Query 039512
Match_columns 154
No_of_seqs 143 out of 669
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 10:25:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039512.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039512hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG2947 Uncharacterized conser 100.0 2.1E-67 4.5E-72 408.1 7.6 135 5-140 2-152 (156)
2 KOG3383 Uncharacterized conser 100.0 3.2E-59 6.8E-64 367.1 11.8 152 1-152 3-184 (187)
3 PF01878 EVE: EVE domain; Int 100.0 1.7E-47 3.7E-52 291.2 9.7 131 6-137 1-143 (143)
4 PRK00809 hypothetical protein; 100.0 6.7E-30 1.4E-34 198.3 10.5 121 5-136 1-143 (144)
5 PRK02268 hypothetical protein; 99.0 2.5E-09 5.5E-14 83.3 8.6 123 4-138 1-136 (141)
6 COG1673 Uncharacterized protei 97.1 0.00046 9.9E-09 54.6 3.4 127 3-138 4-150 (151)
7 COG4933 Uncharacterized conser 96.2 0.0058 1.3E-07 46.9 3.7 80 29-109 10-113 (124)
8 PRK12279 50S ribosomal protein 93.9 0.18 3.9E-06 44.2 6.4 58 47-105 220-299 (311)
9 PF04146 YTH: YT521-B-like dom 89.7 1.6 3.4E-05 33.5 6.6 96 5-107 2-106 (140)
10 PF10539 Dev_Cell_Death: Devel 80.6 19 0.00042 27.9 8.7 90 41-137 30-129 (130)
11 COG4127 Uncharacterized conser 78.9 1.4 3E-05 38.5 2.1 66 34-106 59-128 (318)
12 PF04033 DUF365: Domain of unk 78.1 10 0.00022 28.0 6.1 52 51-103 2-86 (97)
13 PF12162 STAT1_TAZ2bind: STAT1 76.8 2.3 5E-05 23.8 1.9 17 122-138 6-22 (23)
14 COG2028 Uncharacterized conser 72.3 9.5 0.00021 29.7 4.9 76 46-136 35-143 (145)
15 TIGR02219 phage_NlpC_fam putat 72.3 5.4 0.00012 30.1 3.6 24 45-68 76-99 (134)
16 COG1935 Uncharacterized conser 69.2 8.7 0.00019 29.5 4.1 47 19-69 14-67 (122)
17 smart00767 DCD DCD is a plant 68.7 42 0.00091 26.2 7.8 89 42-137 33-129 (132)
18 PF02362 B3: B3 DNA binding do 68.0 11 0.00024 25.9 4.2 27 40-67 66-96 (100)
19 cd06552 ASCH_yqfb_like ASC-1 h 66.7 11 0.00024 26.5 4.0 25 45-73 28-52 (100)
20 COG1862 YajC Preprotein transl 65.5 11 0.00023 27.8 3.8 30 40-75 38-67 (97)
21 PF04322 DUF473: Protein of un 63.0 7.3 0.00016 29.8 2.6 39 17-59 12-52 (119)
22 PRK10838 spr outer membrane li 60.2 7.8 0.00017 31.5 2.5 22 45-68 128-149 (190)
23 PRK13914 invasion associated s 57.1 8.2 0.00018 35.8 2.4 23 44-68 425-447 (481)
24 PF03120 DNA_ligase_OB: NAD-de 55.4 20 0.00044 25.5 3.7 33 33-68 38-72 (82)
25 PF00877 NLPC_P60: NlpC/P60 fa 50.5 12 0.00027 26.2 1.9 24 43-68 49-72 (105)
26 PF12080 GldM_C: GldM C-termin 49.1 16 0.00035 29.2 2.7 29 32-60 149-178 (181)
27 COG1465 Predicted alternative 48.3 19 0.00041 32.1 3.1 60 42-105 277-349 (376)
28 PF04266 ASCH: ASCH domain; I 46.8 14 0.00031 25.8 1.8 24 49-73 32-55 (105)
29 PRK06531 yajC preprotein trans 45.3 33 0.00072 25.8 3.6 28 40-73 31-58 (113)
30 TIGR00739 yajC preprotein tran 41.6 60 0.0013 22.9 4.3 28 40-73 32-59 (84)
31 PRK05886 yajC preprotein trans 38.3 63 0.0014 24.2 4.2 28 40-73 33-60 (109)
32 cd04496 SSB_OBF SSB_OBF: A sub 37.4 34 0.00074 23.2 2.5 17 38-54 54-70 (100)
33 cd01234 PH_CADPS CADPS (Ca2+-d 35.3 26 0.00056 26.7 1.7 47 10-57 42-94 (117)
34 PRK05585 yajC preprotein trans 34.2 77 0.0017 23.4 4.1 28 40-73 47-74 (106)
35 PF11132 SplA: Transcriptional 33.5 37 0.0008 24.1 2.1 29 44-75 4-32 (75)
36 TIGR02594 conserved hypothetic 33.2 43 0.00094 25.3 2.7 22 45-69 73-94 (129)
37 COG2411 Uncharacterized conser 33.1 74 0.0016 26.2 4.1 51 45-99 34-114 (188)
38 PRK05461 apaG CO2+/MG2+ efflux 32.4 35 0.00075 26.1 2.0 25 46-71 76-104 (127)
39 COG0791 Spr Cell wall-associat 31.8 54 0.0012 25.6 3.1 23 45-67 138-160 (197)
40 PF06200 tify: tify domain; I 29.4 59 0.0013 19.8 2.3 31 109-139 4-35 (36)
41 PRK12390 1-aminocyclopropane-1 29.2 45 0.00098 28.5 2.4 31 35-66 297-330 (337)
42 PRK11470 hypothetical protein; 29.1 26 0.00057 28.8 0.9 84 45-138 8-97 (200)
43 COG3011 Predicted thiol-disulf 29.1 31 0.00067 27.0 1.2 99 43-145 2-122 (137)
44 COG4043 Preprotein translocase 28.2 36 0.00077 25.7 1.4 14 43-56 31-44 (111)
45 PF13509 S1_2: S1 domain; PDB: 27.7 87 0.0019 20.4 3.1 23 44-68 36-60 (61)
46 PRK09778 putative antitoxin of 26.6 90 0.002 23.2 3.3 42 97-138 8-53 (97)
47 TIGR03784 marine_sortase sorta 26.0 99 0.0021 24.6 3.7 47 28-79 92-138 (174)
48 TIGR00451 unchar_dom_2 unchara 26.0 80 0.0017 22.6 2.9 28 45-72 60-87 (107)
49 PF05017 TMP: TMP repeat; Int 25.8 19 0.00042 16.4 -0.3 7 31-37 1-7 (11)
50 COG3050 HolD DNA polymerase II 25.4 51 0.0011 25.7 1.8 40 3-44 82-122 (133)
51 PF06884 DUF1264: Protein of u 24.1 81 0.0017 25.6 2.8 24 51-74 41-64 (171)
52 TIGR03684 arCOG00985 arCOG0415 24.0 93 0.002 23.7 3.1 30 45-74 99-128 (150)
53 PRK15215 fimbriae biosynthesis 23.8 68 0.0015 23.9 2.2 24 116-139 21-44 (100)
54 PRK02290 3-dehydroquinate synt 23.5 1.1E+02 0.0024 27.3 3.9 48 26-74 230-278 (344)
55 PRK14560 putative RNA-binding 23.0 96 0.0021 24.0 3.0 30 45-74 106-135 (160)
56 PF14221 DUF4330: Domain of un 22.5 3.4E+02 0.0073 21.4 6.1 35 40-75 65-100 (168)
57 PF14164 YqzH: YqzH-like prote 22.4 66 0.0014 22.1 1.8 22 116-137 14-37 (64)
58 COG0272 Lig NAD-dependent DNA 21.6 88 0.0019 30.4 3.0 30 45-74 367-396 (667)
59 KOG2589 Histone tail methylase 21.4 71 0.0015 29.3 2.2 17 42-58 222-239 (453)
60 cd02107 YedY_like_Moco YedY_li 21.4 1.2E+02 0.0026 25.3 3.5 35 12-49 37-87 (218)
61 PF00656 Peptidase_C14: Caspas 21.4 93 0.002 24.3 2.7 20 40-59 56-75 (248)
62 PRK02854 primosomal protein Dn 21.4 1.2E+02 0.0025 24.9 3.2 43 97-139 9-58 (179)
63 cd00291 SirA_YedF_YeeD SirA, Y 21.3 1.3E+02 0.0027 19.2 2.9 20 39-58 16-35 (69)
64 PF04379 DUF525: Protein of un 21.2 48 0.001 23.8 0.9 22 46-68 59-80 (90)
65 COG4118 Phd Antitoxin of toxin 21.1 77 0.0017 22.5 2.0 28 42-69 17-44 (84)
66 COG0234 GroS Co-chaperonin Gro 20.5 58 0.0013 24.1 1.3 12 45-56 58-69 (96)
67 cd05830 Sortase_D_5 Sortase D 20.5 2.1E+02 0.0047 21.3 4.4 47 29-80 47-95 (137)
No 1
>COG2947 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=2.1e-67 Score=408.09 Aligned_cols=135 Identities=37% Similarity=0.585 Sum_probs=128.6
Q ss_pred ceeEEeecCCCceehhcchhcCCceeecccccHHHHHHHHhccCCCEEEEEEeCCCCCeEEEEEEEeeecccCCCC----
Q 039512 5 RQYWLLKTEPGEWSWEDQAANGGVTKWDGVKNKQAQKNMKAMRLNELCFFYHSGARSRRVVGVVSVLREWYEESGD---- 80 (154)
Q Consensus 5 m~YWLlKsEP~~fsiddl~~~~~~~~WdGVRNyqArn~lr~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~aypD~t~---- 80 (154)
++||||||||++|||++|++. +++.||||||||||||||+|++||++|||||||++|||||||+|++++|||+|+
T Consensus 2 ~~yWLmKSEP~~~s~~~l~~~-g~~~W~GVRNYqARNfmR~M~iGD~~fFYHSNc~~pgIvGl~~V~~~a~pD~tq~d~~ 80 (156)
T COG2947 2 AAYWLMKSEPDVFSIEMLKAV-GEEPWDGVRNYQARNFMRDMKIGDLGFFYHSNCKPPGIVGLAEVCALAHPDPTQFDPA 80 (156)
T ss_pred CceeeeecCcccccHHHHHHh-CcCcccchHHHHHHHHHHhcccCceEEEEecCCCCCCceehhhhhhccCCCccccCCC
Confidence 579999999999999999985 569999999999999999999999999999999999999999999999999995
Q ss_pred -----------CCCeeEEEEEEeeeeCCccChhhHhcCccccCceeccc-CCCcceecCHHHHHHHHHhcCC
Q 039512 81 -----------GAGAGAVDVKEVGMMRRAVDLKEMKRDQELKGWALFRQ-PRLSVVNVEKKVWDRVCDLGGG 140 (154)
Q Consensus 81 -----------~prw~~Vdv~~~~~l~~pv~L~~Lk~~p~L~~m~llr~-~RLSV~pVt~eew~~I~~l~~~ 140 (154)
+|||++|||+|+++|++||||++||+++++++|.|+++ +||||+|||++||.+|++|++.
T Consensus 81 spYyDPka~~e~pRW~~Vdv~~v~~~~~~vtL~~lK~~~~~~~~~~l~~g~RLSV~PVt~~ew~~i~~l~~~ 152 (156)
T COG2947 81 SPYYDPKATPEDPRWYCVDVRFVRKLPRPVTLKELKANPELAEMSLLVKGNRLSVQPVTPEEWKEILRLGGL 152 (156)
T ss_pred CcccCcccccCCCCeeEEeeHHHhhcCCCccHHHHhcCcchhhhhhhhccCeeeeeeCCHHHHHHHHHhhCC
Confidence 47899999999999999999999999999999997765 8999999999999999999963
No 2
>KOG3383 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=3.2e-59 Score=367.12 Aligned_cols=152 Identities=51% Similarity=0.994 Sum_probs=139.6
Q ss_pred CCCC-ceeEEeecCCC---------ceehhcchhcC-CceeecccccHHHHHHHHhccCCCEEEEEEeCCCCCeEEEEEE
Q 039512 1 MGKE-RQYWLLKTEPG---------EWSWEDQAANG-GVTKWDGVKNKQAQKNMKAMRLNELCFFYHSGARSRRVVGVVS 69 (154)
Q Consensus 1 m~~~-m~YWLlKsEP~---------~fsiddl~~~~-~~~~WdGVRNyqArn~lr~Mk~GD~~~fYHS~~~~~gIvGiae 69 (154)
|+++ .+||||||||+ .|||+||+..+ +++.||||||||||||||+||.||++||||||||.|+|+|+++
T Consensus 3 ed~~kr~yWLmKtEpe~r~~kginv~fs~edle~~~~k~~~WdGVrNyqArn~lr~mklGd~aFfYhSncK~p~i~Gl~~ 82 (187)
T KOG3383|consen 3 EDKTKRRYWLMKTEPEPRYVKGINVEFSWEDLESNGGKISKWDGVRNYQARNNLRSMKLGDLAFFYHSNCKSPCIVGLVE 82 (187)
T ss_pred CCcccceeEEEecCCCcccccccceeeehhhhhhcCCccccccchhhHHHHHHHHhhcccceeEEEecCCCCcceeeeee
Confidence 3454 45999999999 89999998854 4788999999999999999999999999999999999999999
Q ss_pred EeeecccCCCC---------------CCCeeEEEEEEeeeeCCccChhhHhcCc----cccCceecccCCCcceecCHHH
Q 039512 70 VLREWYEESGD---------------GAGAGAVDVKEVGMMRRAVDLKEMKRDQ----ELKGWALFRQPRLSVVNVEKKV 130 (154)
Q Consensus 70 Vv~~aypD~t~---------------~prw~~Vdv~~~~~l~~pv~L~~Lk~~p----~L~~m~llr~~RLSV~pVt~ee 130 (154)
|++++|||.++ +|||.+|||+++..+.++|+|+|||.|. .|++|.||+++||||+||++++
T Consensus 83 i~~e~ypDd~~~~~ndp~ydp~st~qnprw~~VdVq~~~~m~r~v~L~ElK~hk~~g~~lK~mvLf~r~RLSi~pv~~ee 162 (187)
T KOG3383|consen 83 ISREWYPDDAEGVENDPYYDPESTPQNPRWGAVDVQAIGEMRRCVDLKELKMHKDKGIILKGMVLFRRPRLSIVPVEEEE 162 (187)
T ss_pred ehhccCCCccccccCCCCcCcccccCCCccceeeehhhhhhhccccHHHHhhccccCccccceEEeeccccceeecCHHH
Confidence 99999999883 6899999999999999999999999774 6899999999999999999999
Q ss_pred HHHHHHhcCCCCCCCCCCCCCC
Q 039512 131 WDRVCDLGGGFDGDGEKKDDEG 152 (154)
Q Consensus 131 w~~I~~l~~~~~~~~~~~~~~~ 152 (154)
|++|++|+.+.+++|.+|-...
T Consensus 163 w~fi~eL~~~~ep~~~~~~~~~ 184 (187)
T KOG3383|consen 163 WNFICELGNGFEPDGKEDCESS 184 (187)
T ss_pred HHHHHHhccCCCCccccccccc
Confidence 9999999999999998875433
No 3
>PF01878 EVE: EVE domain; InterPro: IPR002740 The EVE domain is part of the wider PUA domain superfamily. The function of this domain is not known but, given the structural similarities to PUA, is likely to involve RNA binding []. ; PDB: 2G2X_B 2AR1_A 3EOP_A 2EVE_A 2HD9_A 2ZBN_A 1WMM_A 2P5D_A 2GBS_A 1ZCE_A.
Probab=100.00 E-value=1.7e-47 Score=291.21 Aligned_cols=131 Identities=36% Similarity=0.657 Sum_probs=116.7
Q ss_pred eeEEeecCCCceehhcchhcCCceeecccccHHHHHHHHhccCCCEEEEEEeCCCCCeEEEEEEEeeecccCCCC-----
Q 039512 6 QYWLLKTEPGEWSWEDQAANGGVTKWDGVKNKQAQKNMKAMRLNELCFFYHSGARSRRVVGVVSVLREWYEESGD----- 80 (154)
Q Consensus 6 ~YWLlKsEP~~fsiddl~~~~~~~~WdGVRNyqArn~lr~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~aypD~t~----- 80 (154)
+|||+|+||+.|||+|+.. .+.+.|+|||||||+|+|+.||+||+||||||+|+.+||||+++|++++|+|+++
T Consensus 1 ~YWl~~~~P~~~~~~~~~~-~~~~~~~gv~~~~~~~~l~~mk~GD~vifY~s~~~~~~ivai~~V~~~~~~d~~~~~~~~ 79 (143)
T PF01878_consen 1 RYWLLKANPENFSIDDLEH-WGVTVWDGVRNYQARKNLKRMKPGDKVIFYHSGCKERGIVAIGEVVSEPYPDPTAFDPDS 79 (143)
T ss_dssp -EEEEEEBTTTSHHHHHHH-HSEEECHTEEEHHHHHHHHC--TT-EEEEEETSSSS-EEEEEEEEEEEEEE-GGGTSTTS
T ss_pred CEEEEEeCCcccCHHHhcc-cceEEEcCEeehhhhhhhhcCCCCCEEEEEEcCCCCCEEEEEEEEeccccCCCccccccc
Confidence 6999999999999999955 4689999999999999999999999999999999999999999999999999885
Q ss_pred -------CCCeeEEEEEEeeeeCCccChhhHhcCccccCceecccCCCcceecCHHHHHHHHHh
Q 039512 81 -------GAGAGAVDVKEVGMMRRAVDLKEMKRDQELKGWALFRQPRLSVVNVEKKVWDRVCDL 137 (154)
Q Consensus 81 -------~prw~~Vdv~~~~~l~~pv~L~~Lk~~p~L~~m~llr~~RLSV~pVt~eew~~I~~l 137 (154)
+|+|++|+|++++.|++||+|++||+++.|.+|.+++++|+|++|||++||++|++|
T Consensus 80 ~~~~~~~~~~~~~v~v~~~~~~~~pi~l~~Lk~~~~l~~l~~i~~~r~s~~~it~~~~~~I~~~ 143 (143)
T PF01878_consen 80 PYYDPKSNPKPYRVDVEYVKIFEKPIPLKELKAEPELENLSFIRNKRLSVFPITEEDFEAIMEM 143 (143)
T ss_dssp TTBTTTSCSSSEEEEEEEEEEEEEEEEHHHHHC-GGGTTSHHHHTTT-SEEEE-HHHHHHHHHH
T ss_pred cCcCCccCCCeeEEEEEEEEecCCCcCHHHHhcCCccccChhhhcCCcCeEEECHHHHHHHHhC
Confidence 468999999999999999999999999999999999999999999999999999987
No 4
>PRK00809 hypothetical protein; Provisional
Probab=99.96 E-value=6.7e-30 Score=198.30 Aligned_cols=121 Identities=20% Similarity=0.413 Sum_probs=102.3
Q ss_pred ceeEEeecCCCceehhcchhcCCceeecccccHHHHHHHHhccCCCEEEEEEeC-----CCCCeEEEEEEEeeecccCCC
Q 039512 5 RQYWLLKTEPGEWSWEDQAANGGVTKWDGVKNKQAQKNMKAMRLNELCFFYHSG-----ARSRRVVGVVSVLREWYEESG 79 (154)
Q Consensus 5 m~YWLlKsEP~~fsiddl~~~~~~~~WdGVRNyqArn~lr~Mk~GD~~~fYHS~-----~~~~gIvGiaeVv~~aypD~t 79 (154)
|+|||.-++.+.|-+- .+ .-.| ||. .-.||+||+||+||++|||||+ |+.++||||++|++++|||+|
T Consensus 1 ~~yWi~~~~~~~~~~~--~~---~gv~-g~~-~~~rn~lr~Mk~GD~v~fYhs~~~~~~~~~~~ivgi~eV~~~~y~D~t 73 (144)
T PRK00809 1 MTYWLCITNEDNWEVI--KD---KNVW-GVP-ERYKNTIEKVKPGDKLIIYVSQEYGAERLPGKIVGIYEVVSEWYEDST 73 (144)
T ss_pred CceEEEecCHHHHHHH--Hh---CCEe-ecc-hhhhhHHhhCCCCCEEEEEECCccCCCCCCceEEEEEEEecCcccCCc
Confidence 7899999977776433 22 2367 674 4468999999999999999999 889999999999999999999
Q ss_pred C----------CCCeeEEEEEEeeeeCCccChhhH-------hcCccccCceecccCCCcceecCHHHHHHHHH
Q 039512 80 D----------GAGAGAVDVKEVGMMRRAVDLKEM-------KRDQELKGWALFRQPRLSVVNVEKKVWDRVCD 136 (154)
Q Consensus 80 ~----------~prw~~Vdv~~~~~l~~pv~L~~L-------k~~p~L~~m~llr~~RLSV~pVt~eew~~I~~ 136 (154)
+ +++|++|||+|+.+|++||||++| |..+.+. +.|+|++| +||++++|+.|++
T Consensus 74 ~~~p~~~~~~~~~~p~rvdV~~~~~~~~~v~l~~L~~~L~fik~~~~w~-~~l~R~~~---~~I~~~d~~~I~~ 143 (144)
T PRK00809 74 PIFPAEPVRPKEIYPYRVKLKPVKIFEEPIDFKPLIPKLKFIENKKQWS-GHLRNRAM---RPIPEEDYKLIEE 143 (144)
T ss_pred cCCCccccCCCCCceEEEEEEEeeecCCcccHHHHHhhhhhhhcccccc-hhhhcCCC---ccCCHHHHHHHhc
Confidence 6 467999999999999999999999 5555555 66778888 9999999999975
No 5
>PRK02268 hypothetical protein; Provisional
Probab=98.98 E-value=2.5e-09 Score=83.32 Aligned_cols=123 Identities=11% Similarity=0.105 Sum_probs=90.5
Q ss_pred CceeEEeecCCCceehhcchhcCCceeecccccHHHHHHHHhccCCCEEEEEEeCC------CCCeEEEEEEEeee-ccc
Q 039512 4 ERQYWLLKTEPGEWSWEDQAANGGVTKWDGVKNKQAQKNMKAMRLNELCFFYHSGA------RSRRVVGVVSVLRE-WYE 76 (154)
Q Consensus 4 ~m~YWLlKsEP~~fsiddl~~~~~~~~WdGVRNyqArn~lr~Mk~GD~~~fYHS~~------~~~gIvGiaeVv~~-ayp 76 (154)
+|+|||.-++.+.+-+-- + ...| || |+--++.|+.||+||.++||.+-. +.++++||++|+++ +|.
T Consensus 1 m~~yWI~v~s~~hv~~g~--~---~gf~-qv-~hgK~apl~RmkpGD~ivyYsp~~~~~~~~~~qaftAig~V~~~~~Yq 73 (141)
T PRK02268 1 MMRYWIGVVSAEHVRRGV--E---GGFM-QV-CHGKAAPLRRMKPGDWIIYYSPKTTFGGKDKLQAFTAIGKVKDDEPYQ 73 (141)
T ss_pred CcceEEEEccHHHHHHHH--h---CCEE-Ee-CCCccchhhcCCCCCEEEEEeceEecCCCcccceEEEEEEEcCCceEe
Confidence 388999888776653331 1 2445 66 455577999999999999997321 46899999999998 776
Q ss_pred CCCCCCCe--eEEEEEEeeeeCCccChhhHhcCccccCceeccc----CCCcceecCHHHHHHHHHhc
Q 039512 77 ESGDGAGA--GAVDVKEVGMMRRAVDLKEMKRDQELKGWALFRQ----PRLSVVNVEKKVWDRVCDLG 138 (154)
Q Consensus 77 D~t~~prw--~~Vdv~~~~~l~~pv~L~~Lk~~p~L~~m~llr~----~RLSV~pVt~eew~~I~~l~ 138 (154)
-.- .+.+ ++++|++... .+++++.|. +.|+...--++ -|-.+++|++++|+.|.+..
T Consensus 74 ~~m-~~~f~P~Rr~v~~~~~--~e~pi~pLi--~~L~Fi~~k~~Wg~~fr~g~~eI~e~Df~~I~~am 136 (141)
T PRK02268 74 VEM-APGFIPWRRDVDYYPC--AETPIRPLL--DHLDFTEDRKNWGYQFRFGHFEISKHDFETIASAM 136 (141)
T ss_pred ccc-CCCceeEEEEeeEeec--CccchHHhh--cccceeeCcchhhHhhcCCcEecCHHHHHHHHHHh
Confidence 221 3334 8999999844 799999998 66666555443 26789999999999998754
No 6
>COG1673 Uncharacterized protein conserved in archaea [Function unknown]
Probab=97.11 E-value=0.00046 Score=54.59 Aligned_cols=127 Identities=18% Similarity=0.261 Sum_probs=87.3
Q ss_pred CCceeEEeecCCCceehhcchhcCCceeecccccHHHHHHHHhccCCCEEEEEEeCC-----CCCeEEEEEEEeeecccC
Q 039512 3 KERQYWLLKTEPGEWSWEDQAANGGVTKWDGVKNKQAQKNMKAMRLNELCFFYHSGA-----RSRRVVGVVSVLREWYEE 77 (154)
Q Consensus 3 ~~m~YWLlKsEP~~fsiddl~~~~~~~~WdGVRNyqArn~lr~Mk~GD~~~fYHS~~-----~~~gIvGiaeVv~~aypD 77 (154)
..|.|||.-++-|.|-+ .. ....| |+|- -..|...-.+.||+..+|.+.. .++-|||+.+|+++.|.|
T Consensus 4 ~l~~Yw~~~~~~D~~kv---~~--~k~i~-g~~~-k~~~v~~~ik~g~~~v~y~~~~~~~~~~~~~iv~v~ev~se~y~d 76 (151)
T COG1673 4 KLMEYWLCITGEDNWKV---RK--EKGIY-GVRE-KHENVEEKIKEGDRLVIYVRQRGEKERHEPKIVGVFEVGSEPYSD 76 (151)
T ss_pred cHHHHHhhhccCCccee---ec--cccee-ecCC-CCccHHHhhCccceeEEEeeecchhhccCccEEEEEEeecccccc
Confidence 45789997777443322 22 24678 8872 1245665699999999999753 367899999999999999
Q ss_pred CCC----CC------CeeEEEEEEeeeeCCccChhhHhcCccccCceeccc--CCC---cceecCHHHHHHHHHhc
Q 039512 78 SGD----GA------GAGAVDVKEVGMMRRAVDLKEMKRDQELKGWALFRQ--PRL---SVVNVEKKVWDRVCDLG 138 (154)
Q Consensus 78 ~t~----~p------rw~~Vdv~~~~~l~~pv~L~~Lk~~p~L~~m~llr~--~RL---SV~pVt~eew~~I~~l~ 138 (154)
.+. ++ -...|+++.+.-+..+|.++.++ +.++.+.--.+ +.| -..++.+++...|.+|.
T Consensus 77 s~r~f~~~~~~~~~~~~~r~k~~p~~i~e~~i~~k~~~--~~~~fi~~k~~~~~~l~~~~~r~~pe~d~~li~~l~ 150 (151)
T COG1673 77 SSRIFKIDPFRGDETFPYRVKIRPVKVGEVHIKFKPLI--DKLKFIHNKKKWSGHLMGKLMREIPEEDYKLIEELL 150 (151)
T ss_pred ccccccCCCCCCccccccccCcceEEEEecccCcchhh--hhHHHhHhhHHHHHHHHHHhcccCchhhHHHHHHhh
Confidence 885 11 14789999999999899888877 44444433222 222 35677777777776654
No 7
>COG4933 Uncharacterized conserved protein [Function unknown]
Probab=96.21 E-value=0.0058 Score=46.87 Aligned_cols=80 Identities=24% Similarity=0.322 Sum_probs=58.1
Q ss_pred eeecccccHHHHHHHH-hccCCCEEEEEEeCCCCCeEEEEEEEeeec----------ccCCCC-------------CCCe
Q 039512 29 TKWDGVKNKQAQKNMK-AMRLNELCFFYHSGARSRRVVGVVSVLREW----------YEESGD-------------GAGA 84 (154)
Q Consensus 29 ~~WdGVRNyqArn~lr-~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~a----------ypD~t~-------------~prw 84 (154)
..-||++||.-|...- ..-.|+.|++|.|+ +..+|||-..+-+.- |..+.. ..+-
T Consensus 10 ~Ifdg~K~velrR~~p~~~~~~~~~~VY~Ts-P~~aVvGef~~e~V~~~~~~siw~~~~~~~~i~~~~e~~~Y~~G~k~A 88 (124)
T COG4933 10 AIFDGVKKVELRRITPVPIVEESTVIVYATS-PVKAVVGEFTAERVEQVAIESIWRKAGKSGSIKIGAEYLEYFEGAKEA 88 (124)
T ss_pred HHhcCcceEEEEEecCCCcccCcEEEEEecC-chhheEEEEEeeeEEEcchHHHHHHhcccccccchHHHHHHHhcccee
Confidence 4568888888665554 37789999999999 899999976553332 111111 1235
Q ss_pred eEEEEEEeeeeCCccChhhHhcCcc
Q 039512 85 GAVDVKEVGMMRRAVDLKEMKRDQE 109 (154)
Q Consensus 85 ~~Vdv~~~~~l~~pv~L~~Lk~~p~ 109 (154)
++..+...+++.+|++|++++..+.
T Consensus 89 ~ai~~~~p~~y~~P~~L~e~~~~~~ 113 (124)
T COG4933 89 HAIEVSKPRRYTRPVTLEELRRRIG 113 (124)
T ss_pred EEEEeCCceecCCCcCHHHHhccCC
Confidence 8888999999999999999997644
No 8
>PRK12279 50S ribosomal protein L22/unknown domain fusion protein; Provisional
Probab=93.89 E-value=0.18 Score=44.17 Aligned_cols=58 Identities=19% Similarity=0.137 Sum_probs=46.9
Q ss_pred cCCCEEEEEEeCCCCCeEEEEEEEeeecccCCCC----------------------CCCeeEEEEEEeeeeCCccChhhH
Q 039512 47 RLNELCFFYHSGARSRRVVGVVSVLREWYEESGD----------------------GAGAGAVDVKEVGMMRRAVDLKEM 104 (154)
Q Consensus 47 k~GD~~~fYHS~~~~~gIvGiaeVv~~aypD~t~----------------------~prw~~Vdv~~~~~l~~pv~L~~L 104 (154)
..+|.|++|.|+ +...|||..+|-+----.|.. ...-++..|.-++.|.+|++|.+|
T Consensus 220 ~~~~~VvIYaTs-PvkkIVGef~i~~Ii~~~P~~lW~k~~~~sGIsk~~F~~Yf~g~~~a~Ai~I~~~~~y~~Pi~L~~l 298 (311)
T PRK12279 220 NKVLRVLVYVTS-PTKKVVGEFDLESVEIGAISSIWRKYGKQSVISKKEYDAYYEGKDKAHALVSKKAYKYRNPKDLSEY 298 (311)
T ss_pred CCCCEEEEEecC-CCcEEEEEEEEEEEEeCCHHHHHHHHhhccCCCHHHHHHHhCCCceEEEEEeCCceeCCCCCCHHHc
Confidence 578999999999 899999999987765433331 123588999999999999999999
Q ss_pred h
Q 039512 105 K 105 (154)
Q Consensus 105 k 105 (154)
.
T Consensus 299 ~ 299 (311)
T PRK12279 299 N 299 (311)
T ss_pred C
Confidence 4
No 9
>PF04146 YTH: YT521-B-like domain; InterPro: IPR007275 A protein of the YTH family has been shown to selectively remove transcripts of meiosis-specific genes expressed in mitotic cells []. It has been speculated that in higher eukaryotic YTH-family members may be involved in similar mechanaisms to suppress gene regulation during gametogenesis or general silencing. The rat protein YT521-B, Q9QY02 from SWISSPROT, is a tyrosine-phosphorylated nuclear protein, that interacts with the nuclear transcriptosomal component scaffold attachment factor B, and the 68kDa Src substrate associated during mitosis, Sam68. In vivo splicing assays demonstrated that YT521-B modulates alternative splice site selection in a concentration-dependent manner []. The domain is predicted to have four alpha helices and six beta strands []. In plant cells environmental stimuli, which light, pathogens, hormones, and abiotic stresses, elicit changes in the cytosolic Ca levels but little is known of the cytosolic-nuclear Ca-signaling pathway; where gene regulation occurs to respond appropriately to the stress. It has been demonstrated that two novel Arabidopsis thaliana (Mouse-ear cress) proteins, (ECT1 and ECT2), specifically associated with Calcineurin B-Like-Interacting Protein Kinase1 (CIPK1), a member of Ser/Thr protein kinases that interact with the calcineurin B-like Ca-binding proteins. These two proteins contain a very similar C-terminal region (180 amino acids in length, 81% similarity), which is required and sufficient for both interaction with CIPK1 and translocation to the nucleus. This domain, the YTH-domain, is conserved across all eukaryotes and suggests that the conserved C-terminal region plays a critical role in relaying the cytosolic Ca-signals to the nucleus, thereby regulating gene expression [].; PDB: 2YUD_A 2YU6_A.
Probab=89.66 E-value=1.6 Score=33.54 Aligned_cols=96 Identities=11% Similarity=0.175 Sum_probs=57.8
Q ss_pred ceeEEeecCCCceehhcchhcCCceeecccccHHHHHHHHhccCCCEEEEEEeCCCCCeEEEEEEEeeecccCCCC----
Q 039512 5 RQYWLLKTEPGEWSWEDQAANGGVTKWDGVKNKQAQKNMKAMRLNELCFFYHSGARSRRVVGVVSVLREWYEESGD---- 80 (154)
Q Consensus 5 m~YWLlKsEP~~fsiddl~~~~~~~~WdGVRNyqArn~lr~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~aypD~t~---- 80 (154)
.+|.++||. +.+++...-....|.=-+. ..+.+-++.+.++.|++.=|-.......|+|+.++...++.+.
T Consensus 2 ~rfFiiKS~----~~~ni~~s~~~gvW~t~~~-~~~~L~~Af~~~~~V~L~FSvn~S~~F~G~A~M~s~~~~~~~~~~w~ 76 (140)
T PF04146_consen 2 ARFFIIKSF----NEENIHLSIKYGVWATQPK-NEKKLNEAFKESRNVYLFFSVNGSGHFQGYARMTSPIDPDSPKPFWQ 76 (140)
T ss_dssp -EEEEEEES----SCHHHHHHHHCTEEE--CC-CHHHHHHHHHHSS-EEEEEEETTTSEEEEEEEEECECCSSS------
T ss_pred cEEEEEEEC----CHHHHHHHHhCCEEccccc-chHHHHHHHHhCCCEEEEEeecCcceEEEEEEEccCCCCcccCcccc
Confidence 479999985 4456544323567864442 2344555688888777766655789999999999996555321
Q ss_pred ----CCCe-eEEEEEEeeeeCCccChhhHhcC
Q 039512 81 ----GAGA-GAVDVKEVGMMRRAVDLKEMKRD 107 (154)
Q Consensus 81 ----~prw-~~Vdv~~~~~l~~pv~L~~Lk~~ 107 (154)
..+| ....|+-+.. ..|+...++..
T Consensus 77 ~~~~~~~~~g~F~v~Wl~~--~~lpf~~~~hl 106 (140)
T PF04146_consen 77 QDSSSSKWGGPFRVEWLRV--KDLPFSKLRHL 106 (140)
T ss_dssp SS-SGCGG-SEEEEEEEE---S-EEHHHHTT-
T ss_pred ccccccccCCceEEEEEEC--CcCChHHhccc
Confidence 1233 3355666555 67888888854
No 10
>PF10539 Dev_Cell_Death: Development and cell death domain; InterPro: IPR013989 The DCD (Development and Cell Death) domain is found in plant proteins involved in development and cell death. The DCD domain is an ~130 amino acid long stretch that contains several mostly invariable motifs. These include a FGLP and a LFL motif at the N terminus and a PAQV and a PLxE motif towards the C terminus of the domain. The DCD domain is present in proteins with different architectures. Some of these proteins contain additional recognizable motifs, like the KELCH repeats or the ParB domain []. Biological studies indicate a role of these proteins in phytohormone response, embryo development and programmed cell death by pathogens or ozone. The predicted secondary structure of the DCD domain is mostly composed of beta strands and confined by an alpha-helix at the N- and at the C terminus []. Proteins known to contain a DCD domain are listed below: Carrot B2 protein. Pea Gda-1 protein. Soybean N-rich protein (NRP).
Probab=80.63 E-value=19 Score=27.90 Aligned_cols=90 Identities=11% Similarity=0.085 Sum_probs=58.0
Q ss_pred HHHHhccCCCEEEEEEeCCCCCeEEEEEEEeeec--ccCCCC--C-C----Ce-eEEEEEEeeeeCCccChhhHhcCccc
Q 039512 41 KNMKAMRLNELCFFYHSGARSRRVVGVVSVLREW--YEESGD--G-A----GA-GAVDVKEVGMMRRAVDLKEMKRDQEL 110 (154)
Q Consensus 41 n~lr~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~a--ypD~t~--~-p----rw-~~Vdv~~~~~l~~pv~L~~Lk~~p~L 110 (154)
-+.+.+++|...|.|.=+ .+-..||.|-++.+ -.+|++ + + ++ ..|.++..... .|++-++.| +++
T Consensus 30 ~~V~~I~pG~~LFLfn~~--~r~L~GifeA~S~G~~ni~p~Af~~~~~~~~~fPAQVrf~i~~~C-~PL~E~~fk--~aI 104 (130)
T PF10539_consen 30 DFVKKIKPGMPLFLFNYS--DRKLYGIFEATSDGGMNIEPYAFSGSGSGESPFPAQVRFRIRWDC-PPLPESQFK--PAI 104 (130)
T ss_pred hHHheeCCCCEEEEEEcC--CCEEEEEEEecCCCccCcChhhhCCCCCCCcccceEEEEEEeeee-ecCCHHHHH--HHH
Confidence 377789999999999877 58999999999987 356665 1 2 33 34555555444 488888888 666
Q ss_pred cCceecccCCCcceecCHHHHHHHHHh
Q 039512 111 KGWALFRQPRLSVVNVEKKVWDRVCDL 137 (154)
Q Consensus 111 ~~m~llr~~RLSV~pVt~eew~~I~~l 137 (154)
++-..- +.---.-+|..|-..+++|
T Consensus 105 ~~Ny~~--~~kF~~eLs~~Qv~~L~~L 129 (130)
T PF10539_consen 105 KDNYYD--KNKFRFELSHQQVRKLLSL 129 (130)
T ss_pred HHhCCC--CCcccCcCCHHHHHHHHHh
Confidence 553322 1122234455555555443
No 11
>COG4127 Uncharacterized conserved protein [Function unknown]
Probab=78.91 E-value=1.4 Score=38.53 Aligned_cols=66 Identities=9% Similarity=0.136 Sum_probs=42.4
Q ss_pred cccHHH--HHHHHhccCCCEEEEEEeCCCCCeEEEEEEEeeecccCCCCCCCee--EEEEEEeeeeCCccChhhHhc
Q 039512 34 VKNKQA--QKNMKAMRLNELCFFYHSGARSRRVVGVVSVLREWYEESGDGAGAG--AVDVKEVGMMRRAVDLKEMKR 106 (154)
Q Consensus 34 VRNyqA--rn~lr~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~aypD~t~~prw~--~Vdv~~~~~l~~pv~L~~Lk~ 106 (154)
+||..+ -.|...|++||+|+.|.+.. .=|-|.+|.+..--+ |-|+ .-.-+.|++|..-|+...+-+
T Consensus 59 ~r~~Agqiw~FvneI~KGDlvi~y~k~~---r~y~IGkVtsdYEy~----p~~~~~i~hTrkVkWL~k~Iprddfs~ 128 (318)
T COG4127 59 VRSGAGQIWRFVNEIQKGDLVITYSKSN---RTYLIGKVTSDYEYH----PEWLEGIGHTRKVKWLAKEIPRDDFSD 128 (318)
T ss_pred HHHHHHHHHHHHHHhccCcEEEeecccC---ceEEEEEecCCcccC----ccccccCchhhHhHHhhhhCChhhhHH
Confidence 455544 45888999999999999873 446777887764223 3343 344455666666666655543
No 12
>PF04033 DUF365: Domain of unknown function (DUF365); InterPro: IPR007176 This is an archaeal family of unknown function.; PDB: 2KKU_A.
Probab=78.11 E-value=10 Score=27.96 Aligned_cols=52 Identities=15% Similarity=0.156 Sum_probs=29.4
Q ss_pred EEEEEEeCCCCCeEEEEEEEeeecccC-CCC--------------------------------CCCeeEEEEEEeeeeCC
Q 039512 51 LCFFYHSGARSRRVVGVVSVLREWYEE-SGD--------------------------------GAGAGAVDVKEVGMMRR 97 (154)
Q Consensus 51 ~~~fYHS~~~~~gIvGiaeVv~~aypD-~t~--------------------------------~prw~~Vdv~~~~~l~~ 97 (154)
.++||.|- ...|++|-|+|-+.-.-+ |.. ..-|.++.++=+++.++
T Consensus 2 k~vFYaSr-EdqGf~GEAeie~V~~~~n~~ei~ekygd~lFLT~eE~r~Y~~~~~Rwg~~~~r~rpwmvi~L~~IrkY~r 80 (97)
T PF04033_consen 2 KVVFYASR-EDQGFVGEAEIESVEHFKNPEEIIEKYGDRLFLTKEELRKYERSRKRWGSGGKRKRPWMVIELENIRKYDR 80 (97)
T ss_dssp EEEE---S-TT-B--EEEEEEEEEEES-THHHHHHTSTTBSS-HHHHHHHHHHHHHTSS--SS---EEEEEEEEEEE--S
T ss_pred EEEEEEec-ccccceeeEEEEEEEeeCCHHHHHHHhCcceecCHHHHHHHHhhHHhhccCCCCCCceEEEEeccccccCc
Confidence 47999999 789999999998876544 320 01299999999999988
Q ss_pred ccChhh
Q 039512 98 AVDLKE 103 (154)
Q Consensus 98 pv~L~~ 103 (154)
+|--+.
T Consensus 81 vvKPkR 86 (97)
T PF04033_consen 81 VVKPKR 86 (97)
T ss_dssp -B--SS
T ss_pred cCCCce
Confidence 875443
No 13
>PF12162 STAT1_TAZ2bind: STAT1 TAZ2 binding domain; InterPro: IPR022752 This entry represents the C-terminal domain of STAT1, which selectively binds the TAZ2 domain of CRB (CREB-binding protein) []. This group of eukaryotic proteins is approximately 20 amino acids in length, and is found in association with PF02865 from PFAM, PF00017 from PFAM, PF01017 from PFAM, PF02864 from PFAM. By binding to CRB, it becomes a transcriptional activator and can initiate transcription of certain genes. ; GO: 0003700 sequence-specific DNA binding transcription factor activity; PDB: 2KA6_B.
Probab=76.80 E-value=2.3 Score=23.75 Aligned_cols=17 Identities=6% Similarity=0.182 Sum_probs=11.1
Q ss_pred cceecCHHHHHHHHHhc
Q 039512 122 SVVNVEKKVWDRVCDLG 138 (154)
Q Consensus 122 SV~pVt~eew~~I~~l~ 138 (154)
+++|+++++|+.+.++.
T Consensus 6 nmmPMSPddy~~l~~~V 22 (23)
T PF12162_consen 6 NMMPMSPDDYDELERMV 22 (23)
T ss_dssp S---S-HHHHHHHHHHH
T ss_pred cccCCCHHHHHHHHHhh
Confidence 78999999999998764
No 14
>COG2028 Uncharacterized conserved protein [Function unknown]
Probab=72.32 E-value=9.5 Score=29.73 Aligned_cols=76 Identities=14% Similarity=0.184 Sum_probs=51.7
Q ss_pred ccCCCEEEEEEeCCCCCeEEEEEEEeeec-ccCCCC----------------------C----------CCeeEEEEEEe
Q 039512 46 MRLNELCFFYHSGARSRRVVGVVSVLREW-YEESGD----------------------G----------AGAGAVDVKEV 92 (154)
Q Consensus 46 Mk~GD~~~fYHS~~~~~gIvGiaeVv~~a-ypD~t~----------------------~----------prw~~Vdv~~~ 92 (154)
+++|=.++||.|- ...|.+|-|+|-+.- |..|-+ . .-|..+.++=+
T Consensus 35 vepgMKviFYaSr-edqGf~GEAeie~Ve~~en~~ei~ekygd~lFLT~eElkkY~ks~~rWg~r~kkkkpWmvi~L~nv 113 (145)
T COG2028 35 VEPGMKVIFYASR-EDQGFYGEAEIERVELFENPMEIIEKYGDRLFLTPEELKKYMKSRKRWGSRGKKKKPWMVIELRNV 113 (145)
T ss_pred ecCCcEEEEEEec-ccCcccceeEEEEEeeecCHHHHHHHhCCeeecCHHHHHHHHHHHHHhccccccCCceEEEEeech
Confidence 6789999999999 789999999998765 222220 0 12788888888
Q ss_pred eeeCCccChhhHhcCccccCceecccCCCcceecCHHHHHHHHH
Q 039512 93 GMMRRAVDLKEMKRDQELKGWALFRQPRLSVVNVEKKVWDRVCD 136 (154)
Q Consensus 93 ~~l~~pv~L~~Lk~~p~L~~m~llr~~RLSV~pVt~eew~~I~~ 136 (154)
++.+++|--+.+- .+ |=+=|.++|++.|++
T Consensus 114 rkY~k~vKPKrfv---------~V-----~GrYvkedeyeei~k 143 (145)
T COG2028 114 RKYPKVVKPKRFV---------PV-----SGRYVKEDEYEEILK 143 (145)
T ss_pred hhCCCcCCCceEE---------Ee-----cCeecchhHHHHHHh
Confidence 8887776544332 11 234466788887764
No 15
>TIGR02219 phage_NlpC_fam putative phage cell wall peptidase, NlpC/P60 family. Members of this family show sequence similarity to members of the NlpC/P60 family described by Pfam model pfam00877 and by Anantharaman and Aravind (PubMed:12620121). The NlpC/P60 family includes a number of characterized bacterial cell wall hydrolases. Members of this related family are all found in prophage regions of bacterial genomes.
Probab=72.29 E-value=5.4 Score=30.06 Aligned_cols=24 Identities=8% Similarity=0.167 Sum_probs=16.8
Q ss_pred hccCCCEEEEEEeCCCCCeEEEEE
Q 039512 45 AMRLNELCFFYHSGARSRRVVGVV 68 (154)
Q Consensus 45 ~Mk~GD~~~fYHS~~~~~gIvGia 68 (154)
++|+||+|||=..+...+.=|||+
T Consensus 76 ~~qpGDlvff~~~~~~~~~HvGIy 99 (134)
T TIGR02219 76 AAQPGDVLVFRWRPGAAAKHAAIA 99 (134)
T ss_pred cCCCCCEEEEeeCCCCCCcEEEEE
Confidence 589999999964332235567877
No 16
>COG1935 Uncharacterized conserved protein [Function unknown]
Probab=69.19 E-value=8.7 Score=29.51 Aligned_cols=47 Identities=13% Similarity=0.250 Sum_probs=30.0
Q ss_pred hhcchhcCCceeecccccHHHHHHHH--hccCCCEEEEEEeCC-----CCCeEEEEEE
Q 039512 19 WEDQAANGGVTKWDGVKNKQAQKNMK--AMRLNELCFFYHSGA-----RSRRVVGVVS 69 (154)
Q Consensus 19 iddl~~~~~~~~WdGVRNyqArn~lr--~Mk~GD~~~fYHS~~-----~~~gIvGiae 69 (154)
|++|.+. +...- =+|| |+|++- ..++||+||+=-.+. ...||+|-+.
T Consensus 14 ie~l~~~-~~rTi-eiRs--a~N~~tv~rl~~GDlVFlT~~~~~Dl~~GtsGiiAkV~ 67 (122)
T COG1935 14 IESLLRN-PIRTI-EIRS--ARNLLTVLRLHEGDLVFLTSTSLEDLTKGTSGIIAKVR 67 (122)
T ss_pred HHHHHhC-CceEE-EEEc--ccchHHhhcCCCCCEEEEehhHhhHhhcCcceeEEEEE
Confidence 5666663 44444 3777 777776 499999999876543 2456665443
No 17
>smart00767 DCD DCD is a plant specific domain in proteins involved in development and programmed cell death. The domain is shared by several proteins in the Arabidopsis and the rice genomes, which otherwise show a different protein architecture. Biological studies indicate a role of these proteins in phytohormone response, embryo development and programmed cell death by pathogens or ozone.
Probab=68.66 E-value=42 Score=26.16 Aligned_cols=89 Identities=11% Similarity=0.100 Sum_probs=57.7
Q ss_pred HHHhccCCCEEEEEEeCCCCCeEEEEEEEeeec--ccCCCC---C-CC-e-eEEEEEEeeeeCCccChhhHhcCccccCc
Q 039512 42 NMKAMRLNELCFFYHSGARSRRVVGVVSVLREW--YEESGD---G-AG-A-GAVDVKEVGMMRRAVDLKEMKRDQELKGW 113 (154)
Q Consensus 42 ~lr~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~a--ypD~t~---~-pr-w-~~Vdv~~~~~l~~pv~L~~Lk~~p~L~~m 113 (154)
+.+.+++|...|.|.=. ..-..||.|.++.+ -.+|++ + .+ + ..|.++.... =.|++-+++| +++++=
T Consensus 33 ~V~~IkpG~~LFLfn~~--~r~L~GifeA~S~G~~ni~p~Af~~~~~s~fPaQVrf~i~~~-C~PL~E~~f~--~aI~~n 107 (132)
T smart00767 33 FVRNIKPGLPLFLYNYD--TRKLHGIFEATSFGGLNIDPNAFEGKKESRFPAQVRFRIRKD-CKPLPESEFR--SAILEN 107 (132)
T ss_pred hhheeCCCCEEEEEecC--CceeeeEEEeccCCcCCcChhHhcCCCCCccCcEEEEEEeee-ecCCCHHHHH--HHHHHh
Confidence 66789999999999987 57899999999987 355655 2 11 2 3444443333 3588888877 333221
Q ss_pred eecccCCCcceecCHHHHHHHHHh
Q 039512 114 ALFRQPRLSVVNVEKKVWDRVCDL 137 (154)
Q Consensus 114 ~llr~~RLSV~pVt~eew~~I~~l 137 (154)
. ..++-...++|-.|-..+++|
T Consensus 108 Y--~~~~kF~~eLs~~Qv~~L~~L 129 (132)
T smart00767 108 Y--DGPSKFRFELSHAQVLRLLDL 129 (132)
T ss_pred C--cCCccccccCCHHHHHHHHHH
Confidence 1 113344567777777777665
No 18
>PF02362 B3: B3 DNA binding domain; InterPro: IPR003340 Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see IPR001471 from INTERPRO) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors []. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1WID_A 1YEL_A.
Probab=67.98 E-value=11 Score=25.86 Aligned_cols=27 Identities=22% Similarity=0.426 Sum_probs=16.0
Q ss_pred HHHHHh--ccCCCEEEEEEeCCCCCe--EEEE
Q 039512 40 QKNMKA--MRLNELCFFYHSGARSRR--VVGV 67 (154)
Q Consensus 40 rn~lr~--Mk~GD~~~fYHS~~~~~g--IvGi 67 (154)
+.|.++ +++||.|+|++-+. ... .|.|
T Consensus 66 ~~Fv~~n~L~~GD~~~F~~~~~-~~~~~~v~i 96 (100)
T PF02362_consen 66 KKFVRDNGLKEGDVCVFELIGN-SNFTLKVHI 96 (100)
T ss_dssp HHHHHHCT--TT-EEEEEE-SS-SCE-EEEEE
T ss_pred HHHHHHcCCCCCCEEEEEEecC-CCceEEEEE
Confidence 457775 89999999999873 444 5544
No 19
>cd06552 ASCH_yqfb_like ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation, RNA-processing and the regulation of prokaryotic translation.
Probab=66.66 E-value=11 Score=26.45 Aligned_cols=25 Identities=8% Similarity=0.178 Sum_probs=20.1
Q ss_pred hccCCCEEEEEEeCCCCCeEEEEEEEeee
Q 039512 45 AMRLNELCFFYHSGARSRRVVGVVSVLRE 73 (154)
Q Consensus 45 ~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~ 73 (154)
..++||.+++|.++ .++|+++|.+.
T Consensus 28 ~~~~Gd~~~~~~~~----~~~~~~~v~~V 52 (100)
T cd06552 28 HLKPGDVVEVHTGE----RIFGEAEITSV 52 (100)
T ss_pred CCCCCCEEEEEECC----EEEEEEEEEEE
Confidence 38999999998775 77888887665
No 20
>COG1862 YajC Preprotein translocase subunit YajC [Intracellular trafficking and secretion]
Probab=65.45 E-value=11 Score=27.80 Aligned_cols=30 Identities=13% Similarity=0.181 Sum_probs=23.6
Q ss_pred HHHHHhccCCCEEEEEEeCCCCCeEEEEEEEeeecc
Q 039512 40 QKNMKAMRLNELCFFYHSGARSRRVVGVVSVLREWY 75 (154)
Q Consensus 40 rn~lr~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~ay 75 (154)
+|+|.+|++||.|+- ..||+|...-+.+.+
T Consensus 38 ~~ml~sL~kGD~VvT------~gGi~G~V~~v~d~~ 67 (97)
T COG1862 38 QELLNSLKKGDEVVT------IGGIVGTVTKVGDDT 67 (97)
T ss_pred HHHHHhccCCCEEEE------cCCeEEEEEEEecCc
Confidence 556667999999973 469999988888753
No 21
>PF04322 DUF473: Protein of unknown function (DUF473); InterPro: IPR007417 This is a family of uncharacterised archaeal proteins.
Probab=63.02 E-value=7.3 Score=29.75 Aligned_cols=39 Identities=5% Similarity=0.171 Sum_probs=27.4
Q ss_pred eehhcchhcCCceeecccccHHHHHHHH--hccCCCEEEEEEeCC
Q 039512 17 WSWEDQAANGGVTKWDGVKNKQAQKNMK--AMRLNELCFFYHSGA 59 (154)
Q Consensus 17 fsiddl~~~~~~~~WdGVRNyqArn~lr--~Mk~GD~~~fYHS~~ 59 (154)
..|++|.+ +...+-+ +|| |+|++- ..++||.||+=....
T Consensus 12 ~vi~eL~~-~~~RTiE-irS--a~N~~~~~~~~~Gd~VFlT~~~~ 52 (119)
T PF04322_consen 12 RVIDELKK-NHIRTIE-IRS--AHNVIALESLDPGDRVFLTSVSL 52 (119)
T ss_pred HHHHHHHh-CCceEEE-EEc--chheeeeecCCCCCEEEEecCCH
Confidence 35788877 3444443 666 677765 489999999988764
No 22
>PRK10838 spr outer membrane lipoprotein; Provisional
Probab=60.24 E-value=7.8 Score=31.55 Aligned_cols=22 Identities=27% Similarity=0.536 Sum_probs=16.0
Q ss_pred hccCCCEEEEEEeCCCCCeEEEEE
Q 039512 45 AMRLNELCFFYHSGARSRRVVGVV 68 (154)
Q Consensus 45 ~Mk~GD~~~fYHS~~~~~gIvGia 68 (154)
++++||+|||-.++ .++=|||+
T Consensus 128 ~lqpGDLVfF~~~~--~~~HVGIy 149 (190)
T PRK10838 128 KLRTGDLVLFRAGS--TGRHVGIY 149 (190)
T ss_pred CCCCCcEEEECCCC--CCCEEEEE
Confidence 58999999996432 35677776
No 23
>PRK13914 invasion associated secreted endopeptidase; Provisional
Probab=57.07 E-value=8.2 Score=35.83 Aligned_cols=23 Identities=22% Similarity=0.353 Sum_probs=16.7
Q ss_pred HhccCCCEEEEEEeCCCCCeEEEEE
Q 039512 44 KAMRLNELCFFYHSGARSRRVVGVV 68 (154)
Q Consensus 44 r~Mk~GD~~~fYHS~~~~~gIvGia 68 (154)
.++++||+|||-..+ ..+-|||+
T Consensus 425 selqpGDLVFF~~~~--~~~HVGIY 447 (481)
T PRK13914 425 SQAKPGDLVFFDYGS--GISHVGIY 447 (481)
T ss_pred ccCCCCCEEEeCCCC--CCCEEEEE
Confidence 369999999995322 45677776
No 24
>PF03120 DNA_ligase_OB: NAD-dependent DNA ligase OB-fold domain; InterPro: IPR004150 DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This family is a small domain found after the adenylation domain DNA_ligase_N in NAD+-dependent ligases (IPR001679 from INTERPRO). OB-fold domains generally are involved in nucleic acid binding.; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 2OWO_A 1TAE_A 3UQ8_A 1DGS_A 1V9P_B 3SGI_A.
Probab=55.45 E-value=20 Score=25.52 Aligned_cols=33 Identities=24% Similarity=0.464 Sum_probs=20.8
Q ss_pred ccccHHHHHHHH--hccCCCEEEEEEeCCCCCeEEEEE
Q 039512 33 GVKNKQAQKNMK--AMRLNELCFFYHSGARSRRVVGVV 68 (154)
Q Consensus 33 GVRNyqArn~lr--~Mk~GD~~~fYHS~~~~~gIvGia 68 (154)
-..|+. +++ ++.+||.|+++.||---|.|+++.
T Consensus 38 tLhN~~---~i~~~~i~~Gd~V~V~raGdVIP~I~~vv 72 (82)
T PF03120_consen 38 TLHNYD---YIKELDIRIGDTVLVTRAGDVIPKIVGVV 72 (82)
T ss_dssp E--SHH---HHHHTT-BBT-EEEEEEETTTEEEEEEE-
T ss_pred EecCHH---HHHHcCCCCCCEEEEEECCCccceEeEee
Confidence 345654 665 499999999999996556666654
No 25
>PF00877 NLPC_P60: NlpC/P60 family; InterPro: IPR000064 The Escherichia coli NLPC/Listeria P60 domain occurs at the C terminus of a number of different bacterial and viral proteins. The viral proteins are either described as tail assembly proteins or Gp19. In bacteria, the proteins are variously described as being putative tail component of prophage, invasin, invasion associated protein, putative lipoprotein, cell wall hydrolase, or putative endopeptidase. The E. coli NLPC/Listeria P60 domain is contained within the boundaries of the cysteine peptidase domain that defines the MEROPS peptidase family C40 (clan C-). A type example being dipeptidyl-peptidase VI from Bacillus sphaericus and gamma-glutamyl-diamino acid-endopeptidase precursor from Lactococcus lactis 3.4.19.11 from EC. This group also contains proteins classified as non-peptidase homologues in that they either have been found experimentally to be without peptidase activity, or lack amino acid residues that are believed to be essential for the catalytic activity of peptidases in the C40 family. ; PDB: 3PVQ_B 3GT2_A 3NPF_B 2K1G_A 3I86_A 3S0Q_A 2XIV_A 3PBC_A 3NE0_A 3M1U_B ....
Probab=50.51 E-value=12 Score=26.24 Aligned_cols=24 Identities=25% Similarity=0.499 Sum_probs=16.7
Q ss_pred HHhccCCCEEEEEEeCCCCCeEEEEE
Q 039512 43 MKAMRLNELCFFYHSGARSRRVVGVV 68 (154)
Q Consensus 43 lr~Mk~GD~~~fYHS~~~~~gIvGia 68 (154)
..++++||++||..++ .+.=|||+
T Consensus 49 ~~~~~pGDlif~~~~~--~~~Hvgiy 72 (105)
T PF00877_consen 49 ISELQPGDLIFFKGGG--GISHVGIY 72 (105)
T ss_dssp GGG-TTTEEEEEEGTG--GEEEEEEE
T ss_pred hhcCCcccEEEEeCCc--cCCEeEEE
Confidence 3469999999999933 45666665
No 26
>PF12080 GldM_C: GldM C-terminal domain; InterPro: IPR022719 This domain is found in bacteria at the C terminus of the GldM protein. This domain is typically between 169 to 182 amino acids in length and has two completely conserved residues (Y and N) that may be functionally important. GldM, is named for the member from Bacteriodetes Flavobacterium johnsoniae, which is required for a type of rapid gliding motility found in certain members of the Bacteriodetes [].
Probab=49.15 E-value=16 Score=29.19 Aligned_cols=29 Identities=14% Similarity=0.312 Sum_probs=22.9
Q ss_pred cccc-cHHHHHHHHhccCCCEEEEEEeCCC
Q 039512 32 DGVK-NKQAQKNMKAMRLNELCFFYHSGAR 60 (154)
Q Consensus 32 dGVR-NyqArn~lr~Mk~GD~~~fYHS~~~ 60 (154)
+|-+ +-++++.++.++.||+++|++-.+.
T Consensus 149 ~G~~~s~~~~~~l~~~~~Gd~i~I~~I~~~ 178 (181)
T PF12080_consen 149 NGNKFSARAKSALRKAKRGDRIYISDIKAK 178 (181)
T ss_pred ccccccHHHHHHHHhcCCCCEEEEEEEEEE
Confidence 3444 4588999999999999999986543
No 27
>COG1465 Predicted alternative 3-dehydroquinate synthase [Amino acid transport and metabolism]
Probab=48.34 E-value=19 Score=32.11 Aligned_cols=60 Identities=22% Similarity=0.288 Sum_probs=40.8
Q ss_pred HHHhccCCCEEEEEEeCCC-CCeEEEEEEEeeec-------ccCCC-----CCCCeeEEEEEEeeeeCCccChhhHh
Q 039512 42 NMKAMRLNELCFFYHSGAR-SRRVVGVVSVLREW-------YEESG-----DGAGAGAVDVKEVGMMRRAVDLKEMK 105 (154)
Q Consensus 42 ~lr~Mk~GD~~~fYHS~~~-~~gIvGiaeVv~~a-------ypD~t-----~~prw~~Vdv~~~~~l~~pv~L~~Lk 105 (154)
||.+++.||.|+++.+... ..+|||-++|-+-+ |..-. +| +=-++.+..=..||+..+||
T Consensus 277 YLaEL~aGDeV~iVD~dGr~R~aiVGRvKIErRPl~lIeAey~g~~i~tiLQN----AETIkLv~~dG~pvSV~eLk 349 (376)
T COG1465 277 YLAELKAGDEVLIVDFDGRTRSAIVGRVKIERRPLMLIEAEYEGVEISTILQN----AETIKLVNPDGEPVSVAELK 349 (376)
T ss_pred EhhhhcCCCeEEEEecCCceeEEEEEEEEeecCceEEEEEEecCcEEEEEecc----ceeEEEEcCCCcEeeeEecC
Confidence 8889999999999998654 56899999998775 22111 01 11245555555667777776
No 28
>PF04266 ASCH: ASCH domain; InterPro: IPR007374 The ASCH domain adopts a beta-barrel fold similar to that of the PUA domain (IPR002478 from INTERPRO). It is thought to function as an RNA-binding domain during coactivation, RNA-processing and possibly during prokaryotic translation regulation [].; PDB: 1TE7_A 2Z0T_C 1WK2_A 2DP9_A 1T62_A 3S9X_A 2E5O_A 1XNE_A 3IUW_B 1S04_A.
Probab=46.78 E-value=14 Score=25.77 Aligned_cols=24 Identities=21% Similarity=0.458 Sum_probs=20.7
Q ss_pred CCEEEEEEeCCCCCeEEEEEEEeee
Q 039512 49 NELCFFYHSGARSRRVVGVVSVLRE 73 (154)
Q Consensus 49 GD~~~fYHS~~~~~gIvGiaeVv~~ 73 (154)
||..++|.+. +...++|+++|.+-
T Consensus 32 g~~~iv~~~~-~~~~~~~~v~v~~V 55 (105)
T PF04266_consen 32 GDLVIVFNTD-PDGKPVGIVEVTEV 55 (105)
T ss_dssp TCEEEEETET-TTTEEEEEEEEEEE
T ss_pred CCEEEEEEEe-cCCcEEEEEEEEEE
Confidence 9999998888 57889999998775
No 29
>PRK06531 yajC preprotein translocase subunit YajC; Validated
Probab=45.25 E-value=33 Score=25.85 Aligned_cols=28 Identities=14% Similarity=0.207 Sum_probs=20.6
Q ss_pred HHHHHhccCCCEEEEEEeCCCCCeEEEEEEEeee
Q 039512 40 QKNMKAMRLNELCFFYHSGARSRRVVGVVSVLRE 73 (154)
Q Consensus 40 rn~lr~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~ 73 (154)
++++..+|+||.|.- ..||+|...=+.+
T Consensus 31 ~em~~sLk~GD~VvT------~GGi~G~V~~I~~ 58 (113)
T PRK06531 31 QNQLNAIQKGDEVVT------IGGLYGTVDEVDT 58 (113)
T ss_pred HHHHHhcCCCCEEEE------CCCcEEEEEEEec
Confidence 567777999999973 4689998654443
No 30
>TIGR00739 yajC preprotein translocase, YajC subunit. While this protein is part of the preprotein translocase in Escherichia coli, it is not essential for viability or protein secretion. The N-terminus region contains a predicted membrane-spanning region followed by a region consisting almost entirely of residues with charged (acidic, basic, or zwitterionic) side chains. This small protein is about 100 residues in length, and is restricted to bacteria; however, this protein is absent from some lineages, including spirochetes and Mycoplasmas.
Probab=41.57 E-value=60 Score=22.93 Aligned_cols=28 Identities=14% Similarity=0.343 Sum_probs=20.2
Q ss_pred HHHHHhccCCCEEEEEEeCCCCCeEEEEEEEeee
Q 039512 40 QKNMKAMRLNELCFFYHSGARSRRVVGVVSVLRE 73 (154)
Q Consensus 40 rn~lr~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~ 73 (154)
+.++.++++||.|.. ..||+|...=+.+
T Consensus 32 ~~m~~~L~~Gd~VvT------~gGi~G~V~~i~d 59 (84)
T TIGR00739 32 KKLIESLKKGDKVLT------IGGIIGTVTKIAE 59 (84)
T ss_pred HHHHHhCCCCCEEEE------CCCeEEEEEEEeC
Confidence 445556999999985 4589988665554
No 31
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=38.28 E-value=63 Score=24.24 Aligned_cols=28 Identities=0% Similarity=0.031 Sum_probs=20.3
Q ss_pred HHHHHhccCCCEEEEEEeCCCCCeEEEEEEEeee
Q 039512 40 QKNMKAMRLNELCFFYHSGARSRRVVGVVSVLRE 73 (154)
Q Consensus 40 rn~lr~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~ 73 (154)
++++.++|+||.|.. ..||+|...=+.+
T Consensus 33 ~~m~~~Lk~GD~VvT------~gGi~G~V~~I~d 60 (109)
T PRK05886 33 IDLHESLQPGDRVHT------TSGLQATIVGITD 60 (109)
T ss_pred HHHHHhcCCCCEEEE------CCCeEEEEEEEeC
Confidence 356667999999984 4689998554443
No 32
>cd04496 SSB_OBF SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date oligomerize to bring together four OB folds in their active state. The majority (e.g. Escherichia coli SSB) have a single OB fold per monomer, which oligomerize to form a homotetramer. However, Deinococcus and Thermus SSB proteins have two OB folds per monomer, which oligomerize to form a homodimer. Mycobacterium tuberculosis SSB varies in quaternary structure from E. coli SSB. It forms a dimer of dimers having a unique dimer interface, which lends the protein greater stability. Included in this group are OB folds similar to Escherichia coli PriB. E.coli PriB is homodimeric with each monomer having a single OB fold. It does not appear to form higher order oligomers. PriB is an essential protein for the replication restart
Probab=37.38 E-value=34 Score=23.18 Aligned_cols=17 Identities=18% Similarity=0.374 Sum_probs=15.3
Q ss_pred HHHHHHHhccCCCEEEE
Q 039512 38 QAQKNMKAMRLNELCFF 54 (154)
Q Consensus 38 qArn~lr~Mk~GD~~~f 54 (154)
+|.++++.+++||.|++
T Consensus 54 ~a~~~~~~~~kG~~V~v 70 (100)
T cd04496 54 LAENAAKYLKKGDLVYV 70 (100)
T ss_pred HHHHHHHHhCCCCEEEE
Confidence 78989988999999986
No 33
>cd01234 PH_CADPS CADPS (Ca2+-dependent activator protein) Pleckstrin homology (PH) domain. CADPS (Ca2+-dependent activator protein) Pleckstrin homology (PH) domain. CADPS is a calcium-dependent activator involved in secretion. It contains a central PH domain that binds to phosphoinositide 4,5 bisphosphate containing liposomes. However, membrane association may also be mediated by binding to phosphatidlyserine via general electrostatic interactions. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains.
Probab=35.34 E-value=26 Score=26.70 Aligned_cols=47 Identities=13% Similarity=0.130 Sum_probs=28.1
Q ss_pred eecCCCc------eehhcchhcCCceeecccccHHHHHHHHhccCCCEEEEEEe
Q 039512 10 LKTEPGE------WSWEDQAANGGVTKWDGVKNKQAQKNMKAMRLNELCFFYHS 57 (154)
Q Consensus 10 lKsEP~~------fsiddl~~~~~~~~WdGVRNyqArn~lr~Mk~GD~~~fYHS 57 (154)
-||+|.+ |.+|=..... ..+=.|+-.--.|-|...+|.||.+.|=.+
T Consensus 42 kks~P~e~~qldGyTvDy~~~~~-~~~~~~~~~~gg~~ff~avkegd~~~fa~~ 94 (117)
T cd01234 42 KKAEPTEFIQLDGYTVDYMPESD-PDPNSELSLQGGRHFFNAVKEGDELKFATD 94 (117)
T ss_pred hcCCchhheeecceEEeccCCCC-CCcccccccccchhhhheeccCcEEEEecc
Confidence 3788875 5555433211 122223333344668889999999998544
No 34
>PRK05585 yajC preprotein translocase subunit YajC; Validated
Probab=34.18 E-value=77 Score=23.39 Aligned_cols=28 Identities=14% Similarity=0.278 Sum_probs=19.7
Q ss_pred HHHHHhccCCCEEEEEEeCCCCCeEEEEEEEeee
Q 039512 40 QKNMKAMRLNELCFFYHSGARSRRVVGVVSVLRE 73 (154)
Q Consensus 40 rn~lr~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~ 73 (154)
++++..+++||+|.. ..||+|...=+.+
T Consensus 47 ~~~~~~Lk~Gd~VvT------~gGi~G~Vv~i~~ 74 (106)
T PRK05585 47 KKMLSSLAKGDEVVT------NGGIIGKVTKVSE 74 (106)
T ss_pred HHHHHhcCCCCEEEE------CCCeEEEEEEEeC
Confidence 455556999999984 4688887554443
No 35
>PF11132 SplA: Transcriptional regulator protein (SplA); InterPro: IPR022608 The SplA protein functions in trans as a negative regulator of the level of splB-lacZ expression in the developing forespore [].
Probab=33.53 E-value=37 Score=24.09 Aligned_cols=29 Identities=7% Similarity=0.125 Sum_probs=18.7
Q ss_pred HhccCCCEEEEEEeCCCCCeEEEEEEEeeecc
Q 039512 44 KAMRLNELCFFYHSGARSRRVVGVVSVLREWY 75 (154)
Q Consensus 44 r~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~ay 75 (154)
+.+++||.||+.-.| |....+|-|-..++
T Consensus 4 ~~~~~GD~VyViYrN---PHt~~VanIqeAei 32 (75)
T PF11132_consen 4 KPYHAGDIVYVIYRN---PHTQDVANIQEAEI 32 (75)
T ss_pred cccCCCCEEEEEEcC---CCCccccccchhhe
Confidence 468999999987777 44444444444443
No 36
>TIGR02594 conserved hypothetical protein TIGR02594. Members of this protein family known so far are restricted to the bacteria, and for the most to the proteobacteria. The function is unknown.
Probab=33.19 E-value=43 Score=25.34 Aligned_cols=22 Identities=18% Similarity=0.129 Sum_probs=16.2
Q ss_pred hccCCCEEEEEEeCCCCCeEEEEEE
Q 039512 45 AMRLNELCFFYHSGARSRRVVGVVS 69 (154)
Q Consensus 45 ~Mk~GD~~~fYHS~~~~~gIvGiae 69 (154)
..++||+|||..++ .+=|||+.
T Consensus 73 ~p~~GDiv~f~~~~---~~HVGi~~ 94 (129)
T TIGR02594 73 KPAYGCIAVKRRGG---GGHVGFVV 94 (129)
T ss_pred CCCccEEEEEECCC---CCEEEEEE
Confidence 48899999996544 45677765
No 37
>COG2411 Uncharacterized conserved protein [Function unknown]
Probab=33.10 E-value=74 Score=26.16 Aligned_cols=51 Identities=14% Similarity=0.274 Sum_probs=37.5
Q ss_pred hccCCCEEEEEEeCCCCCeEEEEEEEeeeccc---CCCC-----C----------------------CCeeEEEEEEeee
Q 039512 45 AMRLNELCFFYHSGARSRRVVGVVSVLREWYE---ESGD-----G----------------------AGAGAVDVKEVGM 94 (154)
Q Consensus 45 ~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~ayp---D~t~-----~----------------------prw~~Vdv~~~~~ 94 (154)
..++|+.|++ ||+ +-|+|.|+|.+..|- +-|+ + .--..|+++.+++
T Consensus 34 ~~k~g~eVyI-h~~---g~i~gkAkIk~V~~KrV~ELTdEDAr~DGF~sreELi~~LkriYg~lr~ed~VTIi~Fe~v~~ 109 (188)
T COG2411 34 VLKPGSEVYI-HSG---GYIIGKAKIKKVKTKRVSELTDEDARLDGFRSREELIEELKRIYGELRDEDIVTIIEFEVVEK 109 (188)
T ss_pred cCCCCCEEEE-EEC---CEEEEEEEEEEEEEeeHhhhhHHHHHhcccccHHHHHHHHHHHcCcCCCCceEEEEEEEEehh
Confidence 3689999987 676 389999999888762 2221 1 1136788999999
Q ss_pred eCCcc
Q 039512 95 MRRAV 99 (154)
Q Consensus 95 l~~pv 99 (154)
|+.||
T Consensus 110 ~d~~i 114 (188)
T COG2411 110 LDKPI 114 (188)
T ss_pred ccchh
Confidence 99998
No 38
>PRK05461 apaG CO2+/MG2+ efflux protein ApaG; Reviewed
Probab=32.39 E-value=35 Score=26.08 Aligned_cols=25 Identities=28% Similarity=0.389 Sum_probs=18.0
Q ss_pred ccCCCEEEEEEeCCCCCe----EEEEEEEe
Q 039512 46 MRLNELCFFYHSGARSRR----VVGVVSVL 71 (154)
Q Consensus 46 Mk~GD~~~fYHS~~~~~g----IvGiaeVv 71 (154)
+++|+ .|-|.|+|.-.. .-|-...+
T Consensus 76 L~PGe-~F~Y~S~~~l~tp~G~M~G~y~~~ 104 (127)
T PRK05461 76 LAPGE-SFEYTSGAVLETPSGTMQGHYQMV 104 (127)
T ss_pred ECCCC-CeEEeCCCCccCCCEEEEEEEEEE
Confidence 89998 899999995333 44555555
No 39
>COG0791 Spr Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]
Probab=31.84 E-value=54 Score=25.56 Aligned_cols=23 Identities=30% Similarity=0.600 Sum_probs=14.7
Q ss_pred hccCCCEEEEEEeCCCCCeEEEE
Q 039512 45 AMRLNELCFFYHSGARSRRVVGV 67 (154)
Q Consensus 45 ~Mk~GD~~~fYHS~~~~~gIvGi 67 (154)
++++||++||.-.+...+.=|||
T Consensus 138 ~~~~GDlvff~~~~~~~~~Hvgi 160 (197)
T COG0791 138 DLQPGDLVFFNTGGGSSANHVGI 160 (197)
T ss_pred hCCCCCEEEEecCCCCCCCeEEE
Confidence 38999999998632223344444
No 40
>PF06200 tify: tify domain; InterPro: IPR010399 The tify domain is a 36-amino acid domain only found among Embryophyta (land plants). It has been named after the most conserved amino acid pattern (TIF[F/Y]XG) it contains, but was previously known as the Zim domain. As the use of uppercase characters (TIFY) might imply that the domain is fully conserved across proteins, a lowercase lettering has been chosen in an attempt to highlight the reality of its natural variability. Based on the domain architecture, tify domain containing proteins can be classified into two groups. Group I is formed by proteins possessing a CCT (CONSTANS, CO-like, and TOC1) domain and a GATA-type zinc finger in addition to the tify domain. Group II contains proteins characterised by the tify domain but lacking a GATA-type zinc finger. Tify domain containing proteins might be involved in developmental processes and some of them have features that are characteristic for transcription factors: a nuclear localisation and the presence of a putative DNA-binding domain []. Some proteins known to contain a tify domain include: Arabidopsis thaliana Zinc-finger protein expressed in Inflorescence Meristem (ZIM), a putative transcription factor involved in inflorescence and flower development [, ]. A. thaliana ZIM-like proteins (ZML) []. A. thaliana PEAPOD1 and PEAPOD2 (PPD1 and PPD2) [].
Probab=29.39 E-value=59 Score=19.77 Aligned_cols=31 Identities=16% Similarity=0.187 Sum_probs=26.2
Q ss_pred cccCceecccCCCccee-cCHHHHHHHHHhcC
Q 039512 109 ELKGWALFRQPRLSVVN-VEKKVWDRVCDLGG 139 (154)
Q Consensus 109 ~L~~m~llr~~RLSV~p-Vt~eew~~I~~l~~ 139 (154)
.=+.|.++=.++..|+- ||++.-+.|+.|++
T Consensus 4 ~~~qLTIfY~G~V~Vfd~v~~~Ka~~im~lA~ 35 (36)
T PF06200_consen 4 ETAQLTIFYGGQVCVFDDVPPDKAQEIMLLAS 35 (36)
T ss_pred CCCcEEEEECCEEEEeCCCCHHHHHHHHHHhc
Confidence 34567788889999998 99999999999985
No 41
>PRK12390 1-aminocyclopropane-1-carboxylate deaminase; Provisional
Probab=29.16 E-value=45 Score=28.53 Aligned_cols=31 Identities=10% Similarity=0.150 Sum_probs=20.5
Q ss_pred ccHHH-HHHHHh--ccCCCEEEEEEeCCCCCeEEE
Q 039512 35 KNKQA-QKNMKA--MRLNELCFFYHSGARSRRVVG 66 (154)
Q Consensus 35 RNyqA-rn~lr~--Mk~GD~~~fYHS~~~~~gIvG 66 (154)
.++.| ..++++ ++.|+.|+|+|||. .+|.-|
T Consensus 297 ~~~aa~~~~~~~g~~~~~~~vv~~htgg-~~~~~~ 330 (337)
T PRK12390 297 KSMHGMIDLVRKGEFPEGSKVLYAHLGG-VPALNA 330 (337)
T ss_pred HHHHHHHHHHhcCCCCCCCeEEEEeCCC-hHhhhc
Confidence 34444 444543 78899999999994 455444
No 42
>PRK11470 hypothetical protein; Provisional
Probab=29.12 E-value=26 Score=28.82 Aligned_cols=84 Identities=10% Similarity=0.118 Sum_probs=43.0
Q ss_pred hccCCCEEEEEEeCCCCCeEEEEEEEeeecccCCC------CCCCeeEEEEEEeeeeCCccChhhHhcCccccCceeccc
Q 039512 45 AMRLNELCFFYHSGARSRRVVGVVSVLREWYEESG------DGAGAGAVDVKEVGMMRRAVDLKEMKRDQELKGWALFRQ 118 (154)
Q Consensus 45 ~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~aypD~t------~~prw~~Vdv~~~~~l~~pv~L~~Lk~~p~L~~m~llr~ 118 (154)
..+.||++|.--.+.+. ..|..++...+ ++. ++..|+. ++.+.+..+-.||++..+... .+...+.
T Consensus 8 ~l~~GDLvF~~~~~~~~---~aI~~aT~s~~-sHvGII~~~~~~~~~V--lEA~~~~vr~TpLs~fi~r~~-~g~i~v~- 79 (200)
T PRK11470 8 EYEIGDIVFTCIGAALF---GQISAASNCWS-NHVGIIIGHNGEDFLV--AESRVPLSTVTTLSRFIKRSA-NQRYAIK- 79 (200)
T ss_pred CCCCCCEEEEeCCcchh---HHHHhccCCcc-ceEEEEEEEcCCceEE--EEecCCceEEeEHHHHHhcCc-CceEEEE-
Confidence 58999999886322111 22333333222 111 0234665 444444445678888888765 2222222
Q ss_pred CCCcceecCHHHHHHHHHhc
Q 039512 119 PRLSVVNVEKKVWDRVCDLG 138 (154)
Q Consensus 119 ~RLSV~pVt~eew~~I~~l~ 138 (154)
|| ..|+|+++-..+++.+
T Consensus 80 -Rl-~~~l~~~~~~~~~~~A 97 (200)
T PRK11470 80 -RL-DAGLTEQQKQRIVEQV 97 (200)
T ss_pred -Ee-cCCCCHHHHHHHHHHH
Confidence 22 1346777777665554
No 43
>COG3011 Predicted thiol-disulfide oxidoreductase [General function prediction only]
Probab=29.06 E-value=31 Score=26.97 Aligned_cols=99 Identities=11% Similarity=0.121 Sum_probs=61.6
Q ss_pred HHhccCCCEEEEEEeCC-------------CCCeEEEEEEEeeec----c---cCCCCC-CCeeEEEEEEeee-eCCccC
Q 039512 43 MKAMRLNELCFFYHSGA-------------RSRRVVGVVSVLREW----Y---EESGDG-AGAGAVDVKEVGM-MRRAVD 100 (154)
Q Consensus 43 lr~Mk~GD~~~fYHS~~-------------~~~gIvGiaeVv~~a----y---pD~t~~-prw~~Vdv~~~~~-l~~pv~ 100 (154)
|++|+.+|.+++|-.+| ..++.+=.+.+-+|. + +-+++. ..+.. ++-.+. ...-..
T Consensus 2 ~~~~~~p~~vvlyDG~C~lC~~~vrfLi~~D~~~~i~f~~~q~e~g~~~l~~~~l~~~~~~s~~~--~~~g~~~~~sdA~ 79 (137)
T COG3011 2 LPQMKKPDLVVLYDGVCPLCDGWVRFLIRRDQGGRIRFAALQSEPGQALLEAAGLDPEDVDSVLL--VEAGQLLVGSDAA 79 (137)
T ss_pred CCCCCCCCEEEEECCcchhHHHHHHHHHHhccCCcEEEEeccCchhhhHHhhcCCChhhhheeeE--ecCCceEeccHHH
Confidence 56899999999999999 245666666665554 1 111111 11221 233333 355677
Q ss_pred hhhHhcCccccCceecccCCCcceecCHHHHHHHHHhcCCCCCCC
Q 039512 101 LKEMKRDQELKGWALFRQPRLSVVNVEKKVWDRVCDLGGGFDGDG 145 (154)
Q Consensus 101 L~~Lk~~p~L~~m~llr~~RLSV~pVt~eew~~I~~l~~~~~~~~ 145 (154)
++.++..| ..+.++.-.++=..||+..-|+.+-..-=.|-|..
T Consensus 80 ~~i~~~L~--~~Wr~~~~~~~lp~plrD~~Y~~~A~nRyrwfGr~ 122 (137)
T COG3011 80 IRILRLLP--GPWRLLVWLWILPRPLRDRVYDFFADNRYRWFGRK 122 (137)
T ss_pred HHHHHHCC--cceeeeehhhccchHHHHHHHHHHHHhhhhhcCcc
Confidence 77888777 66666665555558999999988876554454443
No 44
>COG4043 Preprotein translocase subunit Sec61beta [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.18 E-value=36 Score=25.73 Aligned_cols=14 Identities=7% Similarity=0.211 Sum_probs=11.7
Q ss_pred HHhccCCCEEEEEE
Q 039512 43 MKAMRLNELCFFYH 56 (154)
Q Consensus 43 lr~Mk~GD~~~fYH 56 (154)
.|.||+||.++|=.
T Consensus 31 rr~ik~GD~IiF~~ 44 (111)
T COG4043 31 RRQIKPGDKIIFNG 44 (111)
T ss_pred hcCCCCCCEEEEcC
Confidence 56899999999953
No 45
>PF13509 S1_2: S1 domain; PDB: 3GO5_A.
Probab=27.66 E-value=87 Score=20.38 Aligned_cols=23 Identities=17% Similarity=0.452 Sum_probs=11.7
Q ss_pred HhccCCCE--EEEEEeCCCCCeEEEEE
Q 039512 44 KAMRLNEL--CFFYHSGARSRRVVGVV 68 (154)
Q Consensus 44 r~Mk~GD~--~~fYHS~~~~~gIvGia 68 (154)
..+++||. ||+|+-. ...+++++
T Consensus 36 ~~~~~Gd~v~VFvY~D~--~~rl~AT~ 60 (61)
T PF13509_consen 36 EPLKVGDEVEVFVYLDK--EGRLVATT 60 (61)
T ss_dssp ----TTSEEEEEEEE-T--TS-EEEE-
T ss_pred CCCCCCCEEEEEEEECC--CCCEEEec
Confidence 35999996 6889877 33666654
No 46
>PRK09778 putative antitoxin of the YafO-YafN toxin-antitoxin system; Provisional
Probab=26.64 E-value=90 Score=23.16 Aligned_cols=42 Identities=12% Similarity=0.294 Sum_probs=33.0
Q ss_pred CccChhhHhcCcc--ccCc--eecccCCCcceecCHHHHHHHHHhc
Q 039512 97 RAVDLKEMKRDQE--LKGW--ALFRQPRLSVVNVEKKVWDRVCDLG 138 (154)
Q Consensus 97 ~pv~L~~Lk~~p~--L~~m--~llr~~RLSV~pVt~eew~~I~~l~ 138 (154)
.-++.+|||.+|. +.+. .+|.++|-+-.=|+++.|+.++++.
T Consensus 8 ~taSISELKKNP~~~~~g~PVAILNhN~PafY~Vpa~~yE~m~e~L 53 (97)
T PRK09778 8 KSVNITELRKNPAKYFIDQPVAVLSNNRPAGYLLSASAFEALMDML 53 (97)
T ss_pred hhccHHHHhhCHHHHhcCCceEEecCCceeEEEeCHHHHHHHHHHH
Confidence 3578899999984 4444 4567789899999999999998765
No 47
>TIGR03784 marine_sortase sortase, marine proteobacterial type. Members of this protein family are sortase enzymes, cysteine transpeptidases involved in protein sorting activities. Members of this family tend to be found in proteobacteria, rather than in Gram-positive bacteria where sortases attach proteins to the Gram-positive cell wall or participate in pilin cross-linking. Many species with this sortase appear to contain a signal target sequence, a protein with a Vault protein inter-alpha-trypsin domain (pfam08487) and a von Willebrand factor type A domain (pfam00092), encoded by an adjacent gene. These sortases are designated subfamily 6 according to Comfort and Clubb (2004).
Probab=26.03 E-value=99 Score=24.59 Aligned_cols=47 Identities=6% Similarity=0.037 Sum_probs=29.4
Q ss_pred ceeecccccHHHHHHHHhccCCCEEEEEEeCCCCCeEEEEEEEeeecccCCC
Q 039512 28 VTKWDGVKNKQAQKNMKAMRLNELCFFYHSGARSRRVVGVVSVLREWYEESG 79 (154)
Q Consensus 28 ~~~WdGVRNyqArn~lr~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~aypD~t 79 (154)
...--|.|+...+ +|.++++||.+.+.-.+. -.=.++|.+...-+|+
T Consensus 92 n~VIAGHrdt~F~-~L~~L~~GD~I~v~~~~g----~~~~Y~V~~~~iV~~~ 138 (174)
T TIGR03784 92 NSVIAGHRDTHFA-FLQELRPGDVIRLQTPDG----QWQSYQVTATRVVDES 138 (174)
T ss_pred cEEEEeeCCccCC-ChhhCCCCCEEEEEECCC----eEEEEEEeEEEEECCc
Confidence 4556688875533 677899999999987652 2224555555444443
No 48
>TIGR00451 unchar_dom_2 uncharacterized domain 2. This uncharacterized domain is found a number of enzymes and uncharacterized proteins, often at the C-terminus. It is found in some but not all members of a family of related tRNA-guanine transglycosylases (tgt), which exchange a guanine base for some modified base without breaking the phosphodiester backbone of the tRNA. It is also found in rRNA pseudouridine synthase, another enzyme of RNA base modification not otherwise homologous to tgt. It is found, again at the C-terminus, in two putative glutamate 5-kinases. It is also found in a family of small, uncharacterized archaeal proteins consisting mostly of this domain.
Probab=25.98 E-value=80 Score=22.61 Aligned_cols=28 Identities=7% Similarity=0.086 Sum_probs=18.1
Q ss_pred hccCCCEEEEEEeCCCCCeEEEEEEEee
Q 039512 45 AMRLNELCFFYHSGARSRRVVGVVSVLR 72 (154)
Q Consensus 45 ~Mk~GD~~~fYHS~~~~~gIvGiaeVv~ 72 (154)
++++||.|.++.++...+=-+|.+.+.+
T Consensus 60 ~~~~gd~V~I~~~~~~~~iavG~a~~~s 87 (107)
T TIGR00451 60 DIKEGDDVVVVDENKDRPLAVGIALMSG 87 (107)
T ss_pred CcCCCCEEEEEECCCCeEEEEEEEecCH
Confidence 4789999999987732334445544443
No 49
>PF05017 TMP: TMP repeat; InterPro: IPR007713 This short repeat consists of the motif WXXh where X can be any residue and h is a hydrophobic residue. The repeat is named TMP after its occurrence in the tape measure protein (TMP). Tape measure protein is a component of phage tail and probably forms a beta-helix. Truncated forms of TMP lead to shortened tail fibres []. This repeat is also found in non-phage proteins where it may play a structural role.
Probab=25.78 E-value=19 Score=16.37 Aligned_cols=7 Identities=43% Similarity=1.279 Sum_probs=4.9
Q ss_pred ecccccH
Q 039512 31 WDGVKNK 37 (154)
Q Consensus 31 WdGVRNy 37 (154)
|+||++.
T Consensus 1 Wn~Ik~~ 7 (11)
T PF05017_consen 1 WNGIKSF 7 (11)
T ss_pred CchHHHH
Confidence 7787763
No 50
>COG3050 HolD DNA polymerase III, psi subunit [DNA replication, recombination, and repair]
Probab=25.39 E-value=51 Score=25.69 Aligned_cols=40 Identities=18% Similarity=0.258 Sum_probs=26.6
Q ss_pred CCceeEEeecCCCceehhcchhcCCceeecccc-cHHHHHHHH
Q 039512 3 KERQYWLLKTEPGEWSWEDQAANGGVTKWDGVK-NKQAQKNMK 44 (154)
Q Consensus 3 ~~m~YWLlKsEP~~fsiddl~~~~~~~~WdGVR-NyqArn~lr 44 (154)
..-.||++-++ +-||..-... -+.-.|.+.| |.|||.-|=
T Consensus 82 ~~~~~W~lg~d-~pl~~~a~qv-~~Sp~~s~~~~N~~arrALW 122 (133)
T COG3050 82 SPCNSWRLGTD-EPLSLQAAQV-AHSPALSQLRANHQARRALW 122 (133)
T ss_pred CcceeeeccCC-cccchHHHHH-HcChhHHhhhcCHHHHHHHH
Confidence 34579999887 4455543222 1235599999 999987764
No 51
>PF06884 DUF1264: Protein of unknown function (DUF1264); InterPro: IPR010686 This family contains a number of bacterial and eukaryotic proteins of unknown function that are approximately 200 residues long. Some family members are annotated as putative lipoproteins.
Probab=24.06 E-value=81 Score=25.63 Aligned_cols=24 Identities=29% Similarity=0.621 Sum_probs=22.5
Q ss_pred EEEEEEeCCCCCeEEEEEEEeeec
Q 039512 51 LCFFYHSGARSRRVVGVVSVLREW 74 (154)
Q Consensus 51 ~~~fYHS~~~~~gIvGiaeVv~~a 74 (154)
+|++|.|+.+...++||==||++.
T Consensus 41 QC~iyDs~~~~ArLIGvEYiISe~ 64 (171)
T PF06884_consen 41 QCLIYDSNEPNARLIGVEYIISEK 64 (171)
T ss_pred EEEEecCCCCCcceeeeeEEEcHH
Confidence 699999999899999999999987
No 52
>TIGR03684 arCOG00985 arCOG04150 universal archaeal PUA-domain protein. This universal archaeal protein contains a domain possibly associated with RNA binding (pfam01472, TIGR00451).
Probab=24.02 E-value=93 Score=23.73 Aligned_cols=30 Identities=17% Similarity=0.261 Sum_probs=21.4
Q ss_pred hccCCCEEEEEEeCCCCCeEEEEEEEeeec
Q 039512 45 AMRLNELCFFYHSGARSRRVVGVVSVLREW 74 (154)
Q Consensus 45 ~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~a 74 (154)
+.++||.|.++..+...+=.||++.+.++.
T Consensus 99 ~~~~Gd~V~I~~~~~~~~vavG~a~~ss~e 128 (150)
T TIGR03684 99 SIKEGDIVFVVDETHRKPLAVGIALMDAEE 128 (150)
T ss_pred CCCCCCEEEEEECCCCeEEEEEEEeeCHHH
Confidence 478899999998774355566777666554
No 53
>PRK15215 fimbriae biosynthesis regulatory protein; Provisional
Probab=23.83 E-value=68 Score=23.92 Aligned_cols=24 Identities=13% Similarity=0.163 Sum_probs=21.5
Q ss_pred cccCCCcceecCHHHHHHHHHhcC
Q 039512 116 FRQPRLSVVNVEKKVWDRVCDLGG 139 (154)
Q Consensus 116 lr~~RLSV~pVt~eew~~I~~l~~ 139 (154)
+++++|+.-.|+++||..+++++.
T Consensus 21 ~k~~~L~pG~v~eehF~LLieIS~ 44 (100)
T PRK15215 21 IRRGALIPAKVNEEHFWLLIGISS 44 (100)
T ss_pred cccCcccCCccCHHHHHHHHHHcc
Confidence 467999999999999999999874
No 54
>PRK02290 3-dehydroquinate synthase; Provisional
Probab=23.51 E-value=1.1e+02 Score=27.34 Aligned_cols=48 Identities=15% Similarity=0.291 Sum_probs=34.1
Q ss_pred CCceeecccccHHHHHHHHhccCCCEEEEEEeCCC-CCeEEEEEEEeeec
Q 039512 26 GGVTKWDGVKNKQAQKNMKAMRLNELCFFYHSGAR-SRRVVGVVSVLREW 74 (154)
Q Consensus 26 ~~~~~WdGVRNyqArn~lr~Mk~GD~~~fYHS~~~-~~gIvGiaeVv~~a 74 (154)
+....|-.+.+-.. +||.+++.||.|++...... ...+||-++|=+-+
T Consensus 230 GaVhaYv~~pgg~T-~YLsEL~sG~eVlvVd~~G~tR~~~VGRvKIE~RP 278 (344)
T PRK02290 230 GAVHAYVRVPGDKT-RYLSELRSGDEVLVVDADGNTREAIVGRVKIEKRP 278 (344)
T ss_pred CcceeEEEcCCCcc-hhhHhhcCCCEEEEEeCCCCEEEEEeeEEEEeecc
Confidence 34555644432222 38999999999999987654 56899999987765
No 55
>PRK14560 putative RNA-binding protein; Provisional
Probab=22.98 E-value=96 Score=23.95 Aligned_cols=30 Identities=10% Similarity=0.111 Sum_probs=20.6
Q ss_pred hccCCCEEEEEEeCCCCCeEEEEEEEeeec
Q 039512 45 AMRLNELCFFYHSGARSRRVVGVVSVLREW 74 (154)
Q Consensus 45 ~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~a 74 (154)
+.++||.|.++..+...+=-||++.+.+..
T Consensus 106 ~~~~Gd~V~I~~~~~~~~vavG~~~~s~~e 135 (160)
T PRK14560 106 DIKEGDIVFVVEETHGKPLAVGRALMDGDE 135 (160)
T ss_pred CCCCCCEEEEEECCCCeEEEEEEEeeCHHH
Confidence 468899999998773345555666665543
No 56
>PF14221 DUF4330: Domain of unknown function (DUF4330)
Probab=22.46 E-value=3.4e+02 Score=21.36 Aligned_cols=35 Identities=9% Similarity=-0.090 Sum_probs=27.7
Q ss_pred HHHHHh-ccCCCEEEEEEeCCCCCeEEEEEEEeeecc
Q 039512 40 QKNMKA-MRLNELCFFYHSGARSRRVVGVVSVLREWY 75 (154)
Q Consensus 40 rn~lr~-Mk~GD~~~fYHS~~~~~gIvGiaeVv~~ay 75 (154)
+.++.+ ++.||.+-+..+| .+.|-|-+..|-..++
T Consensus 65 ~~~~~~~~~~gd~~~~~~rn-qp~G~v~V~~V~~~p~ 100 (168)
T PF14221_consen 65 EPLVADAIKEGDKTNIVIRN-QPAGQVTVKDVQVLPR 100 (168)
T ss_pred cHHHHHhccCCCEEEEeccC-ccccceEEEEEEEEcc
Confidence 456666 9999999999999 5777777777766664
No 57
>PF14164 YqzH: YqzH-like protein
Probab=22.41 E-value=66 Score=22.14 Aligned_cols=22 Identities=18% Similarity=0.514 Sum_probs=17.0
Q ss_pred ccc-CCC-cceecCHHHHHHHHHh
Q 039512 116 FRQ-PRL-SVVNVEKKVWDRVCDL 137 (154)
Q Consensus 116 lr~-~RL-SV~pVt~eew~~I~~l 137 (154)
||| ||- +..|+|+.||+.+++-
T Consensus 14 l~QYg~d~~~~pls~~E~~~L~~~ 37 (64)
T PF14164_consen 14 LRQYGYDVECMPLSDEEWEELCKH 37 (64)
T ss_pred HHHhCCcccCCCCCHHHHHHHHHH
Confidence 455 555 7899999999988653
No 58
>COG0272 Lig NAD-dependent DNA ligase (contains BRCT domain type II) [DNA replication, recombination, and repair]
Probab=21.60 E-value=88 Score=30.41 Aligned_cols=30 Identities=27% Similarity=0.324 Sum_probs=25.5
Q ss_pred hccCCCEEEEEEeCCCCCeEEEEEEEeeec
Q 039512 45 AMRLNELCFFYHSGARSRRVVGVVSVLREW 74 (154)
Q Consensus 45 ~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~a 74 (154)
++++||.|+++.+|---|.|+++..=.|..
T Consensus 367 dIrIGDtV~V~kAGdVIP~V~~Vv~e~R~~ 396 (667)
T COG0272 367 DIRIGDTVVVRKAGDVIPQVVGVVLEKRPG 396 (667)
T ss_pred CCCCCCEEEEEecCCCCcceeeeecccCCC
Confidence 699999999999997678998887766554
No 59
>KOG2589 consensus Histone tail methylase [Chromatin structure and dynamics]
Probab=21.44 E-value=71 Score=29.32 Aligned_cols=17 Identities=29% Similarity=0.466 Sum_probs=14.1
Q ss_pred HHHhccCCCEEE-EEEeC
Q 039512 42 NMKAMRLNELCF-FYHSG 58 (154)
Q Consensus 42 ~lr~Mk~GD~~~-fYHS~ 58 (154)
.||||++||.+- ||-|+
T Consensus 222 vlRDIePGeEITcFYgs~ 239 (453)
T KOG2589|consen 222 VLRDIEPGEEITCFYGSG 239 (453)
T ss_pred hhhcCCCCceeEEeeccc
Confidence 899999999985 66654
No 60
>cd02107 YedY_like_Moco YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY, which is likely membrane-anchored by a heme-containing trans-membrane subunit YedZ. Preliminary results indicate that YedY may represent a new type of membrane-associated bacterial reductase. Common features of all known members of this family are that they contain one single pterin cofactor and part of the coordination of the metal (Mo) is a cysteine ligand of the protein and that they catalyze the transfer of an oxygen to or from a lone pair of electrons on the substrate.
Probab=21.44 E-value=1.2e+02 Score=25.32 Aligned_cols=35 Identities=14% Similarity=0.158 Sum_probs=24.8
Q ss_pred cCCCceehhcchh-cCC---------------ceeecccccHHHHHHHHhccCC
Q 039512 12 TEPGEWSWEDQAA-NGG---------------VTKWDGVKNKQAQKNMKAMRLN 49 (154)
Q Consensus 12 sEP~~fsiddl~~-~~~---------------~~~WdGVRNyqArn~lr~Mk~G 49 (154)
.+|-.||++||.+ -.+ ...|.||| -+.+|....+-
T Consensus 37 ~~p~~ltl~eL~~~lP~~~~~~~l~Cv~gWs~~a~W~GV~---L~dlLe~ag~~ 87 (218)
T cd02107 37 KKPKTLDIDDLMKTFPLEERIYRFRCVEGWSMVVPWVGFP---LAALLARAEPT 87 (218)
T ss_pred CCCeEEEHHHHHhcCCCeEEEEEEEEeCCCcceeEEEeeE---HHHHHHHcCCC
Confidence 4678899999976 211 25599999 67788875553
No 61
>PF00656 Peptidase_C14: Caspase domain; InterPro: IPR011600 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of sequences represent the p20 (20kDa) and p10 (10kDa) subunits of caspases, which together form the catalytic domain of the caspase and are derived from the p45 (45 kDa) precursor (IPR002398 from INTERPRO) []. Caspases (Cysteine-dependent ASPartyl-specific proteASE) are cysteine peptidases that belong to the MEROPS peptidase family C14 (caspase family, clan CD) based on the architecture of their catalytic dyad or triad []. Caspases are tightly regulated proteins that require zymogen activation to become active, and once active can be regulated by caspase inhibitors. Activated caspases act as cysteine proteases, using the sulphydryl group of a cysteine side chain for catalysing peptide bond cleavage at aspartyl residues in their substrates. The catalytic cysteine and histidine residues are on the p20 subunit after cleavage of the p45 precursor. Caspases are mainly involved in mediating cell death (apoptosis) [, , ]. They have two main roles within the apoptosis cascade: as initiators that trigger the cell death process, and as effectors of the process itself. Caspase-mediated apoptosis follows two main pathways, one extrinsic and the other intrinsic or mitochondrial-mediated. The extrinsic pathway involves the stimulation of various TNF (tumour necrosis factor) cell surface receptors on cells targeted to die by various TNF cytokines that are produced by cells such as cytotoxic T cells. The activated receptor transmits the signal to the cytoplasm by recruiting FADD, which forms a death-inducing signalling complex (DISC) with caspase-8. The subsequent activation of caspase-8 initiates the apoptosis cascade involving caspases 3, 4, 6, 7, 9 and 10. The intrinsic pathway arises from signals that originate within the cell as a consequence of cellular stress or DNA damage. The stimulation or inhibition of different Bcl-2 family receptors results in the leakage of cytochrome c from the mitochondria, and the formation of an apoptosome composed of cytochrome c, Apaf1 and caspase-9. The subsequent activation of caspase-9 initiates the apoptosis cascade involving caspases 3 and 7, among others. At the end of the cascade, caspases act on a variety of signal transduction proteins, cytoskeletal and nuclear proteins, chromatin-modifying proteins, DNA repair proteins and endonucleases that destroy the cell by disintegrating its contents, including its DNA. The different caspases have different domain architectures depending upon where they fit into the apoptosis cascades, however they all carry the catalytic p10 and p20 subunits. Caspases can have roles other than in apoptosis, such as caspase-1 (interleukin-1 beta convertase) (3.4.22.36 from EC), which is involved in the inflammatory process. The activation of apoptosis can sometimes lead to caspase-1 activation, providing a link between apoptosis and inflammation, such as during the targeting of infected cells. Caspases may also be involved in cell differentiation [].; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis; PDB: 1M72_C 2NN3_C 3V4L_A 3IBF_B 2QLF_D 2QLB_C 3IBC_B 2QL9_A 3R5K_B 3H1P_A ....
Probab=21.39 E-value=93 Score=24.26 Aligned_cols=20 Identities=20% Similarity=0.429 Sum_probs=15.8
Q ss_pred HHHHHhccCCCEEEEEEeCC
Q 039512 40 QKNMKAMRLNELCFFYHSGA 59 (154)
Q Consensus 40 rn~lr~Mk~GD~~~fYHS~~ 59 (154)
+++++..+.+|.++||=||.
T Consensus 56 ~~l~~~~~~~D~~~~yfsGH 75 (248)
T PF00656_consen 56 RELLQRAQPGDSVVFYFSGH 75 (248)
T ss_dssp HHHHTSGGTCSEEEEEEESE
T ss_pred hhhhccCCCCCeeEEEEecc
Confidence 44555577999999999985
No 62
>PRK02854 primosomal protein DnaI; Provisional
Probab=21.37 E-value=1.2e+02 Score=24.92 Aligned_cols=43 Identities=14% Similarity=0.173 Sum_probs=35.6
Q ss_pred CccChhhHhcCcc--c-----cCceecccCCCcceecCHHHHHHHHHhcC
Q 039512 97 RAVDLKEMKRDQE--L-----KGWALFRQPRLSVVNVEKKVWDRVCDLGG 139 (154)
Q Consensus 97 ~pv~L~~Lk~~p~--L-----~~m~llr~~RLSV~pVt~eew~~I~~l~~ 139 (154)
.-+++++||.+|. | .=..+|..+|=.-.=||++-|+.+++|..
T Consensus 9 ~~aSIsELKkNP~~vl~~A~G~pVAILN~N~PaFY~Vpa~~yE~L~e~e~ 58 (179)
T PRK02854 9 DVIGIDALVHDHQTVLAKAEGGVVAVFANNAPAFYAVTPARLAELLALEE 58 (179)
T ss_pred ccccHHHHHHCHHHHHHhcCCCeEEEecCCCceEEEeCHHHHHHHHHHHH
Confidence 4689999999983 2 34667788999999999999999998875
No 63
>cd00291 SirA_YedF_YeeD SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=21.25 E-value=1.3e+02 Score=19.24 Aligned_cols=20 Identities=10% Similarity=0.189 Sum_probs=18.1
Q ss_pred HHHHHHhccCCCEEEEEEeC
Q 039512 39 AQKNMKAMRLNELCFFYHSG 58 (154)
Q Consensus 39 Arn~lr~Mk~GD~~~fYHS~ 58 (154)
|++.|+.|+.|+.+.+-.++
T Consensus 16 ~~~~l~~l~~g~~l~v~~d~ 35 (69)
T cd00291 16 TKKALEKLKSGEVLEVLLDD 35 (69)
T ss_pred HHHHHhcCCCCCEEEEEecC
Confidence 78899999999999998887
No 64
>PF04379 DUF525: Protein of unknown function (DUF525); InterPro: IPR007474 This domain is found in the bacterial protein ApaG and at the C termini of some F-box proteins (IPR001810 from INTERPRO). F-box proteins contain a carboxy-terminal domain that interacts with protein substrates []. The ApaG domain is ~125 amino acids in length, and is named after the bacterial ApaG protein, of which it forms the core. The Salmonella typhimurium ApaG domain protein, CorD, is involved in Co(2+) resistance and Mg(2+) efflux. Tertiary structures from different ApaG proteins show a fold of several beta-sheets. The ApaG domain may be involved in protein-protein interactions which could be implicated in substrate-specificity [, , ].; PDB: 2F1E_A 1XVS_A 1TZA_A 1XQ4_D.
Probab=21.23 E-value=48 Score=23.75 Aligned_cols=22 Identities=27% Similarity=0.378 Sum_probs=15.6
Q ss_pred ccCCCEEEEEEeCCCCCeEEEEE
Q 039512 46 MRLNELCFFYHSGARSRRVVGVV 68 (154)
Q Consensus 46 Mk~GD~~~fYHS~~~~~gIvGia 68 (154)
+++|+ .|=|.|+|.-..-.|.|
T Consensus 59 L~pGe-~f~Y~S~~~l~t~~G~M 80 (90)
T PF04379_consen 59 LAPGE-SFEYTSGCPLSTPSGSM 80 (90)
T ss_dssp E-TTE-EEEEEEEEEESSSEEEE
T ss_pred ECCCC-cEEEcCCCCcCCCCEEE
Confidence 78999 99999998544444554
No 65
>COG4118 Phd Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]
Probab=21.08 E-value=77 Score=22.55 Aligned_cols=28 Identities=18% Similarity=0.273 Sum_probs=23.9
Q ss_pred HHHhccCCCEEEEEEeCCCCCeEEEEEE
Q 039512 42 NMKAMRLNELCFFYHSGARSRRVVGVVS 69 (154)
Q Consensus 42 ~lr~Mk~GD~~~fYHS~~~~~gIvGiae 69 (154)
.|+.++.|+.|.+=.+|.+...||.+.+
T Consensus 17 lL~rV~aGEev~IT~~G~PVArivp~~~ 44 (84)
T COG4118 17 LLRRVRAGEEVIITKRGRPVARLVPLAP 44 (84)
T ss_pred HHHHHhCCCEEEEeeCCeEEEEEeecCc
Confidence 5667999999999999987777888776
No 66
>COG0234 GroS Co-chaperonin GroES (HSP10) [Posttranslational modification, protein turnover, chaperones]
Probab=20.52 E-value=58 Score=24.08 Aligned_cols=12 Identities=8% Similarity=0.343 Sum_probs=10.4
Q ss_pred hccCCCEEEEEE
Q 039512 45 AMRLNELCFFYH 56 (154)
Q Consensus 45 ~Mk~GD~~~fYH 56 (154)
++|+||.|+|=.
T Consensus 58 ~VkvGD~Vlf~k 69 (96)
T COG0234 58 DVKVGDRVLFGK 69 (96)
T ss_pred ccccCCEEEECc
Confidence 699999999954
No 67
>cd05830 Sortase_D_5 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved at the cell wall sorting signal and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. Class D sortases are further classified into subfamilies 4 and 5. This group contains a subset of Class D sortases belonging to subfamily-5 represented by Streptomyces avermitilis SAV4337. Subfamily-5 sortases recognize a nonstandard sorting signal (LAXTG) and have replaced Sortase A in some gram-postive bacteria. They may play a housekeeping role in the cell.
Probab=20.52 E-value=2.1e+02 Score=21.26 Aligned_cols=47 Identities=9% Similarity=-0.041 Sum_probs=28.7
Q ss_pred eeecccccHHH--HHHHHhccCCCEEEEEEeCCCCCeEEEEEEEeeecccCCCC
Q 039512 29 TKWDGVKNKQA--QKNMKAMRLNELCFFYHSGARSRRVVGVVSVLREWYEESGD 80 (154)
Q Consensus 29 ~~WdGVRNyqA--rn~lr~Mk~GD~~~fYHS~~~~~gIvGiaeVv~~aypD~t~ 80 (154)
..=-|.|+... =..|.++++||.+.++..+ +. =..+|.+...-+|++
T Consensus 47 ~viaGH~~~~~~~F~~L~~l~~Gd~i~v~~~~----~~-~~Y~V~~~~~v~~~~ 95 (137)
T cd05830 47 FAVAGHRTTYGAPFNDLDKLRPGDKIVVETAD----GW-YTYVVRSSEIVLPTD 95 (137)
T ss_pred EEEEecCCCCCcccccHhhCCCCCEEEEEECC----eE-EEEEEeEEEEECCCc
Confidence 33346664321 1246679999999988744 23 367777776555543
Done!