Query 029845
Match_columns 186
No_of_seqs 52 out of 54
Neff 3.1
Searched_HMMs 46136
Date Fri Mar 29 04:34:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029845.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029845hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04098 Rad52_Rad22: Rad52/22 99.8 1.5E-18 3.3E-23 138.1 9.4 118 64-184 2-139 (154)
2 COG4712 Uncharacterized protei 99.7 2.2E-18 4.7E-23 147.5 7.2 107 64-182 3-118 (234)
3 PF06378 DUF1071: Protein of u 99.5 5.7E-14 1.2E-18 116.0 8.6 103 82-186 14-131 (164)
4 TIGR00607 rad52 recombination 99.1 3.7E-10 8E-15 93.5 7.0 116 66-184 1-133 (161)
5 PF06420 Mgm101p: Mitochondria 98.6 5.7E-07 1.2E-11 75.4 10.0 112 65-183 17-131 (171)
6 PHA02448 hypothetical protein 98.4 1E-06 2.3E-11 73.5 6.6 117 60-185 1-123 (192)
7 COG5055 RAD52 Recombination DN 98.0 1.6E-05 3.5E-10 72.7 8.0 125 55-184 16-161 (375)
8 KOG4141 DNA repair and recombi 96.2 0.014 3E-07 51.1 6.4 110 65-179 37-163 (222)
9 PF03147 FDX-ACB: Ferredoxin-f 82.7 7.8 0.00017 28.3 6.9 71 92-177 17-92 (94)
10 PF05504 Spore_GerAC: Spore ge 67.2 11 0.00025 29.2 4.5 57 122-182 65-134 (171)
11 PRK00907 hypothetical protein; 59.3 17 0.00038 27.7 4.1 39 98-136 34-72 (92)
12 PRK02047 hypothetical protein; 54.5 19 0.0004 27.0 3.5 40 97-136 32-71 (91)
13 smart00358 DSRM Double-strande 44.5 83 0.0018 20.1 5.1 36 125-173 30-65 (67)
14 PF00996 GDI: GDP dissociation 43.9 18 0.00039 34.2 2.5 20 162-182 233-252 (438)
15 PF10698 DUF2505: Protein of u 40.2 1.6E+02 0.0035 23.2 7.0 60 109-171 89-148 (159)
16 cd01684 Tet_like_IV EF-G_domai 39.1 68 0.0015 24.2 4.5 17 158-174 98-114 (115)
17 PF10633 NPCBM_assoc: NPCBM-as 38.7 45 0.00097 23.2 3.2 34 102-135 26-62 (78)
18 COG5002 VicK Signal transducti 38.2 43 0.00093 32.4 4.0 55 116-180 355-418 (459)
19 cd01285 nucleoside_deaminase N 37.3 61 0.0013 24.1 4.0 26 156-181 42-71 (109)
20 PRK04998 hypothetical protein; 36.1 49 0.0011 24.4 3.3 37 98-136 32-68 (88)
21 PRK10860 tRNA-specific adenosi 35.7 65 0.0014 26.7 4.3 26 156-181 57-86 (172)
22 PF00763 THF_DHG_CYH: Tetrahyd 35.5 41 0.00088 25.8 2.8 28 156-183 39-66 (117)
23 PF05423 Mycobact_memb: Mycoba 34.7 84 0.0018 25.5 4.7 69 73-148 46-128 (140)
24 PF10647 Gmad1: Lipoprotein Lp 34.2 98 0.0021 26.3 5.2 36 107-146 108-149 (253)
25 COG0590 CumB Cytosine/adenosin 34.2 55 0.0012 26.4 3.5 21 155-175 52-72 (152)
26 PRK11594 efflux system membran 33.9 48 0.001 24.4 2.9 25 159-183 23-47 (67)
27 PF04881 Adeno_GP19K: Adenovir 33.6 63 0.0014 27.0 3.8 14 127-140 48-61 (139)
28 COG0072 PheT Phenylalanyl-tRNA 32.0 1.7E+02 0.0037 29.0 7.1 70 93-176 575-647 (650)
29 PF04359 DUF493: Protein of un 32.0 45 0.00098 24.0 2.5 38 98-135 27-64 (85)
30 TIGR02887 spore_ger_x_C germin 30.9 1.2E+02 0.0027 26.6 5.4 10 174-183 326-335 (371)
31 PF14534 DUF4440: Domain of un 28.9 1.8E+02 0.0039 19.4 5.5 30 109-138 55-84 (107)
32 PF02741 FTR_C: FTR, proximal 28.6 42 0.00092 28.2 2.0 76 73-175 50-127 (150)
33 PF02042 RWP-RK: RWP-RK domain 26.4 43 0.00092 23.4 1.4 18 165-182 30-47 (52)
34 PF02171 Piwi: Piwi domain; I 26.4 73 0.0016 27.0 3.2 19 158-176 165-183 (302)
35 COG1036 Archaeal flavoproteins 25.6 78 0.0017 27.5 3.2 95 64-168 25-123 (187)
36 COG2055 Malate/L-lactate dehyd 25.2 1E+02 0.0022 29.0 4.0 39 141-179 73-112 (349)
37 PTZ00296 choline kinase; Provi 24.0 3.3E+02 0.0071 25.6 7.2 101 72-182 59-177 (442)
38 PF04404 ERF: ERF superfamily; 23.8 3.6E+02 0.0078 21.1 9.6 54 125-178 62-121 (160)
39 PF06863 DUF1254: Protein of u 23.5 84 0.0018 24.2 2.7 31 104-135 80-110 (128)
40 cd01693 mtEFG2_like_IV mtEF-G2 23.4 2E+02 0.0044 21.4 4.7 19 157-175 102-120 (120)
41 PRK06074 NADH dehydrogenase su 23.1 1.7E+02 0.0038 24.5 4.8 38 64-101 4-41 (189)
42 PLN03176 flavanone-3-hydroxyla 22.5 88 0.0019 24.2 2.7 26 157-182 50-75 (120)
43 PF14356 DUF4403: Domain of un 22.3 3.2E+02 0.007 25.3 6.7 50 91-141 257-314 (427)
44 PF11470 TUG-UBL1: GLUT4 regul 22.1 67 0.0015 23.0 1.8 15 163-177 19-33 (65)
45 TIGR03000 plancto_dom_1 Planct 21.9 1.4E+02 0.0031 22.4 3.6 30 108-138 41-70 (75)
46 cd01134 V_A-ATPase_A V/A-type 21.7 1.9E+02 0.0042 27.3 5.2 54 58-114 16-71 (369)
47 PF06183 DinI: DinI-like famil 21.6 36 0.00079 24.3 0.4 21 64-84 10-30 (65)
48 COG2353 Uncharacterized conser 21.0 1.7E+02 0.0036 24.6 4.2 36 107-143 101-136 (192)
49 PF05309 TraE: TraE protein; 20.6 2E+02 0.0044 23.4 4.6 32 112-143 129-160 (187)
50 PF09910 DUF2139: Uncharacteri 20.4 66 0.0014 30.2 1.9 23 103-125 97-120 (339)
51 PRK00102 rnc ribonuclease III; 20.4 3.8E+02 0.0082 21.9 6.1 38 125-175 190-227 (229)
52 PRK00341 hypothetical protein; 20.4 1.3E+02 0.0029 22.6 3.2 38 98-136 34-71 (91)
No 1
>PF04098 Rad52_Rad22: Rad52/22 family double-strand break repair protein; InterPro: IPR007232 The DNA single-strand annealing proteins (SSAPs), such as RecT, Red-beta, ERF and Rad52, function in RecA-dependent and RecA-independent DNA recombination pathways. This family includes proteins related to Rad52. These proteins contain two helix-hairpin-helix motifs [].; GO: 0006281 DNA repair, 0006310 DNA recombination; PDB: 1KN0_I 1H2I_U.
Probab=99.77 E-value=1.5e-18 Score=138.12 Aligned_cols=118 Identities=26% Similarity=0.423 Sum_probs=81.7
Q ss_pred HHHHHHHHcCCCCCCcccccccCC--cccccchhHHHHhh-hhhcCC-ccccceeeEEE--ee-CCC------EEEEEEE
Q 029845 64 LSEILKELNKNVPNSLIKIRVEDG--FSMKYIPWHIVNRI-MNLHAP-EWSGEVRNITY--SA-DGK------TVSVVYR 130 (186)
Q Consensus 64 LsEIL~~L~kPfP~~~Ik~R~~~g--~~l~yIpW~~vnR~-L~~~aP-gW~~EVr~V~y--s~-~G~------~VtV~~R 130 (186)
+.+|.+.|++|||+..|+||...+ ..+.||+.+.+..+ ..++++ +|+.||.++.. .+ ++. .+++.+|
T Consensus 2 ~~~i~~~L~~~~~~~~i~~R~~~~~~~~~~yl~~~~vi~~aN~vfGfngWs~~i~~~~~~~~~~~~~~~~~~~~~~~~vr 81 (154)
T PF04098_consen 2 IGEIQEKLEKPLPPEEISWRPGSGGKSKLPYLESRKVIELANEVFGFNGWSSEIISLEQDFVEEEPGEGKYSVGYSAIVR 81 (154)
T ss_dssp HHHHHHHHH--B-TTTEEEEE-TTS--EEEEE-HHHHHHHHHHHH-TTTEEEEEEEEEEEEEEESSS--SEEEEEEEEEE
T ss_pred HHHHHHHHhCccCHHHhEecccCCCCccccccCHHHHHHHHHHHhCcCCCceEEEeeEeeeeeccCCceeEEEEEEEEEE
Confidence 578999999999999999999753 47999999886544 455556 79999987765 22 122 2455555
Q ss_pred EEEEecCceeEeecccccccCCC-----CCCchHHHHHHHHHHHHHHHhc--cceeccCCC
Q 029845 131 VTIYGTDAEIFRESTGTALVDEQ-----GYGDAVQKAEAMAFRRACARFG--LGLHLYHED 184 (186)
Q Consensus 131 LTI~G~DgeitREatGta~~~d~-----~~gDpv~aAes~AFrRACArFG--LGlYLY~ed 184 (186)
||| .||+ +||++|....... .+.++.+.|.++||||||..|| ||+|||+.+
T Consensus 82 itL--kdg~-~~e~~G~g~~~~~~~k~~a~~~akK~AvtdAlKRA~~~fG~~lG~~Lyd~~ 139 (154)
T PF04098_consen 82 ITL--KDGT-YREDIGYGWSENMDGKGMAIEKAKKGAVTDALKRALRSFGNQLGRYLYDKE 139 (154)
T ss_dssp EEE--TTS--EEEEEEEEEEESES-HHHHHHHHHHHHHHHHHHHHHHTT-GGGTTGGG-HH
T ss_pred EEE--eCCc-eeeecceEEEecCCccchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 555 4564 7899988754421 2567899999999999999999 999999853
No 2
>COG4712 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=99.75 E-value=2.2e-18 Score=147.50 Aligned_cols=107 Identities=20% Similarity=0.297 Sum_probs=92.6
Q ss_pred HHHHHHHHcCCCCCCcccccccC-----C--cccccchhHHHHhhhhhcCC--ccccceeeEEEeeCCCEEEEEEEEEEE
Q 029845 64 LSEILKELNKNVPNSLIKIRVED-----G--FSMKYIPWHIVNRIMNLHAP--EWSGEVRNITYSADGKTVSVVYRVTIY 134 (186)
Q Consensus 64 LsEIL~~L~kPfP~~~Ik~R~~~-----g--~~l~yIpW~~vnR~L~~~aP--gW~~EVr~V~ys~~G~~VtV~~RLTI~ 134 (186)
|+|.+..|++|+|++.|.||++. + .-++|++.+.++++|+.++| ||..|..-| +++.--+|..+++..
T Consensus 3 lsdvq~alq~pl~a~~V~wrv~~f~a~~~~allLAy~DaRavq~rlDevfgv~gW~~E~~~v---~G~~~ctV~v~~~d~ 79 (234)
T COG4712 3 LSDVQMALQRPLKASEVEWRVQSFKAKSGCALLLAYKDARAVQKRLDEVFGVLGWEREHQLV---NGNLFCTVRVYDEDM 79 (234)
T ss_pred HHHHHHHhhCCCCcceeEEeeeccccCCceeeeehhhhhHHHHHHHHHhcCcccchhheeec---cCCeeeeEEEEeeee
Confidence 78999999999999999999941 2 45789999999999999999 799998888 566656677777776
Q ss_pred ecCceeEeecccccccCCCCCCchHHHHHHHHHHHHHHHhccceeccC
Q 029845 135 GTDAEIFRESTGTALVDEQGYGDAVQKAEAMAFRRACARFGLGLHLYH 182 (186)
Q Consensus 135 G~DgeitREatGta~~~d~~~gDpv~aAes~AFrRACArFGLGlYLY~ 182 (186)
+ +||+++||++.. -+++.+.|++|||||.+||+|||||+
T Consensus 80 w----VTk~D~ge~~~~-----ea~Kg~aSdsmKRaavqfGIGRyLYd 118 (234)
T COG4712 80 W----VTKQDVGEESNT-----EAEKGQASDSMKRAAVQFGIGRYLYD 118 (234)
T ss_pred e----eeeccccccchh-----HHHhcccchHHHHHHhhhccchhhhc
Confidence 6 899999998642 26899999999999999999999996
No 3
>PF06378 DUF1071: Protein of unknown function (DUF1071); InterPro: IPR009425 This entry is represented by Bacteriophage bIL285, Orf14. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical bacterial and phage proteins of unknown function.
Probab=99.51 E-value=5.7e-14 Score=116.04 Aligned_cols=103 Identities=24% Similarity=0.329 Sum_probs=77.7
Q ss_pred ccccCCcccccchhHHHHhhhhhcCCccccceeeE------------EEeeCCCEEEEEEEEEEEecCceeEeec---cc
Q 029845 82 IRVEDGFSMKYIPWHIVNRIMNLHAPEWSGEVRNI------------TYSADGKTVSVVYRVTIYGTDAEIFRES---TG 146 (186)
Q Consensus 82 ~R~~~g~~l~yIpW~~vnR~L~~~aPgW~~EVr~V------------~ys~~G~~VtV~~RLTI~G~DgeitREa---tG 146 (186)
.+++....+.|+.|+.+-.+|.-++|+|+++|..- .|-.++....|..+|||.|...+.+-.- ..
T Consensus 14 ~~vekk~~l~YLSWA~Aw~~lk~~~P~at~~i~~f~~~~~~~~~~~~p~~~t~~g~~V~v~vti~g~t~~~~lPVMD~rN 93 (164)
T PF06378_consen 14 DKVEKKNGLSYLSWAWAWALLKKIYPDATYEIVEFPEYDITGLPYGVPYLDTNTGYMVEVSVTIEGQTYTMWLPVMDGRN 93 (164)
T ss_pred hhhheeCCCCeehHHHHHHHHHHhCCCCeEEEEECCCCCCCCCccccceecCCceEEEEEEEEECCEEEEEEEeecCCCC
Confidence 33333467899999999999999999999988652 1444555678999999999655554422 11
Q ss_pred ccccCCCCCCchHHHHHHHHHHHHHHHhccceeccCCCCC
Q 029845 147 TALVDEQGYGDAVQKAEAMAFRRACARFGLGLHLYHEDLL 186 (186)
Q Consensus 147 ta~~~d~~~gDpv~aAes~AFrRACArFGLGlYLY~ed~l 186 (186)
.+ + +...+-.+.+|..+||.+|||.||||||||..++|
T Consensus 94 k~-i-~~p~~~dINka~~RclVKalA~~GLGLyiYaGEDl 131 (164)
T PF06378_consen 94 KA-I-EKPTAFDINKAIMRCLVKALAMFGLGLYIYAGEDL 131 (164)
T ss_pred Cc-c-cCcchhhhHHHHHHHHHHHHHHhCccceeeccCcC
Confidence 11 2 22335579999999999999999999999998876
No 4
>TIGR00607 rad52 recombination protein rad52. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.06 E-value=3.7e-10 Score=93.54 Aligned_cols=116 Identities=28% Similarity=0.413 Sum_probs=87.0
Q ss_pred HHHHHHcCCCCCCcccccccC-CcccccchhHHHHhhhhhcCC--ccccceeeEEE--ee--CCC-E--EEEEEEEEEEe
Q 029845 66 EILKELNKNVPNSLIKIRVED-GFSMKYIPWHIVNRIMNLHAP--EWSGEVRNITY--SA--DGK-T--VSVVYRVTIYG 135 (186)
Q Consensus 66 EIL~~L~kPfP~~~Ik~R~~~-g~~l~yIpW~~vnR~L~~~aP--gW~~EVr~V~y--s~--~G~-~--VtV~~RLTI~G 135 (186)
+|+..|++++++..|+.|+-+ |.++.||+.+.+..+-|-+=. ||+-+|.++.. .+ .|+ + ++++.|||+
T Consensus 1 ~iq~~l~~~lgpe~is~R~g~gg~kv~Yieg~k~i~lANeiFGFnGWSs~I~~~~vd~~de~~~k~~vg~saiVRVtL-- 78 (161)
T TIGR00607 1 AIQKALRQKLGPEYISSRSGGGGQKVCYIEGWKVINLANEIFGYNGWSHSITQQNVDFVDENNGKFSVGVCAIVRVTL-- 78 (161)
T ss_pred ChhHHhhcccCchheeeccCCCCceEEeccHHHHHHHHHHhcCCCCceeeeeecccceecccCCcEEEEEEEEEEEEE--
Confidence 378899999999999999965 789999999987666665555 89998876642 11 122 2 445555555
Q ss_pred cCceeEeecccccccCC-CCC----CchHHHHHHHHHHHHHHHhc--cceeccCCC
Q 029845 136 TDAEIFRESTGTALVDE-QGY----GDAVQKAEAMAFRRACARFG--LGLHLYHED 184 (186)
Q Consensus 136 ~DgeitREatGta~~~d-~~~----gDpv~aAes~AFrRACArFG--LGlYLY~ed 184 (186)
.|| .+||++|.....+ .+- ..+-+.|..+|+|||+-.|| ||.-||+.+
T Consensus 79 kDG-t~~EdiG~G~~~n~~~K~~A~ekAKKeAvTDAlKRAlr~FGn~lGN~lydk~ 133 (161)
T TIGR00607 79 KDG-SYHEDVGYGVSENLRSKALAFEKAKKEAVTDALKRALRNFGNALGNCLYDKD 133 (161)
T ss_pred cCC-cEeecccceeeecCCcHHHHHHHHHHHHHHHHHHHHHHHhhhhhcchhccHH
Confidence 578 6899999875542 232 34567789999999999999 899999875
No 5
>PF06420 Mgm101p: Mitochondrial genome maintenance MGM101; InterPro: IPR009446 The mgm101 gene was identified as essential for maintenance of the mitochondrial genome in Saccharomyces cerevisiae []. Based on its DNA-binding activity, and experimental work with a temperature-sensitive mgm101 mutant, it has been proposed that the mgm101 gene product performs an essential function in the repair of oxidatively damaged mitochondrial DNA [].; GO: 0000002 mitochondrial genome maintenance, 0000262 mitochondrial chromosome
Probab=98.56 E-value=5.7e-07 Score=75.40 Aligned_cols=112 Identities=24% Similarity=0.391 Sum_probs=87.7
Q ss_pred HHHHHHHcCCCCCCcccccccCCcccccchhHHHHhhhh-hcCC-ccccceeeEEEeeCCCEEEEEEEEEEEecCceeEe
Q 029845 65 SEILKELNKNVPNSLIKIRVEDGFSMKYIPWHIVNRIMN-LHAP-EWSGEVRNITYSADGKTVSVVYRVTIYGTDAEIFR 142 (186)
Q Consensus 65 sEIL~~L~kPfP~~~Ik~R~~~g~~l~yIpW~~vnR~L~-~~aP-gW~~EVr~V~ys~~G~~VtV~~RLTI~G~DgeitR 142 (186)
.|+.+.|.+|+.+..|+.|+ || +-|+|+-.+.|+|| +++| ||.--=|..... .++.|+=.|-|-.+| .+.=
T Consensus 17 ~e~~~~L~~pl~~~DiEIKP-DG--liYLPEikYRRiLN~AFGpGgWgL~Prg~~~v-~~k~v~ReyaLic~G---r~Vs 89 (171)
T PF06420_consen 17 KEVADILLAPLDPEDIEIKP-DG--LIYLPEIKYRRILNKAFGPGGWGLVPRGETIV-TGKIVTREYALICHG---RLVS 89 (171)
T ss_pred HHHHHHHhCCCChhceeECC-Cc--eEEchHHHHHHHHHHhcCCCceeeeecCCcee-cCceEEEEEEEEEcC---EEEE
Confidence 37888899999999999976 45 47999999999998 5679 697322222221 356677777777777 4667
Q ss_pred ecccccc-cCCCCCCchHHHHHHHHHHHHHHHhccceeccCC
Q 029845 143 ESTGTAL-VDEQGYGDAVQKAEAMAFRRACARFGLGLHLYHE 183 (186)
Q Consensus 143 EatGta~-~~d~~~gDpv~aAes~AFrRACArFGLGlYLY~e 183 (186)
++.|+-. .+..+.+++.+.|.+.||.|||.-.|++-.||+.
T Consensus 90 ~a~GEq~yf~~~~i~tA~EgcKSNALmRCCKDLGIaSELWDP 131 (171)
T PF06420_consen 90 QARGEQDYFSPDSIPTATEGCKSNALMRCCKDLGIASELWDP 131 (171)
T ss_pred EeeccccccCCCCCchHHHHHHHHHHHHHHHHcCcchhhcCh
Confidence 8889874 4566778999999999999999999999999874
No 6
>PHA02448 hypothetical protein
Probab=98.35 E-value=1e-06 Score=73.52 Aligned_cols=117 Identities=25% Similarity=0.306 Sum_probs=89.8
Q ss_pred CCccHHHHHHHHcCCCCCCcccccccCCcccccchhHHHHhhhhhcCCccccceeeEE------EeeCCCEEEEEEEEEE
Q 029845 60 ISRPLSEILKELNKNVPNSLIKIRVEDGFSMKYIPWHIVNRIMNLHAPEWSGEVRNIT------YSADGKTVSVVYRVTI 133 (186)
Q Consensus 60 itRPLsEIL~~L~kPfP~~~Ik~R~~~g~~l~yIpW~~vnR~L~~~aPgW~~EVr~V~------ys~~G~~VtV~~RLTI 133 (186)
|+.|=.|=|..|++|||++-|..-++.|..+.|+--..+.-++--+-|-|+||-..+. +..+|. +--|||+
T Consensus 1 msepdveglaklrepfppnqigklpkggi~ld~~gh~~lt~r~l~~dplwtwep~a~~~~glp~~d~~gg---lwirlt~ 77 (192)
T PHA02448 1 MSEPDVEGLAKLREPFPPNQIGKLPKGGITLDFLGHGYLTARFLDVDPLWTWEPFAVGDNGLPLLDEHGG---LWIRLTL 77 (192)
T ss_pred CCccchhHHHHhcCCCChhhhccCCCCceeEEecchhhhhhhhcccCccccccccccCCCCCcccccCCC---eEEEEEE
Confidence 4567788999999999999999988999999999876655444446799999876653 222333 5569999
Q ss_pred EecCceeEeecccccccCCCCCCchHHHHHHHHHHHHHHHhccceeccCCCC
Q 029845 134 YGTDAEIFRESTGTALVDEQGYGDAVQKAEAMAFRRACARFGLGLHLYHEDL 185 (186)
Q Consensus 134 ~G~DgeitREatGta~~~d~~~gDpv~aAes~AFrRACArFGLGlYLY~ed~ 185 (186)
-| .||-.-|.+.-. .-.++|+.|+.+|+|.|--|||-.|-||...+
T Consensus 78 ~g----~tr~gygd~~gk--~gpnavkeaigdalrnagmrfgaal~lw~k~d 123 (192)
T PHA02448 78 CG----VTRIGYGDAGGK--KGPNAVKEAIGDALRNAGMRFGAALDLWCKGD 123 (192)
T ss_pred ec----cceeeccccCCC--cCchHHHHHHHHHHHhccchhhHHHHHHhcCC
Confidence 99 677655554211 12568999999999999999999999997654
No 7
>COG5055 RAD52 Recombination DNA repair protein (RAD52 pathway) [DNA replication, recombination, and repair]
Probab=98.04 E-value=1.6e-05 Score=72.75 Aligned_cols=125 Identities=30% Similarity=0.498 Sum_probs=86.9
Q ss_pred CCCCCCCc-cHHHHHHHHcCCCCCCccccccc-CCcccccchhHH----HHhhhhhcCCccccceeeEEE--ee---CCC
Q 029845 55 VPTSGISR-PLSEILKELNKNVPNSLIKIRVE-DGFSMKYIPWHI----VNRIMNLHAPEWSGEVRNITY--SA---DGK 123 (186)
Q Consensus 55 ~p~s~itR-PLsEIL~~L~kPfP~~~Ik~R~~-~g~~l~yIpW~~----vnR~L~~~aPgW~~EVr~V~y--s~---~G~ 123 (186)
-|.++++- -.-.|...|.+..=+..|.-|+- ++.+++||+-.. +|++..| .||+-||++|.. -+ +++
T Consensus 16 ~~~~afs~~r~~~lqs~L~rklgpeYis~R~G~g~~~iayIegw~~I~lANeiFGf--nGWss~I~sv~id~~ee~~e~k 93 (375)
T COG5055 16 RPASAFSVQRIGKLQSKLERKLGPEYISRRSGFGGSSIAYIEGWKAIELANEIFGF--NGWSSEIRSVEIDYCEEFEEKK 93 (375)
T ss_pred CccchhhhhHHHHHHHHHHHHhccHhhccccCCCCCceeeechhHHHHHHHHhhCc--Cccccceeeeeeeccccccccc
Confidence 34444432 26667888888888999999986 689999998544 4555433 489999998862 11 222
Q ss_pred -E--EEEEEEEEEEecCceeEeecccccccCCCC-----CCchHHHHHHHHHHHHHHHhc--cceeccCCC
Q 029845 124 -T--VSVVYRVTIYGTDAEIFRESTGTALVDEQG-----YGDAVQKAEAMAFRRACARFG--LGLHLYHED 184 (186)
Q Consensus 124 -~--VtV~~RLTI~G~DgeitREatGta~~~d~~-----~gDpv~aAes~AFrRACArFG--LGlYLY~ed 184 (186)
+ ++|..|||| .|| .+||.+|.-+.+-.. |.-.-+.|.-+|+|||...|| ||-|||+..
T Consensus 94 ~svg~saiVRVTL--KDG-ty~EdiGyGsien~r~ka~ayek~KKEavtDALKRALr~Fgnslgnc~ydk~ 161 (375)
T COG5055 94 FSVGASAIVRVTL--KDG-TYREDIGYGSIENCRRKAEAYEKAKKEAVTDALKRALRNFGNSLGNCLYDKT 161 (375)
T ss_pred eeeeeEEEEEEEe--cCC-ccccccccceeecccccHHHHHHHHhhhhHHHHHHHHHHHHhhhhhhhhhhH
Confidence 1 344555555 456 689999987765332 334456788899999999999 899999753
No 8
>KOG4141 consensus DNA repair and recombination protein RAD52/RAD22 [Replication, recombination and repair]
Probab=96.19 E-value=0.014 Score=51.10 Aligned_cols=110 Identities=26% Similarity=0.410 Sum_probs=74.7
Q ss_pred HHHHHHHcCCCCCCccccccc-CCcccccchhHH----HHhhhhhcCCccccceeeEE--Eee--CCCE---EEEEEEEE
Q 029845 65 SEILKELNKNVPNSLIKIRVE-DGFSMKYIPWHI----VNRIMNLHAPEWSGEVRNIT--YSA--DGKT---VSVVYRVT 132 (186)
Q Consensus 65 sEIL~~L~kPfP~~~Ik~R~~-~g~~l~yIpW~~----vnR~L~~~aPgW~~EVr~V~--ys~--~G~~---VtV~~RLT 132 (186)
..|++.|.++.=+..|.-|.- .|.++.||+-+. +|+|..+ .||+-+|++|. |-+ +|+. |++..|||
T Consensus 37 ~~iqk~L~~~lgpeYiS~R~g~gg~~v~yIegw~vI~lANeiFGy--NGWs~sI~~~~vd~~d~~~~k~~vg~~a~VrVt 114 (222)
T KOG4141|consen 37 QAIQKKLRQKLGPEYISSRMGGGGQSVCYIEGWRVINLANEIFGY--NGWSSSITSVNVDFVDEEEGKFSVGVSAIVRVT 114 (222)
T ss_pred HHHHHHHHHHhccHhhhccccCCCceeEEecchHHHHHHHHHhCc--CcccccceeeecceeccccCeEEEeEEEEEEEE
Confidence 568899999999999999995 579999999655 3455332 48999997765 222 3331 44556666
Q ss_pred EEecCceeEeecccccccCC-----CCCCchHHHHHHHHHHHHHHHhcccee
Q 029845 133 IYGTDAEIFRESTGTALVDE-----QGYGDAVQKAEAMAFRRACARFGLGLH 179 (186)
Q Consensus 133 I~G~DgeitREatGta~~~d-----~~~gDpv~aAes~AFrRACArFGLGlY 179 (186)
|. || .|||++|.-+-.+ ..+.-.-+-|..+|.|+|-..|+....
T Consensus 115 Lk--DG-tyhEDiGyG~~e~~~~r~~~~~~~~k~~~~d~~k~~l~~~~n~i~ 163 (222)
T KOG4141|consen 115 LK--DG-TYHEDIGYGSAENLSSRGLCYEKAKKEAVGDALKKALRSFENTIL 163 (222)
T ss_pred Ee--cC-cccccccccccccchhhhhhhhhhhhhhhhhhhhHHHhhcccccc
Confidence 64 45 6899999862221 111223445788999999999987653
No 9
>PF03147 FDX-ACB: Ferredoxin-fold anticodon binding domain; InterPro: IPR005121 Aminoacyl-tRNA synthetases (aaRSs) play a crucial role in the translation of the genetic code by means of covalent attachment of amino acids to their cognate tRNAs. Phenylalanine-tRNA synthetase (PheRS) is known to be among the most complex enzymes of the aaRS family. Bacterial and mitochondrial PheRSs share a ferredoxin-fold anticodon binding (FDX-ACB) domain, which represents a canonical double split alpha+beta motif having no insertions. The FDX-ACB domain displays a typical RNA recognition fold (RRM) (see PDOC00030 from PROSITEDOC) formed by the four-stranded antiparallel beta sheet, with two helices packed against it [, , , , ].; GO: 0000049 tRNA binding, 0000287 magnesium ion binding, 0004826 phenylalanine-tRNA ligase activity, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation, 0008033 tRNA processing; PDB: 1JJC_B 1EIY_B 1PYS_B 3HFZ_B 3TEH_B 3PCO_D 2RHS_D 2RHQ_B 2AKW_B 1B70_B ....
Probab=82.72 E-value=7.8 Score=28.30 Aligned_cols=71 Identities=15% Similarity=0.279 Sum_probs=39.2
Q ss_pred cchhHHHHhhhhhcCCccccce--eeEEEeeCC---CEEEEEEEEEEEecCceeEeecccccccCCCCCCchHHHHHHHH
Q 029845 92 YIPWHIVNRIMNLHAPEWSGEV--RNITYSADG---KTVSVVYRVTIYGTDAEIFRESTGTALVDEQGYGDAVQKAEAMA 166 (186)
Q Consensus 92 yIpW~~vnR~L~~~aPgW~~EV--r~V~ys~~G---~~VtV~~RLTI~G~DgeitREatGta~~~d~~~gDpv~aAes~A 166 (186)
-++|..+.+.+.-.+.++-.+| .++ |...+ ..-++.+|+|..-.|++++.+- +++.....
T Consensus 17 ~~~~~~i~~~i~~~~~~~l~~v~l~D~-y~~~~l~~g~kS~~~rl~~~~~~~TLt~~e--------------v~~~~~~i 81 (94)
T PF03147_consen 17 DVPFADIEEVIRSAGGPLLESVELFDV-YRGEKLPEGKKSLTYRLTYQSPDRTLTDEE--------------VNEIHDKI 81 (94)
T ss_dssp TS-HHHHHHHHHHHHTTTEEEEEEEEE-EESTTSGTTEEEEEEEEEE--SSS---HHH--------------HHHHHHHH
T ss_pred CCCHHHHHHHHHHhCccceeEEEEEEE-EcCCCCCCCcEEEEEEEEEECCCCCCCHHH--------------HHHHHHHH
Confidence 4577776665555554443333 333 66532 4689999999999888774332 55555555
Q ss_pred HHHHHHHhccc
Q 029845 167 FRRACARFGLG 177 (186)
Q Consensus 167 FrRACArFGLG 177 (186)
......+||.=
T Consensus 82 ~~~l~~~~~~~ 92 (94)
T PF03147_consen 82 IKALEKKLGAE 92 (94)
T ss_dssp HHHHHHTCT-B
T ss_pred HHHHHHHhCcE
Confidence 55556788863
No 10
>PF05504 Spore_GerAC: Spore germination B3/ GerAC like, C-terminal ; InterPro: IPR008844 The GerAA, -AB, and -AC proteins of the Bacillus subtilis spore are required for the germination response to L-alanine as the sole germinant. Members of GerAC family are thought to be located in the inner spore membrane. Although the function of this family is unclear, they are likely to encode the components of the germination apparatus that respond directly to this germinant, mediating the spore's response [].; GO: 0009847 spore germination, 0016020 membrane; PDB: 3N54_B.
Probab=67.21 E-value=11 Score=29.17 Aligned_cols=57 Identities=12% Similarity=0.123 Sum_probs=28.3
Q ss_pred CCEEEEEEEEEEEecCceeEeecccccccCCCCCCchHHHHHHHHHHHHHHH-------------hccceeccC
Q 029845 122 GKTVSVVYRVTIYGTDAEIFRESTGTALVDEQGYGDAVQKAEAMAFRRACAR-------------FGLGLHLYH 182 (186)
Q Consensus 122 G~~VtV~~RLTI~G~DgeitREatGta~~~d~~~gDpv~aAes~AFrRACAr-------------FGLGlYLY~ 182 (186)
++.+.+...|++.| ...|..+...+.+...-.-++++.+..+++-|.+ ||||.|+|.
T Consensus 65 ~~~~~~~i~i~~~~----~i~e~~~~~~l~~~~~~~~le~~~~~~i~~~~~~~i~k~q~~~~~D~lg~g~~~~~ 134 (171)
T PF05504_consen 65 GGKPKFTINIKLKG----DIIEYQSNIDLFDPEEIKELEKQLEEEIKKEIQSLIKKMQKELGVDPLGFGEYLRR 134 (171)
T ss_dssp SSSEEEEEEEEEEE----EEE----------SHHHHHHHHHHHHHHHHHHHHHHHHHHHTT----S-HHHHHHH
T ss_pred CCcEEEEEEEEEEE----EEEEeecCcCccChHHHHHHHHHHHHHHHHHHHHHHHHHhhhhCcChHHHHHHHHH
Confidence 33477777777777 4556555544332222234666666666555543 789998875
No 11
>PRK00907 hypothetical protein; Provisional
Probab=59.31 E-value=17 Score=27.66 Aligned_cols=39 Identities=23% Similarity=0.153 Sum_probs=31.7
Q ss_pred HHhhhhhcCCccccceeeEEEeeCCCEEEEEEEEEEEec
Q 029845 98 VNRIMNLHAPEWSGEVRNITYSADGKTVSVVYRVTIYGT 136 (186)
Q Consensus 98 vnR~L~~~aPgW~~EVr~V~ys~~G~~VtV~~RLTI~G~ 136 (186)
+-.++..++|+-..+-..+.=|..|++++|++.+++.+.
T Consensus 34 V~~vv~~h~p~~~~~~i~~r~Ss~GkY~Svtv~i~ats~ 72 (92)
T PRK00907 34 LPRLLAATGVELLQERISWKHSSSGKYVSVRIGFRAESR 72 (92)
T ss_pred HHHHHHHhCCCCCcCcEEeccCCCCEEEEEEEEEEECCH
Confidence 567888999987766666677889999999999888763
No 12
>PRK02047 hypothetical protein; Provisional
Probab=54.49 E-value=19 Score=27.04 Aligned_cols=40 Identities=18% Similarity=0.263 Sum_probs=32.0
Q ss_pred HHHhhhhhcCCccccceeeEEEeeCCCEEEEEEEEEEEec
Q 029845 97 IVNRIMNLHAPEWSGEVRNITYSADGKTVSVVYRVTIYGT 136 (186)
Q Consensus 97 ~vnR~L~~~aPgW~~EVr~V~ys~~G~~VtV~~RLTI~G~ 136 (186)
.+..++..++|+-..+.-.+.-|.+|++++|..++++...
T Consensus 32 ~v~~iv~~~~~~~~~~~i~~k~Ss~GkY~Svtv~v~v~s~ 71 (91)
T PRK02047 32 TIFKVVSVHDPEFDLEKIEERPSSGGNYTGLTITVRATSR 71 (91)
T ss_pred HHHHHHHHhCCCCccCceEEccCCCCeEEEEEEEEEECCH
Confidence 3678888889987666556677889999999999988763
No 13
>smart00358 DSRM Double-stranded RNA binding motif.
Probab=44.45 E-value=83 Score=20.10 Aligned_cols=36 Identities=22% Similarity=0.192 Sum_probs=19.5
Q ss_pred EEEEEEEEEEecCceeEeecccccccCCCCCCchHHHHHHHHHHHHHHH
Q 029845 125 VSVVYRVTIYGTDAEIFRESTGTALVDEQGYGDAVQKAEAMAFRRACAR 173 (186)
Q Consensus 125 VtV~~RLTI~G~DgeitREatGta~~~d~~~gDpv~aAes~AFrRACAr 173 (186)
....|.++|.| +.+..+.| ---+.|+.+|=++|+..
T Consensus 30 ~~f~~~v~i~~---~~~~~g~g----------~sKk~Ak~~AA~~al~~ 65 (67)
T smart00358 30 PRFTVTVKVGG---EYTGEGEG----------SSKKEAKQRAAEAALRS 65 (67)
T ss_pred CcEEEEEEECC---EEEEEecc----------CCHHHHHHHHHHHHHHh
Confidence 46777788744 34333322 22556666666666543
No 14
>PF00996 GDI: GDP dissociation inhibitor; InterPro: IPR018203 Rab proteins constitute a family of small GTPases that serve a regulatory role in vesicular membrane traffic [, ]; C-terminal geranylgeranylation is crucial for their membrane association and function. This post-translational modification is catalysed by Rab geranylgeranyl transferase (Rab-GGTase), a multi-subunit enzyme that contains a catalytic heterodimer and an accessory component, termed Rab escort protein (REP)-1 []. REP-1 presents newly- synthesised Rab proteins to the catalytic component, and forms a stable complex with the prenylated proteins following the transfer reaction. The mechanism of REP-1-mediated membrane association of Rab5 is similar to that mediated by Rab GDP dissociation inhibitor (GDI). REP-1 and Rab GDI also share other functional properties, including the ability to inhibit the release of GDP and to remove Rab proteins from membranes. The crystal structure of the bovine alpha-isoform of Rab GDI has been determined to a resolution of 1.81A []. The protein is composed of two main structural units: a large complex multi-sheet domain I, and a smaller alpha-helical domain II. The structural organisation of domain I is closely related to FAD-containing monooxygenases and oxidases []. Conserved regions common to GDI and the choroideraemia gene product, which delivers Rab to catalytic subunits of Rab geranylgeranyltransferase II, are clustered on one face of the domain []. The two most conserved regions form a compact structure at the apex of the molecule; site-directed mutagenesis has shown these regions to play a critical role in the binding of Rab proteins [].; PDB: 1VG9_C 1VG0_A 1LTX_R 3P1W_A 3CPH_H 3CPJ_G 3CPI_H 1UKV_G 2BCG_G 1GND_A ....
Probab=43.92 E-value=18 Score=34.18 Aligned_cols=20 Identities=30% Similarity=0.443 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHhccceeccC
Q 029845 162 AEAMAFRRACARFGLGLHLYH 182 (186)
Q Consensus 162 Aes~AFrRACArFGLGlYLY~ 182 (186)
-..|||+|+||-+| |-|.-+
T Consensus 233 ELpQ~FcRl~AV~G-G~Y~L~ 252 (438)
T PF00996_consen 233 ELPQAFCRLSAVYG-GTYMLN 252 (438)
T ss_dssp HHHHHHHHHHHHTT--EEESS
T ss_pred cHHHHHHHHhhhcC-cEEEeC
Confidence 36799999999999 777643
No 15
>PF10698 DUF2505: Protein of unknown function (DUF2505); InterPro: IPR019639 This entry represents proteins found Actinobacteria and Proteobacteria. The function is not known.
Probab=40.16 E-value=1.6e+02 Score=23.24 Aligned_cols=60 Identities=20% Similarity=0.177 Sum_probs=46.9
Q ss_pred cccceeeEEEeeCCCEEEEEEEEEEEecCceeEeecccccccCCCCCCchHHHHHHHHHHHHH
Q 029845 109 WSGEVRNITYSADGKTVSVVYRVTIYGTDAEIFRESTGTALVDEQGYGDAVQKAEAMAFRRAC 171 (186)
Q Consensus 109 W~~EVr~V~ys~~G~~VtV~~RLTI~G~DgeitREatGta~~~d~~~gDpv~aAes~AFrRAC 171 (186)
|.+++. .+-.|..+.+.+++++...++...++..|+....-.-.|--++++.+..++++-
T Consensus 89 ~~g~~~---~~~~G~P~~~~G~~~L~~~~~gt~~~~~g~v~v~VPlvGgkiE~~v~~~~~~~~ 148 (159)
T PF10698_consen 89 RTGTFT---VSIPGAPVSISGTMRLRPDGGGTRLTVEGEVKVKVPLVGGKIEKAVAENLRKLL 148 (159)
T ss_pred EEEEEE---EEecCceEEEEEEEEEecCCCCEEEEEEEEEEEEEccccHHHHHHHHHHHHHHH
Confidence 555443 223477899999999999888888899999987777778788888888777654
No 16
>cd01684 Tet_like_IV EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit the accommodation of aminoacyl-tRNA into ribosomal A site and therefore prevent the addition of new amino acids to the growing polypeptide. RPPs Tet(M) confer tetracycline resistance by releasing tetracycline from the ribosome and thereby freeing the ribosome from inhibitory effects of the drug, such that aa-tRNA can bind to the A site and protein synthesis can continue.
Probab=39.12 E-value=68 Score=24.22 Aligned_cols=17 Identities=12% Similarity=0.178 Sum_probs=14.5
Q ss_pred hHHHHHHHHHHHHHHHh
Q 029845 158 AVQKAEAMAFRRACARF 174 (186)
Q Consensus 158 pv~aAes~AFrRACArF 174 (186)
....|.++||++|+.+-
T Consensus 98 af~~Aa~~a~~~a~~~a 114 (115)
T cd01684 98 DFRELTPRVLRQALKKA 114 (115)
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 47899999999999764
No 17
>PF10633 NPCBM_assoc: NPCBM-associated, NEW3 domain of alpha-galactosidase; InterPro: IPR018905 This domain has been named NEW3, but its function is not known. It is found on proteins which are bacterial galactosidases [].; PDB: 1EUT_A 2BZD_A 1WCQ_C 2BER_A 1W8O_A 1EUU_A 1W8N_A.
Probab=38.65 E-value=45 Score=23.19 Aligned_cols=34 Identities=24% Similarity=0.547 Sum_probs=19.0
Q ss_pred hhhcCC-ccc--cceeeEEEeeCCCEEEEEEEEEEEe
Q 029845 102 MNLHAP-EWS--GEVRNITYSADGKTVSVVYRVTIYG 135 (186)
Q Consensus 102 L~~~aP-gW~--~EVr~V~ys~~G~~VtV~~RLTI~G 135 (186)
+++-.| ||. ..-..+..-+-|+++++..+||+..
T Consensus 26 ~~l~~P~GW~~~~~~~~~~~l~pG~s~~~~~~V~vp~ 62 (78)
T PF10633_consen 26 LSLSLPEGWTVSASPASVPSLPPGESVTVTFTVTVPA 62 (78)
T ss_dssp EEEE--TTSE---EEEEE--B-TTSEEEEEEEEEE-T
T ss_pred EEEeCCCCccccCCccccccCCCCCEEEEEEEEECCC
Confidence 455678 799 2223343446788899999998864
No 18
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=38.21 E-value=43 Score=32.38 Aligned_cols=55 Identities=33% Similarity=0.469 Sum_probs=31.5
Q ss_pred EEEeeCCCEEEEEEEEEEEecCceeEeecccccccCCCCCCchHHHHH--HHHHHH---HHH----Hhccceec
Q 029845 116 ITYSADGKTVSVVYRVTIYGTDAEIFRESTGTALVDEQGYGDAVQKAE--AMAFRR---ACA----RFGLGLHL 180 (186)
Q Consensus 116 V~ys~~G~~VtV~~RLTI~G~DgeitREatGta~~~d~~~gDpv~aAe--s~AFrR---ACA----rFGLGlYL 180 (186)
+.|||+|.+++|..-- |+.-=+.+..|.+.|-|-+.-+ =++|-| |-+ --||||++
T Consensus 355 ~KYsP~Gg~Itv~~~~----------~~~~v~iSI~D~G~gIPk~d~~~iFdrfyRvdkARsR~~gGTGLGLaI 418 (459)
T COG5002 355 LKYSPDGGRITVSVKQ----------RETWVEISISDQGLGIPKEDLEKIFDRFYRVDKARSRKMGGTGLGLAI 418 (459)
T ss_pred hhcCCCCCeEEEEEee----------eCcEEEEEEccCCCCCCchhHHHHHHHHhhhhhhhhhcCCCCchhHHH
Confidence 4699999877665432 2222233578888898844433 344433 211 14677665
No 19
>cd01285 nucleoside_deaminase Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on the substrate. The functional enzyme is a homodimer. Cytosine deaminase catalyzes the deamination of cytosine to uracil and ammonia and is a member of the pyrimidine salvage pathway. Cytosine deaminase is found in bacteria and fungi but is not present in mammals; for this reason, the enzyme is currently of interest for antimicrobial drug design and gene therapy applications against tumors. Some members of this family are tRNA-specific adenosine deaminases that generate inosine at the first position of their anticodon (position 34) of specific tRNAs; this modification is thought to enlarge the codon recognition capacity during protei
Probab=37.27 E-value=61 Score=24.07 Aligned_cols=26 Identities=46% Similarity=0.735 Sum_probs=21.0
Q ss_pred CchHHHHHHHHHHHHHHHhc----cceecc
Q 029845 156 GDAVQKAEAMAFRRACARFG----LGLHLY 181 (186)
Q Consensus 156 gDpv~aAes~AFrRACArFG----LGlYLY 181 (186)
+||..-||..|+++|+.+.| -|..||
T Consensus 42 ~~~~~HAE~~ai~~~~~~~~~~~~~~~~ly 71 (109)
T cd01285 42 GDPTAHAEIVAIRNAARRLGSYLLSGCTLY 71 (109)
T ss_pred CCCcccHHHHHHHHHHHHhCCCccCCeEEE
Confidence 67899999999999999865 455554
No 20
>PRK04998 hypothetical protein; Provisional
Probab=36.13 E-value=49 Score=24.39 Aligned_cols=37 Identities=24% Similarity=0.232 Sum_probs=25.7
Q ss_pred HHhhhhhcCCccccceeeEEEeeCCCEEEEEEEEEEEec
Q 029845 98 VNRIMNLHAPEWSGEVRNITYSADGKTVSVVYRVTIYGT 136 (186)
Q Consensus 98 vnR~L~~~aPgW~~EVr~V~ys~~G~~VtV~~RLTI~G~ 136 (186)
+..+++-+.|+= +.-.+.-|..|++++|++++++...
T Consensus 32 v~~v~~~~~~~~--~~~~~r~S~~GkY~Svtv~v~v~s~ 68 (88)
T PRK04998 32 VVEVVQRHAPGD--YTPTVKPSSKGNYHSVSITITATSI 68 (88)
T ss_pred HHHHHHHhCCCC--CCceEccCCCCEEEEEEEEEEECCH
Confidence 445666677752 2123456789999999999998764
No 21
>PRK10860 tRNA-specific adenosine deaminase; Provisional
Probab=35.72 E-value=65 Score=26.66 Aligned_cols=26 Identities=35% Similarity=0.447 Sum_probs=20.8
Q ss_pred CchHHHHHHHHHHHHHHHhc----cceecc
Q 029845 156 GDAVQKAEAMAFRRACARFG----LGLHLY 181 (186)
Q Consensus 156 gDpv~aAes~AFrRACArFG----LGlYLY 181 (186)
.||..-||..|++.|+.+++ -|.-||
T Consensus 57 ~d~~~HAEi~Ai~~a~~~~~~~~l~g~tlY 86 (172)
T PRK10860 57 HDPTAHAEIMALRQGGLVLQNYRLLDATLY 86 (172)
T ss_pred CCCccCHHHHHHHHHHHhcCCCCcCCcEEE
Confidence 57899999999999999875 355555
No 22
>PF00763 THF_DHG_CYH: Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; InterPro: IPR020630 Enzymes that participate in the transfer of one-carbon units require the coenzyme tetrahydrofolate (THF). Various reactions generate one-carbon derivatives of THF, which can be interconverted between different oxidation states by methylene-THF dehydrogenase (1.5.1.5 from EC), methenyl-THF cyclohydrolase (3.5.4.9 from EC) and formyl-THF synthetase (6.3.4.3 from EC) [, ]. The dehydrogenase and cyclohydrolase activities are expressed by a variety of multifunctional enzymes, including the tri-functional eukaryotic C1-tetrahydrofolate synthase []; a bifunctional eukaryotic mitochondrial protein; and the bifunctional Escherichia coli folD protein [, ]. Methylene-tetrahydrofolate dehydrogenase and methenyltetrahydrofolate cyclo-hydrolase share an overlapping active site [], and as such are usually located together in proteins, acting in tandem on the carbon-nitrogen bonds of substrates other than peptide bonds. This entry represents the N-terminal catalytic domain of these enzymes. ; GO: 0003824 catalytic activity, 0004488 methylenetetrahydrofolate dehydrogenase (NADP+) activity, 0009396 folic acid-containing compound biosynthetic process, 0055114 oxidation-reduction process; PDB: 2C2X_B 2C2Y_A 1EDZ_A 1EE9_A 4A26_B 3NGL_C 3NGX_A 1B0A_A 1DIA_A 1A4I_B ....
Probab=35.54 E-value=41 Score=25.79 Aligned_cols=28 Identities=14% Similarity=0.259 Sum_probs=22.9
Q ss_pred CchHHHHHHHHHHHHHHHhccceeccCC
Q 029845 156 GDAVQKAEAMAFRRACARFGLGLHLYHE 183 (186)
Q Consensus 156 gDpv~aAes~AFrRACArFGLGlYLY~e 183 (186)
.||-+.++...-+|+|.++|+.-.+|+-
T Consensus 39 ~d~~S~~Y~~~k~k~~~~~Gi~~~~~~l 66 (117)
T PF00763_consen 39 DDPASISYVRSKQKAAEKLGIEFELIEL 66 (117)
T ss_dssp --HHHHHHHHHHHHHHHHHT-EEEEEEE
T ss_pred CChhHHHHHHHHHHHHHHcCCceEEEEC
Confidence 3689999999999999999999888764
No 23
>PF05423 Mycobact_memb: Mycobacterium membrane protein; InterPro: IPR008693 This family contains several membrane proteins from Mycobacterium species [].
Probab=34.66 E-value=84 Score=25.47 Aligned_cols=69 Identities=25% Similarity=0.400 Sum_probs=36.6
Q ss_pred CCCCCCcccccccC--C--cccccchhHH-HHhhhhhcCC-cccccee--------eEEEeeCCCEEEEEEEEEEEecCc
Q 029845 73 KNVPNSLIKIRVED--G--FSMKYIPWHI-VNRIMNLHAP-EWSGEVR--------NITYSADGKTVSVVYRVTIYGTDA 138 (186)
Q Consensus 73 kPfP~~~Ik~R~~~--g--~~l~yIpW~~-vnR~L~~~aP-gW~~EVr--------~V~ys~~G~~VtV~~RLTI~G~Dg 138 (186)
.++.++.|.-..-. | ..+.|.+-.- .++..+ .+ -|+.++. +|.-+.+|. +|.||+|+.|
T Consensus 46 ~~~~pk~V~YEV~G~~G~~~~I~Y~D~~~~~~~~~~--v~LPWs~tvt~~~~~~~~~v~Aq~~~~--~v~CrItVdG--- 118 (140)
T PF05423_consen 46 APFNPKTVTYEVTGPPGSTATISYLDADGQPQQVDN--VSLPWSKTVTTTDPAVSASVVAQGDGD--SVTCRITVDG--- 118 (140)
T ss_pred CCCCCcEEEEEEEcCCCCeEEEEEEcCCCceEeecC--cCCCCEEEEEccCCceEEEEEEEcCCC--eEEEEEEECC---
Confidence 36666666665532 2 3455543311 122222 23 4887663 343333554 6899999955
Q ss_pred eeEeeccccc
Q 029845 139 EIFRESTGTA 148 (186)
Q Consensus 139 eitREatGta 148 (186)
++--|.+++.
T Consensus 119 ~v~~E~t~~g 128 (140)
T PF05423_consen 119 KVKDEQTATG 128 (140)
T ss_pred EEEEEEeccC
Confidence 5655666553
No 24
>PF10647 Gmad1: Lipoprotein LpqB beta-propeller domain; InterPro: IPR018910 The Gmad1 domain is found associated with IPR019606 from INTERPRO, in bacterial spore formation. It is predicted to have a beta-propeller fold and to have a passive binding role rather than a catalytic function owing to the low number of conserved hydrophilic residues.
Probab=34.24 E-value=98 Score=26.29 Aligned_cols=36 Identities=36% Similarity=0.669 Sum_probs=27.3
Q ss_pred CccccceeeEEEeeCCCEEEEEE------EEEEEecCceeEeeccc
Q 029845 107 PEWSGEVRNITYSADGKTVSVVY------RVTIYGTDAEIFRESTG 146 (186)
Q Consensus 107 PgW~~EVr~V~ys~~G~~VtV~~------RLTI~G~DgeitREatG 146 (186)
|++.+.|.++..|+||.++-|+. +|-|-+ +.|...|
T Consensus 108 ~~~~~~I~~l~vSpDG~RvA~v~~~~~~~~v~va~----V~r~~~g 149 (253)
T PF10647_consen 108 PGLRGRITALRVSPDGTRVAVVVEDGGGGRVYVAG----VVRDGDG 149 (253)
T ss_pred cccCCceEEEEECCCCcEEEEEEecCCCCeEEEEE----EEeCCCC
Confidence 33434899999999999998876 566666 6777777
No 25
>COG0590 CumB Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]
Probab=34.22 E-value=55 Score=26.40 Aligned_cols=21 Identities=33% Similarity=0.474 Sum_probs=19.1
Q ss_pred CCchHHHHHHHHHHHHHHHhc
Q 029845 155 YGDAVQKAEAMAFRRACARFG 175 (186)
Q Consensus 155 ~gDpv~aAes~AFrRACArFG 175 (186)
-.||..-||-.|+|+||.+.|
T Consensus 52 ~~dptaHAEi~air~a~~~~~ 72 (152)
T COG0590 52 DNDPTAHAEILAIRAAAETLG 72 (152)
T ss_pred CCCccccHHHHHHHHHHHhhC
Confidence 368999999999999999986
No 26
>PRK11594 efflux system membrane protein; Provisional
Probab=33.93 E-value=48 Score=24.37 Aligned_cols=25 Identities=20% Similarity=0.173 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHhccceeccCC
Q 029845 159 VQKAEAMAFRRACARFGLGLHLYHE 183 (186)
Q Consensus 159 v~aAes~AFrRACArFGLGlYLY~e 183 (186)
+.-+...+++|-.+|.|+.|+.||.
T Consensus 23 ~A~~l~~~lr~lL~r~g~YR~VWHp 47 (67)
T PRK11594 23 LSLALFWLVRRVLVPTGIYDFVWHP 47 (67)
T ss_pred HHHHHHHHHHHHHHHhCcceeeecH
Confidence 5567788999999999999999995
No 27
>PF04881 Adeno_GP19K: Adenovirus GP19K; InterPro: IPR006965 This 19 kDa glycoprotein binds the major histocompatibility (MHC) class I antigens in the endoplasmic reticulum (ER). The ER retention signal at the C terminus of Gp19K causes retention of the complex in the ER, preventing lysis of the cell by cytotoxic T-lymphocytes [].; GO: 0005537 mannose binding, 0050690 regulation of defense response to virus by virus
Probab=33.62 E-value=63 Score=26.96 Aligned_cols=14 Identities=43% Similarity=0.631 Sum_probs=11.8
Q ss_pred EEEEEEEEecCcee
Q 029845 127 VVYRVTIYGTDAEI 140 (186)
Q Consensus 127 V~~RLTI~G~Dgei 140 (186)
--|.||++|+||++
T Consensus 48 ~~ytVtV~G~dGs~ 61 (139)
T PF04881_consen 48 EWYTVTVQGPDGSI 61 (139)
T ss_pred cceEEEEECCCCcc
Confidence 45889999999976
No 28
>COG0072 PheT Phenylalanyl-tRNA synthetase beta subunit [Translation, ribosomal structure and biogenesis]
Probab=32.01 E-value=1.7e+02 Score=28.95 Aligned_cols=70 Identities=13% Similarity=0.179 Sum_probs=51.4
Q ss_pred chhHHHHhhhhhcCCccccceeeEE-Ee--eCCCEEEEEEEEEEEecCceeEeecccccccCCCCCCchHHHHHHHHHHH
Q 029845 93 IPWHIVNRIMNLHAPEWSGEVRNIT-YS--ADGKTVSVVYRVTIYGTDAEIFRESTGTALVDEQGYGDAVQKAEAMAFRR 169 (186)
Q Consensus 93 IpW~~vnR~L~~~aPgW~~EVr~V~-ys--~~G~~VtV~~RLTI~G~DgeitREatGta~~~d~~~gDpv~aAes~AFrR 169 (186)
|++..+.+.+.-.+-.|--+|.-++ |+ -....-+|.+|+|++..+.++ .|. -++++.......
T Consensus 575 v~~~~i~~~i~~~~~~~l~~v~lfDvy~~~~~~~~ks~a~~~~~~~~~rTL----------tde----ev~~~~~~~~~~ 640 (650)
T COG0072 575 VPAGDIVKAIKKAGGKLLESVNLFDVYQKGLGEGKKSLAIRLTFQDPERTL----------TDE----EVNALVNKIVEA 640 (650)
T ss_pred CCHHHHHHHHHHhCcceEEEEEEEEEeecccCCCceEEEEEEEEECCCCCC----------CHH----HHHHHHHHHHHH
Confidence 6777777777777778776664443 66 222237889999999977765 322 489999999999
Q ss_pred HHHHhcc
Q 029845 170 ACARFGL 176 (186)
Q Consensus 170 ACArFGL 176 (186)
+|.+||.
T Consensus 641 l~~~~~~ 647 (650)
T COG0072 641 LKEKFGA 647 (650)
T ss_pred HHHHhCc
Confidence 9999985
No 29
>PF04359 DUF493: Protein of unknown function (DUF493); InterPro: IPR007454 This family includes several proteins of uncharacterised function.; PDB: 1RWU_A 2JOQ_A 2H9Z_A.
Probab=31.98 E-value=45 Score=24.00 Aligned_cols=38 Identities=39% Similarity=0.482 Sum_probs=26.5
Q ss_pred HHhhhhhcCCccccceeeEEEeeCCCEEEEEEEEEEEe
Q 029845 98 VNRIMNLHAPEWSGEVRNITYSADGKTVSVVYRVTIYG 135 (186)
Q Consensus 98 vnR~L~~~aPgW~~EVr~V~ys~~G~~VtV~~RLTI~G 135 (186)
+..++.-++|+-..+.....-|.+|++++|+.++++.-
T Consensus 27 v~~iv~~~~~~~~~~~~~~k~S~~GkY~Svtv~v~v~s 64 (85)
T PF04359_consen 27 VKEIVEKHAPEFDDEKVSSKPSSKGKYVSVTVSVTVES 64 (85)
T ss_dssp HCCCCCCHSS--SSEEEEECCSTTSSEEEEEEEEEESS
T ss_pred HHHHHHHhCCcCccCceEEecCCCCeEEEEEEEEEECC
Confidence 55667777776555445555778999999999888765
No 30
>TIGR02887 spore_ger_x_C germination protein, Ger(x)C family. Members of this protein family are restricted to endospore-forming members of the Firmicutes lineage of bacteria, including the genera Bacillus, Clostridium, Thermoanaerobacter, Carboxydothermus, etc. Members are nearly all predicted lipoproteins and belong to probable transport operons, some of which have been characterized as crucial to germination in response to alanine. Members typically have been gene symbols gerKC, gerAC, gerYC, etc.
Probab=30.87 E-value=1.2e+02 Score=26.64 Aligned_cols=10 Identities=50% Similarity=0.972 Sum_probs=8.0
Q ss_pred hccceeccCC
Q 029845 174 FGLGLHLYHE 183 (186)
Q Consensus 174 FGLGlYLY~e 183 (186)
||+|+|+|..
T Consensus 326 ~g~g~~~~~~ 335 (371)
T TIGR02887 326 LGLGDELYRK 335 (371)
T ss_pred chhHHHHHHh
Confidence 8999998653
No 31
>PF14534 DUF4440: Domain of unknown function (DUF4440); PDB: 3HX8_A 3SOY_A 3ROB_B 3GZR_A 3B7C_A 3CU3_A 3FSD_A 2R4I_C 1TP6_A.
Probab=28.88 E-value=1.8e+02 Score=19.38 Aligned_cols=30 Identities=20% Similarity=0.019 Sum_probs=21.3
Q ss_pred cccceeeEEEeeCCCEEEEEEEEEEEecCc
Q 029845 109 WSGEVRNITYSADGKTVSVVYRVTIYGTDA 138 (186)
Q Consensus 109 W~~EVr~V~ys~~G~~VtV~~RLTI~G~Dg 138 (186)
+..++.++.+...|+.+.|.++.++.+..+
T Consensus 55 ~~~~~~~~~v~~~gd~a~~~~~~~~~~~~~ 84 (107)
T PF14534_consen 55 SSIKFEDVEVRVLGDTAVVRGRWTFTWRGD 84 (107)
T ss_dssp EEEEEEEEEEEEETTEEEEEEEEEEEETTT
T ss_pred ceEEEEEEEEEEECCEEEEEEEEEEEEecC
Confidence 444455555566688999999999988643
No 32
>PF02741 FTR_C: FTR, proximal lobe; InterPro: IPR002770 Formylmethanofuran:tetrahyromethanopterin formyltransferase (Ftr) is involved in C1 metabolism in methanogenic archaea, sulphate-reducing archaea and methylotrophic bacteria. It catalyses the following reversible reaction: N-formylmethanofuran + 5,6,7,8-tetrahydromethanopterin = methanofuran + 5-formyl-5,6,7,8-tetrahydromethanopterin Ftr from the thermophilic methanogen Methanopyrus kandleri (optimum growth temperature 98 degrees C) is a hyperthermophilic enzyme that is absolutely dependent on the presence of lyotropic salts for activity and thermostability. The crystal structure of Ftr, determined to a reveals a homotetramer composed essentially of two dimers. Each subunit is subdivided into two tightly associated lobes both consisting of a predominantly antiparallel beta sheet flanked by alpha helices forming an alpha/beta sandwich structure. The approximate location of the active site was detected in a region close to the dimer interface []. Ftr from the mesophilic methanogen Methanosarcina barkeri and the sulphate-reducing archaeon Archaeoglobus fulgidus have a similar structure []. In the methylotrophic bacterium Methylobacterium extorquens, Ftr interacts with three other polypeptides to form an Ftr/cyclohydrolase complex which catalyses the hydrolysis of formyl-tetrahydromethanopterin to formate during growth on C1 substrates [].; GO: 0016740 transferase activity, 0006730 one-carbon metabolic process; PDB: 1M5S_B 1M5H_E 1FTR_C 2FHJ_B 2FHK_D.
Probab=28.62 E-value=42 Score=28.25 Aligned_cols=76 Identities=25% Similarity=0.444 Sum_probs=45.9
Q ss_pred CCCCCCcccccccCCcccccchhHHHHhhhhhcCCccccce--eeEEEeeCCCEEEEEEEEEEEecCceeEeeccccccc
Q 029845 73 KNVPNSLIKIRVEDGFSMKYIPWHIVNRIMNLHAPEWSGEV--RNITYSADGKTVSVVYRVTIYGTDAEIFRESTGTALV 150 (186)
Q Consensus 73 kPfP~~~Ik~R~~~g~~l~yIpW~~vnR~L~~~aPgW~~EV--r~V~ys~~G~~VtV~~RLTI~G~DgeitREatGta~~ 150 (186)
-|||--+++.=+|-|.+-++++.- -.+.|||---+.+ ..+ |.| |-.++.+-|.|.
T Consensus 50 ~PFPGGIvrSGSKvgskYk~l~AS----TN~~yCPTLr~~~~~S~l---p~~--v~~V~EIVIdGl-------------- 106 (150)
T PF02741_consen 50 TPFPGGIVRSGSKVGSKYKFLKAS----TNDAYCPTLRGKVEDSEL---PEG--VNAVYEIVIDGL-------------- 106 (150)
T ss_dssp --SGGGEBSS-EEES-S-TT-SEE----E-GGG-GGGGCCCTT-S-----TT----EEEEEEEEES--------------
T ss_pred ecCCCCeeccCCccccccCCCcCc----cCcCcCcccccccccccC---CCC--CCeEEEEEEcCC--------------
Confidence 489999998776656554444442 2467899776655 223 555 889999999993
Q ss_pred CCCCCCchHHHHHHHHHHHHHHHhc
Q 029845 151 DEQGYGDAVQKAEAMAFRRACARFG 175 (186)
Q Consensus 151 ~d~~~gDpv~aAes~AFrRACArFG 175 (186)
+ .+.|++|...+++-||..=|
T Consensus 107 ~----~~av~~Amr~Gi~Aa~~~~G 127 (150)
T PF02741_consen 107 S----EEAVAEAMRAGIEAACAVPG 127 (150)
T ss_dssp S----HHHHHHHHHHHHHHHTTSTT
T ss_pred C----HHHHHHHHHHHHHHHhcCCC
Confidence 2 23688898889998986655
No 33
>PF02042 RWP-RK: RWP-RK domain; InterPro: IPR003035 This domain is named RWP-RK after a conserved motif at the C terminus of the domain. The domain is found in algal minus dominance proteins as well as plant proteins involved in nitrogen-controlled development [].
Probab=26.45 E-value=43 Score=23.36 Aligned_cols=18 Identities=28% Similarity=0.691 Sum_probs=15.1
Q ss_pred HHHHHHHHHhccceeccC
Q 029845 165 MAFRRACARFGLGLHLYH 182 (186)
Q Consensus 165 ~AFrRACArFGLGlYLY~ 182 (186)
-.|||.|-++|+.|.=|.
T Consensus 30 T~LKr~CR~~GI~RWP~R 47 (52)
T PF02042_consen 30 TTLKRRCRRLGIPRWPYR 47 (52)
T ss_pred HHHHHHHHHcCCCCCCch
Confidence 479999999999887664
No 34
>PF02171 Piwi: Piwi domain; InterPro: IPR003165 This domain is found in the stem cell self-renewal protein Piwi and its relatives in Drosophila melanogaster []. It has been found in the C-terminal of a number of proteins which also contain the PAZ domain (IPR003100 from INTERPRO) in their central region, for example the Argonaute proteins. Several of these proteins have been implicated in the development and maintenance of stem cells through the RNA-mediated gene-quelling mechanisms associated with the protein DICER. ; GO: 0005515 protein binding; PDB: 4F1N_B 3LUH_B 4EI1_A 3QX8_A 3LUC_C 3LUJ_B 3LUD_B 3QX9_A 3LUG_B 3LUK_B ....
Probab=26.42 E-value=73 Score=26.99 Aligned_cols=19 Identities=26% Similarity=0.300 Sum_probs=16.7
Q ss_pred hHHHHHHHHHHHHHHHhcc
Q 029845 158 AVQKAEAMAFRRACARFGL 176 (186)
Q Consensus 158 pv~aAes~AFrRACArFGL 176 (186)
.+..-|-.++++||.+++-
T Consensus 165 ~v~~~Ei~~i~~a~~~~~~ 183 (302)
T PF02171_consen 165 KVLEEEIEAIKEAIKELGE 183 (302)
T ss_dssp HHHHHHHHHHHHHHHHHTH
T ss_pred ccHHHHHHHHHHHHhhccc
Confidence 5888899999999999873
No 35
>COG1036 Archaeal flavoproteins [Energy production and conversion]
Probab=25.59 E-value=78 Score=27.52 Aligned_cols=95 Identities=20% Similarity=0.191 Sum_probs=59.1
Q ss_pred HHHHHHHHcCCCCCCcccccc-cCCcccccchhHHHHhhhhhcCCccccceeeEEEeeCCCEEEEEEEEEEEecCceeEe
Q 029845 64 LSEILKELNKNVPNSLIKIRV-EDGFSMKYIPWHIVNRIMNLHAPEWSGEVRNITYSADGKTVSVVYRVTIYGTDAEIFR 142 (186)
Q Consensus 64 LsEIL~~L~kPfP~~~Ik~R~-~~g~~l~yIpW~~vnR~L~~~aPgW~~EVr~V~ys~~G~~VtV~~RLTI~G~DgeitR 142 (186)
--+|+++|.+.+|+..|..=. +.| -..+-||.+-+-|.-.+|+-. + .+ +-.+....+|+-+-==|--+.-
T Consensus 25 t~~imk~lk~~~~~~~v~v~lSkag--eeVvk~YgL~~~l~~~~~~~~--~-e~----~ansPfi~GrlqlGkYD~llva 95 (187)
T COG1036 25 TYQIMKELKKEYGDVEVDVFLSKAG--EEVVKMYGLWDKLEKIFGGLE--V-EI----GANSPFIAGRLQLGKYDFLLVA 95 (187)
T ss_pred HHHHHHHHHhhcCCceEEEeehhhH--HHHHHHHHHHHHHHHHcCCeE--e-ec----CCCCCceecceecccccEEEEc
Confidence 357999999999996665422 222 257889998888887888721 1 12 2334567777766544444555
Q ss_pred ecccccccCCCCCC--c-hHHHHHHHHHH
Q 029845 143 ESTGTALVDEQGYG--D-AVQKAEAMAFR 168 (186)
Q Consensus 143 EatGta~~~d~~~g--D-pv~aAes~AFr 168 (186)
.+|+.. ++.-.|| | =|++|.+||.|
T Consensus 96 PaTsNT-vAKIa~GIADtLVTNAVaqa~K 123 (187)
T COG1036 96 PATSNT-VAKIAYGIADTLVTNAVAQAGK 123 (187)
T ss_pred ccccch-HHHHHhhhHHHHHHHHHHHhcC
Confidence 666653 2222223 2 28899999865
No 36
>COG2055 Malate/L-lactate dehydrogenases [Energy production and conversion]
Probab=25.23 E-value=1e+02 Score=28.97 Aligned_cols=39 Identities=21% Similarity=0.378 Sum_probs=23.7
Q ss_pred EeecccccccC-CCCCCchHHHHHHHHHHHHHHHhcccee
Q 029845 141 FRESTGTALVD-EQGYGDAVQKAEAMAFRRACARFGLGLH 179 (186)
Q Consensus 141 tREatGta~~~-d~~~gDpv~aAes~AFrRACArFGLGlY 179 (186)
.|++..++.+| |.++|.++......-.-+-|.+||||.-
T Consensus 73 ~~~~~a~~~iDa~~g~G~~a~~~am~~aie~Ak~~Gia~v 112 (349)
T COG2055 73 VREAPAVAVLDADGGFGQVAAKKAMELAIEKAKQHGIAAV 112 (349)
T ss_pred EeecCcEEEEeCCCCcchHHHHHHHHHHHHHHHHhCeeEE
Confidence 33444444333 6678877655555555556789999963
No 37
>PTZ00296 choline kinase; Provisional
Probab=24.04 E-value=3.3e+02 Score=25.60 Aligned_cols=101 Identities=14% Similarity=0.225 Sum_probs=55.5
Q ss_pred cCCCCCCccccccc----CCcccccchhHHHHhhhhhcCCcccc----ceeeEEEeeCCCEEEEEEEEEEEec-------
Q 029845 72 NKNVPNSLIKIRVE----DGFSMKYIPWHIVNRIMNLHAPEWSG----EVRNITYSADGKTVSVVYRVTIYGT------- 136 (186)
Q Consensus 72 ~kPfP~~~Ik~R~~----~g~~l~yIpW~~vnR~L~~~aPgW~~----EVr~V~ys~~G~~VtV~~RLTI~G~------- 136 (186)
..|||+.+|...-+ +..=+.-+.=..+.+++.-+.|+|.. +| .|.--.+|=|- ..+++|+.+.
T Consensus 59 ~~~~~~~e~~~~~~l~~~~~~~~~~~~~~~~~~i~~~~vp~W~~~~~~~I-~i~~l~gGlTN-~~f~v~~~~~~~~~~~~ 136 (442)
T PTZ00296 59 KNPFPLHEINKKNDIPLCAQEFSDLTDPLYIKKICLEKVPEWRRFTEDDV-RVNQILSGLTN-QLFEVSLKEETANNYPS 136 (442)
T ss_pred cCCCCceeccchhhhhHHHHhhcccCChHHHHHHHHHHCCccccCCcccE-EEEEecCcccC-ceEEEEecCCCCccccC
Confidence 66777765555431 11112334445577889889999974 44 33222245333 4566776532
Q ss_pred --CceeEe-ecccccccCCCCCCchHHHHHHHHHHHHHHHhccceeccC
Q 029845 137 --DAEIFR-ESTGTALVDEQGYGDAVQKAEAMAFRRACARFGLGLHLYH 182 (186)
Q Consensus 137 --DgeitR-EatGta~~~d~~~gDpv~aAes~AFrRACArFGLGlYLY~ 182 (186)
..=+.| -+.||..+- | -..|..+|+.++ +.|||--||.
T Consensus 137 ~~~~~lvRiyG~~te~lI-----d--R~~E~~v~~~ls-~~gi~P~l~~ 177 (442)
T PTZ00296 137 IRRRVLFRIYGKDVDELY-----N--PISEFEVYKTMS-KYRIAPQLLN 177 (442)
T ss_pred cCceEEEEecCCCcccee-----C--HHHHHHHHHHHH-HCCCCCceEE
Confidence 122345 333443222 2 245777777665 5799987775
No 38
>PF04404 ERF: ERF superfamily; InterPro: IPR007499 The DNA single-strand annealing proteins (SSAPs), such as RecT, Red-beta, ERF and Rad52, function in RecA-dependent and RecA-independent DNA recombination pathways. This family includes proteins related to ERF [].
Probab=23.77 E-value=3.6e+02 Score=21.11 Aligned_cols=54 Identities=26% Similarity=0.158 Sum_probs=28.2
Q ss_pred EEEEEEEEEEecCc-eeEeecccccccCCCC-CCc---hHHHHHHHHHHHH-HHHhccce
Q 029845 125 VSVVYRVTIYGTDA-EIFRESTGTALVDEQG-YGD---AVQKAEAMAFRRA-CARFGLGL 178 (186)
Q Consensus 125 VtV~~RLTI~G~Dg-eitREatGta~~~d~~-~gD---pv~aAes~AFrRA-CArFGLGl 178 (186)
..|..+.||...+| +.+-+..+.+...... -.| .+-+|.+-|-|=+ |+-|||.-
T Consensus 62 ~~~~v~~~l~~~~g~~e~~~~~~~~~~~~~k~~~~~~Q~~Gsa~TYArRY~l~~~f~I~~ 121 (160)
T PF04404_consen 62 GIVKVTTTLTHASGPSEWIEFPGPADENGSKNQMDDPQATGSAITYARRYALSAAFGIAT 121 (160)
T ss_pred ceEEEEEEEEECCCCcEEEEEEEEeecccccccCcHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 55666667777888 2233333333211110 011 2456777777654 67788764
No 39
>PF06863 DUF1254: Protein of unknown function (DUF1254); InterPro: IPR010679 This entry represents an immunoglobulin-like beta-sandwich domain found in a group of hypothetical proteins of unknown function.; PDB: 3VB9_D 2P3Y_A 3U07_A.
Probab=23.48 E-value=84 Score=24.24 Aligned_cols=31 Identities=23% Similarity=0.368 Sum_probs=22.0
Q ss_pred hcCCccccceeeEEEeeCCCEEEEEEEEEEEe
Q 029845 104 LHAPEWSGEVRNITYSADGKTVSVVYRVTIYG 135 (186)
Q Consensus 104 ~~aPgW~~EVr~V~ys~~G~~VtV~~RLTI~G 135 (186)
++.|+|.|+... .+...++.+.+..|+-+.|
T Consensus 80 i~~p~~~g~~~v-vv~s~t~~~~~~~R~~~~~ 110 (128)
T PF06863_consen 80 IVGPGWDGEDYV-VVRSPTDYVWLLGRTLVNG 110 (128)
T ss_dssp EEETTGGCTTCE-EEEESCSEEEEEEEEES-S
T ss_pred EECCCCcCccce-eeecCCCEEEEEEEeecCC
Confidence 578899887744 3445677899999987743
No 40
>cd01693 mtEFG2_like_IV mtEF-G2 domain IV. This subfamily is a part the of mitochondrial transcriptional elongation factor, mtEF-G2. Mitochondrial translation is crucial for maintaining mitochondrial function and mutations in this system lead to a breakdown in the respiratory chain-oxidative phosphorylation system and to impaired maintenance of mitochondrial DNA. In complex with GTP, EF-G promotes the translocation step of translation. During translocation the peptidyl-tRNA is moved from the A site to the P site of the small subunit of ribosome and the mRNA is shifted one codon relative to the ribosome.
Probab=23.40 E-value=2e+02 Score=21.37 Aligned_cols=19 Identities=11% Similarity=0.216 Sum_probs=14.1
Q ss_pred chHHHHHHHHHHHHHHHhc
Q 029845 157 DAVQKAEAMAFRRACARFG 175 (186)
Q Consensus 157 Dpv~aAes~AFrRACArFG 175 (186)
+...+|..+||+.|+.+-|
T Consensus 102 ~~~~~Aa~~a~~~al~~a~ 120 (120)
T cd01693 102 TMISACASQCVQKALKSAG 120 (120)
T ss_pred HHHHHHHHHHHHHHHHhcc
Confidence 3455778899999987643
No 41
>PRK06074 NADH dehydrogenase subunit C; Provisional
Probab=23.13 E-value=1.7e+02 Score=24.45 Aligned_cols=38 Identities=21% Similarity=0.326 Sum_probs=26.5
Q ss_pred HHHHHHHHcCCCCCCcccccccCCcccccchhHHHHhh
Q 029845 64 LSEILKELNKNVPNSLIKIRVEDGFSMKYIPWHIVNRI 101 (186)
Q Consensus 64 LsEIL~~L~kPfP~~~Ik~R~~~g~~l~yIpW~~vnR~ 101 (186)
+.+|++.|.+.||+.+.+.+.+.+...-.|+-..+..+
T Consensus 4 ~~~~~~~l~~~f~~~~~~~~~~~~~~~~~v~~~~l~~v 41 (189)
T PRK06074 4 LEELVAKLLEKLPDAIGKVTVAFGELTLKVPAEKILEV 41 (189)
T ss_pred HHHHHHHHHHHccccEEEEEEeCCeEEEEEcHHHHHHH
Confidence 57899999999999998886544544445555443333
No 42
>PLN03176 flavanone-3-hydroxylase; Provisional
Probab=22.47 E-value=88 Score=24.20 Aligned_cols=26 Identities=15% Similarity=0.212 Sum_probs=18.9
Q ss_pred chHHHHHHHHHHHHHHHhccceeccC
Q 029845 157 DAVQKAEAMAFRRACARFGLGLHLYH 182 (186)
Q Consensus 157 Dpv~aAes~AFrRACArFGLGlYLY~ 182 (186)
|+...+....+++||.+.|+=.--.|
T Consensus 50 ~~~~~~~~~~L~~A~~~~GFf~l~nh 75 (120)
T PLN03176 50 GEKRAEICNKIVEACEEWGVFQIVDH 75 (120)
T ss_pred chHHHHHHHHHHHHHHHCCEEEEECC
Confidence 45556678999999999997444333
No 43
>PF14356 DUF4403: Domain of unknown function (DUF4403)
Probab=22.27 E-value=3.2e+02 Score=25.25 Aligned_cols=50 Identities=20% Similarity=0.436 Sum_probs=33.1
Q ss_pred ccchhHHHHhhhhhcCC--ccc--c----ceeeEEEeeCCCEEEEEEEEEEEecCceeE
Q 029845 91 KYIPWHIVNRIMNLHAP--EWS--G----EVRNITYSADGKTVSVVYRVTIYGTDAEIF 141 (186)
Q Consensus 91 ~yIpW~~vnR~L~~~aP--gW~--~----EVr~V~ys~~G~~VtV~~RLTI~G~Dgeit 141 (186)
..||+..+|++|+-.-= .+. + .|.+|..-+.|+++.|..+++-. .+|++|
T Consensus 257 ~~i~y~~i~~~l~~~l~gk~f~~~~~~~v~v~~v~v~g~~~rl~i~~~~~g~-~~G~i~ 314 (427)
T PF14356_consen 257 ADIPYAEINKLLTKQLAGKTFSFSGGKKVTVKSVSVYGSGDRLVIALDVTGS-LNGTIY 314 (427)
T ss_pred EEcCHHHHHHHHHHHHcCCccccCCCceEEEEEEEEEecCCcEEEEEEEEEE-EEEEEE
Confidence 47899999999875443 355 1 45666655677777777666655 455554
No 44
>PF11470 TUG-UBL1: GLUT4 regulating protein TUG; InterPro: IPR021569 TUG is a GLUT4 regulating protein and functions to retain membrane vesicles containing GLUT4 intracellularly. TUG releases the GLUT4 containing vesicles to the cellular exocytic machinery in response to insulin stimulation which allows translocation to the plasma membrane []. TUG has an N-terminal ubiquitin-like domain (UBL1) which in similar proteins appears to participate in protein-protein interactions []. The region does have a area of negative electrostatic potential and increased backbone motility which leads to suggestions of a potential protein-protein interaction site []. ; PDB: 2AL3_A.
Probab=22.09 E-value=67 Score=22.96 Aligned_cols=15 Identities=33% Similarity=0.727 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHhccc
Q 029845 163 EAMAFRRACARFGLG 177 (186)
Q Consensus 163 es~AFrRACArFGLG 177 (186)
..+-+..||.+|||-
T Consensus 19 l~~VL~eac~k~~l~ 33 (65)
T PF11470_consen 19 LNQVLEEACKKFGLD 33 (65)
T ss_dssp HHHHHHHHHHHTT--
T ss_pred HHHHHHHHHHHcCCC
Confidence 356788899999984
No 45
>TIGR03000 plancto_dom_1 Planctomycetes uncharacterized domain TIGR03000. Domains described by this model are found, so far, only in the Planctomycetes (Pirellula sp. strain 1 and Gemmata obscuriglobus), in up to six proteins per genome, and may be duplicated within a protein. The function is unknown.
Probab=21.93 E-value=1.4e+02 Score=22.36 Aligned_cols=30 Identities=23% Similarity=0.377 Sum_probs=23.8
Q ss_pred ccccceeeEEEeeCCCEEEEEEEEEEEecCc
Q 029845 108 EWSGEVRNITYSADGKTVSVVYRVTIYGTDA 138 (186)
Q Consensus 108 gW~~EVr~V~ys~~G~~VtV~~RLTI~G~Dg 138 (186)
.|.++|+.- +-+||+.+++.=.|.+++.|-
T Consensus 41 ~y~Y~v~a~-~~~dG~~~t~~~~V~vrAGd~ 70 (75)
T TIGR03000 41 EYEYTVTAE-YDRDGRILTRTRTVVVRAGDT 70 (75)
T ss_pred EEEEEEEEE-EecCCcEEEEEEEEEEcCCce
Confidence 488888765 567999999999999988553
No 46
>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria.
Probab=21.72 E-value=1.9e+02 Score=27.35 Aligned_cols=54 Identities=19% Similarity=0.236 Sum_probs=32.7
Q ss_pred CCCCccHHHHHHHHcCCCCCCcccccccC-CcccccchhHHHHhhhhhcCC-cccccee
Q 029845 58 SGISRPLSEILKELNKNVPNSLIKIRVED-GFSMKYIPWHIVNRIMNLHAP-EWSGEVR 114 (186)
Q Consensus 58 s~itRPLsEIL~~L~kPfP~~~Ik~R~~~-g~~l~yIpW~~vnR~L~~~aP-gW~~EVr 114 (186)
-||-|||.+|.+..+-.|=++=|...+-| ...+.|.|-. +.=+.+.+ +|-|+|.
T Consensus 16 DGiqrpL~~i~~~~~~~fi~rg~~~~~ld~~~~w~f~p~~---k~gd~v~~gd~~g~v~ 71 (369)
T cd01134 16 DGIQRPLDKIAEITKGIFIPRGVNVPALDRDKKWDFKPLV---KVGDHVTGGDILGTVP 71 (369)
T ss_pred CcccCCHHHHHHhhcCCcccCCCCCCCCCCCCeeeeEecc---ccCCCccCCCEEEEEe
Confidence 38999999998876666655555554433 5666777742 33333333 3655553
No 47
>PF06183 DinI: DinI-like family; InterPro: IPR010391 This family of short proteins includes DNA-damage-inducible protein I (DinI) and related proteins. The SOS response, a set of cellular phenomena exhibited by eubacteria, is initiated by various causes that include DNA damage-induced replication arrest, and is positively regulated by the co- protease activity of RecA. Escherichia coli DinI, a LexA-regulated SOS gene product, shuts off the initiation of the SOS response when overexpressed in vivo. Biochemical and genetic studies indicated that DinI physically interacts with RecA to inhibit its co-protease activity []. The structure of DinI is known [].; PDB: 1GHH_A.
Probab=21.62 E-value=36 Score=24.34 Aligned_cols=21 Identities=29% Similarity=0.564 Sum_probs=16.9
Q ss_pred HHHHHHHHcCCCCCCcccccc
Q 029845 64 LSEILKELNKNVPNSLIKIRV 84 (186)
Q Consensus 64 LsEIL~~L~kPfP~~~Ik~R~ 84 (186)
.+|+.++|++.||+..|+.|.
T Consensus 10 ~~EL~kRl~~~yPd~~v~Vr~ 30 (65)
T PF06183_consen 10 ESELTKRLHRQYPDAEVRVRP 30 (65)
T ss_dssp HHHHHHHHHHH-SS-EEEEEE
T ss_pred HHHHHHHHHHHCCCceEeeee
Confidence 479999999999999998886
No 48
>COG2353 Uncharacterized conserved protein [Function unknown]
Probab=20.99 E-value=1.7e+02 Score=24.64 Aligned_cols=36 Identities=17% Similarity=0.161 Sum_probs=24.3
Q ss_pred CccccceeeEEEeeCCCEEEEEEEEEEEecCceeEee
Q 029845 107 PEWSGEVRNITYSADGKTVSVVYRVTIYGTDAEIFRE 143 (186)
Q Consensus 107 PgW~~EVr~V~ys~~G~~VtV~~RLTI~G~DgeitRE 143 (186)
|.=.++..+|... ++..+.|.+.|||+|...+++-+
T Consensus 101 P~itF~st~v~~~-g~~~~~v~G~LTi~GvTkpvtl~ 136 (192)
T COG2353 101 PTITFTSTKVEKT-GDDTGKVTGNLTIRGVTKPVTLD 136 (192)
T ss_pred CeEEEEEEEEEEC-CCCccEEEeEEEEeeeccceEEE
Confidence 4445555666543 45567899999999977766543
No 49
>PF05309 TraE: TraE protein; InterPro: IPR007973 This family consists of several bacterial sex pilus assembly and synthesis proteins (TraE). Conjugal transfer of plasmids from donor to recipient cells is a complex process in which a cell-to-cell contact plays a key role. Many genes encoded by self-transmissible plasmids are required for various processes of conjugation, including pilus formation, stabilisation of mating pairs, conjugative DNA metabolism, surface exclusion and regulation of transfer gene expression []. The exact function of the TraE protein is unknown.; GO: 0000746 conjugation
Probab=20.58 E-value=2e+02 Score=23.40 Aligned_cols=32 Identities=19% Similarity=0.143 Sum_probs=24.0
Q ss_pred ceeeEEEeeCCCEEEEEEEEEEEecCceeEee
Q 029845 112 EVRNITYSADGKTVSVVYRVTIYGTDAEIFRE 143 (186)
Q Consensus 112 EVr~V~ys~~G~~VtV~~RLTI~G~DgeitRE 143 (186)
.+..|.+.|...+|.|.|.+.-...++.+..+
T Consensus 129 ~~~~i~~d~~~~~V~V~G~l~t~~g~~~~~~~ 160 (187)
T PF05309_consen 129 YPKSIEVDPETLTVFVTGTLKTWIGDKKVSSE 160 (187)
T ss_pred EEeEEEEecCCCEEEEEEEEEEEECCccccce
Confidence 34677787888889999998888777766443
No 50
>PF09910 DUF2139: Uncharacterized protein conserved in archaea (DUF2139); InterPro: IPR016675 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=20.44 E-value=66 Score=30.22 Aligned_cols=23 Identities=30% Similarity=0.735 Sum_probs=18.2
Q ss_pred hhcCC-ccccceeeEEEeeCCCEE
Q 029845 103 NLHAP-EWSGEVRNITYSADGKTV 125 (186)
Q Consensus 103 ~~~aP-gW~~EVr~V~ys~~G~~V 125 (186)
+.+-| .|.|||.+|.|-|-.+++
T Consensus 97 sih~~~~WaGEVSdIlYdP~~D~L 120 (339)
T PF09910_consen 97 SIHDKTKWAGEVSDILYDPYEDRL 120 (339)
T ss_pred ccCCccccccchhheeeCCCcCEE
Confidence 34456 699999999999977754
No 51
>PRK00102 rnc ribonuclease III; Reviewed
Probab=20.39 E-value=3.8e+02 Score=21.90 Aligned_cols=38 Identities=26% Similarity=0.359 Sum_probs=24.8
Q ss_pred EEEEEEEEEEecCceeEeecccccccCCCCCCchHHHHHHHHHHHHHHHhc
Q 029845 125 VSVVYRVTIYGTDAEIFRESTGTALVDEQGYGDAVQKAEAMAFRRACARFG 175 (186)
Q Consensus 125 VtV~~RLTI~G~DgeitREatGta~~~d~~~gDpv~aAes~AFrRACArFG 175 (186)
...+|+|.|.| +++-++. |.-.+.|+.+|-++|+.++.
T Consensus 190 ~~f~~~v~i~~---~~~~~g~----------g~skk~Ae~~AA~~Al~~l~ 227 (229)
T PRK00102 190 KEFTVEVTVNG---KELGEGT----------GSSKKEAEQAAAKQALKKLK 227 (229)
T ss_pred ceEEEEEEECC---EEEEEee----------eCCHHHHHHHHHHHHHHHHh
Confidence 34667777754 3433332 33488999999999988763
No 52
>PRK00341 hypothetical protein; Provisional
Probab=20.36 E-value=1.3e+02 Score=22.56 Aligned_cols=38 Identities=21% Similarity=0.164 Sum_probs=25.5
Q ss_pred HHhhhhhcCCccccceeeEEEeeCCCEEEEEEEEEEEec
Q 029845 98 VNRIMNLHAPEWSGEVRNITYSADGKTVSVVYRVTIYGT 136 (186)
Q Consensus 98 vnR~L~~~aPgW~~EVr~V~ys~~G~~VtV~~RLTI~G~ 136 (186)
+-.++.-++| -..+-..+.-|.+|++++|.+++++...
T Consensus 34 V~~iv~~~~~-~~~~~~~~k~Ss~GkY~S~tv~i~~~s~ 71 (91)
T PRK00341 34 VIEILQKHAD-VDLSTLAERQSSNGKYTTVQLHIVATDE 71 (91)
T ss_pred HHHHHHHhCC-CcccceeeccCCCCEEEEEEEEEEECCH
Confidence 4566666664 2233334466789999999999988764
Done!