNFVKHCTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLL 160 (466)
Q Consensus 110 v~Aa~~ILelv~~l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~L 160 (466)
.+++.+....+..+ +...+.||| ||-|.=+ .++-++..++.+.|
T Consensus 131 ~~a~~~~~~~~~~l-~~p~~avLI-GG~s~~~-----~~~~~~~~~l~~~l 174 (311)
T PF06258_consen 131 AEAAAAWAPRLAAL-PRPRVAVLI-GGDSKHY-----RWDEEDAERLLDQL 174 (311)
T ss_pred HHHHHhhhhhhccC-CCCeEEEEE-CcCCCCc-----ccCHHHHHHHHHHH
Confidence 88888888777764 456666666 5555443 45566666665544
No 27
>KOG3217|consensus
Probab=45.71 E-value=38 Score=32.20 Aligned_cols=64 Identities=42% Similarity=0.605 Sum_probs=42.3
Q ss_pred cCcchhHHHHHHHhCCCccccchh-------------------hhhhhhhhhhh-------cCc--------CChHHHHH
Q psy16139 401 NDASVVFQDIVKKLGLDKEELDLD-------------------IAENYLVKIKK-------MGF--------TDENEVRR 446 (466)
Q Consensus 401 ~~~~~~~~~~~~~~~~~~~~~~~~-------------------~~~~~~~~~~~-------~~~--------~~~~~~~~ 446 (466)
.=|.+||+|+|+|-||+.|- ..| +..+|=+++.. --| -||.-+|.
T Consensus 21 P~AEaVFr~~v~K~~l~~~~-~iDSagt~~yh~G~~PD~R~~s~lK~hGI~~~H~aRqit~~DF~~FDYI~~MDesN~~d 99 (159)
T KOG3217|consen 21 PIAEAVFRDLVKKRNLSEEW-HIDSAGTSGYHTGRSPDPRTLSILKKHGIKIDHLARQITTSDFREFDYILAMDESNLRD 99 (159)
T ss_pred HHHHHHHHHHHHHcCcceee-eeccccccccccCCCCChHHHHHHHHcCCcchhhcccccHhHhhhcceeEEecHHHHHH
Confidence 34789999999999998654 333 23333333221 112 27888999
Q ss_pred HHHHhhCCCC--ceeeeeccC
Q psy16139 447 ALRKAANEPN--HACLLLVGE 465 (466)
Q Consensus 447 ~~~~~~~~~~--~~~~~~~~~ 465 (466)
-+|+|+|.|. ||=++|.|+
T Consensus 100 L~~~a~~~~~~~kakV~Llgs 120 (159)
T KOG3217|consen 100 LLRKASNQPKGSKAKVLLLGS 120 (159)
T ss_pred HHHHhccCCCCcceEEEEeec
Confidence 9999988874 666777664
No 28
>TIGR00736 nifR3_rel_arch TIM-barrel protein, putative. Members of this family show a distant relationship by PSI-BLAST to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase. At least two closely related but well-separable families among the bacteria, the nifR3/yhdG family and the yjbN family, share a more distant relationship to this family of shorter, exclusively archaeal proteins.
Probab=44.07 E-value=33 Score=34.21 Aligned_cols=90 Identities=18% Similarity=0.164 Sum_probs=52.7
Q ss_pred HHHHHHHHHhcCCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCCCChHHHHHHHHhhcccccch-Hh--hh
Q psy16139 112 NTQLIQNFVKHCTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGANIKELNKVRKKLSDVKGGQ-LA--EI 188 (466)
Q Consensus 112 Aa~~ILelv~~l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA~I~EINtVRKhLS~VKGGr-LA--~~ 188 (466)
-..++++.++.. +-.|.+=|+-|. +-++...+.+.|.++|++.- |+...+.|. -+ ++
T Consensus 122 ~l~~iv~av~~~--~~PVsvKiR~~~-----------~~~~~~~~a~~l~~aGad~i-------~Vd~~~~g~~~a~~~~ 181 (231)
T TIGR00736 122 LLKEFLTKMKEL--NKPIFVKIRGNC-----------IPLDELIDALNLVDDGFDGI-------HVDAMYPGKPYADMDL 181 (231)
T ss_pred HHHHHHHHHHcC--CCcEEEEeCCCC-----------CcchHHHHHHHHHHcCCCEE-------EEeeCCCCCchhhHHH
Confidence 345555555533 345666666553 33567789999999999954 333333343 11 11
Q ss_pred hcCCeEEEEEEecCCCCCCCccccCccccCCCCHHHHHHHHHHhCC
Q psy16139 189 VYPATLVSLIISDIVGDPLQDIASGPTVLNEDLWSDARDIVIKYGL 234 (466)
Q Consensus 189 a~pA~vvsLIlSDV~GDdL~~IASGPTvPD~sT~~DAl~IL~ky~L 234 (466)
.+. +++-+ +++-+||+| +-.|++||.+.++ ||-
T Consensus 182 I~~-------i~~~~-~~ipIIgNG----gI~s~eda~e~l~-~GA 214 (231)
T TIGR00736 182 LKI-------LSEEF-NDKIIIGNN----SIDDIESAKEMLK-AGA 214 (231)
T ss_pred HHH-------HHHhc-CCCcEEEEC----CcCCHHHHHHHHH-hCC
Confidence 111 01111 124499999 4568999999998 875
No 29
>PF05161 MOFRL: MOFRL family; InterPro: IPR007835 The MOFRL(multi-organism fragment with rich Leucine) domain is found in bacteria and eukaryotes. The function of this domain is not clear, although it exists in some putative enzymes such as reductases and kinases.; PDB: 1X3L_A 2B8N_A.
Probab=43.34 E-value=11 Score=33.69 Aligned_cols=14 Identities=7% Similarity=0.038 Sum_probs=7.9
Q ss_pred CcEEEecCcccccc
Q psy16139 318 QRTIQVGKDKNNIK 331 (466)
Q Consensus 318 ~~~il~gge~~~~~ 331 (466)
|.+||+||||||--
T Consensus 1 P~~li~GGE~TV~v 14 (107)
T PF05161_consen 1 PVCLISGGETTVTV 14 (107)
T ss_dssp SEEEEEEE--B---
T ss_pred CEEEEECCccEEEE
Confidence 56899999999853
No 30
>cd03019 DsbA_DsbA DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol oxidant known, due to the unusual stability of the thiolate anion form of the first cysteine in the CXXC motif. The highly unstable oxidized form of DsbA directly donates disulfide bonds to reduced proteins secreted into the bacterial periplasm. This rapid and unidirectional process helps to catalyze the folding of newly-synthesized polypeptides. To regain catalytic activity, reduced DsbA is then reoxidized by the membrane protein DsbB, which generates its disulfides from oxidized quinones, which in turn are reoxidized by the electron transport chain.
Probab=42.25 E-value=9 Score=34.38 Aligned_cols=14 Identities=43% Similarity=0.892 Sum_probs=11.5
Q ss_pred ccccCCCcccceee
Q psy16139 366 SFDYKSPHCNQFLI 379 (466)
Q Consensus 366 ~~~~~~~~~~~~~~ 379 (466)
-|||.||||-+|--
T Consensus 22 f~D~~Cp~C~~~~~ 35 (178)
T cd03019 22 FFSYGCPHCYNFEP 35 (178)
T ss_pred EECCCCcchhhhhH
Confidence 48999999987743
No 31
>PRK13057 putative lipid kinase; Reviewed
Probab=42.13 E-value=40 Score=33.62 Aligned_cols=31 Identities=16% Similarity=0.124 Sum_probs=17.2
Q ss_pred HHHHHHHHHhCCCcEEecCCCccccHHHHHH
Q psy16139 273 LLGAKWKAESLGFQTVILSSDIEGLGDDICR 303 (466)
Q Consensus 273 l~AA~~~A~~lGy~~~ILss~l~GEArevar 303 (466)
.+...+..++.|+.+.+..+.-.|++.+.++
T Consensus 15 ~~~i~~~l~~~g~~~~~~~t~~~~~a~~~~~ 45 (287)
T PRK13057 15 LAAARAALEAAGLELVEPPAEDPDDLSEVIE 45 (287)
T ss_pred HHHHHHHHHHcCCeEEEEecCCHHHHHHHHH
Confidence 4445555566666655555555555555443
No 32
>cd05017 SIS_PGI_PMI_1 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to fructose 6-phosphate, and mannose 6-phosphate to fructose 6-phosphate, respectively at an equal rate. This protein contains two SIS domains. This alignment is based on the first SIS domain.
Probab=41.49 E-value=2.1e+02 Score=24.67 Aligned_cols=22 Identities=18% Similarity=0.277 Sum_probs=16.2
Q ss_pred CEEEEEechhHHHHHHHHHHHhC
Q psy16139 44 NVYLIGFGKAVLGMAVEIEAMFR 66 (466)
Q Consensus 44 ~i~VVg~GKAA~~MA~aae~~LG 66 (466)
+||++|.| .+...|..+...+.
T Consensus 1 ~I~i~G~G-~S~~~a~~~~~~l~ 22 (119)
T cd05017 1 NIVILGMG-GSGIGGDLLESLLL 22 (119)
T ss_pred CEEEEEcC-HHHHHHHHHHHHHH
Confidence 58999999 55567777776654
No 33
>PRK13054 lipid kinase; Reviewed
Probab=39.73 E-value=63 Score=32.52 Aligned_cols=27 Identities=7% Similarity=-0.134 Sum_probs=13.8
Q ss_pred HHHHHhCCCcEEecCCCccccHHHHHH
Q psy16139 277 KWKAESLGFQTVILSSDIEGLGDDICR 303 (466)
Q Consensus 277 ~~~A~~lGy~~~ILss~l~GEArevar 303 (466)
.+..++.|+...+..+.-.|++++.++
T Consensus 24 ~~~l~~~g~~~~v~~t~~~~~a~~~a~ 50 (300)
T PRK13054 24 VGLLREEGHTLHVRVTWEKGDAARYVE 50 (300)
T ss_pred HHHHHHcCCEEEEEEecCCCcHHHHHH
Confidence 334555555555554555555554443
No 34
>PF09587 PGA_cap: Bacterial capsule synthesis protein PGA_cap; InterPro: IPR019079 CapA is a putative poly-gamma-glutamate capsule biosynthesis protein found in bacteria. Poly-gamma-glutamate is a natural polymer that may be involved in virulence and may help bacteria survive in high salt concentrations. It is a surface-associated protein [].
Probab=39.73 E-value=86 Score=30.65 Aligned_cols=48 Identities=21% Similarity=0.335 Sum_probs=35.8
Q ss_pred HHHHHHHhcCC-CCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCCCCh
Q psy16139 114 QLIQNFVKHCT-EDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGANI 167 (466)
Q Consensus 114 ~~ILelv~~l~-~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA~I 167 (466)
+.+.+.++++. +.|+|||.+-.|.. -..-+.++.+++.+.|+.+||||
T Consensus 171 ~~i~~~i~~~r~~~D~vIv~~HwG~e------~~~~p~~~q~~~a~~lidaGaDi 219 (250)
T PF09587_consen 171 ERIKEDIREARKKADVVIVSLHWGIE------YENYPTPEQRELARALIDAGADI 219 (250)
T ss_pred HHHHHHHHHHhcCCCEEEEEeccCCC------CCCCCCHHHHHHHHHHHHcCCCE
Confidence 55555555554 68999999999855 22233578899999999999986
No 35
>cd03023 DsbA_Com1_like DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC motif, assumed to be imbedded in a DsbA-like structure. Its homology to DsbA suggests that the protein is a protein disulfide oxidoreductase. The role of such a protein in pathogenesis is unknown.
Probab=39.68 E-value=9 Score=33.08 Aligned_cols=13 Identities=31% Similarity=0.728 Sum_probs=11.2
Q ss_pred ccccCCCccccee
Q psy16139 366 SFDYKSPHCNQFL 378 (466)
Q Consensus 366 ~~~~~~~~~~~~~ 378 (466)
-|||.||||.+|-
T Consensus 12 f~D~~Cp~C~~~~ 24 (154)
T cd03023 12 FFDYNCGYCKKLA 24 (154)
T ss_pred EECCCChhHHHhh
Confidence 4899999999874
No 36
>PRK13364 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=37.68 E-value=1.2e+02 Score=31.05 Aligned_cols=72 Identities=19% Similarity=0.146 Sum_probs=52.4
Q ss_pred CCCCC-CHhhHHHHHHHHHHHhcCCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCCCChHHHHHHH
Q psy16139 101 RNNLP-DEASCQNTQLIQNFVKHCTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGANIKELNKVR 174 (466)
Q Consensus 101 ~HPlP-De~Sv~Aa~~ILelv~~l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA~I~EINtVR 174 (466)
.+|+| -++..+=++.|-+++++.+.+.-|+++-|||-|==|.-|..|..=++.-+..-.++++ +..+|-..-
T Consensus 153 ~~p~~~~~r~~~lG~al~~~i~~~~~d~rV~iIaSG~LSH~l~~~p~G~~~~~fD~~~l~~l~~--d~~~l~~~~ 225 (278)
T PRK13364 153 QHPLPSARRCYKLGQAIGRAIASWPSDERVVVIGTGGLSHQLDGERAGFINKDFDLQCMDSLVS--DPEWLTQYS 225 (278)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHhcCCCCCEEEEEeCccccCCCCCCcccCCHHHHHHHHHHHHh--CHHHHHcCC
Confidence 46888 5677899999999999877778899999999998777766664335555444444443 666665554
No 37
>COG0794 GutQ Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]
Probab=36.62 E-value=1.6e+02 Score=29.08 Aligned_cols=103 Identities=21% Similarity=0.274 Sum_probs=64.7
Q ss_pred CCCEEEEEechhHHHHHHHHHHHhCCCCcceEEEecCCCccCccCCCCCCCceEEEecCCCCCCCHhhHHHHHHHHHHHh
Q psy16139 42 KNNVYLIGFGKAVLGMAVEIEAMFRPQRLKGILSVPFGSVGILKPQFNKNSEIEIRECARNNLPDEASCQNTQLIQNFVK 121 (466)
Q Consensus 42 ~~~i~VVg~GKAA~~MA~aae~~LG~~i~~GiVvtp~g~~~~~~~~~~~~~~I~V~egA~HPlPDe~Sv~Aa~~ILelv~ 121 (466)
.++|+|.|+||.. -+++.+.-.|-.-=...+++-|... .|- -+.
T Consensus 39 ~gkv~V~G~GkSG-~Igkk~Aa~L~s~G~~a~fv~p~ea--------------------~hg---------------dlg 82 (202)
T COG0794 39 KGKVFVTGVGKSG-LIGKKFAARLASTGTPAFFVGPAEA--------------------LHG---------------DLG 82 (202)
T ss_pred CCcEEEEcCChhH-HHHHHHHHHHHccCCceEEecCchh--------------------ccC---------------Ccc
Confidence 5699999999976 5777766655322123455554221 110 012
Q ss_pred cCCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCCCChHHHHHHHHhhcccccchHhhhhcCCeEEEEEEec
Q psy16139 122 HCTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGANIKELNKVRKKLSDVKGGQLAEIVYPATLVSLIISD 201 (466)
Q Consensus 122 ~l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA~I~EINtVRKhLS~VKGGrLA~~a~pA~vvsLIlSD 201 (466)
.++++|+ +++|||+|.. +++..+...+-+.|++|-- +..=++.-||+++- +.|.++-
T Consensus 83 ~i~~~Dv-viaiS~SGeT-----------~el~~~~~~aK~~g~~lia-------iT~~~~SsLak~aD----vvl~ip~ 139 (202)
T COG0794 83 MITPGDV-VIAISGSGET-----------KELLNLAPKAKRLGAKLIA-------ITSNPDSSLAKAAD----VVLVIPV 139 (202)
T ss_pred CCCCCCE-EEEEeCCCcH-----------HHHHHHHHHHHHcCCcEEE-------EeCCCCChHHHhcC----eEEEccC
Confidence 3466775 5689999864 6788888899999998753 34556777887752 4455544
Q ss_pred CC
Q psy16139 202 IV 203 (466)
Q Consensus 202 V~ 203 (466)
..
T Consensus 140 ~~ 141 (202)
T COG0794 140 KT 141 (202)
T ss_pred cc
Confidence 43
No 38
>COG3395 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.76 E-value=36 Score=36.97 Aligned_cols=33 Identities=15% Similarity=0.103 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHhcCCcEEEecCccccc
Q psy16139 298 GDDICRGYVDLVAWIDQLRKQRTIQVGKDKNNI 330 (466)
Q Consensus 298 Arevar~laaia~~i~~~~~~~~il~gge~~~~ 330 (466)
...++..|+.+++.+....-.+.|++||||+..
T Consensus 328 ~~~v~~~l~~la~~l~~~~v~~livaGGeTS~~ 360 (413)
T COG3395 328 SHAVEALLGDLARRLVARGVRRLIVAGGETSGA 360 (413)
T ss_pred HHHHHHHHHHHHHHHHHhhhceEEecCCcchHH
Confidence 577889999999999998877799999999975
No 39
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=35.27 E-value=78 Score=32.41 Aligned_cols=92 Identities=20% Similarity=0.280 Sum_probs=54.1
Q ss_pred ccchHHHHHHHccCCCCCCCCCCCCeeEEEEecHHHHHHHHHHHHHhCCCcEEecCCCccccHHHHHHHHHHHHHHHHHh
Q psy16139 236 NKVSKSVMTILSHETPHQDTKYFENVHNHIIGNNRAALLGAKWKAESLGFQTVILSSDIEGLGDDICRGYVDLVAWIDQL 315 (466)
Q Consensus 236 ~~lP~sV~~~L~~~~~~~~~~~f~~v~n~IIgsN~~Al~AA~~~A~~lGy~~~ILss~l~GEArevar~laaia~~i~~~ 315 (466)
.+..+.+.+.|++.. ...+.+......+|.+.|.+.+.. ||.+++... =+|...+|+.-++ ..
T Consensus 19 ~~~~~~~~~~l~~~g--------~~~~~~~t~~~g~a~~~a~~a~~~-~~D~via~G-GDGTv~evingl~-------~~ 81 (301)
T COG1597 19 KKLLREVEELLEEAG--------HELSVRVTEEAGDAIEIAREAAVE-GYDTVIAAG-GDGTVNEVANGLA-------GT 81 (301)
T ss_pred hhHHHHHHHHHHhcC--------CeEEEEEeecCccHHHHHHHHHhc-CCCEEEEec-CcchHHHHHHHHh-------cC
Confidence 345566666666421 122333333345677776666655 788776643 5777887775444 22
Q ss_pred cCC-cEEEecCcccccc------hhhHHHHHHHHhh
Q psy16139 316 RKQ-RTIQVGKDKNNIK------EQDMEQNLQQVAN 344 (466)
Q Consensus 316 ~~~-~~il~gge~~~~~------~~~~~~~~~~~~~ 344 (466)
..+ ..||-+|=.|.+. ..+.++-++.+..
T Consensus 82 ~~~~LgilP~GT~NdfAr~Lgip~~~~~~Al~~i~~ 117 (301)
T COG1597 82 DDPPLGILPGGTANDFARALGIPLDDIEAALELIKS 117 (301)
T ss_pred CCCceEEecCCchHHHHHHcCCCchhHHHHHHHHHc
Confidence 333 7888888777643 2247777777665
No 40
>TIGR00824 EIIA-man PTS system, mannose/fructose/sorbose family, IIA component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIA components.
Probab=34.88 E-value=2.2e+02 Score=24.94 Aligned_cols=68 Identities=21% Similarity=0.333 Sum_probs=46.6
Q ss_pred CEEEEEechhHHHHHHHHHHHhCCCCcceEEEecCCCccCccCCCCCCCceEEEecCCCCCCCHhhHHHHHHHHHHHhcC
Q psy16139 44 NVYLIGFGKAVLGMAVEIEAMFRPQRLKGILSVPFGSVGILKPQFNKNSEIEIRECARNNLPDEASCQNTQLIQNFVKHC 123 (466)
Q Consensus 44 ~i~VVg~GKAA~~MA~aae~~LG~~i~~GiVvtp~g~~~~~~~~~~~~~~I~V~egA~HPlPDe~Sv~Aa~~ILelv~~l 123 (466)
+++|++=|.-|.+|..+++-++|+. ++++.+.- + |++.--+-.+++.+.+++.
T Consensus 3 ~ili~sHG~~A~gl~~s~~~i~G~~-----------------------~~i~~i~~--~--~~~~~~~~~~~l~~~i~~~ 55 (116)
T TIGR00824 3 AIIISGHGQAAIALLKSAEMIFGEQ-----------------------NNVGAVPF--V--PGENAETLQEKYNAALADL 55 (116)
T ss_pred EEEEEecHHHHHHHHHHHHHHcCCc-----------------------CCeEEEEc--C--CCcCHHHHHHHHHHHHHhc
Confidence 4788999999999999999998853 23555542 1 3444445667888888888
Q ss_pred CCCcEEEEE--EeCCcc
Q psy16139 124 TEDDVVLVL--ISGGGS 138 (466)
Q Consensus 124 ~~~DlVLvL--ISGGGS 138 (466)
.++|-+|+| +-||.-
T Consensus 56 ~~~~~vivltDl~GGSp 72 (116)
T TIGR00824 56 DTEEEVLFLVDIFGGSP 72 (116)
T ss_pred CCCCCEEEEEeCCCCCH
Confidence 766644444 677764
No 41
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=34.67 E-value=77 Score=33.97 Aligned_cols=109 Identities=19% Similarity=0.285 Sum_probs=66.3
Q ss_pred EEechhHHHHHHHHHHHhCCCCcceEEEecCCCccC-----ccCCCCCCC-ceEEEecCCCCCCCHhhHHHHHHHHHHHh
Q psy16139 48 IGFGKAVLGMAVEIEAMFRPQRLKGILSVPFGSVGI-----LKPQFNKNS-EIEIRECARNNLPDEASCQNTQLIQNFVK 121 (466)
Q Consensus 48 Vg~GKAA~~MA~aae~~LG~~i~~GiVvtp~g~~~~-----~~~~~~~~~-~I~V~egA~HPlPDe~Sv~Aa~~ILelv~ 121 (466)
+=||..+..........+| ..+.+|||-.+.... ....+.... .+.++.. .-|-|+...+.++-+.. +
T Consensus 10 i~fG~g~l~~l~~~~~~~g--~~r~liVTd~~~~~~g~~~~v~~~L~~~~i~~~if~~-v~p~P~~~~v~~~~~~~---~ 83 (377)
T COG1454 10 ILFGRGSLKELGEEVKRLG--AKRALIVTDRGLAKLGLLDKVLDSLDAAGIEYEVFDE-VEPEPTIETVEAGAEVA---R 83 (377)
T ss_pred EEecCChHHHHHHHHHhcC--CCceEEEECCccccchhHHHHHHHHHhcCCeEEEecC-CCCCCCHHHHHHHHHHH---H
Confidence 3356666666666666666 346777776542100 000011111 3557765 57888888887776555 4
Q ss_pred cCCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCCCChHHHHHHHHh
Q psy16139 122 HCTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGANIKELNKVRKK 176 (466)
Q Consensus 122 ~l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA~I~EINtVRKh 176 (466)
+.++ |.+|.| ||||+| |..+....|...+-++.+.=-++|.
T Consensus 84 ~~~~-D~iIal--GGGS~~-----------D~AK~i~~~~~~~~~~~~~~~i~~~ 124 (377)
T COG1454 84 EFGP-DTIIAL--GGGSVI-----------DAAKAIALLAENPGSVLDYEGIGKV 124 (377)
T ss_pred hcCC-CEEEEe--CCccHH-----------HHHHHHHHHhhCCchhhhhcccccc
Confidence 4444 666665 999986 8889999999988555544444443
No 42
>TIGR00147 lipid kinase, YegS/Rv2252/BmrU family. The E. coli member of this family, YegS has been purified and shown to have phosphatidylglycerol kinase activity. The member from M. tuberculosis, Rv2252, has diacylglycerol kinase activity. BmrU from B. subtilis is in an operon with multidrug efflux transporter Bmr, but is uncharacterized.
Probab=34.59 E-value=93 Score=30.89 Aligned_cols=53 Identities=11% Similarity=-0.015 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHhCCCcEEecCCCccccHHHHHHHHHHHHHHHHHhcCCcEEEecCccccc
Q psy16139 271 AALLGAKWKAESLGFQTVILSSDIEGLGDDICRGYVDLVAWIDQLRKQRTIQVGKDKNNI 330 (466)
Q Consensus 271 ~Al~AA~~~A~~lGy~~~ILss~l~GEArevar~laaia~~i~~~~~~~~il~gge~~~~ 330 (466)
...+...+..++.|+...+..+.-.|++.+.++ .........++.+||+.|..
T Consensus 19 ~~~~~i~~~l~~~~~~~~~~~t~~~~~~~~~~~-------~~~~~~~d~ivv~GGDGTl~ 71 (293)
T TIGR00147 19 KPLREVIMLLREEGMEIHVRVTWEKGDAARYVE-------EARKFGVDTVIAGGGDGTIN 71 (293)
T ss_pred HHHHHHHHHHHHCCCEEEEEEecCcccHHHHHH-------HHHhcCCCEEEEECCCChHH
Confidence 344555666777787777766666666654432 12222334577788887753
No 43
>PF04122 CW_binding_2: Putative cell wall binding repeat 2; InterPro: IPR007253 This repeat is found in multiple tandem copies in proteins including amidase enhancers [] and adhesins [].
Probab=34.56 E-value=1.3e+02 Score=24.89 Aligned_cols=59 Identities=10% Similarity=0.077 Sum_probs=33.6
Q ss_pred eeEEEEecH---HHHHHHHHHHHHhCCCcEEecCCCccccHHHHHHHHHHHHHHHHHhcCCcEEEecCccccc
Q psy16139 261 VHNHIIGNN---RAALLGAKWKAESLGFQTVILSSDIEGLGDDICRGYVDLVAWIDQLRKQRTIQVGKDKNNI 330 (466)
Q Consensus 261 v~n~IIgsN---~~Al~AA~~~A~~lGy~~~ILss~l~GEArevar~laaia~~i~~~~~~~~il~gge~~~~ 330 (466)
..+.+|++. .+|+.+ ...|...+.+.+.....+. .++..++ .......+++.||+..+-
T Consensus 25 ~~~v~ia~g~~~~Dalsa-~~~a~~~~~PIll~~~~l~---~~~~~~l-------~~~~~~~v~iiGg~~~is 86 (92)
T PF04122_consen 25 SDKVYIASGDNFADALSA-SPLAAKNNAPILLVNNSLP---SSVKAFL-------KSLNIKKVYIIGGEGAIS 86 (92)
T ss_pred CCEEEEEeCcchhhhhhh-HHHHHhcCCeEEEECCCCC---HHHHHHH-------HHcCCCEEEEECCCCccC
Confidence 345566665 344444 4455557777766664444 3333332 233566688889987664
No 44
>cd01012 YcaC_related YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them. Multimerisation interface seems not to be conserved in all members.
Probab=33.75 E-value=41 Score=30.55 Aligned_cols=39 Identities=5% Similarity=0.181 Sum_probs=28.2
Q ss_pred eeEEEEec--HHHHHHHHHHHHHhCCCcEEecCCCccccHH
Q psy16139 261 VHNHIIGN--NRAALLGAKWKAESLGFQTVILSSDIEGLGD 299 (466)
Q Consensus 261 v~n~IIgs--N~~Al~AA~~~A~~lGy~~~ILss~l~GEAr 299 (466)
+++.+|.. ...++.+-+..|..+||++++++++..+-..
T Consensus 88 i~~lii~G~~T~~CV~~Ta~~a~~~g~~v~v~~Da~as~~~ 128 (157)
T cd01012 88 RKQVVLAGLETHVCVLQTALDLLEEGYEVFVVADACGSRSK 128 (157)
T ss_pred CCEEEEEEeeccHHHHHHHHHHHHCCCEEEEEeeCCCCCCH
Confidence 34445544 3457778888899999999999988766433
No 45
>COG2515 Acd 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]
Probab=33.65 E-value=64 Score=33.98 Aligned_cols=50 Identities=24% Similarity=0.124 Sum_probs=36.4
Q ss_pred CceEEEecCCCCCCCHhhHHHHHHHHHHHhcCCCCcEEEEE-EeCCccccc
Q psy16139 92 SEIEIRECARNNLPDEASCQNTQLIQNFVKHCTEDDVVLVL-ISGGGSACL 141 (466)
Q Consensus 92 ~~I~V~egA~HPlPDe~Sv~Aa~~ILelv~~l~~~DlVLvL-ISGGGSALL 141 (466)
+..-+-+|++||+=.-..++.+.+|.+.++++..=|.|+|+ -|||.+|.+
T Consensus 147 kpyvIp~GG~~~~g~lGyv~~a~Ei~~Q~~~~~~fD~vVva~gs~gT~AGl 197 (323)
T COG2515 147 KPYVIPEGGSSPLGALGYVRLALEIAEQAEQLLKFDSVVVAPGSGGTHAGL 197 (323)
T ss_pred CCcEeccCCcCccccccHHHHHHHHHHHHhhccCCCEEEEeCCCcchHHHH
Confidence 45667777779999999999999999999985444544444 455555544
No 46
>PF13462 Thioredoxin_4: Thioredoxin; PDB: 3FEU_A 3HZ8_A 3DVW_A 3A3T_E 3GMF_A 1Z6M_A 3GYK_C 3BCK_A 3BD2_A 3BCI_A ....
Probab=33.21 E-value=9.6 Score=33.58 Aligned_cols=13 Identities=46% Similarity=1.203 Sum_probs=10.0
Q ss_pred ccccCCCccccee
Q psy16139 366 SFDYKSPHCNQFL 378 (466)
Q Consensus 366 ~~~~~~~~~~~~~ 378 (466)
-|||.||||..|-
T Consensus 19 f~d~~Cp~C~~~~ 31 (162)
T PF13462_consen 19 FFDFQCPHCAKFH 31 (162)
T ss_dssp EE-TTSHHHHHHH
T ss_pred EECCCCHhHHHHH
Confidence 4899999998863
No 47
>TIGR03830 CxxCG_CxxCG_HTH putative zinc finger/helix-turn-helix protein, YgiT family. This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.
Probab=32.90 E-value=80 Score=27.27 Aligned_cols=86 Identities=23% Similarity=0.310 Sum_probs=52.8
Q ss_pred ccCCCcccceeeeeehhhHHHHHHHhhcceeeccCcch---hHHHHHHHhCCCccccc--hhhhhhhhhhhhhcCcCChH
Q psy16139 368 DYKSPHCNQFLIQIELNSVFVALIEMSAKLVRFNDASV---VFQDIVKKLGLDKEELD--LDIAENYLVKIKKMGFTDEN 442 (466)
Q Consensus 368 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~ 442 (466)
-|.||+|+.-.+-.|........+ +++.|-.+.-. -+..+-+++|++.+++- +.+..+.+-++.+-......
T Consensus 31 ~~~C~~CGe~~~~~e~~~~~~~~i---~~~~~~~~~~~~~~~i~~~r~~~gltq~~lA~~lg~~~~tis~~e~g~~~p~~ 107 (127)
T TIGR03830 31 GWYCPACGEELLDPEESKRNSAAL---ADFYRKVDGLLTPPEIRRIRKKLGLSQREAAELLGGGVNAFSRYERGEVRPSK 107 (127)
T ss_pred eeECCCCCCEEEcHHHHHHHHHHH---HHHHHHccCCcCHHHHHHHHHHcCCCHHHHHHHhCCCHHHHHHHHCCCCCCCH
Confidence 357899999988888655444333 23333333333 34566788999988874 44567777777665553444
Q ss_pred HHHHHHHHhhCCCC
Q psy16139 443 EVRRALRKAANEPN 456 (466)
Q Consensus 443 ~~~~~~~~~~~~~~ 456 (466)
.+.+.++.....|+
T Consensus 108 ~~~~l~~~l~~~p~ 121 (127)
T TIGR03830 108 ALDKLLRLLDKHPE 121 (127)
T ss_pred HHHHHHHHHHHChH
Confidence 56666655444443
No 48
>cd07938 DRE_TIM_HMGL 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain. 3-hydroxy-3-methylglutaryl-CoA lyase (HMGL) catalyzes the cleavage of HMG-CoA to acetyl-CoA and acetoacetate, one of the terminal steps in ketone body generation and leucine degradation, and is a key enzyme in the pathway that supplies metabolic fuel to extrahepatic tissues. Mutations in HMGL cause a human autosomal recessive disorder called primary metabolic aciduria that affects ketogenesis and leucine catabolism and can be fatal due to an inability to tolerate hypoglycemia. HMGL has a TIM barrel domain with a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues that cap the core of the barrel. The cleavage of HMG-CoA requires the presence of a divalent cation like Mg2+ or Mn2+, and the reaction is thought to involve general acid/base catalysis. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropy
Probab=32.36 E-value=5.4e+02 Score=25.97 Aligned_cols=25 Identities=28% Similarity=0.369 Sum_probs=21.2
Q ss_pred CCCCHHHHHHHHHHHHhCCCChHHH
Q psy16139 146 SPLSLEDKLKTIKLLVQSGANIKEL 170 (466)
Q Consensus 146 ~gITLeDk~~lt~~LL~sGA~I~EI 170 (466)
..+|.++|.++.+.|.+.|.+.-|+
T Consensus 15 ~~~s~e~K~~i~~~L~~~Gv~~IEv 39 (274)
T cd07938 15 TFIPTEDKIELIDALSAAGLRRIEV 39 (274)
T ss_pred CCcCHHHHHHHHHHHHHcCCCEEEe
Confidence 4499999999999999999765554
No 49
>COG1105 FruK Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]
Probab=30.84 E-value=3.6e+02 Score=28.39 Aligned_cols=123 Identities=21% Similarity=0.262 Sum_probs=71.9
Q ss_pred CEEEEEechhHHHHHHHHHHHhCCC-CcceEEEecCCCccCccCCCCCCCceEEEecCC-------CCCCCHhhHHHHHH
Q psy16139 44 NVYLIGFGKAVLGMAVEIEAMFRPQ-RLKGILSVPFGSVGILKPQFNKNSEIEIRECAR-------NNLPDEASCQNTQL 115 (466)
Q Consensus 44 ~i~VVg~GKAA~~MA~aae~~LG~~-i~~GiVvtp~g~~~~~~~~~~~~~~I~V~egA~-------HPlPDe~Sv~Aa~~ 115 (466)
+....|| +...+-+-+++.|.+. +...++-++..++ .++++.++.. -|=|. -+.+--+.
T Consensus 52 ~~~a~Gf--lGg~tg~~~~~~l~~~gi~~~fv~v~g~TR----------invki~~~~~~~~Tein~~Gp~-is~~~~~~ 118 (310)
T COG1105 52 PVTALGF--LGGFTGEFFVALLKDEGIPDAFVEVKGDTR----------INVKILDEEDGEETEINFPGPE-ISEAELEQ 118 (310)
T ss_pred CceEEEe--cCCccHHHHHHHHHhcCCCceEEEccCCCe----------eeEEEEecCCCcEEEecCCCCC-CCHHHHHH
Confidence 4444443 3333333444444432 5556666654432 3566666421 02222 23444566
Q ss_pred HHHHHhc-CCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCCCChHHHHHHHHhhcccccchHhhhhcCCeE
Q psy16139 116 IQNFVKH-CTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGANIKELNKVRKKLSDVKGGQLAEIVYPATL 194 (466)
Q Consensus 116 ILelv~~-l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA~I~EINtVRKhLS~VKGGrLA~~a~pA~v 194 (466)
+++.++. +.++|. |.||| .+| ++++-+...++.+.+-+.|+
T Consensus 119 ~l~~~~~~l~~~d~--VvlsG------SlP-~g~~~d~y~~li~~~~~~g~----------------------------- 160 (310)
T COG1105 119 FLEQLKALLESDDI--VVLSG------SLP-PGVPPDAYAELIRILRQQGA----------------------------- 160 (310)
T ss_pred HHHHHHHhcccCCE--EEEeC------CCC-CCCCHHHHHHHHHHHHhcCC-----------------------------
Confidence 7777777 889998 66777 245 69999999999888777665
Q ss_pred EEEEEecCCCCCC-CccccCccccCC
Q psy16139 195 VSLIISDIVGDPL-QDIASGPTVLNE 219 (466)
Q Consensus 195 vsLIlSDV~GDdL-~~IASGPTvPD~ 219 (466)
-++=|.-|+.| +.+..+|++--|
T Consensus 161 --~vilD~Sg~~L~~~L~~~P~lIKP 184 (310)
T COG1105 161 --KVILDTSGEALLAALEAKPWLIKP 184 (310)
T ss_pred --eEEEECChHHHHHHHccCCcEEec
Confidence 23446667766 566777776443
No 50
>PRK13365 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=30.40 E-value=1.8e+02 Score=29.67 Aligned_cols=73 Identities=18% Similarity=0.144 Sum_probs=51.0
Q ss_pred CCCCC-CHhhHHHHHHHHHHHhcCCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCCCChHHHHHHHH
Q psy16139 101 RNNLP-DEASCQNTQLIQNFVKHCTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGANIKELNKVRK 175 (466)
Q Consensus 101 ~HPlP-De~Sv~Aa~~ILelv~~l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA~I~EINtVRK 175 (466)
.+|+| -++..+-++.|-+++++.+.+.-|+++-|||-|==|.-+..|..=++.-+-.-..++ | +...+-....
T Consensus 154 ~~p~~~~~~~~~lG~al~~~i~~~~~d~rV~iIaSG~LSH~l~~~~~g~~~~~~D~~f~~~l~-~-d~~~l~~~~~ 227 (279)
T PRK13365 154 QYPLPTARRCYRLGQALRRAIESYPEDLRVVVVGTGGLSHQIHGERSGFNNTEWDMEFLDRFQ-H-APETLTDLTH 227 (279)
T ss_pred cCCCCCHHHHHHHHHHHHHHHHhcCcCCCEEEEEeCccccCCCCCCccCCCHHHHHHHHHHHh-h-CHHHHHcCCH
Confidence 47887 457789999999999998888899999999999766643334222454444333444 5 6666665554
No 51
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=30.19 E-value=1.2e+02 Score=25.61 Aligned_cols=50 Identities=14% Similarity=-0.060 Sum_probs=35.8
Q ss_pred HHHHHHHHhCCCcEEecCCCccccHHHHHHHHHHHHHHHHHhcCCcEEEecCcc
Q psy16139 274 LGAKWKAESLGFQTVILSSDIEGLGDDICRGYVDLVAWIDQLRKQRTIQVGKDK 327 (466)
Q Consensus 274 ~AA~~~A~~lGy~~~ILss~l~GEArevar~laaia~~i~~~~~~~~il~gge~ 327 (466)
+...+.+++..++.+.+|....+....+. .+++.+++..+...++.||=-
T Consensus 41 ~~l~~~~~~~~pd~V~iS~~~~~~~~~~~----~l~~~~k~~~p~~~iv~GG~~ 90 (121)
T PF02310_consen 41 EELVEALRAERPDVVGISVSMTPNLPEAK----RLARAIKERNPNIPIVVGGPH 90 (121)
T ss_dssp HHHHHHHHHTTCSEEEEEESSSTHHHHHH----HHHHHHHTTCTTSEEEEEESS
T ss_pred HHHHHHHhcCCCcEEEEEccCcCcHHHHH----HHHHHHHhcCCCCEEEEECCc
Confidence 55566777888999999877777776664 444556776777778888754
No 52
>PF15109 TMEM125: TMEM125 protein family
Probab=30.12 E-value=33 Score=30.56 Aligned_cols=37 Identities=27% Similarity=0.405 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHhCCCChHHHHHHH--HhhcccccchHhhh
Q psy16139 150 LEDKLKTIKLLVQSGANIKELNKVR--KKLSDVKGGQLAEI 188 (466)
Q Consensus 150 LeDk~~lt~~LL~sGA~I~EINtVR--KhLS~VKGGrLA~~ 188 (466)
|=.+.-+-++|+.| .|+.||+|| +|+..+|-|+.+-.
T Consensus 60 LLAL~vLlKQLLSS--AvQDMnCir~r~~i~~LkSGG~~D~ 98 (112)
T PF15109_consen 60 LLALLVLLKQLLSS--AVQDMNCIRSRRRIDLLKSGGGADP 98 (112)
T ss_pred HHHHHHHHHHHHHH--HHhhhhhhccHHHHHHHhcCCCcch
Confidence 34455666777766 489999996 68999999988754
No 53
>PF13446 RPT: A repeated domain in UCH-protein
Probab=29.72 E-value=73 Score=24.80 Aligned_cols=50 Identities=24% Similarity=0.347 Sum_probs=37.9
Q ss_pred HHHHHHHhCCCccccchhhhhhhhhhhhhcCcCChHHHHHHHHHhhCCCCc
Q psy16139 407 FQDIVKKLGLDKEELDLDIAENYLVKIKKMGFTDENEVRRALRKAANEPNH 457 (466)
Q Consensus 407 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 457 (466)
+++-.+.||++..--|-.|-..|-.++...- .+....|+|||.-|+..+-
T Consensus 4 ~~~Ay~~Lgi~~~~~Dd~Ii~~f~~~~~~~P-~~~~~~r~AL~~Ia~~R~S 53 (62)
T PF13446_consen 4 VEEAYEILGIDEDTDDDFIISAFQSKVNDDP-SQKDTLREALRVIAESRNS 53 (62)
T ss_pred HHHHHHHhCcCCCCCHHHHHHHHHHHHHcCh-HhHHHHHHHHHHHHHHcCC
Confidence 4667788999888778888888888888332 3455679999998887653
No 54
>cd05014 SIS_Kpsf KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-phosphate to arabinose 5-phosphate. This is the second step in the CMP-Kdo biosynthesis pathway.
Probab=29.64 E-value=3.5e+02 Score=22.95 Aligned_cols=22 Identities=27% Similarity=0.336 Sum_probs=18.5
Q ss_pred CEEEEEechhHHHHHHHHHHHhC
Q psy16139 44 NVYLIGFGKAVLGMAVEIEAMFR 66 (466)
Q Consensus 44 ~i~VVg~GKAA~~MA~aae~~LG 66 (466)
+||++|.| .+..+|..+...+-
T Consensus 2 ~I~i~G~G-~S~~~a~~~~~~l~ 23 (128)
T cd05014 2 KVVVTGVG-KSGHIARKIAATLS 23 (128)
T ss_pred eEEEEeCc-HhHHHHHHHHHHhh
Confidence 79999999 77788888888773
No 55
>cd02201 FtsZ_type1 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at the site of bacterial cell division, which is required for constriction of cell membrane and cell envelope to yield two daughter cells.
Probab=29.17 E-value=1.9e+02 Score=29.59 Aligned_cols=90 Identities=14% Similarity=0.218 Sum_probs=46.5
Q ss_pred CEEEEEechhHHHHHHHHHHHhCCCCcceEEEecCCCccCccCCCCCCCceEE------EecCCCCCCCHhhHHHHHHHH
Q psy16139 44 NVYLIGFGKAVLGMAVEIEAMFRPQRLKGILSVPFGSVGILKPQFNKNSEIEI------RECARNNLPDEASCQNTQLIQ 117 (466)
Q Consensus 44 ~i~VVg~GKAA~~MA~aae~~LG~~i~~GiVvtp~g~~~~~~~~~~~~~~I~V------~egA~HPlPDe~Sv~Aa~~IL 117 (466)
+|.|||+|.|...+...+.+. +.+- -.++...-... .+... +...++.+ =.|+ ..-|. .+.+++++.+
T Consensus 2 ~i~viGvGg~G~n~v~~l~~~-~~~~-~~~~a~ntD~~-~L~~~-~~~~k~~ig~~~t~g~Ga-g~~~~-~g~~~a~~~~ 75 (304)
T cd02201 2 KIKVIGVGGGGGNAVNRMIES-GLEG-VEFIAANTDAQ-ALAKS-KAPNKIQLGKELTRGLGA-GGDPE-VGRKAAEESR 75 (304)
T ss_pred eEEEEEeCCcHHHHHHHHHHc-CCCC-ceEEEEECCHH-HHhcC-CCCcEEEcCCCCCCCCCC-CCCHH-HHHHHHHHHH
Confidence 588999999999999888764 2221 13444432211 01111 11123322 0122 33444 4455666555
Q ss_pred HHHhcC-CCCcEEEEEEe-CCccc
Q psy16139 118 NFVKHC-TEDDVVLVLIS-GGGSA 139 (466)
Q Consensus 118 elv~~l-~~~DlVLvLIS-GGGSA 139 (466)
+.+++. ..-|.|++.-| |||.-
T Consensus 76 ~~I~~~l~~~d~v~i~aglGGGTG 99 (304)
T cd02201 76 EEIKEALEGADMVFITAGMGGGTG 99 (304)
T ss_pred HHHHHHHhCCCEEEEeeccCCCcc
Confidence 555443 45677766665 67653
No 56
>PF13241 NAD_binding_7: Putative NAD(P)-binding; PDB: 3DFZ_B 1PJT_A 1PJS_A 1PJQ_A 1KYQ_B.
Probab=29.13 E-value=60 Score=27.61 Aligned_cols=35 Identities=20% Similarity=0.114 Sum_probs=22.4
Q ss_pred ccCC-CEEEEEechhHHHHHHHHHHHhCCCCcceEEEecC
Q psy16139 40 LIKN-NVYLIGFGKAVLGMAVEIEAMFRPQRLKGILSVPF 78 (466)
Q Consensus 40 ~l~~-~i~VVg~GKAA~~MA~aae~~LG~~i~~GiVvtp~ 78 (466)
++.+ ++.|||.|+.|..-++.+.+. | ..=.|+.|.
T Consensus 4 ~l~~~~vlVvGgG~va~~k~~~Ll~~-g---A~v~vis~~ 39 (103)
T PF13241_consen 4 DLKGKRVLVVGGGPVAARKARLLLEA-G---AKVTVISPE 39 (103)
T ss_dssp --TT-EEEEEEESHHHHHHHHHHCCC-T---BEEEEEESS
T ss_pred EcCCCEEEEECCCHHHHHHHHHHHhC-C---CEEEEECCc
Confidence 3444 999999999998777666542 2 223455665
No 57
>PRK00861 putative lipid kinase; Reviewed
Probab=29.11 E-value=1.1e+02 Score=30.66 Aligned_cols=26 Identities=12% Similarity=0.096 Sum_probs=11.6
Q ss_pred CCcEEEecCcccccc-----hhhHHHHHHHH
Q psy16139 317 KQRTIQVGKDKNNIK-----EQDMEQNLQQV 342 (466)
Q Consensus 317 ~~~~il~gge~~~~~-----~~~~~~~~~~~ 342 (466)
.++.++-+|-.|..- ..|+++.++.+
T Consensus 82 ~~lgviP~GTgNdfAr~lgi~~~~~~a~~~i 112 (300)
T PRK00861 82 IPLGIIPRGTANAFAAALGIPDTIEEACRTI 112 (300)
T ss_pred CcEEEEcCCchhHHHHHcCCCCCHHHHHHHH
Confidence 344555555444321 23455555543
No 58
>PF01910 DUF77: Domain of unknown function DUF77; InterPro: IPR002767 This entry contains several hypothetical proteins of unknown function found in archaebacteria, eukaryotes and eubacteria. The structures of YBL001c from Saccharomyces cerevisiae and its homologue MTH1187 from the archaea Methanobacterium thermoautotrophicum have been determined []. These proteins have a ferredoxin-like alpha/beta sandwich structure with anti-parallel beta-sheets. Generally, they have two domains that form a single beta-sheet dimer, where two dimers pack sheet-to-sheet into a tetramer, some proteins having an extra C-terminal helix. ; PDB: 1LXJ_A 1YQH_A 2EKY_G 2EPI_A 1VK8_D 2IBO_C 1LXN_B.
Probab=29.05 E-value=1.6e+02 Score=25.26 Aligned_cols=73 Identities=19% Similarity=0.151 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHHHhCCCc--EEecCCCccccHHHHHHHHHHHHHHHHHhcCCcEEEe-cCcccccchhhHHHHHHH
Q psy16139 269 NRAALLGAKWKAESLGFQ--TVILSSDIEGLGDDICRGYVDLVAWIDQLRKQRTIQV-GKDKNNIKEQDMEQNLQQ 341 (466)
Q Consensus 269 N~~Al~AA~~~A~~lGy~--~~ILss~l~GEArevar~laaia~~i~~~~~~~~il~-gge~~~~~~~~~~~~~~~ 341 (466)
-..-+.+|.+..++.|++ +.-+++.++||..++-..+..+-..+.+.+-++++.. ==+...-+++.|++-+..
T Consensus 15 ~~~~V~~~i~~i~~sgl~y~v~pm~T~iEGe~dev~~~i~~~~e~~~~~G~~Rv~t~ikId~R~d~~~t~~~Kv~~ 90 (92)
T PF01910_consen 15 VSAYVAEAIEVIKESGLKYEVGPMGTTIEGELDEVMALIKEAHEALFEAGAKRVVTVIKIDDRRDKELTMEEKVES 90 (92)
T ss_dssp HHHHHHHHHHHHHTSSSEEEEETTEEEEEEEHHHHHHHHHHHHHHHHCTTSSEEEEEEEEEEESSSTTSHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCceEEcCCccEEEecHHHHHHHHHHHHHHHHHcCCCeEEEEEEEEEcCCCCCCHHHHHHh
Confidence 445567788888888865 4555788999999999988888777777766663321 112222344556655443
No 59
>TIGR00106 uncharacterized protein, MTH1187 family. This protein has been crystallized in both Methanobacterium thermoautotrophicum and yeast, but its function remains unknown. Both crystal structures showed sulfate ions bound at the interface of two dimers to form a tetramer.
Probab=28.31 E-value=3.1e+02 Score=23.79 Aligned_cols=73 Identities=14% Similarity=0.099 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHHhCCCc--EEecCCCccccHHHHHHHHHHHHHHHHHhcCCcEEEec-CcccccchhhHHHHHHHH
Q psy16139 270 RAALLGAKWKAESLGFQ--TVILSSDIEGLGDDICRGYVDLVAWIDQLRKQRTIQVG-KDKNNIKEQDMEQNLQQV 342 (466)
Q Consensus 270 ~~Al~AA~~~A~~lGy~--~~ILss~l~GEArevar~laaia~~i~~~~~~~~il~g-ge~~~~~~~~~~~~~~~~ 342 (466)
..-+..+.+..++.|++ +.-.++.++||..++-..+.++-..+.+.+-++++..= =++..-|++.|++-++.|
T Consensus 18 s~yVa~~i~~l~~sGl~y~~~pm~T~IEGe~dev~~~i~~~~e~~~~~G~~Rv~t~ikid~R~dk~~~~~~Kv~~V 93 (97)
T TIGR00106 18 SSYVAAAIEVLKESGLKYELHPMGTLIEGDLDELFEAIKAIHEAVLEKGSDRVYTSIKIDTRTDKHRTLRDKVKAV 93 (97)
T ss_pred HHHHHHHHHHHHHcCCCeEecCCccEEecCHHHHHHHHHHHHHHHHHcCCCeEEEEEEEEecCCCCCCHHHHHHHH
Confidence 44456677777777755 55567889999999988777776777776666633211 122223567888777655
No 60
>TIGR01316 gltA glutamate synthase (NADPH), homotetrameric. This protein is homologous to the small subunit of NADPH and NADH forms of glutamate synthase as found in eukaryotes and some bacteria. This protein is found in numerous species having no homolog of the glutamate synthase large subunit. The prototype of the family, from Pyrococcus sp. KOD1, was shown to be active as a homotetramer and to require NADPH.
Probab=28.20 E-value=3.3e+02 Score=29.11 Aligned_cols=162 Identities=24% Similarity=0.288 Sum_probs=0.0
Q ss_pred CEEEEEechhHHHHHHHHHHHhCCCCcceEEEecCCCccCccCCCCCCCceEEEecCCCCCCCHhhHHHHHHHHHHHhcC
Q psy16139 44 NVYLIGFGKAVLGMAVEIEAMFRPQRLKGILSVPFGSVGILKPQFNKNSEIEIRECARNNLPDEASCQNTQLIQNFVKHC 123 (466)
Q Consensus 44 ~i~VVg~GKAA~~MA~aae~~LG~~i~~GiVvtp~g~~~~~~~~~~~~~~I~V~egA~HPlPDe~Sv~Aa~~ILelv~~l 123 (466)
+|.|||.|-|+..+|..+.+. |-. +.+++. ++.|
T Consensus 135 ~V~IIG~G~aGl~aA~~l~~~-G~~-------------------------V~vie~--~~~~------------------ 168 (449)
T TIGR01316 135 KVAVIGAGPAGLACASELAKA-GHS-------------------------VTVFEA--LHKP------------------ 168 (449)
T ss_pred EEEEECcCHHHHHHHHHHHHC-CCc-------------------------EEEEec--CCCC------------------
Q ss_pred CCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCCCChHHHHHHHHhhcccccchHhhhhcCCeEEEEEEe---
Q psy16139 124 TEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGANIKELNKVRKKLSDVKGGQLAEIVYPATLVSLIIS--- 200 (466)
Q Consensus 124 ~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA~I~EINtVRKhLS~VKGGrLA~~a~pA~vvsLIlS--- 200 (466)
||--....|.-.++-+......+.|.+.|.++..=..|.+.+. +.++.. -+.+-++.-=.+
T Consensus 169 ------------GG~l~~gip~~~~~~~~~~~~~~~l~~~gv~~~~~~~v~~~v~-~~~~~~---~yd~viiAtGa~~p~ 232 (449)
T TIGR01316 169 ------------GGVVTYGIPEFRLPKEIVVTEIKTLKKLGVTFRMNFLVGKTAT-LEELFS---QYDAVFIGTGAGLPK 232 (449)
T ss_pred ------------CcEeeecCCCccCCHHHHHHHHHHHHhCCcEEEeCCccCCcCC-HHHHHh---hCCEEEEeCCCCCCC
Q ss_pred --cCCCCCCCccccCccccCCCCHHHHHHHHHHhCCCccchHHHHHHHccCCCCCCCCCCCCeeEEEEecHHHHHHHHHH
Q psy16139 201 --DIVGDPLQDIASGPTVLNEDLWSDARDIVIKYGLQNKVSKSVMTILSHETPHQDTKYFENVHNHIIGNNRAALLGAKW 278 (466)
Q Consensus 201 --DV~GDdL~~IASGPTvPD~sT~~DAl~IL~ky~L~~~lP~sV~~~L~~~~~~~~~~~f~~v~n~IIgsN~~Al~AA~~ 278 (466)
+++|.+ .+.+.....+.+...+++.|.. +....+.+..-+-.|||....+++.|.
T Consensus 233 ~~~ipG~~------~~gv~~~~~~l~~~~~~~~~~~----------------~~~~~~~~~gk~VvVIGgG~~a~d~A~- 289 (449)
T TIGR01316 233 LMNIPGEE------LCGVYSANDFLTRANLMKAYEF----------------PHADTPVYAGKSVVVIGGGNTAVDSAR- 289 (449)
T ss_pred cCCCCCCC------CCCcEEHHHHHHHHhhcccccc----------------cccCCcccCCCeEEEECCCHHHHHHHH-
Q ss_pred HHHhCCCcEEec
Q psy16139 279 KAESLGFQTVIL 290 (466)
Q Consensus 279 ~A~~lGy~~~IL 290 (466)
.+.++|..+.++
T Consensus 290 ~l~~~G~~Vtlv 301 (449)
T TIGR01316 290 TALRLGAEVHCL 301 (449)
T ss_pred HHHHcCCEEEEE
No 61
>PRK05638 threonine synthase; Validated
Probab=28.17 E-value=1.1e+02 Score=32.75 Aligned_cols=65 Identities=15% Similarity=0.222 Sum_probs=37.8
Q ss_pred CCCCcEEEEEEeCCcccc-ccCCCCCCCHHHHHHHHHHHHhCC-CC---hH-HHH------HHHHhhcccccchHhh
Q psy16139 123 CTEDDVVLVLISGGGSAC-LSSPKSPLSLEDKLKTIKLLVQSG-AN---IK-ELN------KVRKKLSDVKGGQLAE 187 (466)
Q Consensus 123 l~~~DlVLvLISGGGSAL-L~~P~~gITLeDk~~lt~~LL~sG-A~---I~-EIN------tVRKhLS~VKGGrLA~ 187 (466)
+.+++.|+++++|+|--= -+.-++.++++++...+=.+|..| .. |. .|+ +|++||..++--+|..
T Consensus 341 i~~~~~Vv~i~tG~g~k~~~~~~~~~~~~~~~r~~IL~~L~~~~~~~~el~~~l~~~~s~~~v~~hL~~Le~~GLV~ 417 (442)
T PRK05638 341 IEKGDKVVLVVTGSGLKGYGEGGREKFTIGGTKLEILKILSEREMYGYEIWKALGKPLKYQAVYQHIKELEELGLIE 417 (442)
T ss_pred CCCCCeEEEEeCCCCCCCCCCCchhhhcccchHHHHHHHHhhCCccHHHHHHHHcccCCcchHHHHHHHHHHCCCEE
Confidence 466889999999998432 222223355555444333344443 22 22 233 8889998887666664
No 62
>PF02787 CPSase_L_D3: Carbamoyl-phosphate synthetase large chain, oligomerisation domain; InterPro: IPR005480 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the oligomerisation domain found in the large subunit of carbamoyl phosphate synthases as well as in certain other carboxy phsophate domain-containing enzymes.; GO: 0006807 nitrogen compound metabolic process; PDB: 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A 1KEE_G 1CE8_A 1JDB_H ....
Probab=27.79 E-value=44 Score=30.16 Aligned_cols=15 Identities=40% Similarity=0.749 Sum_probs=10.3
Q ss_pred hhhhhhhhhcCcCCh
Q psy16139 427 ENYLVKIKKMGFTDE 441 (466)
Q Consensus 427 ~~~~~~~~~~~~~~~ 441 (466)
.+.|.+.|+|||+|.
T Consensus 62 ~~~L~~aK~~GFsD~ 76 (123)
T PF02787_consen 62 PELLRKAKRLGFSDR 76 (123)
T ss_dssp HHHHHHHHHTT--HH
T ss_pred HHHHHHHHHcCCCHH
Confidence 457899999999873
No 63
>PRK13055 putative lipid kinase; Reviewed
Probab=27.61 E-value=1.2e+02 Score=31.18 Aligned_cols=49 Identities=12% Similarity=0.096 Sum_probs=23.1
Q ss_pred HHHHHHHHHhCCCcEEec-CCCccccHHHHHHHHHHHHHHHHHhcCCcEEEecCccc
Q psy16139 273 LLGAKWKAESLGFQTVIL-SSDIEGLGDDICRGYVDLVAWIDQLRKQRTIQVGKDKN 328 (466)
Q Consensus 273 l~AA~~~A~~lGy~~~IL-ss~l~GEArevar~laaia~~i~~~~~~~~il~gge~~ 328 (466)
+....+..++.|+...+. ++.-.|++++.++..+ ......++.+||+.|
T Consensus 22 ~~~i~~~l~~~g~~~~i~~t~~~~~~a~~~~~~~~-------~~~~d~vvv~GGDGT 71 (334)
T PRK13055 22 VADILDILEQAGYETSAFQTTPEPNSAKNEAKRAA-------EAGFDLIIAAGGDGT 71 (334)
T ss_pred HHHHHHHHHHcCCeEEEEEeecCCccHHHHHHHHh-------hcCCCEEEEECCCCH
Confidence 344455555666655443 3334455555443322 122234555666655
No 64
>TIGR03642 cas_csx13 CRISPR-associated protein, Csx13 family. This model describes a protein N-terminal protein sequence domain strictly associated with CRISPR and CRISPR-associated protein systems. This model and TIGR02584 identify two separate clades from a larger homology domain family, both CRISPR-associated, while other homologs are found that may not be. Members are found in bacteria that include Pelotomaculum thermopropionicum SI, Thermoanaerobacter tengcongensis MB4, and Roseiflexus sp. RS-1, and in archaea that include Thermoplasma volcanium, Picrophilus torridus, and Methanospirillum hungatei. The molecular function is unknown.
Probab=26.93 E-value=67 Score=29.33 Aligned_cols=36 Identities=28% Similarity=0.266 Sum_probs=27.5
Q ss_pred CCCCHhh----HHHHHHHHHHHhcCCCCc---EEEEEEeCCcc
Q psy16139 103 NLPDEAS----CQNTQLIQNFVKHCTEDD---VVLVLISGGGS 138 (466)
Q Consensus 103 PlPDe~S----v~Aa~~ILelv~~l~~~D---lVLvLISGGGS 138 (466)
|++|-++ ..+.+.|...+++++.+. .+.+.||||=-
T Consensus 60 ~~~DI~t~~d~~~~~~~I~~~i~~l~~~~~~~~lh~~iaGGRK 102 (124)
T TIGR03642 60 KFDDILSDEDILTFMSIAAKEVKKERENYGCERIIVNISGGRK 102 (124)
T ss_pred CccccCCHHHHHHHHHHHHHHHHHHhhCCCcceEEEEecCCHH
Confidence 5777655 666777888888887764 79999999943
No 65
>TIGR00274 N-acetylmuramic acid 6-phosphate etherase. This protein, MurQ, is involved in recycling components of the bacterial murein sacculus turned over during cell growth. The cell wall metabolite anhydro-N-acetylmuramic acid (anhMurNAc) is converted by a kinase, AnmK, to MurNAc-phosphate, then converted to N-acetylglucosamine-phosphate by this etherase, called MurQ. This family of proteins is similar to the C-terminal half of a number of vertebrate glucokinase regulator proteins and contains a Prosite pattern which is shared by this group of proteins in a region of local similarity.
Probab=26.68 E-value=1.5e+02 Score=30.38 Aligned_cols=49 Identities=22% Similarity=0.240 Sum_probs=34.6
Q ss_pred cCCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCCCChHHHHHHHHhhcccccchHhhhh
Q psy16139 122 HCTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGANIKELNKVRKKLSDVKGGQLAEIV 189 (466)
Q Consensus 122 ~l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA~I~EINtVRKhLS~VKGGrLA~~a 189 (466)
.++++|+||+ ||..|+ -.+.....+...+.|+.+-- ++.-.++.|++.+
T Consensus 123 ~l~~~DvvI~-IS~SG~-----------T~~vi~al~~Ak~~Ga~tIa-------IT~~~~s~La~~a 171 (291)
T TIGR00274 123 HLTKNDVVVG-IAASGR-----------TPYVIAGLQYARSLGALTIS-------IACNPKSAASEIA 171 (291)
T ss_pred CCCCCCEEEE-EeCCCC-----------cHHHHHHHHHHHHCCCeEEE-------EECCCCChhHHhC
Confidence 5789998887 555555 24677888888888987654 4556677777754
No 66
>CHL00162 thiG thiamin biosynthesis protein G; Validated
Probab=26.49 E-value=3.1e+02 Score=28.32 Aligned_cols=124 Identities=18% Similarity=0.252 Sum_probs=78.4
Q ss_pred ceeeeecceeccCCCEEEEEechh-HHHHHHHHHHHhCCCCcceEEEecCCCccCccCCCCCCCceEEEe-cCCCCCCCH
Q psy16139 30 NKLIIRDQTVLIKNNVYLIGFGKA-VLGMAVEIEAMFRPQRLKGILSVPFGSVGILKPQFNKNSEIEIRE-CARNNLPDE 107 (466)
Q Consensus 30 ~~L~I~~~~~~l~~~i~VVg~GKA-A~~MA~aae~~LG~~i~~GiVvtp~g~~~~~~~~~~~~~~I~V~e-gA~HPlPDe 107 (466)
+.|.|+|+.|.- | +++|-||. +....+.+.+.-|..+. .+-+-..... ... ...+-.+++. ..-|.+|+.
T Consensus 6 d~l~i~g~~f~S--R-L~lGTgky~s~~~~~~ai~aSg~evv-TvalRR~~~~-~~~---~~~~~l~~i~~~~~~~LPNT 77 (267)
T CHL00162 6 DKLKIGNKSFNS--R-LMLGTGKYKSLKDAIQSIEASGCEIV-TVAIRRLNNN-LLN---DNSNLLNGLDWNKLWLLPNT 77 (267)
T ss_pred CceEECCEEeec--c-eEEecCCCCCHHHHHHHHHHhCCcEE-EEEEEEeccC-cCC---CcchHHHhhchhccEECCcC
Confidence 468899988862 3 58999998 67777777777776542 2222111100 000 0001122222 114788888
Q ss_pred hhHHHHHHHHHHH---hcCC------CCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCCCCh
Q psy16139 108 ASCQNTQLIQNFV---KHCT------EDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGANI 167 (466)
Q Consensus 108 ~Sv~Aa~~ILelv---~~l~------~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA~I 167 (466)
++..-+++.+..+ +++. ..|.+=+=|-|----|++-|. +..+.++.|.+-|...
T Consensus 78 aGc~tA~EAv~~A~laRe~~~~~~~~~~~wIKLEVi~D~~~LlPD~~------etl~Aae~Lv~eGF~V 140 (267)
T CHL00162 78 AGCQTAEEAIRMAFLGRELAKQLGQEDNNFVKLEVISDPKYLLPDPI------GTLKAAEFLVKKGFTV 140 (267)
T ss_pred cCCCCHHHHHHHHHHHHHHhccccccCCCeEEEEEeCCCcccCCChH------HHHHHHHHHHHCCCEE
Confidence 7777776555444 7776 678888888888888888883 6778889999999754
No 67
>PRK13366 protocatechuate 4,5-dioxygenase subunit beta; Provisional
Probab=26.16 E-value=2.8e+02 Score=28.47 Aligned_cols=73 Identities=21% Similarity=0.172 Sum_probs=55.2
Q ss_pred CCCCCC-HhhHHHHHHHHHHHhcCCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCCCChHHHHHHHH
Q psy16139 101 RNNLPD-EASCQNTQLIQNFVKHCTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGANIKELNKVRK 175 (466)
Q Consensus 101 ~HPlPD-e~Sv~Aa~~ILelv~~l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA~I~EINtVRK 175 (466)
..|.|+ ++..+=++.|-+++++.+.+.-|+++=|||-|==|..|..|..=++.-+..-..++ + +...+.....
T Consensus 154 ~~p~~~~~r~~~lG~al~~~i~~~~~d~rV~iIaSGgLSH~l~~p~~g~~~~~fD~~~l~~l~-~-d~~~l~~l~~ 227 (284)
T PRK13366 154 QYPVPSGRRCFALGQAIRRAVESYDEDLNVQIWGTGGMSHQLQGPRAGLINREWDNAFLDRLI-A-DPDGLSKMPH 227 (284)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHhcCcCCCEEEEecCccccCCCCCCCCCCcHHHHHHHHHHHh-c-CHHHHHcCCH
Confidence 367777 56788999999999998888889999999999988888666444555554444454 4 7877766654
No 68
>PRK14615 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional
Probab=25.63 E-value=1.1e+02 Score=31.22 Aligned_cols=45 Identities=13% Similarity=0.178 Sum_probs=29.8
Q ss_pred HHHHHHhcCCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCCC
Q psy16139 115 LIQNFVKHCTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGA 165 (466)
Q Consensus 115 ~ILelv~~l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA 165 (466)
++.+.+.+.+ -+-+.+||.||+++.+..+ -++-+++.+.|.+.|+
T Consensus 245 ~~~~~~~~~G---Alga~mSGSGptvfaL~~~---~~~a~~i~~~l~~~g~ 289 (296)
T PRK14615 245 RLKETLLRHG---AAAALMSGSGSSVFGLFRR---RAQAEAAFEMLKGHNI 289 (296)
T ss_pred HHHHHHHhcC---CCEEEEeccCcceEEEeCC---HHHHHHHHHHHhhhcc
Confidence 4444444433 3667899999999998643 3455677777776664
No 69
>COG1611 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]
Probab=25.59 E-value=91 Score=30.51 Aligned_cols=50 Identities=12% Similarity=0.149 Sum_probs=38.6
Q ss_pred CceEEEecCCCCCCCHh-hHHHHHHHHHHHhcCCCCcEEEEEEeCCccccccCCCCC
Q psy16139 92 SEIEIRECARNNLPDEA-SCQNTQLIQNFVKHCTEDDVVLVLISGGGSACLSSPKSP 147 (466)
Q Consensus 92 ~~I~V~egA~HPlPDe~-Sv~Aa~~ILelv~~l~~~DlVLvLISGGGSALL~~P~~g 147 (466)
..+-|+-|+ -|.+++. -.+.|+++=+.+..-+ +++++|||.-+|+++.++
T Consensus 15 ~~i~V~~gs-~~~~~~~~~~~~a~~lg~~la~~g-----~~V~tGG~~GiMea~~~g 65 (205)
T COG1611 15 RQIVVICGS-ARGIEPEEYYELARELGRELAKRG-----LLVITGGGPGVMEAVARG 65 (205)
T ss_pred ceEEEEEeC-CCCCCCHHHHHHHHHHHHHHHhCC-----cEEEeCCchhhhhHHHHH
Confidence 467888875 4544444 8888888877777655 889999999999999766
No 70
>PRK09533 bifunctional transaldolase/phosoglucose isomerase; Validated
Probab=25.57 E-value=1.3e+03 Score=28.11 Aligned_cols=64 Identities=16% Similarity=0.358 Sum_probs=37.4
Q ss_pred CCEEEEEechhHHHHHHHHHHHhCCCCcceEEEecCCCccCccCCCCCCCceEEEecCCCCCCCHhhHHHHHHHHHHHhc
Q psy16139 43 NNVYLIGFGKAVLGMAVEIEAMFRPQRLKGILSVPFGSVGILKPQFNKNSEIEIRECARNNLPDEASCQNTQLIQNFVKH 122 (466)
Q Consensus 43 ~~i~VVg~GKAA~~MA~aae~~LG~~i~~GiVvtp~g~~~~~~~~~~~~~~I~V~egA~HPlPDe~Sv~Aa~~ILelv~~ 122 (466)
.+|+++|+|-.+.++ +.+.+.++.+. + .+.+.++. +--| .. +-++++.
T Consensus 456 d~VVviGIGGS~LG~-~~l~~~l~~~~---------~-----------~p~l~~ld---n~DP--~~------v~~~l~~ 503 (948)
T PRK09533 456 TDAVVLGMGGSSLGP-EVLAETFGQRD---------G-----------FPKLHVLD---STDP--AQ------VRALEAA 503 (948)
T ss_pred CEEEEEccChhHHHH-HHHHHHHHhcC---------C-----------CceEEEEe---CCCh--HH------HHHHHhh
Confidence 389999999887777 56666664210 0 01344433 2223 33 3334455
Q ss_pred CCCCcEEEEEEeCCcc
Q psy16139 123 CTEDDVVLVLISGGGS 138 (466)
Q Consensus 123 l~~~DlVLvLISGGGS 138 (466)
+.+++.+++.+|==|+
T Consensus 504 ~~~e~TLvIViSKSGt 519 (948)
T PRK09533 504 VDLARTLFIVSSKSGG 519 (948)
T ss_pred CCcccEEEEEEeCCCC
Confidence 6888889999885433
No 71
>PF11015 DUF2853: Protein of unknown function (DUF2853); InterPro: IPR021274 This bacterial family of proteins has no known function. ; PDB: 2PYQ_B.
Probab=25.04 E-value=36 Score=30.27 Aligned_cols=35 Identities=40% Similarity=0.687 Sum_probs=24.0
Q ss_pred CCCccccchhhhhhhhhhhhhcCcCChHHHHHHHHHhh
Q psy16139 415 GLDKEELDLDIAENYLVKIKKMGFTDENEVRRALRKAA 452 (466)
Q Consensus 415 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 452 (466)
|-|++||+- +-+||| +||+|.+|.++.-.|+.+.+
T Consensus 40 ~Sd~~ELe~-Vk~nfl--~KKLGl~d~~~ld~aI~~V~ 74 (102)
T PF11015_consen 40 CSDPKELER-VKENFL--IKKLGLSDDPELDAAINKVC 74 (102)
T ss_dssp TT-HHHHHH-HHHHCC--CCCT---SSHHHHHHHHHHH
T ss_pred cCCHHHHHH-HHHhHH--HHHcCCCCcHHHHHHHHHHH
Confidence 567888763 568998 57999999999988887754
No 72
>TIGR01470 cysG_Nterm siroheme synthase, N-terminal domain. This model represents a subfamily of CysG N-terminal region-related sequences. All sequences in the seed alignment for this model are N-terminal regions of known or predicted siroheme synthases. The C-terminal region of each is uroporphyrin-III C-methyltransferase (EC 2.1.1.107), which catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). The region represented by this model completes the process of oxidation and iron insertion to yield siroheme. Siroheme is a cofactor for nitrite and sulfite reductases, so siroheme synthase is CysG of cysteine biosynthesis in some organisms.
Probab=25.02 E-value=65 Score=31.14 Aligned_cols=33 Identities=18% Similarity=0.025 Sum_probs=24.7
Q ss_pred CCEEEEEechhHHHHHHHHHHHhCCCCcceEEEecCC
Q psy16139 43 NNVYLIGFGKAVLGMAVEIEAMFRPQRLKGILSVPFG 79 (466)
Q Consensus 43 ~~i~VVg~GKAA~~MA~aae~~LG~~i~~GiVvtp~g 79 (466)
.+|.|||.|+.+...++.+.+ .|.++ .|+.|.-
T Consensus 10 k~vlVvGgG~va~rk~~~Ll~-~ga~V---tVvsp~~ 42 (205)
T TIGR01470 10 RAVLVVGGGDVALRKARLLLK-AGAQL---RVIAEEL 42 (205)
T ss_pred CeEEEECcCHHHHHHHHHHHH-CCCEE---EEEcCCC
Confidence 399999999999999999887 44332 3555643
No 73
>PRK06703 flavodoxin; Provisional
Probab=25.01 E-value=3.1e+02 Score=24.49 Aligned_cols=28 Identities=14% Similarity=0.052 Sum_probs=17.6
Q ss_pred eEEEEecH-------HHHHHHHHHHHHhCCCcEEe
Q psy16139 262 HNHIIGNN-------RAALLGAKWKAESLGFQTVI 289 (466)
Q Consensus 262 ~n~IIgsN-------~~Al~AA~~~A~~lGy~~~I 289 (466)
...++|+. ..+.+...+..+++|+..+-
T Consensus 84 ~~~vfg~g~~~y~~~~~a~~~l~~~l~~~G~~~~~ 118 (151)
T PRK06703 84 KVAVFGSGDTAYPLFCEAVTIFEERLVERGAELVQ 118 (151)
T ss_pred EEEEEccCCCChHHHHHHHHHHHHHHHHCCCEEcc
Confidence 45677652 35555567778888886543
No 74
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=24.66 E-value=37 Score=31.08 Aligned_cols=20 Identities=15% Similarity=-0.004 Sum_probs=15.7
Q ss_pred HHHHHHHHhCCCcEEecCCC
Q psy16139 274 LGAKWKAESLGFQTVILSSD 293 (466)
Q Consensus 274 ~AA~~~A~~lGy~~~ILss~ 293 (466)
...++..+.+||.+....+.
T Consensus 10 ~~Lar~LR~lG~Dt~~~~~~ 29 (147)
T PF01927_consen 10 GRLARWLRLLGYDTLYSRDI 29 (147)
T ss_pred HHHHHHHHHCCCcEEEeCCC
Confidence 45578899999999987754
No 75
>PRK13059 putative lipid kinase; Reviewed
Probab=24.57 E-value=1.6e+02 Score=29.71 Aligned_cols=17 Identities=12% Similarity=-0.015 Sum_probs=9.6
Q ss_pred HHHHHHHHhCCCcEEec
Q psy16139 274 LGAKWKAESLGFQTVIL 290 (466)
Q Consensus 274 ~AA~~~A~~lGy~~~IL 290 (466)
+...+..++.|+.+.+.
T Consensus 22 ~~i~~~l~~~g~~~~~~ 38 (295)
T PRK13059 22 DKVIRIHQEKGYLVVPY 38 (295)
T ss_pred HHHHHHHHHCCcEEEEE
Confidence 44555666666665543
No 76
>PRK13373 putative dioxygenase; Provisional
Probab=24.32 E-value=1.5e+02 Score=31.57 Aligned_cols=47 Identities=15% Similarity=0.063 Sum_probs=37.9
Q ss_pred eEEEe-cCCCCCCCH-hhHHHHHHHHHHHhcCCCCcEEEEEEeCCcccc
Q psy16139 94 IEIRE-CARNNLPDE-ASCQNTQLIQNFVKHCTEDDVVLVLISGGGSAC 140 (466)
Q Consensus 94 I~V~e-gA~HPlPDe-~Sv~Aa~~ILelv~~l~~~DlVLvLISGGGSAL 140 (466)
|.|+- +..+|+|.- ++.+-++.|-+.+++.+++..|+++=|||=|==
T Consensus 145 VPV~vN~~~~P~p~~~R~~~lG~ai~~ai~~~~~d~rV~~~~sGgLSH~ 193 (344)
T PRK13373 145 IPVFTNVFSPPVMPYRRAYAFGAALRNAAEALDADLRVAFMATGGMSHW 193 (344)
T ss_pred EEEEEecccCCCCCHHHHHHHHHHHHHHHHhcCCCceEEEEecCcccCC
Confidence 44443 235888875 778889999999999988999999999999873
No 77
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=24.24 E-value=6.1e+02 Score=23.95 Aligned_cols=68 Identities=12% Similarity=0.018 Sum_probs=37.5
Q ss_pred eeEEEEec-HHHHHHHHHHHHHhCCCcEEecCCCcc------------ccHHHHHHHHHHHHHHHHHhcCCcEEEecCcc
Q psy16139 261 VHNHIIGN-NRAALLGAKWKAESLGFQTVILSSDIE------------GLGDDICRGYVDLVAWIDQLRKQRTIQVGKDK 327 (466)
Q Consensus 261 v~n~IIgs-N~~Al~AA~~~A~~lGy~~~ILss~l~------------GEArevar~laaia~~i~~~~~~~~il~gge~ 327 (466)
++-+|+.+ +...+..+.+.+++.|.+++.+..... .+-.+.|+..+...... .+...+.+.||+.
T Consensus 58 vdgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~--~g~~~i~~i~g~~ 135 (271)
T cd06312 58 PDGIVVTIPDPDALDPAIKRAVAAGIPVISFNAGDPKYKELGALAYVGQDEYAAGEAAGERLAEL--KGGKNVLCVIHEP 135 (271)
T ss_pred CCEEEEeCCChHHhHHHHHHHHHCCCeEEEeCCCCCccccccceEEeccChHHHHHHHHHHHHHh--cCCCeEEEEecCC
Confidence 44455543 333344566777888998888764432 35667776655443332 4444555555654
Q ss_pred ccc
Q psy16139 328 NNI 330 (466)
Q Consensus 328 ~~~ 330 (466)
...
T Consensus 136 ~~~ 138 (271)
T cd06312 136 GNV 138 (271)
T ss_pred CCc
Confidence 433
No 78
>KOG3857|consensus
Probab=24.11 E-value=2e+02 Score=31.28 Aligned_cols=96 Identities=24% Similarity=0.243 Sum_probs=57.0
Q ss_pred EEechhHHHHHHHHHHHhCCCCcceEEEecCCCccCccCC------C-CCCCceEEEecCCCCCCCHhhHHHHHHHHHHH
Q psy16139 48 IGFGKAVLGMAVEIEAMFRPQRLKGILSVPFGSVGILKPQ------F-NKNSEIEIRECARNNLPDEASCQNTQLIQNFV 120 (466)
Q Consensus 48 Vg~GKAA~~MA~aae~~LG~~i~~GiVvtp~g~~~~~~~~------~-~~~~~I~V~egA~HPlPDe~Sv~Aa~~ILelv 120 (466)
+=|||++..=...=.+-+|- .+.++||-.+... .... + ...=+++|+.. .-|-|+.+|+.++-++ +
T Consensus 51 ~rfG~gv~~Evg~dikn~ga--Kk~llvTDkni~~-~~~~~~a~~~L~~~~I~~~vyD~-v~~ePtv~s~~~alef---a 123 (465)
T KOG3857|consen 51 SRFGKGVLAEVGDDIKNLGA--KKTLLVTDKNIAK-LGLVKVAQDSLEENGINVEVYDK-VQPEPTVGSVTAALEF---A 123 (465)
T ss_pred hhhcchhHHHHHHHHHhcCc--cceEEeeCCChhh-cccHHHHHHHHHHcCCceEEecC-ccCCCchhhHHHHHHH---H
Confidence 45799886554444455554 3567777544321 0000 0 11126889987 7999999999877554 4
Q ss_pred hcCCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCC
Q psy16139 121 KHCTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSG 164 (466)
Q Consensus 121 ~~l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sG 164 (466)
++ ..-| .|+--|||||+ |-.+...+|...|
T Consensus 124 k~-~~fD--s~vaiGGGSa~-----------DtaKaaaL~Asn~ 153 (465)
T KOG3857|consen 124 KK-KNFD--SFVAIGGGSAH-----------DTAKAAALLASNG 153 (465)
T ss_pred Hh-cccc--eEEEEcCcchh-----------hhHHHHHHhhcCC
Confidence 44 3333 34456999986 4455555666655
No 79
>cd02972 DsbA_family DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a 27-kDa outer membrane protein, and similar proteins. Members of this family contain a redox active CXXC motif (except GSTK and HCCA isomerase) imbedded in a TRX fold, and an alpha helical insert of about 75 residues (shorter in DsbC and DsbG) relative to TRX. DsbA is involved in the oxidative protein folding pathway in prokaryotes, catalyzing disulfide bond formation of proteins secreted into the bacterial periplasm. DsbC and DsbG function as protein disulfide isomerases and chaperones to correct non-native disulfide bonds formed by DsbA and prevent aggregation of incorrectly folded proteins.
Probab=23.68 E-value=25 Score=27.38 Aligned_cols=14 Identities=36% Similarity=0.567 Sum_probs=11.2
Q ss_pred cccCCCcccceeee
Q psy16139 367 FDYKSPHCNQFLIQ 380 (466)
Q Consensus 367 ~~~~~~~~~~~~~~ 380 (466)
|||.||||-++--+
T Consensus 5 ~d~~Cp~C~~~~~~ 18 (98)
T cd02972 5 FDPLCPYCYLFEPE 18 (98)
T ss_pred ECCCCHhHHhhhHH
Confidence 79999999876543
No 80
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=23.52 E-value=5.1e+02 Score=26.57 Aligned_cols=67 Identities=13% Similarity=0.065 Sum_probs=43.8
Q ss_pred eeEEEE-ecHHHHHHHHHHHHHhCCCcEEecCCCccc----------cHHHHHHHHHHHHHHHHH-hcCCcEEEecCcc
Q psy16139 261 VHNHII-GNNRAALLGAKWKAESLGFQTVILSSDIEG----------LGDDICRGYVDLVAWIDQ-LRKQRTIQVGKDK 327 (466)
Q Consensus 261 v~n~II-gsN~~Al~AA~~~A~~lGy~~~ILss~l~G----------EArevar~laaia~~i~~-~~~~~~il~gge~ 327 (466)
+.-++| .....++..+.+.|.+.|.+++.+.+...+ +....|+..+..+.+... ....+.++.|..+
T Consensus 81 vdgIiv~~~d~~al~~~l~~a~~~gIpVV~~d~~~~~~~~~~~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~ 159 (336)
T PRK15408 81 YNAIIVSAVSPDGLCPALKRAMQRGVKVLTWDSDTKPECRSYYINQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPT 159 (336)
T ss_pred CCEEEEecCCHHHHHHHHHHHHHCCCeEEEeCCCCCCccceEEEecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCC
Confidence 444455 446788899999999999999888765432 335677776655554443 3345577766544
No 81
>COG1453 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]
Probab=23.33 E-value=1.7e+02 Score=31.63 Aligned_cols=152 Identities=17% Similarity=0.155 Sum_probs=91.7
Q ss_pred HHHHH-HHHHHHHhCCCC------hHHHHHHHHhhcccccchHhhhh----cCCeEEEEEEecCCCCCCCccccCccccC
Q psy16139 150 LEDKL-KTIKLLVQSGAN------IKELNKVRKKLSDVKGGQLAEIV----YPATLVSLIISDIVGDPLQDIASGPTVLN 218 (466)
Q Consensus 150 LeDk~-~lt~~LL~sGA~------I~EINtVRKhLS~VKGGrLA~~a----~pA~vvsLIlSDV~GDdL~~IASGPTvPD 218 (466)
.+|.. -+++.|-+.|.| ||-||+ +++-.++-=+...++ ..+++..+ |=...+
T Consensus 92 ~edm~r~fneqLekl~~Dy~D~yliH~l~~--e~~~k~~~~g~~df~~kak~eGkIr~~---------------GFSfHg 154 (391)
T COG1453 92 REDMERIFNEQLEKLGTDYIDYYLIHGLNT--ETWEKIERLGVFDFLEKAKAEGKIRNA---------------GFSFHG 154 (391)
T ss_pred HHHHHHHHHHHHHHhCCchhhhhhhccccH--HHHHHHHccChHHHHHHHHhcCcEEEe---------------eecCCC
Confidence 45544 467788888885 777787 777776654444443 22333332 323333
Q ss_pred CCCHHHHHHHHHHhCCCccchHHHHHHHccCCCCCCCCCCCCeeEEEEecHHHHHHHHHHHHHhCCCcEEecCCCcccc-
Q psy16139 219 EDLWSDARDIVIKYGLQNKVSKSVMTILSHETPHQDTKYFENVHNHIIGNNRAALLGAKWKAESLGFQTVILSSDIEGL- 297 (466)
Q Consensus 219 ~sT~~DAl~IL~ky~L~~~lP~sV~~~L~~~~~~~~~~~f~~v~n~IIgsN~~Al~AA~~~A~~lGy~~~ILss~l~GE- 297 (466)
|.++--+|+..|. |+ |-+.++..+-.+..|...+.+.|.+.|.-++|.+..--|.
T Consensus 155 --s~e~~~~iv~a~~-~d---------------------fvqlq~ny~d~~n~~~~~~l~~A~~~~~gI~IMeP~~gG~l 210 (391)
T COG1453 155 --STEVFKEIVDAYP-WD---------------------FVQLQYNYIDQKNQAGTEGLKYAASKGLGIFIMEPLDGGGL 210 (391)
T ss_pred --CHHHHHHHHhcCC-cc---------------------eEEeeeeeeccchhcccHHHHHHHhCCCcEEEEeeCCCCCc
Confidence 5677788888887 44 3445555555555555677889999999999998765553
Q ss_pred -------HHHHHHHH------HHHHHHHHHhcCCc-EEEecCcccccchhhHHHHHHHHhhhh
Q psy16139 298 -------GDDICRGY------VDLVAWIDQLRKQR-TIQVGKDKNNIKEQDMEQNLQQVANQA 346 (466)
Q Consensus 298 -------Arevar~l------aaia~~i~~~~~~~-~il~gge~~~~~~~~~~~~~~~~~~~~ 346 (466)
+.++.+-+ +..+..-+-..+.. |+|||= -++++.++||+-.-+-.
T Consensus 211 ~~~vP~~~~~l~~~~~~~~sP~~wa~R~~~shp~V~~vlsGm----~~~~~l~enLk~~~~~~ 269 (391)
T COG1453 211 LYNVPEKLEELCRPASPKRSPAEWALRYLLSHPEVTTVLSGM----NTPEQLEENLKIASELE 269 (391)
T ss_pred ccCCCHHHHHHHHhcCCCCCcHHHHHHHHhcCCCeEEEecCC----CCHHHHHHHHHHHhhcC
Confidence 33333222 22222223333444 788874 45789999998655433
No 82
>TIGR03822 AblA_like_2 lysine-2,3-aminomutase-related protein. Members of this protein form a distinctive clade, homologous to lysine-2,3-aminomutase (of Bacillus, Clostridium, and methanogenic archaea) and likely similar in function. Members of this family are found in Rhodopseudomonas, Caulobacter crescentus, Bradyrhizobium, etc.
Probab=23.13 E-value=2.3e+02 Score=29.24 Aligned_cols=131 Identities=13% Similarity=0.108 Sum_probs=0.0
Q ss_pred HHHHHHHHhcCCCC-cEEEEEEeCCccccccCCCCCCCH--HHHHHHHHHHHhCCCChHHHHHHHHhhccc-------cc
Q psy16139 113 TQLIQNFVKHCTED-DVVLVLISGGGSACLSSPKSPLSL--EDKLKTIKLLVQSGANIKELNKVRKKLSDV-------KG 182 (466)
Q Consensus 113 a~~ILelv~~l~~~-DlVLvLISGGGSALL~~P~~gITL--eDk~~lt~~LL~sGA~I~EINtVRKhLS~V-------KG 182 (466)
.+++.+.++.+..+ .+--|++||| +++.+ +++.++.+.|.+ |..+..+|-| |++ .-
T Consensus 121 ~~e~~~~i~~i~~~~~I~~VilSGG---------DPl~~~~~~L~~ll~~l~~----i~~v~~iri~-Tr~~v~~p~rit 186 (321)
T TIGR03822 121 PAELDAAFAYIADHPEIWEVILTGG---------DPLVLSPRRLGDIMARLAA----IDHVKIVRFH-TRVPVADPARVT 186 (321)
T ss_pred HHHHHHHHHHHHhCCCccEEEEeCC---------CcccCCHHHHHHHHHHHHh----CCCccEEEEe-CCCcccChhhcC
Q ss_pred chHhhhhcCCeEEEEEEecCCCCCCCccccCccccCCCCHHHHHHHHHHhCCCccchHHHHHHHccCCCCCCCCCCCCee
Q psy16139 183 GQLAEIVYPATLVSLIISDIVGDPLQDIASGPTVLNEDLWSDARDIVIKYGLQNKVSKSVMTILSHETPHQDTKYFENVH 262 (466)
Q Consensus 183 GrLA~~a~pA~vvsLIlSDV~GDdL~~IASGPTvPD~sT~~DAl~IL~ky~L~~~lP~sV~~~L~~~~~~~~~~~f~~v~ 262 (466)
-.|++....+.....|.-|. .++-++ ......|++.|.+.|+ --.++
T Consensus 187 ~ell~~L~~~g~~v~i~l~~-~h~~el---------~~~~~~ai~~L~~~Gi-----------------------~v~~q 233 (321)
T TIGR03822 187 PALIAALKTSGKTVYVALHA-NHAREL---------TAEARAACARLIDAGI-----------------------PMVSQ 233 (321)
T ss_pred HHHHHHHHHcCCcEEEEecC-CChhhc---------CHHHHHHHHHHHHcCC-----------------------EEEEE
Q ss_pred EEEEe---cHHHHHHHHHHHHHhCCCcEEec
Q psy16139 263 NHIIG---NNRAALLGAKWKAESLGFQTVIL 290 (466)
Q Consensus 263 n~IIg---sN~~Al~AA~~~A~~lGy~~~IL 290 (466)
.+++. +|...+....+.+.++|..+..+
T Consensus 234 ~vLl~gvNd~~~~l~~l~~~l~~~gv~pyyl 264 (321)
T TIGR03822 234 SVLLRGVNDDPETLAALMRAFVECRIKPYYL 264 (321)
T ss_pred eeEeCCCCCCHHHHHHHHHHHHhcCCeeEEE
No 83
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=23.01 E-value=2.7e+02 Score=23.73 Aligned_cols=53 Identities=9% Similarity=-0.017 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHhCCCcEEecCCCccccHHHHHHHHHHHHHHHHHhcC-CcEEEecCcc
Q psy16139 271 AALLGAKWKAESLGFQTVILSSDIEGLGDDICRGYVDLVAWIDQLRK-QRTIQVGKDK 327 (466)
Q Consensus 271 ~Al~AA~~~A~~lGy~~~ILss~l~GEArevar~laaia~~i~~~~~-~~~il~gge~ 327 (466)
...+...+.+++...+++.+|...+.....+ + .+++.+.+..+ ...|+.||--
T Consensus 37 ~~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~-~---~~i~~l~~~~~~~~~i~vGG~~ 90 (119)
T cd02067 37 VPPEEIVEAAKEEDADAIGLSGLLTTHMTLM-K---EVIEELKEAGLDDIPVLVGGAI 90 (119)
T ss_pred CCHHHHHHHHHHcCCCEEEEeccccccHHHH-H---HHHHHHHHcCCCCCeEEEECCC
Confidence 4456667778888899999887766655444 3 33345555555 5678888843
No 84
>PF00781 DAGK_cat: Diacylglycerol kinase catalytic domain; InterPro: IPR001206 The DAG-kinase catalytic domain or DAGKc domain is present in mammalian lipid kinases, such as diacylglycerol (DAG), ceramide and sphingosine kinases, as well as in related bacterial proteins [, ]. Eukaryotic DAG-kinase (2.7.1.107 from EC) catalyses the phosphorylation of DAG to phosphatidic acid, thus modulating the balance between the two signaling lipids. At least ten different isoforms have been identified in mammals, which form 5 groups characterised by different functional domains, such as the calcium-binding EF hand (see PDOC00018 from PROSITEDOC), PH (see PDOC50003 from PROSITEDOC), SAM (see PDOC50105 from PROSITEDOC) , DAG/PE-binding C1 domain (see PDOC00379 from PROSITEDOC) and ankyrin repeats (see PDOC50088 from PROSITEDOC) []. In bacteria, an integral membrane DAG kinase forms a homotrimeric protein that lacks the DAGKc domain (see PDOC00820 from PROSITEDOC). In contrast, the bacterial yegS protein is a soluble cytosolic protein that contains the DAGKc domain in the N-terminal part. YegS is a lipid kinase with two structural domains, wherein the active site is located in the interdomain cleft, C-terminal to the DAGKc domain which forms an alpha/beta fold []. The tertiary structure resembles that of NAD kinases and contains a metal-binding site in the C-terminal region [, ]. This domain is usually associated with an accessory domain (see IPR000756 from INTERPRO).; GO: 0004143 diacylglycerol kinase activity, 0007205 activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway; PDB: 2JGR_A 2BON_A 3T5P_D 3S40_A 2P1R_A 2QV7_A 2QVL_A.
Probab=22.71 E-value=1.5e+02 Score=25.93 Aligned_cols=49 Identities=16% Similarity=0.232 Sum_probs=32.4
Q ss_pred HHHHHHHHHhCCCcEEecCCCccccHHHHHHHHHHHHHHHHHhcC--CcEEEecCcccc
Q psy16139 273 LLGAKWKAESLGFQTVILSSDIEGLGDDICRGYVDLVAWIDQLRK--QRTIQVGKDKNN 329 (466)
Q Consensus 273 l~AA~~~A~~lGy~~~ILss~l~GEArevar~laaia~~i~~~~~--~~~il~gge~~~ 329 (466)
++...+..+..|+...+..+.-.++++++++ ...... ..++.+||+.|.
T Consensus 17 ~~~v~~~l~~~~~~~~~~~t~~~~~~~~~~~--------~~~~~~~~~~ivv~GGDGTl 67 (130)
T PF00781_consen 17 WKKVEPALRAAGIDYEVIETESAGHAEALAR--------ILALDDYPDVIVVVGGDGTL 67 (130)
T ss_dssp HHHHHHHHHHTTCEEEEEEESSTTHHHHHHH--------HHHHTTS-SEEEEEESHHHH
T ss_pred HHHHHHHHHHcCCceEEEEEeccchHHHHHH--------HHhhccCccEEEEEcCccHH
Confidence 3566777888888876655544777776554 122233 469999999885
No 85
>COG0074 SucD Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]
Probab=22.67 E-value=4.9e+02 Score=27.30 Aligned_cols=100 Identities=17% Similarity=0.200 Sum_probs=61.4
Q ss_pred cCCCEEEEEe-chhHHHHHHHHHHHhCCCCcceEEEecC-CCccCccC-C-------C-CCCCceEEEecCCCCCCCHhh
Q psy16139 41 IKNNVYLIGF-GKAVLGMAVEIEAMFRPQRLKGILSVPF-GSVGILKP-Q-------F-NKNSEIEIRECARNNLPDEAS 109 (466)
Q Consensus 41 l~~~i~VVg~-GKAA~~MA~aae~~LG~~i~~GiVvtp~-g~~~~~~~-~-------~-~~~~~I~V~egA~HPlPDe~S 109 (466)
.+.++.|-|| ||.+..+++.+.+. |..+..|+ +|- |....... . . ....+..++.- | .
T Consensus 7 k~tkvivqGitg~~gtfh~~~~l~y-Gt~~V~Gv--tPgkgG~~~~g~PVf~tV~EA~~~~~a~~svI~V-----p---~ 75 (293)
T COG0074 7 KDTKVIVQGITGKQGTFHTEQMLAY-GTKIVGGV--TPGKGGQTILGLPVFNTVEEAVKETGANASVIFV-----P---P 75 (293)
T ss_pred CCCeEEEeccccccchHHHHHHHHh-CCceeecc--cCCCCceEEcCccHHHHHHHHHHhhCCCEEEEec-----C---c
Confidence 3458888886 88898999998887 87765554 331 11000000 0 0 00112333331 2 2
Q ss_pred HHHHHHHHHHHhcCCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCCC
Q psy16139 110 CQNTQLIQNFVKHCTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGA 165 (466)
Q Consensus 110 v~Aa~~ILelv~~l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA 165 (466)
--|++.++|.+.. +..++++|| ++|+..|..++-+.+.+.|.
T Consensus 76 ~~aadai~EAida---~i~liv~IT-----------EgIP~~D~~~~~~~a~~~g~ 117 (293)
T COG0074 76 PFAADAILEAIDA---GIKLVVIIT-----------EGIPVLDMLELKRYAREKGT 117 (293)
T ss_pred HHHHHHHHHHHhC---CCcEEEEEe-----------CCCCHHHHHHHHHHHHhcCC
Confidence 3566677766543 477788887 68999999999999988884
No 86
>PRK13938 phosphoheptose isomerase; Provisional
Probab=22.64 E-value=4.3e+02 Score=25.51 Aligned_cols=23 Identities=22% Similarity=0.313 Sum_probs=16.2
Q ss_pred CCCEEEEEechhHHHHHHHHHHHh
Q psy16139 42 KNNVYLIGFGKAVLGMAVEIEAMF 65 (466)
Q Consensus 42 ~~~i~VVg~GKAA~~MA~aae~~L 65 (466)
.++|+++|.|..+ .+|..+...|
T Consensus 45 g~rI~i~G~G~S~-~~A~~fa~~L 67 (196)
T PRK13938 45 GARVFMCGNGGSA-ADAQHFAAEL 67 (196)
T ss_pred CCEEEEEeCcHHH-HHHHHHHHHc
Confidence 3599999999876 4555555444
No 87
>cd03174 DRE_TIM_metallolyase DRE-TIM metallolyase superfamily. The DRE-TIM metallolyase superfamily includes 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues that cap the core of the barrel. In addition, the catalytic site includes three invariant residues - an aspartate (D), an arginine (R), and a glutamate (E) - which is the basis for the domain name "DRE-TIM".
Probab=22.49 E-value=7e+02 Score=23.96 Aligned_cols=51 Identities=10% Similarity=-0.015 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHhCCCcEEecCCCccc--cHHHHHHHHHHHHHHHHHhcCCcEEE
Q psy16139 269 NRAALLGAKWKAESLGFQTVILSSDIEG--LGDDICRGYVDLVAWIDQLRKQRTIQ 322 (466)
Q Consensus 269 N~~Al~AA~~~A~~lGy~~~ILss~l~G--EArevar~laaia~~i~~~~~~~~il 322 (466)
...-...+.+.|++.|+.+.+......+ .-. .++..+++.+.+.+...+.+
T Consensus 113 ~~~~~~~~i~~a~~~G~~v~~~~~~~~~~~~~~---~~l~~~~~~~~~~g~~~i~l 165 (265)
T cd03174 113 DLENAEEAIEAAKEAGLEVEGSLEDAFGCKTDP---EYVLEVAKALEEAGADEISL 165 (265)
T ss_pred HHHHHHHHHHHHHHCCCeEEEEEEeecCCCCCH---HHHHHHHHHHHHcCCCEEEe
Confidence 4555667788899999998777655554 222 22345556666666555444
No 88
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=22.46 E-value=2.7e+02 Score=27.71 Aligned_cols=54 Identities=9% Similarity=0.137 Sum_probs=31.9
Q ss_pred eeEEEEecHHHHHHHHHHHHHhCCCcEEecCCCccccHHHHHHHHHHHHHHHHHhcCC-cEEEecCccc
Q psy16139 261 VHNHIIGNNRAALLGAKWKAESLGFQTVILSSDIEGLGDDICRGYVDLVAWIDQLRKQ-RTIQVGKDKN 328 (466)
Q Consensus 261 v~n~IIgsN~~Al~AA~~~A~~lGy~~~ILss~l~GEArevar~laaia~~i~~~~~~-~~il~gge~~ 328 (466)
.+.+.|++....+.-|....... +..|+|..+ .++..+....+. .+++.||+=.
T Consensus 92 g~tIfld~GtT~~~la~~L~~~~--~ltVvTnsl------------~ia~~l~~~~~~~~v~l~GG~~~ 146 (256)
T PRK10434 92 GDSIILDAGSTVLQMVPLLSRFN--NITVMTNSL------------HIVNALSELDNEQTILMPGGTFR 146 (256)
T ss_pred CCEEEEcCcHHHHHHHHHhccCC--CeEEEECCH------------HHHHHHhhCCCCCEEEEECCEEe
Confidence 34678888888877655554432 356666543 233444443333 5999999854
No 89
>PRK06719 precorrin-2 dehydrogenase; Validated
Probab=22.21 E-value=78 Score=29.29 Aligned_cols=23 Identities=30% Similarity=0.385 Sum_probs=19.6
Q ss_pred cCC-CEEEEEechhHHHHHHHHHH
Q psy16139 41 IKN-NVYLIGFGKAVLGMAVEIEA 63 (466)
Q Consensus 41 l~~-~i~VVg~GKAA~~MA~aae~ 63 (466)
+.+ +|.|||.|+.+..-++.+.+
T Consensus 11 l~~~~vlVvGGG~va~rka~~Ll~ 34 (157)
T PRK06719 11 LHNKVVVIIGGGKIAYRKASGLKD 34 (157)
T ss_pred cCCCEEEEECCCHHHHHHHHHHHh
Confidence 443 99999999999988888876
No 90
>KOG3022|consensus
Probab=22.20 E-value=71 Score=33.32 Aligned_cols=47 Identities=26% Similarity=0.473 Sum_probs=33.7
Q ss_pred ccCCCcccc--------------------eeeeeehhhHHHHHHHhhcceeec---cCcchhHHHHHHHh
Q psy16139 368 DYKSPHCNQ--------------------FLIQIELNSVFVALIEMSAKLVRF---NDASVVFQDIVKKL 414 (466)
Q Consensus 368 ~~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~ 414 (466)
-|-||||++ ||..|-|.+-+....+.-.-+|-. .+++-.|++|+.++
T Consensus 222 ~f~Cp~C~~~~~iF~~gGg~~l~~~~glp~Lg~iPld~~i~~~~d~G~~~v~~~p~s~~~~af~~i~~~i 291 (300)
T KOG3022|consen 222 GFVCPKCGHSTNIFGSGGGERLAEELGLPLLGSLPLDPLIAESSDSGVPFVEEYPDSPASEAFEDIAEKL 291 (300)
T ss_pred cccCCCCCCcceeccCccHHHHHHHcCCCeEeecCCCHHHHHhccCCCeeEecCCCchHHHHHHHHHHHH
Confidence 477999974 677777777776666665545554 56778899998875
No 91
>cd07950 Gallate_Doxase_N The N-terminal domain of the Class III extradiol dioxygenase, Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate. Gallate Dioxygenase catalyzes the oxidization and subsequent ring-opening of gallate, an intermediate in the degradation of the aromatic compound, syringate. The reaction product of gallate dioxygenase is 4-oxalomesaconate. The amino acid sequence of the N-terminal and C-terminal regions of gallate dioxygenase exhibits homology with the sequence of PCA 4,5-dioxygenase B (catalytic) and A subunits, respectively. The enzyme is estimated to be a homodimer according to the Escherichia coli enzyme. LigAB-like enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. In this subfamily, the subunits A and B are fused to make a single polypeptide chain. The dimer interface for this subfamily may resemble the tetramer interface of classical LigAB en
Probab=21.85 E-value=3e+02 Score=28.00 Aligned_cols=72 Identities=17% Similarity=0.157 Sum_probs=48.0
Q ss_pred CCCCC-CHhhHHHHHHHHHHHhcCCCCcEEEEEEeCCccccccCCCCC-CCHHHHHHHHHHHHhCCCChHHHHHHHH
Q psy16139 101 RNNLP-DEASCQNTQLIQNFVKHCTEDDVVLVLISGGGSACLSSPKSP-LSLEDKLKTIKLLVQSGANIKELNKVRK 175 (466)
Q Consensus 101 ~HPlP-De~Sv~Aa~~ILelv~~l~~~DlVLvLISGGGSALL~~P~~g-ITLeDk~~lt~~LL~sGA~I~EINtVRK 175 (466)
.+|+| -++..+=++.|-+++++.+.+.-|+++-|||-|==+..+..| +. ++.-+-.-..++ + +...+-..-.
T Consensus 154 ~~~l~~~~~~~~lG~al~~~i~~~~~d~rv~iIaSG~lSH~l~~~~~g~~~-~~~D~~f~~~l~-~-d~~~l~~~~~ 227 (277)
T cd07950 154 QFPLPTARRCYKLGQALRRAIESYPEDLKVAVVGTGGLSHQVHGERAGFNN-TEWDMEFLDLIE-N-DPESLAAMTH 227 (277)
T ss_pred ecCCCCHHHHHHHHHHHHHHHHhcCcCCCEEEEEcCccccCCCCCCCCCCC-HHHHHHHHHHHH-h-CHHHHHcCCH
Confidence 36775 456778899999999998778889999999999777543223 33 444444434444 3 6665554443
No 92
>cd05007 SIS_Etherase N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid carries a unique D-lactyl ether substituent at the C3 position. The etherase catalyzes the cleavage of the lactyl ether bond of N-acetylmuramic acid 6-phosphate.
Probab=21.72 E-value=4e+02 Score=26.66 Aligned_cols=50 Identities=24% Similarity=0.277 Sum_probs=33.4
Q ss_pred hcCCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCCCChHHHHHHHHhhcccccchHhhhh
Q psy16139 121 KHCTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGANIKELNKVRKKLSDVKGGQLAEIV 189 (466)
Q Consensus 121 ~~l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA~I~EINtVRKhLS~VKGGrLA~~a 189 (466)
..++++|+| +.||..|+. .+.....+...+.|+++- -++.-.+..|++.+
T Consensus 114 ~~l~~~Dvv-I~IS~SG~T-----------~~vi~al~~Ak~~Ga~~I-------~It~~~~s~L~~~a 163 (257)
T cd05007 114 INLTERDVV-IGIAASGRT-----------PYVLGALRYARARGALTI-------GIACNPGSPLLQLA 163 (257)
T ss_pred cCCCCCCEE-EEEeCCCCC-----------HHHHHHHHHHHHCCCeEE-------EEECCCCChhHHhC
Confidence 556899988 777877762 367777777788888762 33445556666543
No 93
>PF01488 Shikimate_DH: Shikimate / quinate 5-dehydrogenase; InterPro: IPR006151 This entry represents a domain found in shikimate and quinate dehydrogenases, as well as glutamyl-tRNA reductases. Shikimate 5-dehydrogenase (1.1.1.25 from EC) catalyses the conversion of shikimate to 5-dehydroshikimate [, ]. This reaction is part of the shikimate pathway which is involved in the biosynthesis of aromatic amino acids []. Quinate 5-dehydrogenase catalyses the conversion of quinate to 5-dehydroquinate. This reaction is part of the quinate pathway where quinic acid is exploited as a source of carbon in prokaryotes and microbial eukaryotes. Both the shikimate and quinate pathways share two common pathway metabolites, 3-dehydroquinate and dehydroshikimate. Glutamyl-tRNA reductase (1.2.1.70 from EC) catalyzes the first step of tetrapyrrole biosynthesis in plants, archaea and most bacteria. The dimeric enzyme has an unusual V-shaped architecture where each monomer consists of three domains linked by a long 'spinal' alpha-helix. The central catalytic domain specifically recognises the glutamate moiety of the substrate []. ; PDB: 2EV9_B 2CY0_B 1WXD_A 2D5C_A 1NVT_B 2EGG_A 3PWZ_A 3DOO_A 3DON_A 3FBT_C ....
Probab=21.36 E-value=82 Score=28.07 Aligned_cols=22 Identities=32% Similarity=0.501 Sum_probs=19.4
Q ss_pred CCEEEEEechhHHHHHHHHHHH
Q psy16139 43 NNVYLIGFGKAVLGMAVEIEAM 64 (466)
Q Consensus 43 ~~i~VVg~GKAA~~MA~aae~~ 64 (466)
.++.|+|+|.++-..+.++.+.
T Consensus 13 ~~vlviGaGg~ar~v~~~L~~~ 34 (135)
T PF01488_consen 13 KRVLVIGAGGAARAVAAALAAL 34 (135)
T ss_dssp SEEEEESSSHHHHHHHHHHHHT
T ss_pred CEEEEECCHHHHHHHHHHHHHc
Confidence 3999999999999998888775
No 94
>TIGR02638 lactal_redase lactaldehyde reductase. This clade of genes encoding iron-containing alcohol dehydrogenase (pfam00465) proteins is generally found in apparent operons for the catabolism of rhamnose or fucose. Catabolism of both of these monosaccharides results in lactaldehyde which is reduced by this enzyme to 1,2 propanediol. This protein is alternatively known by the name 1,2 propanediol oxidoreductase. This enzyme is active under anaerobic conditions in E. coli while being inactivated by reactive oxygen species under aerobic conditions. Under aerobic conditions the lactaldehyde product of rhamnose and fucose catabolism is believed to be oxidized to lactate by a separate enzyme, lactaldehyde dehydrogenase.
Probab=21.04 E-value=4.4e+02 Score=27.59 Aligned_cols=101 Identities=17% Similarity=0.204 Sum_probs=55.7
Q ss_pred echhHHHHHHHHHHHhCCCCcceEEEecCCCccC-----ccCCCCC-CCceEEEecCCCCCCCHhhHHHHHHHHHHHhcC
Q psy16139 50 FGKAVLGMAVEIEAMFRPQRLKGILSVPFGSVGI-----LKPQFNK-NSEIEIRECARNNLPDEASCQNTQLIQNFVKHC 123 (466)
Q Consensus 50 ~GKAA~~MA~aae~~LG~~i~~GiVvtp~g~~~~-----~~~~~~~-~~~I~V~egA~HPlPDe~Sv~Aa~~ILelv~~l 123 (466)
||+.+..-.....+.+|. .+.+||+-.+.... ....+.. .-.+.++.+ .-|-|+...+ +++.+.+++.
T Consensus 12 fG~g~l~~l~~~l~~~g~--~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~~~~~~-v~~~p~~~~v---~~~~~~~~~~ 85 (379)
T TIGR02638 12 FGAGAIEDIVDEVKRRGF--KKALVVTDKDLIKFGVADKVTDLLDEAGIAYELFDE-VKPNPTITVV---KAGVAAFKAS 85 (379)
T ss_pred ECcCHHHHHHHHHHhcCC--CEEEEEcCcchhhccchHHHHHHHHHCCCeEEEECC-CCCCcCHHHH---HHHHHHHHhc
Confidence 666666665555555663 35677774332110 0000111 112455544 3566665555 4566666665
Q ss_pred CCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCC--CChHHH
Q psy16139 124 TEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSG--ANIKEL 170 (466)
Q Consensus 124 ~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sG--A~I~EI 170 (466)
+. |.+|. -||||++ |..+....+...+ .++.++
T Consensus 86 ~~-D~Iia--iGGGSvi-----------D~aKaia~~~~~~~~~~~~~~ 120 (379)
T TIGR02638 86 GA-DYLIA--IGGGSPI-----------DTAKAIGIISNNPEFADVRSL 120 (379)
T ss_pred CC-CEEEE--eCChHHH-----------HHHHHHHHHHhCCCCCCHHHh
Confidence 55 66554 4999976 7788888888776 565543
No 95
>cd01457 vWA_ORF176_type VWA ORF176 type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses. In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most
Probab=20.55 E-value=4.9e+02 Score=24.32 Aligned_cols=87 Identities=15% Similarity=0.174 Sum_probs=44.8
Q ss_pred HhhHHHHHHHHHHHhcCCCCcEEEEEEeCCccccccCCCCCCCHHHHHHHHHHHHhCCCC-hH-HHHHHH-Hhhcccccc
Q psy16139 107 EASCQNTQLIQNFVKHCTEDDVVLVLISGGGSACLSSPKSPLSLEDKLKTIKLLVQSGAN-IK-ELNKVR-KKLSDVKGG 183 (466)
Q Consensus 107 e~Sv~Aa~~ILelv~~l~~~DlVLvLISGGGSALL~~P~~gITLeDk~~lt~~LL~sGA~-I~-EINtVR-KhLS~VKGG 183 (466)
+...++..++...+.....+-+.+++.||....+ .+++.+...++...+...|-+ +. -|+.+- ..+...+++
T Consensus 28 ~~ak~~~~~l~~~~~~~D~d~i~l~~f~~~~~~~-----~~~~~~~v~~~~~~~~p~G~T~l~~~l~~a~~~~~~~~~~~ 102 (199)
T cd01457 28 EEAQESTRALARKCEEYDSDGITVYLFSGDFRRY-----DNVNSSKVDQLFAENSPDGGTNLAAVLQDALNNYFQRKENG 102 (199)
T ss_pred HHHHHHHHHHHHHHHhcCCCCeEEEEecCCcccc-----CCcCHHHHHHHHhcCCCCCcCcHHHHHHHHHHHHHHHHhhc
Confidence 4566677777777777777777777777775333 234544444444333233332 22 222221 111111111
Q ss_pred hHhhhhcCCeEEEEEEecC
Q psy16139 184 QLAEIVYPATLVSLIISDI 202 (466)
Q Consensus 184 rLA~~a~pA~vvsLIlSDV 202 (466)
...|.+.+-+++||=
T Consensus 103 ----~~~p~~~~vIiiTDG 117 (199)
T cd01457 103 ----ATCPEGETFLVITDG 117 (199)
T ss_pred ----cCCCCceEEEEEcCC
Confidence 112446788999994
No 96
>cd01461 vWA_interalpha_trypsin_inhibitor vWA_interalpha trypsin inhibitor (ITI): ITI is a glycoprotein composed of three polypeptides- two heavy chains and one light chain (bikunin). Bikunin confers the protease-inhibitor function while the heavy chains are involved in rendering stability to the extracellular matrix by binding to hyaluronic acid. The heavy chains carry the VWA domain with a conserved MIDAS motif. Although the exact role of the VWA domains remains unknown, it has been speculated to be involved in mediating protein-protein interactions with the components of the extracellular matrix.
Probab=20.34 E-value=5e+02 Score=22.76 Aligned_cols=84 Identities=12% Similarity=0.143 Sum_probs=42.8
Q ss_pred HHHHHHHHHHhcCCCCc-EEEEEEeCCccccccCCC--CCCCHHHHHHHHHHHH-hCCCChHHHHHHHHhhcccccchHh
Q psy16139 111 QNTQLIQNFVKHCTEDD-VVLVLISGGGSACLSSPK--SPLSLEDKLKTIKLLV-QSGANIKELNKVRKKLSDVKGGQLA 186 (466)
Q Consensus 111 ~Aa~~ILelv~~l~~~D-lVLvLISGGGSALL~~P~--~gITLeDk~~lt~~LL-~sGA~I~EINtVRKhLS~VKGGrLA 186 (466)
.+.+.+..++..++++| +=|+..|+....+...+. ..-++++.....+.+. ..|.++.. .++.-+..++.
T Consensus 22 ~~~~al~~~l~~l~~~~~~~l~~Fs~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~T~l~~--al~~a~~~l~~---- 95 (171)
T cd01461 22 QTKEALLTALKDLPPGDYFNIIGFSDTVEEFSPSSVSATAENVAAAIEYVNRLQALGGTNMND--ALEAALELLNS---- 95 (171)
T ss_pred HHHHHHHHHHHhCCCCCEEEEEEeCCCceeecCcceeCCHHHHHHHHHHHHhcCCCCCcCHHH--HHHHHHHhhcc----
Confidence 34445556667787766 566777776665543321 1223333333333332 34445543 44444444433
Q ss_pred hhhcCCeEEEEEEecC
Q psy16139 187 EIVYPATLVSLIISDI 202 (466)
Q Consensus 187 ~~a~pA~vvsLIlSDV 202 (466)
.......-+++||=
T Consensus 96 --~~~~~~~iillTDG 109 (171)
T cd01461 96 --SPGSVPQIILLTDG 109 (171)
T ss_pred --CCCCccEEEEEeCC
Confidence 12345678899994
No 97
>PRK10696 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional
Probab=20.24 E-value=73 Score=31.55 Aligned_cols=19 Identities=37% Similarity=0.531 Sum_probs=16.1
Q ss_pred cCCCCcEEEEEEeCCcccc
Q psy16139 122 HCTEDDVVLVLISGGGSAC 140 (466)
Q Consensus 122 ~l~~~DlVLvLISGGGSAL 140 (466)
-+.++|-+++.+|||..|+
T Consensus 25 li~~~~kilVa~SGG~DS~ 43 (258)
T PRK10696 25 MIEEGDRVMVCLSGGKDSY 43 (258)
T ss_pred CCCCCCEEEEEecCCHHHH
Confidence 3478999999999998775
No 98
>cd03020 DsbA_DsbC_DsbG DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds formed by DsbA and prevent aggregation of incorrectly folded proteins. DsbC and DsbG are kept in their reduced state by the cytoplasmic membrane protein DsbD, which utilizes the TRX/TRX reductase system in the cytosol as a source of reducing equivalents. DsbG differ from DsbC in that it has a more limited substrate specificity, and it may preferentially act later in the folding process to catalyze disulfide rearrangements in folded or partially folded proteins. Also included in the alignment is the predicted protein TrbB, whose gene was sequenced from the enterohemorrhagic E. coli type IV pilus gene cluster, which is required for efficient plasmid transfer.
Probab=20.04 E-value=60 Score=30.45 Aligned_cols=16 Identities=19% Similarity=0.366 Sum_probs=12.5
Q ss_pred ccccCCCcccceeeee
Q psy16139 366 SFDYKSPHCNQFLIQI 381 (466)
Q Consensus 366 ~~~~~~~~~~~~~~~~ 381 (466)
-+|+.||||.+|.-++
T Consensus 84 f~D~~Cp~C~~~~~~l 99 (197)
T cd03020 84 FTDPDCPYCRKLEKEL 99 (197)
T ss_pred EECCCCccHHHHHHHH
Confidence 4799999999876444
Done!