Query 037980
Match_columns 123
No_of_seqs 118 out of 470
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 06:19:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037980.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037980hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06146 mut-7_like_exo DEDDy 3 99.9 4E-23 8.6E-28 155.2 9.3 103 17-122 3-122 (193)
2 cd06141 WRN_exo DEDDy 3'-5' ex 99.9 3.5E-22 7.7E-27 145.4 10.4 102 18-122 1-107 (170)
3 cd06129 RNaseD_like DEDDy 3'-5 99.9 1.4E-21 3.1E-26 142.2 8.7 95 25-122 3-101 (161)
4 KOG4373 Predicted 3'-5' exonuc 99.9 4.3E-22 9.2E-27 159.2 5.6 120 3-122 16-219 (319)
5 PF01612 DNA_pol_A_exo1: 3'-5' 99.7 4E-17 8.7E-22 117.4 9.3 100 17-121 3-109 (176)
6 cd06148 Egl_like_exo DEDDy 3'- 99.6 2.9E-15 6.2E-20 112.6 8.8 84 37-120 9-97 (197)
7 TIGR01388 rnd ribonuclease D. 99.4 1.3E-12 2.7E-17 107.0 10.2 99 18-121 2-103 (367)
8 PRK10829 ribonuclease D; Provi 99.4 4.6E-12 1E-16 104.1 11.0 102 16-122 4-108 (373)
9 smart00474 35EXOc 3'-5' exonuc 99.3 1.7E-11 3.7E-16 87.2 9.7 100 19-121 5-107 (172)
10 cd06142 RNaseD_exo DEDDy 3'-5' 99.2 5.6E-11 1.2E-15 86.0 9.1 82 38-120 12-96 (178)
11 cd00007 35EXOc 3'-5' exonuclea 99.0 1.6E-09 3.4E-14 75.6 6.5 82 40-121 2-87 (155)
12 KOG2207 Predicted 3'-5' exonuc 99.0 3.8E-10 8.3E-15 96.7 4.0 89 16-106 393-489 (617)
13 cd09018 DEDDy_polA_RNaseD_like 99.0 2.8E-09 6.1E-14 74.8 7.3 82 40-121 1-86 (150)
14 cd06147 Rrp6p_like_exo DEDDy 3 98.6 4.1E-07 8.8E-12 67.6 10.3 98 20-121 10-110 (192)
15 COG0349 Rnd Ribonuclease D [Tr 98.2 6.1E-06 1.3E-10 67.8 7.4 85 37-121 16-103 (361)
16 PRK05755 DNA polymerase I; Pro 98.1 1.6E-05 3.5E-10 71.6 9.6 100 17-120 298-402 (880)
17 cd06140 DNA_polA_I_Bacillus_li 97.2 0.00097 2.1E-08 48.3 5.9 78 41-118 6-86 (178)
18 cd06139 DNA_polA_I_Ecoli_like_ 97.2 0.0014 3E-08 47.6 6.7 84 37-120 4-99 (193)
19 KOG2206 Exosome 3'-5' exoribon 94.2 0.028 6.1E-07 49.2 2.0 82 38-120 212-297 (687)
20 cd06125 DnaQ_like_exo DnaQ-lik 93.2 0.35 7.6E-06 32.1 5.7 70 41-120 1-83 (96)
21 cd06128 DNA_polA_exo DEDDy 3'- 91.8 0.19 4E-06 35.4 3.0 62 56-118 21-83 (151)
22 COG0749 PolA DNA polymerase I 90.3 0.81 1.8E-05 40.3 6.0 87 20-110 8-99 (593)
23 PRK14975 bifunctional 3'-5' ex 81.4 1.9 4.1E-05 37.3 3.7 50 17-71 5-54 (553)
24 TIGR00593 pola DNA polymerase 73.9 3.6 7.7E-05 37.9 3.4 91 20-117 309-407 (887)
25 PF00169 PH: PH domain; Inter 70.7 19 0.00042 22.2 5.5 31 3-33 71-101 (104)
26 cd07027 RNAP_RPB11_like RPB11 64.1 17 0.00036 23.9 4.2 36 63-98 7-44 (83)
27 cd01246 PH_oxysterol_bp Oxyste 63.5 19 0.00041 22.4 4.3 31 3-33 60-90 (91)
28 PRK06310 DNA polymerase III su 63.3 68 0.0015 24.8 9.1 86 36-122 5-129 (250)
29 KOG2657 Transmembrane glycopro 62.2 18 0.0004 31.8 5.1 63 3-94 282-346 (596)
30 cd07029 RNAP_I_III_AC19 AC19 s 61.6 17 0.00036 23.9 3.8 35 64-98 8-44 (85)
31 PF10364 NKWYS: Putative capsu 58.6 25 0.00054 25.6 4.6 70 25-100 34-104 (141)
32 PRK01146 DNA-directed RNA poly 58.6 24 0.00052 23.2 4.2 35 64-98 10-46 (85)
33 cd01247 PH_GPBP Goodpasture an 57.2 37 0.0008 22.2 5.0 29 4-32 61-89 (91)
34 cd06926 RNAP_II_RPB11 RPB11 su 55.9 36 0.00079 22.7 4.8 34 65-98 17-52 (93)
35 cd06927 RNAP_L L subunit of Ar 54.6 32 0.00069 22.5 4.3 36 63-98 7-44 (83)
36 PF13289 SIR2_2: SIR2-like dom 54.4 10 0.00023 25.7 2.1 29 77-105 76-105 (143)
37 cd06133 ERI-1_3'hExo_like DEDD 52.5 78 0.0017 22.1 6.5 42 80-122 81-132 (176)
38 smart00233 PH Pleckstrin homol 49.7 53 0.0012 19.5 4.7 30 4-33 70-99 (102)
39 cd01260 PH_CNK Connector enhan 49.6 38 0.00082 21.7 4.1 30 4-33 66-95 (96)
40 cd00821 PH Pleckstrin homology 47.7 53 0.0011 19.4 4.4 29 4-32 66-94 (96)
41 COG4328 Predicted nuclease (RN 47.2 28 0.00061 27.6 3.5 35 39-75 2-36 (266)
42 cd01265 PH_PARIS-1 PARIS-1 ple 46.0 57 0.0012 21.3 4.5 29 4-33 64-92 (95)
43 cd01251 PH_centaurin_alpha Cen 45.7 79 0.0017 20.9 5.3 24 11-34 76-99 (103)
44 PRK07740 hypothetical protein; 45.4 82 0.0018 24.3 6.0 104 19-122 30-180 (244)
45 cd01235 PH_SETbf Set binding f 41.2 80 0.0017 20.1 4.7 24 10-33 76-99 (101)
46 PRK06549 acetyl-CoA carboxylas 40.8 31 0.00066 24.6 2.7 19 1-19 2-20 (130)
47 PF09848 DUF2075: Uncharacteri 39.9 44 0.00096 26.9 3.9 39 10-48 192-231 (352)
48 cd05780 DNA_polB_Kod1_like_exo 38.2 1.6E+02 0.0035 21.6 6.6 72 38-110 3-98 (195)
49 PF13656 RNA_pol_L_2: RNA poly 38.0 22 0.00049 22.8 1.5 22 77-98 14-36 (77)
50 cd01233 Unc104 Unc-104 pleckst 35.9 98 0.0021 20.2 4.5 25 9-33 72-96 (100)
51 cd01250 PH_centaurin Centaurin 34.1 1E+02 0.0023 18.9 4.3 28 4-32 65-92 (94)
52 cd06127 DEDDh DEDDh 3'-5' exon 34.0 47 0.001 22.2 2.7 41 79-121 71-117 (159)
53 cd01406 SIR2-like Sir2-like: P 32.2 28 0.00061 26.4 1.5 28 77-104 169-197 (242)
54 cd01257 PH_IRS Insulin recepto 32.2 1.3E+02 0.0028 20.2 4.6 23 11-33 78-100 (101)
55 cd01245 PH_RasGAP_CG5898 RAS G 31.2 1.1E+02 0.0023 20.6 4.0 28 4-32 68-96 (98)
56 cd01264 PH_melted Melted pleck 31.1 1.2E+02 0.0027 20.5 4.4 24 9-32 75-98 (101)
57 PF05770 Ins134_P3_kin: Inosit 30.8 1.3E+02 0.0028 24.5 5.2 49 23-86 252-306 (307)
58 PF10453 NUFIP1: Nuclear fragi 30.6 69 0.0015 19.5 2.8 26 6-34 8-33 (56)
59 PRK14436 acylphosphatase; Prov 30.2 1.6E+02 0.0035 19.3 6.5 47 4-50 35-81 (91)
60 PF02381 MraZ: MraZ protein; 29.8 29 0.00063 21.4 1.0 21 76-96 17-38 (72)
61 PLN02205 alpha,alpha-trehalose 29.8 1.5E+02 0.0032 27.5 5.8 62 4-65 291-385 (854)
62 PF03633 Glyco_hydro_65C: Glyc 29.5 83 0.0018 18.2 3.0 19 3-21 11-29 (54)
63 PF14399 Transpep_BrtH: NlpC/p 29.0 1.3E+02 0.0028 23.3 4.8 40 10-50 63-102 (317)
64 PF12973 Cupin_7: ChrR Cupin-l 28.5 65 0.0014 20.6 2.6 33 46-78 1-38 (91)
65 cd01236 PH_outspread Outspread 28.5 1.4E+02 0.0031 20.1 4.4 24 9-32 78-101 (104)
66 PRK14433 acylphosphatase; Prov 28.2 1.7E+02 0.0038 19.0 6.2 48 3-50 31-78 (87)
67 cd04748 Commd COMM_Domain, a f 27.9 46 0.001 21.4 1.8 23 42-64 23-55 (87)
68 PRK14495 putative molybdopteri 27.4 75 0.0016 27.4 3.3 32 16-47 204-238 (452)
69 TIGR01407 dinG_rel DnaQ family 26.9 2.2E+02 0.0047 26.1 6.4 80 40-121 2-118 (850)
70 cd00900 PH-like Pleckstrin hom 26.7 1.4E+02 0.0031 17.5 4.6 23 11-33 76-98 (99)
71 KOG3438 DNA-directed RNA polym 26.4 93 0.002 21.5 3.1 34 65-98 16-51 (105)
72 PRK05641 putative acetyl-CoA c 25.9 75 0.0016 23.1 2.7 19 1-19 22-40 (153)
73 PRK06807 DNA polymerase III su 25.5 3.6E+02 0.0078 21.7 7.3 84 37-122 7-127 (313)
74 cd01252 PH_cytohesin Cytohesin 25.2 1.9E+02 0.0042 19.5 4.7 23 12-34 90-112 (125)
75 PRK14449 acylphosphatase; Prov 24.9 2E+02 0.0044 18.7 6.7 47 4-50 34-80 (90)
76 PRK14447 acylphosphatase; Prov 24.7 2.1E+02 0.0046 18.8 5.7 41 10-50 42-82 (95)
77 cd01244 PH_RasGAP_CG9209 RAS_G 24.6 1.9E+02 0.0041 19.3 4.4 28 4-32 69-96 (98)
78 KOG0390 DNA repair protein, SN 23.8 66 0.0014 29.6 2.5 39 37-76 667-708 (776)
79 PRK10117 trehalose-6-phosphate 23.6 90 0.002 26.9 3.2 40 26-65 243-301 (474)
80 cd03527 RuBisCO_small Ribulose 23.2 1.2E+02 0.0025 20.7 3.1 29 19-47 57-87 (99)
81 PF00982 Glyco_transf_20: Glyc 23.0 71 0.0015 27.4 2.5 61 5-65 230-322 (474)
82 PF00929 RNase_T: Exonuclease; 22.8 1.1E+02 0.0024 20.3 3.1 22 41-62 1-22 (164)
83 PRK14438 acylphosphatase; Prov 22.7 2.3E+02 0.005 18.5 6.6 47 4-50 34-80 (91)
84 PF14714 KH_dom-like: KH-domai 22.6 1.1E+02 0.0025 19.6 2.9 59 21-87 4-62 (80)
85 cd00307 RuBisCO_small_like Rib 22.5 1.2E+02 0.0027 19.9 3.1 30 19-48 42-73 (84)
86 PRK14424 acylphosphatase; Prov 22.5 2.4E+02 0.0053 18.7 6.4 47 4-50 38-84 (94)
87 cd06130 DNA_pol_III_epsilon_li 22.2 1.2E+02 0.0026 20.7 3.2 40 80-121 70-115 (156)
88 PRK14435 acylphosphatase; Prov 22.1 2.4E+02 0.0051 18.4 6.2 46 4-49 33-78 (90)
89 cd01241 PH_Akt Akt pleckstrin 21.8 2.1E+02 0.0045 18.8 4.2 17 17-33 84-100 (102)
90 PRK14450 acylphosphatase; Prov 21.7 2.4E+02 0.0052 18.3 5.9 47 4-50 33-80 (91)
91 PF15187 Augurin: Oesophageal 21.1 55 0.0012 22.7 1.2 18 20-44 46-63 (114)
92 smart00479 EXOIII exonuclease 20.9 1.5E+02 0.0031 20.4 3.4 82 40-122 2-121 (169)
93 PF12976 DUF3860: Domain of Un 20.9 97 0.0021 20.5 2.2 25 75-99 35-60 (92)
94 PF12317 IFT46_B_C: Intraflage 20.9 98 0.0021 24.1 2.6 18 18-35 112-129 (214)
95 PRK14451 acylphosphatase; Prov 20.5 2.6E+02 0.0056 18.2 6.1 47 4-50 34-80 (89)
96 cd03735 SOCS_SOCS1 SOCS (suppr 20.5 54 0.0012 19.0 0.9 13 76-88 27-39 (43)
97 COG0090 RplB Ribosomal protein 20.1 1.4E+02 0.0031 24.1 3.4 32 41-72 77-108 (275)
98 cd04436 DEP_fRgd2 DEP (Disheve 20.1 97 0.0021 20.6 2.1 30 1-33 15-44 (84)
No 1
>cd06146 mut-7_like_exo DEDDy 3'-5' exonuclease domain of Caenorhabditis elegans mut-7 and similar proteins. The mut-7 subfamily is composed of Caenorhabditis elegans mut-7 and similar proteins found in plants and metazoans. Mut-7 is implicated in posttranscriptional gene silencing. It contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing three conserved sequence motifs, termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis.
Probab=99.89 E-value=4e-23 Score=155.16 Aligned_cols=103 Identities=21% Similarity=0.384 Sum_probs=92.0
Q ss_pred EeCChHHHHHHHHHH-HhhhcCCcEEEEEEeeecC----CCCCceEEEeeeCCeeEEEEccccC-----CChHHHHHhhc
Q 037980 17 VVDHAALIDDNIAAL-KALLKRQRLVGIDVKFNHR----CTKKAEMLILCAGNRCLIIQLCHLG-----QIPESLKKFLA 86 (123)
Q Consensus 17 vt~~~~~v~~wi~~~-~~~~~~~~vvG~D~Ew~p~----~~~~vallQl~~~~~cll~~l~~~~-----~~p~~L~~~L~ 86 (123)
+.+++++.++++.+. + ....++|||+||.|. ..+++|+||||+++.|+||++..++ .+|+.|+++|+
T Consensus 3 ~i~~~~el~~~~~~~~l---~~~~vig~D~Ew~~~~~~~~~~~v~LiQiat~~~~~lid~~~~~~~~~~~~~~~L~~ll~ 79 (193)
T cd06146 3 IVDSEEELEALLLALSL---EAGRVVGIDSEWKPSFLGDSDPRVAILQLATEDEVFLLDLLALENLESEDWDRLLKRLFE 79 (193)
T ss_pred EecCHHHHHHHHHHHhh---ccCCEEEEECccCCCccCCCCCCceEEEEecCCCEEEEEchhccccchHHHHHHHHHHhC
Confidence 467899999999884 2 358999999999988 2689999999999999999998765 48899999999
Q ss_pred CCCceEEeeeechhhhhhcc-CCC------ccCceeecHhhhh
Q 037980 87 DETICFAGMEMNGKVDGLGR-CNL------RCKTAVELGHLAA 122 (123)
Q Consensus 87 d~~i~kvGv~i~~D~~kL~~-~gl------~~~~~vDL~~la~ 122 (123)
||+|+|||+++++|+++|++ ||+ .+++.+|++.+|+
T Consensus 80 d~~i~KVg~~~~~D~~~L~~~~~~~~~~~~~~~~v~Dl~~~a~ 122 (193)
T cd06146 80 DPDVLKLGFGFKQDLKALSASYPALKCMFERVQNVLDLQNLAK 122 (193)
T ss_pred CCCeeEEEechHHHHHHHHHhcCccccccccCCceEEHHHHHH
Confidence 99999999999999999999 997 4789999999875
No 2
>cd06141 WRN_exo DEDDy 3'-5' exonuclease domain of WRN and similar proteins. WRN is a unique RecQ DNA helicase exhibiting an exonuclease activity. It contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. Mutations in the WRN gene cause Werner syndrome, an autosomal recessive disorder associated with premature aging and increased susceptibility to cancer and type II diabetes. WRN interacts with key proteins involved in DNA replication, recombination, and repair. It is believed to maintain genomic stability and life span by participating in DNA processes. WRN is stimulated by Ku70/80, an important regulator of genomic stability.
Probab=99.88 E-value=3.5e-22 Score=145.43 Aligned_cols=102 Identities=30% Similarity=0.576 Sum_probs=93.2
Q ss_pred eCChHHHHHHHHHHHhhhcCCcEEEEEEeeecC----CCCCceEEEeeeCCeeEEEEccccCCChHHHHHhhcCCCceEE
Q 037980 18 VDHAALIDDNIAALKALLKRQRLVGIDVKFNHR----CTKKAEMLILCAGNRCLIIQLCHLGQIPESLKKFLADETICFA 93 (123)
Q Consensus 18 t~~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~----~~~~vallQl~~~~~cll~~l~~~~~~p~~L~~~L~d~~i~kv 93 (123)
++++++.++|++.+. .+..++|||+||.|. ..+++++||||++++|+||++.+++.+|+.|+++|+|+++.|+
T Consensus 1 ~~~~~~~~~~~~~~~---~~~~~ig~D~E~~~~~~~~~~~~~~liQl~~~~~~~l~~~~~~~~~~~~l~~ll~~~~i~kv 77 (170)
T cd06141 1 TDSAQDAEEAVKELL---GKEKVVGFDTEWRPSFRKGKRNKVALLQLATESRCLLFQLAHMDKLPPSLKQLLEDPSILKV 77 (170)
T ss_pred CCCHHHHHHHHHHHh---cCCCEEEEeCccCCccCCCCCCCceEEEEecCCcEEEEEhhhhhcccHHHHHHhcCCCeeEE
Confidence 367889999998886 248999999999997 3579999999999999999999988899999999999999999
Q ss_pred eeeechhhhhhcc-CCCccCceeecHhhhh
Q 037980 94 GMEMNGKVDGLGR-CNLRCKTAVELGHLAA 122 (123)
Q Consensus 94 Gv~i~~D~~kL~~-~gl~~~~~vDL~~la~ 122 (123)
|++++.|.++|.+ ||+.+++.+|++.+|.
T Consensus 78 ~~~~k~D~~~L~~~~g~~~~~~~Dl~~aa~ 107 (170)
T cd06141 78 GVGIKGDARKLARDFGIEVRGVVDLSHLAK 107 (170)
T ss_pred EeeeHHHHHHHHhHcCCCCCCeeeHHHHHH
Confidence 9999999999998 9999999999998763
No 3
>cd06129 RNaseD_like DEDDy 3'-5' exonuclease domain of RNase D, WRN, and similar proteins. The RNase D-like group is composed of RNase D, WRN, and similar proteins. They contain a DEDDy-type, DnaQ-like, 3'-5' exonuclease domain that contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. RNase D is involved in the 3'-end processing of tRNA precursors. RNase D-like proteins in eukaryotes include yeast Rrp6p, human PM/Scl-100 and Drosophila melanogaster egalitarian (Egl) protein. WRN is a unique DNA helicase possessing exonuclease activity. Mutation in the WRN gene is implicated in Werner syndrome, a disease associated with premature aging and increased predisposition to cancer. Yeast Rrp6p and the human Polymyositis/scleroderma autoantigen 100kDa (PM/Scl-100) are exosome-
Probab=99.86 E-value=1.4e-21 Score=142.25 Aligned_cols=95 Identities=16% Similarity=0.215 Sum_probs=84.0
Q ss_pred HHHHHHHHhhhcCCcEEEEEEeeecC--CCCCceEEEeeeC-CeeEEEEccccCCChHHHHHhhcCCCceEEeeeechhh
Q 037980 25 DDNIAALKALLKRQRLVGIDVKFNHR--CTKKAEMLILCAG-NRCLIIQLCHLGQIPESLKKFLADETICFAGMEMNGKV 101 (123)
Q Consensus 25 ~~wi~~~~~~~~~~~vvG~D~Ew~p~--~~~~vallQl~~~-~~cll~~l~~~~~~p~~L~~~L~d~~i~kvGv~i~~D~ 101 (123)
+++.+++. ....++|||+||+|. ..+++++||||++ +.|+||++..++..|+.|+++|+||+++|+|+++++|.
T Consensus 3 ~~~~~~l~---~~~~~ig~D~E~~~~~~~~~~~~liQl~~~~~~~~l~d~~~~~~~~~~L~~lL~d~~i~Kvg~~~k~D~ 79 (161)
T cd06129 3 SSLCEDLS---MDGDVIAFDMEWPPGRRYYGEVALIQLCVSEEKCYLFDPLSLSVDWQGLKMLLENPSIVKALHGIEGDL 79 (161)
T ss_pred HHHHHHHh---cCCCEEEEECCccCCCCCCCceEEEEEEECCCCEEEEecccCccCHHHHHHHhCCCCEEEEEeccHHHH
Confidence 34444444 158999999999998 4589999999999 99999999988778999999999999999999999999
Q ss_pred hhhcc-CCCccCceeecHhhhh
Q 037980 102 DGLGR-CNLRCKTAVELGHLAA 122 (123)
Q Consensus 102 ~kL~~-~gl~~~~~vDL~~la~ 122 (123)
++|.+ +|+.+++.+|++..|.
T Consensus 80 ~~L~~~~gi~~~~~~D~~~aa~ 101 (161)
T cd06129 80 WKLLRDFGEKLQRLFDTTIAAN 101 (161)
T ss_pred HHHHHHcCCCcccHhHHHHHHH
Confidence 99999 9999999999987653
No 4
>KOG4373 consensus Predicted 3'-5' exonuclease [General function prediction only]
Probab=99.85 E-value=4.3e-22 Score=159.17 Aligned_cols=120 Identities=33% Similarity=0.506 Sum_probs=111.2
Q ss_pred ceEEEecCCEEEEEEeCChHHHHHHHHHHHhhh----cCCcEEEEEEeeecC----------------------------
Q 037980 3 KYELDIQGNNVKVTVVDHAALIDDNIAALKALL----KRQRLVGIDVKFNHR---------------------------- 50 (123)
Q Consensus 3 ~y~v~~~g~~i~vtvt~~~~~v~~wi~~~~~~~----~~~~vvG~D~Ew~p~---------------------------- 50 (123)
+|.+.|+|....+|+|.+.+.+.+|+....... ..+.+||++++|+|.
T Consensus 16 ~~~vd~~~~~~~Vtvt~~~svi~~~i~d~~~~~~~~~s~p~vvg~~vqw~p~~~~~~~~~~~~~~~~~~~a~~~~~~~~~ 95 (319)
T KOG4373|consen 16 KYSVDFFGEELIVTVTPDSSVISRWIHDVRFLSRNFSSDPLVVGRGVQWTPPTLTPDQTIYAARDLQISVARFLHLLGSS 95 (319)
T ss_pred ceeeeecccceEEEEccCcccchhhhhhhhhcccCcccCCcccCcCcccCCCCCCccccccccchhccccccccccccCc
Confidence 688999999999999999999999999888652 588999999999986
Q ss_pred -------------------------------------------------CCCCceEEEeeeC-CeeEEEEccccCCChHH
Q 037980 51 -------------------------------------------------CTKKAEMLILCAG-NRCLIIQLCHLGQIPES 80 (123)
Q Consensus 51 -------------------------------------------------~~~~vallQl~~~-~~cll~~l~~~~~~p~~ 80 (123)
..++++++|||++ ++|+|+||.+.+.+|.+
T Consensus 96 ~~~~~~kl~~~~d~~a~~~~~~~~~~~~~s~~~~~~~~~e~~~~~d~~~~~P~~~~lqlcV~en~C~I~ql~~~~~IP~~ 175 (319)
T KOG4373|consen 96 FKHKRQKLGYGSDARASPYIDNSLEIADDSDPPFVCYRREAQPYLDMGRSDPPPDTLQLCVGENRCLIIQLIHCKRIPHE 175 (319)
T ss_pred ccccccccccccccccccccccccccccccCCcceeecccccccccccccCCCcchhhhhhcccceeeEEeeccccchHH
Confidence 1467899999999 79999999999999999
Q ss_pred HHHhhcCCCceEEeeeechhhhhhcc--CCCccCceeecHhhhh
Q 037980 81 LKKFLADETICFAGMEMNGKVDGLGR--CNLRCKTAVELGHLAA 122 (123)
Q Consensus 81 L~~~L~d~~i~kvGv~i~~D~~kL~~--~gl~~~~~vDL~~la~ 122 (123)
|+.||+||+.+|||+++.+|+.||+| |++++...+||+.+++
T Consensus 176 LR~fl~D~~~~~vgv~~d~D~~KL~r~~hql~I~~~~dlr~~~~ 219 (319)
T KOG4373|consen 176 LRSFLEDPDHTFVGVWNDQDAGKLERKEHQLEIGELEDLRLLVN 219 (319)
T ss_pred HHHhhcCCCceEEeccccccHHHHhhhhhcccHHhhhhHHhhcc
Confidence 99999999999999999999999998 9999999999999875
No 5
>PF01612 DNA_pol_A_exo1: 3'-5' exonuclease; InterPro: IPR002562 This domain is responsible for the 3'-5' exonuclease proofreading activity of Escherichia coli DNA polymerase I (polI) and other enzymes, it catalyses the hydrolysis of unpaired or mismatched nucleotides. This domain consists of the amino-terminal half of the Klenow fragment in E. coli polI it is also found in the Werner syndrome helicase (WRN), focus forming activity 1 protein (FFA-1) and ribonuclease D (RNase D) [].; GO: 0003676 nucleic acid binding, 0008408 3'-5' exonuclease activity, 0006139 nucleobase-containing compound metabolic process, 0005622 intracellular; PDB: 2HBK_A 2HBJ_A 2HBM_A 2HBL_A 2FC0_A 2FBY_A 2FBX_A 2FBT_A 2FBV_A 1YT3_A ....
Probab=99.72 E-value=4e-17 Score=117.37 Aligned_cols=100 Identities=26% Similarity=0.402 Sum_probs=87.6
Q ss_pred EeCChHHHHHHHHHHHhhhcCCcEEEEEEeeecC----CCCCceEEEeeeCCeeEEEEccccCC--ChHHHHHhhcCCCc
Q 037980 17 VVDHAALIDDNIAALKALLKRQRLVGIDVKFNHR----CTKKAEMLILCAGNRCLIIQLCHLGQ--IPESLKKFLADETI 90 (123)
Q Consensus 17 vt~~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~----~~~~vallQl~~~~~cll~~l~~~~~--~p~~L~~~L~d~~i 90 (123)
+.++++++++|++.+.. ..++|||+||.+. ...+++++|+|.++.|+++....... +++.|+++|+||++
T Consensus 3 ~v~~~~~l~~~~~~l~~----~~~~a~D~E~~~~~~~~~~~~~~~iq~~~~~~~~i~~~~~~~~~~~~~~l~~ll~~~~i 78 (176)
T PF01612_consen 3 IVDTEEELEEAIKKLKN----AKVLAFDTETTGLDPYSYNPKIALIQLATGEGCYIIDPIDLGDNWILDALKELLEDPNI 78 (176)
T ss_dssp EEHSHHHHHHHHHHHTT----TSEEEEEEEEETSTSTTSSEEEEEEEEEESCEEEEECGTTSTTTTHHHHHHHHHTTTTS
T ss_pred ecCCHHHHHHHHHHHcC----CCeEEEEEEECCCCccccCCeEEEEEEecCCCceeeeeccccccchHHHHHHHHhCCCc
Confidence 45789999999998874 5699999999987 36799999999999999988877654 58999999999999
Q ss_pred eEEeeeechhhhhhcc-CCCccCceeecHhhh
Q 037980 91 CFAGMEMNGKVDGLGR-CNLRCKTAVELGHLA 121 (123)
Q Consensus 91 ~kvGv~i~~D~~kL~~-~gl~~~~~vDL~~la 121 (123)
+|+|++++.|...|.+ +|+.+++.+|+ .+|
T Consensus 79 ~kv~~n~~~D~~~L~~~~~i~~~~~~D~-~l~ 109 (176)
T PF01612_consen 79 IKVGHNAKFDLKWLYRSFGIDLKNVFDT-MLA 109 (176)
T ss_dssp EEEESSHHHHHHHHHHHHTS--SSEEEH-HHH
T ss_pred cEEEEEEechHHHHHHHhccccCCccch-hhh
Confidence 9999999999999999 99999999999 554
No 6
>cd06148 Egl_like_exo DEDDy 3'-5' exonuclease domain of Drosophila Egalitarian (Egl) and similar proteins. The Egalitarian (Egl) protein subfamily is composed of Drosophila Egl and similar proteins. Egl is a component of an mRNA-binding complex which is required for oocyte specification. Egl contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. The motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. The conservation of this subfamily throughout eukaryotes suggests that its members may be part of ancient RNA processing complexes that are likely to participate in the regulated processing of specific mRNAs. Some members of this subfamily do not have a completely conserved YX(3)D pattern at the ExoIII motif.
Probab=99.61 E-value=2.9e-15 Score=112.64 Aligned_cols=84 Identities=14% Similarity=0.218 Sum_probs=76.2
Q ss_pred CCcEEEEEEeeecC-CCCCceEEEeeeC-CeeEEEEccccC--CChHHHHHhhcCCCceEEeeeechhhhhhcc-CCCcc
Q 037980 37 RQRLVGIDVKFNHR-CTKKAEMLILCAG-NRCLIIQLCHLG--QIPESLKKFLADETICFAGMEMNGKVDGLGR-CNLRC 111 (123)
Q Consensus 37 ~~~vvG~D~Ew~p~-~~~~vallQl~~~-~~cll~~l~~~~--~~p~~L~~~L~d~~i~kvGv~i~~D~~kL~~-~gl~~ 111 (123)
.+.++|||+||... ..+++++||+|++ +.|+||++..++ .+++.|+++|+|++|.|+|++++.|...|.+ +|+.+
T Consensus 9 ~~~~i~~D~E~~~~~~~~~~~LiQia~~~~~v~l~D~~~~~~~~~~~~L~~iLe~~~i~Kv~h~~k~D~~~L~~~~gi~~ 88 (197)
T cd06148 9 KQKVIGLDCEGVNLGRKGKLCLVQIATRTGQIYLFDILKLGSIVFINGLKDILESKKILKVIHDCRRDSDALYHQYGIKL 88 (197)
T ss_pred hCCEEEEEcccccCCCCCCEEEEEEeeCCCcEEEEEhhhccchhHHHHHHHHhcCCCccEEEEechhHHHHHHHhcCccc
Confidence 58999999999755 5679999999999 999999999875 4788999999999999999999999999987 99999
Q ss_pred CceeecHhh
Q 037980 112 KTAVELGHL 120 (123)
Q Consensus 112 ~~~vDL~~l 120 (123)
.+.+|++-.
T Consensus 89 ~~~fDt~iA 97 (197)
T cd06148 89 NNVFDTQVA 97 (197)
T ss_pred cceeeHHHH
Confidence 999998743
No 7
>TIGR01388 rnd ribonuclease D. This model describes ribonuclease D, a 3'-exonuclease shown to act on tRNA both in vitro and when overexpressed in vivo. Trusted members of this family are restricted to the Proteobacteria; Aquifex, Mycobacterial, and eukaryotic homologs are not full-length homologs. Ribonuclease D is not essential in E. coli and is deleterious when overexpressed. Its precise biological role is still unknown.
Probab=99.42 E-value=1.3e-12 Score=106.99 Aligned_cols=99 Identities=12% Similarity=0.103 Sum_probs=85.6
Q ss_pred eCChHHHHHHHHHHHhhhcCCcEEEEEEeeecC--CCCCceEEEeeeCCeeEEEEccccCCChHHHHHhhcCCCceEEee
Q 037980 18 VDHAALIDDNIAALKALLKRQRLVGIDVKFNHR--CTKKAEMLILCAGNRCLIIQLCHLGQIPESLKKFLADETICFAGM 95 (123)
Q Consensus 18 t~~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~--~~~~vallQl~~~~~cll~~l~~~~~~p~~L~~~L~d~~i~kvGv 95 (123)
.++++++++++.++.. ..++|||+||... ..+++++||||+++.|+||+..... -.+.|.++|+|+++.|||+
T Consensus 2 I~t~~~l~~~~~~l~~----~~~ia~DtE~~~~~~y~~~l~LiQia~~~~~~liD~~~~~-~~~~L~~lL~d~~i~KV~h 76 (367)
T TIGR01388 2 ITTDDELATVCEAVRT----FPFVALDTEFVRERTFWPQLGLIQVADGEQLALIDPLVII-DWSPLKELLRDESVVKVLH 76 (367)
T ss_pred cCCHHHHHHHHHHHhc----CCEEEEeccccCCCCCCCcceEEEEeeCCeEEEEeCCCcc-cHHHHHHHHCCCCceEEEe
Confidence 4678888999988864 7899999999876 3578999999999999999987653 4678999999999999999
Q ss_pred eechhhhhhcc-CCCccCceeecHhhh
Q 037980 96 EMNGKVDGLGR-CNLRCKTAVELGHLA 121 (123)
Q Consensus 96 ~i~~D~~kL~~-~gl~~~~~vDL~~la 121 (123)
+.+.|...|.+ +|....+.+|++-.|
T Consensus 77 ~~k~Dl~~L~~~~~~~~~~~fDtqlAa 103 (367)
T TIGR01388 77 AASEDLEVFLNLFGELPQPLFDTQIAA 103 (367)
T ss_pred ecHHHHHHHHHHhCCCCCCcccHHHHH
Confidence 99999999998 888888999987544
No 8
>PRK10829 ribonuclease D; Provisional
Probab=99.38 E-value=4.6e-12 Score=104.14 Aligned_cols=102 Identities=12% Similarity=0.091 Sum_probs=89.0
Q ss_pred EEeCChHHHHHHHHHHHhhhcCCcEEEEEEeeecC--CCCCceEEEeeeCCeeEEEEccccCCChHHHHHhhcCCCceEE
Q 037980 16 TVVDHAALIDDNIAALKALLKRQRLVGIDVKFNHR--CTKKAEMLILCAGNRCLIIQLCHLGQIPESLKKFLADETICFA 93 (123)
Q Consensus 16 tvt~~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~--~~~~vallQl~~~~~cll~~l~~~~~~p~~L~~~L~d~~i~kv 93 (123)
.+.++++++++++.++. +..++|+|+||... ..+++++|||++++.|+||...... -...|..+|+||+|+||
T Consensus 4 ~~I~t~~~L~~~~~~l~----~~~~lalDtEf~~~~ty~~~l~LiQl~~~~~~~LiD~l~~~-d~~~L~~ll~~~~ivKV 78 (373)
T PRK10829 4 QMITTDDALASVCEAAR----AFPAIALDTEFVRTRTYYPQLGLIQLYDGEQLSLIDPLGIT-DWSPFKALLRDPQVTKF 78 (373)
T ss_pred EEeCCHHHHHHHHHHHh----cCCeEEEecccccCccCCCceeEEEEecCCceEEEecCCcc-chHHHHHHHcCCCeEEE
Confidence 35688999999998864 48999999999877 3468999999999999999987664 35679999999999999
Q ss_pred eeeechhhhhhcc-CCCccCceeecHhhhh
Q 037980 94 GMEMNGKVDGLGR-CNLRCKTAVELGHLAA 122 (123)
Q Consensus 94 Gv~i~~D~~kL~~-~gl~~~~~vDL~~la~ 122 (123)
+.+.+.|..-|.+ +|+.+.+.+|.+-.|.
T Consensus 79 ~H~~~~Dl~~l~~~~g~~p~~~fDTqiaa~ 108 (373)
T PRK10829 79 LHAGSEDLEVFLNAFGELPQPLIDTQILAA 108 (373)
T ss_pred EeChHhHHHHHHHHcCCCcCCeeeHHHHHH
Confidence 9999999999988 9999999999987653
No 9
>smart00474 35EXOc 3'-5' exonuclease. 3\' -5' exonuclease proofreading domain present in DNA polymerase I, Werner syndrome helicase, RNase D and other enzymes
Probab=99.32 E-value=1.7e-11 Score=87.18 Aligned_cols=100 Identities=20% Similarity=0.227 Sum_probs=79.5
Q ss_pred CChHHHHHHHHHHHhhhcCCcEEEEEEeeecCC--CCCceEEEeeeCC-eeEEEEccccCCChHHHHHhhcCCCceEEee
Q 037980 19 DHAALIDDNIAALKALLKRQRLVGIDVKFNHRC--TKKAEMLILCAGN-RCLIIQLCHLGQIPESLKKFLADETICFAGM 95 (123)
Q Consensus 19 ~~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~~--~~~vallQl~~~~-~cll~~l~~~~~~p~~L~~~L~d~~i~kvGv 95 (123)
++++.+++|+.++. .+...+|||+||.+.. ..+++.+|+|.++ .|+++........++.|+++|+|+++.|+|+
T Consensus 5 ~~~~~~~~~~~~~~---~~~~~l~~~~e~~~~~~~~~~~~~l~l~~~~~~~~i~~~~~~~~~~~~l~~~l~~~~~~kv~~ 81 (172)
T smart00474 5 TDSETLEELLEKLR---AAGGEVALDTETTGLNSYSGKLVLIQISVTGEGAFIIDPLALGDDLEILKDLLEDETITKVGH 81 (172)
T ss_pred cCHHHHHHHHHHHH---hcCCeEEEeccccCCccCCCCEEEEEEeEcCCceEEEEeccchhhHHHHHHHhcCCCceEEEe
Confidence 45578889886552 1356999999998764 6789999999744 7888755434445778999999999999999
Q ss_pred eechhhhhhccCCCccCceeecHhhh
Q 037980 96 EMNGKVDGLGRCNLRCKTAVELGHLA 121 (123)
Q Consensus 96 ~i~~D~~kL~~~gl~~~~~vDL~~la 121 (123)
+++.|...|.++|+++.+.+|++-.|
T Consensus 82 d~k~~~~~L~~~gi~~~~~~D~~laa 107 (172)
T smart00474 82 NAKFDLHVLARFGIELENIFDTMLAA 107 (172)
T ss_pred chHHHHHHHHHCCCcccchhHHHHHH
Confidence 99999999977999999888887554
No 10
>cd06142 RNaseD_exo DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins. Ribonuclease (RNase) D is a bacterial enzyme involved in the maturation of small stable RNAs and the 3' maturation of tRNA. It contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. In vivo, RNase D only becomes essential upon removal of other ribonucleases. Eukaryotic RNase D homologs include yeast Rrp6p, human PM/Scl-100, and the Drosophila melanogaster egalitarian protein.
Probab=99.24 E-value=5.6e-11 Score=86.01 Aligned_cols=82 Identities=15% Similarity=0.174 Sum_probs=70.7
Q ss_pred CcEEEEEEeeecCC--CCCceEEEeeeCCeeEEEEccccCCChHHHHHhhcCCCceEEeeeechhhhhhcc-CCCccCce
Q 037980 38 QRLVGIDVKFNHRC--TKKAEMLILCAGNRCLIIQLCHLGQIPESLKKFLADETICFAGMEMNGKVDGLGR-CNLRCKTA 114 (123)
Q Consensus 38 ~~vvG~D~Ew~p~~--~~~vallQl~~~~~cll~~l~~~~~~p~~L~~~L~d~~i~kvGv~i~~D~~kL~~-~gl~~~~~ 114 (123)
...+|||+||.+.. ..+++.+|+|+++.|++|++... ..++.|+.+|+|+++.|+|++++.|.+.|.+ +|+..++.
T Consensus 12 ~~~l~~~~e~~~~~~~~~~~~~i~l~~~~~~~~i~~~~~-~~~~~l~~ll~~~~i~kv~~d~K~~~~~L~~~~gi~~~~~ 90 (178)
T cd06142 12 AGVIAVDTEFMRLNTYYPRLCLIQISTGGEVYLIDPLAI-GDLSPLKELLADPNIVKVFHAAREDLELLKRDFGILPQNL 90 (178)
T ss_pred CCeEEEECCccCCCcCCCceEEEEEeeCCCEEEEeCCCc-ccHHHHHHHHcCCCceEEEeccHHHHHHHHHHcCCCCCCc
Confidence 56999999998764 67899999999966999987655 5788899999999999999999999999988 79996677
Q ss_pred eecHhh
Q 037980 115 VELGHL 120 (123)
Q Consensus 115 vDL~~l 120 (123)
+|+.-.
T Consensus 91 ~D~~la 96 (178)
T cd06142 91 FDTQIA 96 (178)
T ss_pred ccHHHH
Confidence 888643
No 11
>cd00007 35EXOc 3'-5' exonuclease. The 35EXOc domain is responsible for the 3'-5' exonuclease proofreading activity of prokaryotic DNA polymerase I (pol I) and other enzymes, it catalyses the hydrolysis of unpaired or mismatched nucleotides. This domain consists of the amino-terminal half of the Klenow fragment in E. coli pol I. 35EXOc is also found in the Werner syndrome helicase (WRN), focus forming activity 1 protein (FFA-1) and ribonuclease D (RNase D).
Probab=98.98 E-value=1.6e-09 Score=75.64 Aligned_cols=82 Identities=18% Similarity=0.030 Sum_probs=65.2
Q ss_pred EEEEEEeeecCC--CCCceEEEeeeCCeeEEEEcccc-CCChHHHHHhhcCCCceEEeeeechhhhhhcc-CCCccCcee
Q 037980 40 LVGIDVKFNHRC--TKKAEMLILCAGNRCLIIQLCHL-GQIPESLKKFLADETICFAGMEMNGKVDGLGR-CNLRCKTAV 115 (123)
Q Consensus 40 vvG~D~Ew~p~~--~~~vallQl~~~~~cll~~l~~~-~~~p~~L~~~L~d~~i~kvGv~i~~D~~kL~~-~gl~~~~~v 115 (123)
.+|+|+||.+.. ..+++.+|+|+++.|+.+...+. ..+++.|+++|+|+++.|+|++++.|.+.|.+ ++......+
T Consensus 2 ~l~~d~e~~~~~~~~~~i~~~~l~~~~~~~~i~~~~~~~~~~~~l~~~l~~~~~~~v~~~~k~d~~~L~~~~~~~~~~~~ 81 (155)
T cd00007 2 EVAFDTETTGLNYHRGKLVGIQIATAGEAAYIPDELELEEDLEALKELLEDEDITKVGHDAKFDLVVLARDGIELPGNIF 81 (155)
T ss_pred ceEEEEecCCCCcCCCeEEEEEEEECCcEEEEEcCCCHHHHHHHHHHHHcCCCCcEEeccHHHHHHHHHHCCCCCCCCcc
Confidence 689999998764 67899999999754655555432 34677799999999999999999999999988 555566778
Q ss_pred ecHhhh
Q 037980 116 ELGHLA 121 (123)
Q Consensus 116 DL~~la 121 (123)
|+.-.|
T Consensus 82 D~~~~a 87 (155)
T cd00007 82 DTMLAA 87 (155)
T ss_pred cHHHHH
Confidence 876544
No 12
>KOG2207 consensus Predicted 3'-5' exonuclease [Replication, recombination and repair]
Probab=98.98 E-value=3.8e-10 Score=96.69 Aligned_cols=89 Identities=19% Similarity=0.315 Sum_probs=74.3
Q ss_pred EEeCChHHHHHHHHHHHhhhcCCcEEEEEEeeecC---CCCCceEEEeeeCCeeEEEEccccCCChH-----HHHHhhcC
Q 037980 16 TVVDHAALIDDNIAALKALLKRQRLVGIDVKFNHR---CTKKAEMLILCAGNRCLIIQLCHLGQIPE-----SLKKFLAD 87 (123)
Q Consensus 16 tvt~~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~---~~~~vallQl~~~~~cll~~l~~~~~~p~-----~L~~~L~d 87 (123)
....++.+.+...- .++..+..+||+|.||+|+ .+++.+++|+..++.++|+.+-.....|. .+..++++
T Consensus 393 ~~V~~e~El~~l~l--~~l~~e~~yVGiDsEwkps~~v~dsk~~IlQif~~~~v~Lidc~~l~~~~se~w~~~~s~if~s 470 (617)
T KOG2207|consen 393 GMVGNEKELRDLLL--ESLSEELRYVGIDSEWKPSKKVSDSKLAILQIFFKDCVYLIDCVKLENLASEIWHLLLSQIFES 470 (617)
T ss_pred eeeCCHHHHHHHHH--HHhhhcCEEEEEccccCcccCCChhHHHHHHHHhcCeEEEeehHHhhhchHHHHHHHHHHHccC
Confidence 34577778777772 2222457999999999999 48999999999999999999987766665 57789999
Q ss_pred CCceEEeeeechhhhhhcc
Q 037980 88 ETICFAGMEMNGKVDGLGR 106 (123)
Q Consensus 88 ~~i~kvGv~i~~D~~kL~~ 106 (123)
+++.|+||.+++|...|++
T Consensus 471 ~~i~kvGf~~~eDL~~l~~ 489 (617)
T KOG2207|consen 471 KSILKVGFSMREDLEVLEA 489 (617)
T ss_pred CceeeeecchhhhHHHHHh
Confidence 9999999999999999995
No 13
>cd09018 DEDDy_polA_RNaseD_like_exo DEDDy 3'-5' exonuclease domain of family-A DNA polymerases, RNase D, WRN, and similar proteins. DEDDy exonucleases, part of the DnaQ-like (or DEDD) exonuclease superfamily, catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. They contain four invariant acidic residues in three conserved sequence motifs termed ExoI, ExoII and ExoIII. DEDDy exonucleases are classified as such because of the presence of a specific YX(3)D pattern at ExoIII. The four conserved acidic residues serve as ligands for the two metal ions required for catalysis. This family of DEDDy exonucleases includes the proofreading domains of family A DNA polymerases, as well as RNases such as RNase D and yeast Rrp6p. The Egalitarian (Egl) and Bacillus-like DNA Polymerase I subfamilies do not possess a completely conserved YX(3)D pattern at the ExoIII motif. In addition, the Bacillus-like DNA polymerase I subfamily has inactive 3'-5' exonucle
Probab=98.96 E-value=2.8e-09 Score=74.82 Aligned_cols=82 Identities=17% Similarity=0.100 Sum_probs=65.5
Q ss_pred EEEEEEeeecCC--CCCceEEEeeeCCe-eEEEEccccCCChHHHHHhhcCCCceEEeeeechhhhhhccCCCccC-cee
Q 037980 40 LVGIDVKFNHRC--TKKAEMLILCAGNR-CLIIQLCHLGQIPESLKKFLADETICFAGMEMNGKVDGLGRCNLRCK-TAV 115 (123)
Q Consensus 40 vvG~D~Ew~p~~--~~~vallQl~~~~~-cll~~l~~~~~~p~~L~~~L~d~~i~kvGv~i~~D~~kL~~~gl~~~-~~v 115 (123)
++|||+||.+.. ..+++.+|+|.++. |+++++.+.+..++.|+++|+|+++.|+|++++.|...|.++|+... ..+
T Consensus 1 ~~~~~~e~~~~~~~~~~~~~l~l~~~~~~~~~i~~~~~~~~~~~l~~~l~~~~~~kv~~d~K~~~~~L~~~~~~~~~~~~ 80 (150)
T cd09018 1 VFAFDTETDSLDNISANLVLIQLAIEPGVAALIPVAHDYLALELLKPLLEDEKALKVGQNLKYDRGILLNYFIELRGIAF 80 (150)
T ss_pred CEEEEeecCCCCCCCceEEEEEEEcCCCcEEEEEcCCcccCHHHHHHHhcCCCCceeeecHHHHHHHHHHcCCccCCcch
Confidence 589999998764 67899999999854 88888765322477899999999999999999999999977665544 457
Q ss_pred ecHhhh
Q 037980 116 ELGHLA 121 (123)
Q Consensus 116 DL~~la 121 (123)
|+.-.|
T Consensus 81 D~~laa 86 (150)
T cd09018 81 DTMLEA 86 (150)
T ss_pred hHHHHH
Confidence 776443
No 14
>cd06147 Rrp6p_like_exo DEDDy 3'-5' exonuclease domain of yeast Rrp6p, human polymyositis/scleroderma autoantigen 100kDa, and similar proteins. Yeast Rrp6p and its human homolog, the polymyositis/scleroderma autoantigen 100kDa (PM/Scl-100), are exosome-associated proteins involved in the degradation and processing of precursors to stable RNAs. Both proteins contain a DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. The motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. PM/Scl-100, an autoantigen present in the nucleolar compartment of the cell, reacts with autoantibodies produced by about 50% of patients with polymyositis-scleroderma overlap syndrome.
Probab=98.64 E-value=4.1e-07 Score=67.56 Aligned_cols=98 Identities=13% Similarity=0.141 Sum_probs=74.8
Q ss_pred ChHHHHHHHHHHHhhhcCCcEEEEEEeeecCC--CCCceEEEeeeCCeeEEEEccccCCChHHHHHhhcCCCceEEeeee
Q 037980 20 HAALIDDNIAALKALLKRQRLVGIDVKFNHRC--TKKAEMLILCAGNRCLIIQLCHLGQIPESLKKFLADETICFAGMEM 97 (123)
Q Consensus 20 ~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~~--~~~vallQl~~~~~cll~~l~~~~~~p~~L~~~L~d~~i~kvGv~i 97 (123)
+++.++.|+..+. ....+++|+|..+.. ..++..+|+|.++.++++.+.........|+.+|+|+++.|+|++.
T Consensus 10 ~~~~l~~~~~~l~----~~~~l~~~~e~~~~~~~~~~~~~l~l~~~~~~~~i~~l~~~~~~~~L~~~L~~~~i~kv~~d~ 85 (192)
T cd06147 10 TEEKLEELVEKLK----NCKEIAVDLEHHSYRSYLGFTCLMQISTREEDYIVDTLKLRDDMHILNEVFTDPNILKVFHGA 85 (192)
T ss_pred CHHHHHHHHHHHh----cCCeEEEEeEecCCccCCCceEEEEEecCCCcEEEEecccccchHHHHHHhcCCCceEEEech
Confidence 3467788885542 245999999886643 5678889999988787765322333456799999999999999999
Q ss_pred chhhhhhcc-CCCccCceeecHhhh
Q 037980 98 NGKVDGLGR-CNLRCKTAVELGHLA 121 (123)
Q Consensus 98 ~~D~~kL~~-~gl~~~~~vDL~~la 121 (123)
+.|...|.+ +|+...+.+|+.-.|
T Consensus 86 K~~~~~L~~~~gi~~~~~fD~~laa 110 (192)
T cd06147 86 DSDIIWLQRDFGLYVVNLFDTGQAA 110 (192)
T ss_pred HHHHHHHHHHhCCCcCchHHHHHHH
Confidence 999999985 999888778876443
No 15
>COG0349 Rnd Ribonuclease D [Translation, ribosomal structure and biogenesis]
Probab=98.18 E-value=6.1e-06 Score=67.83 Aligned_cols=85 Identities=14% Similarity=0.045 Sum_probs=75.7
Q ss_pred CCcEEEEEEeeecC--CCCCceEEEeeeCCeeEEEEccccCCChHHHHHhhcCCCceEEeeeechhhhhhcc-CCCccCc
Q 037980 37 RQRLVGIDVKFNHR--CTKKAEMLILCAGNRCLIIQLCHLGQIPESLKKFLADETICFAGMEMNGKVDGLGR-CNLRCKT 113 (123)
Q Consensus 37 ~~~vvG~D~Ew~p~--~~~~vallQl~~~~~cll~~l~~~~~~p~~L~~~L~d~~i~kvGv~i~~D~~kL~~-~gl~~~~ 113 (123)
+...+.+|+|.--. ..++.++||+|.++.+.+++......=.+.|..+|.||+|+||=.+-+.|+.-|.+ +|+.+.+
T Consensus 16 ~~~~iAiDTEf~r~~t~~p~LcLIQi~~~e~~~lIdpl~~~~d~~~l~~Ll~d~~v~KIfHaa~~DL~~l~~~~g~~p~p 95 (361)
T COG0349 16 GSKAIAIDTEFMRLRTYYPRLCLIQISDGEGASLIDPLAGILDLPPLVALLADPNVVKIFHAARFDLEVLLNLFGLLPTP 95 (361)
T ss_pred CCCceEEecccccccccCCceEEEEEecCCCceEecccccccccchHHHHhcCCceeeeeccccccHHHHHHhcCCCCCc
Confidence 57899999998755 67899999999999999999987545567899999999999999999999999999 9999999
Q ss_pred eeecHhhh
Q 037980 114 AVELGHLA 121 (123)
Q Consensus 114 ~vDL~~la 121 (123)
.+|-+-.|
T Consensus 96 lfdTqiAa 103 (361)
T COG0349 96 LFDTQIAA 103 (361)
T ss_pred hhHHHHHH
Confidence 99977554
No 16
>PRK05755 DNA polymerase I; Provisional
Probab=98.13 E-value=1.6e-05 Score=71.55 Aligned_cols=100 Identities=18% Similarity=0.171 Sum_probs=79.0
Q ss_pred EeCChHHHHHHHHHHHhhhcCCcEEEEEEeeecC--CCCCceEEEeeeCCe-eEEEEccccC-CChHHHHHhhcCCCceE
Q 037980 17 VVDHAALIDDNIAALKALLKRQRLVGIDVKFNHR--CTKKAEMLILCAGNR-CLIIQLCHLG-QIPESLKKFLADETICF 92 (123)
Q Consensus 17 vt~~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~--~~~~vallQl~~~~~-cll~~l~~~~-~~p~~L~~~L~d~~i~k 92 (123)
+..+++.+++|+..+. ....++||+|.... ...++..+|+|.++. ++.+.+.+.. ...+.|.++|+|+.+.|
T Consensus 298 ~I~~~~~L~~~l~~l~----~~~~~a~DtEt~~l~~~~~~i~~i~ls~~~g~~~~ip~~~i~~~~l~~l~~~L~d~~v~k 373 (880)
T PRK05755 298 TILDEEELEAWLAKLK----AAGLFAFDTETTSLDPMQAELVGLSFAVEPGEAAYIPLDQLDREVLAALKPLLEDPAIKK 373 (880)
T ss_pred EeCCHHHHHHHHHHhh----ccCeEEEEeccCCCCcccccEEEEEEEeCCCcEEEEecccccHHHHHHHHHHHhCCCCcE
Confidence 3458889999997765 36899999998875 456789999999886 7787775532 24467999999999999
Q ss_pred EeeeechhhhhhccCCCcc-CceeecHhh
Q 037980 93 AGMEMNGKVDGLGRCNLRC-KTAVELGHL 120 (123)
Q Consensus 93 vGv~i~~D~~kL~~~gl~~-~~~vDL~~l 120 (123)
||.+.+.|..-|.++|+.. ...+|..-.
T Consensus 374 V~HNakfDl~~L~~~gi~~~~~~~DT~iA 402 (880)
T PRK05755 374 VGQNLKYDLHVLARYGIELRGIAFDTMLA 402 (880)
T ss_pred EEeccHhHHHHHHhCCCCcCCCcccHHHH
Confidence 9999999999888788876 456776543
No 17
>cd06140 DNA_polA_I_Bacillus_like_exo inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases. Bacillus stearothermophilus-like Polymerase I (Pol I), a subgroup of the family-A DNA polymerases, contains an inactive DnaQ-like 3'-5' exonuclease domain in the same polypeptide chain as the polymerase region. The exonuclease-like domain of these proteins possess the same fold as the Klenow fragment (KF) of Escherichia coli Pol I, but does not contain the four critical metal-binding residues necessary for activity. The function of this domain is unknown. It might act as a spacer between the polymerase and the 5'-3' exonuclease domains. Some members of this subgroup, such as those from Bacillus sphaericus and Thermus aquaticus, are thermostable DNA polymerases.
Probab=97.23 E-value=0.00097 Score=48.27 Aligned_cols=78 Identities=22% Similarity=0.170 Sum_probs=54.7
Q ss_pred EEEEEee--ecCCCCCceEEEeeeCCeeEEEEccccCCChHHHHHhhcCCCceEEeeeechhhhhhccCCCccCce-eec
Q 037980 41 VGIDVKF--NHRCTKKAEMLILCAGNRCLIIQLCHLGQIPESLKKFLADETICFAGMEMNGKVDGLGRCNLRCKTA-VEL 117 (123)
Q Consensus 41 vG~D~Ew--~p~~~~~vallQl~~~~~cll~~l~~~~~~p~~L~~~L~d~~i~kvGv~i~~D~~kL~~~gl~~~~~-vDL 117 (123)
+.+|+|. ......++..+++|.+++++.+.+.+.......|+++|+|+++.|+|.+++.|.+.|.++|+...+. +|.
T Consensus 6 ~~~~~~~~~~~~~~~~l~~i~l~~~~~~~~i~~~~~~~~~~~l~~~l~~~~~~ki~~d~K~~~~~l~~~gi~~~~~~fDt 85 (178)
T cd06140 6 VALYVELLGENYHTADIIGLALANGGGAYYIPLELALLDLAALKEWLEDEKIPKVGHDAKRAYVALKRHGIELAGVAFDT 85 (178)
T ss_pred eEEEEEEcCCCcceeeEEEEEEEeCCcEEEEeccchHHHHHHHHHHHhCCCCceeccchhHHHHHHHHCCCcCCCcchhH
Confidence 3444444 3333457778999988777666543310022348999999999999999999998886699887654 665
Q ss_pred H
Q 037980 118 G 118 (123)
Q Consensus 118 ~ 118 (123)
.
T Consensus 86 ~ 86 (178)
T cd06140 86 M 86 (178)
T ss_pred H
Confidence 4
No 18
>cd06139 DNA_polA_I_Ecoli_like_exo DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases. Escherichia coli-like Polymerase I (Pol I), a subgroup of family-A DNA polymerases, contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain in the same polypeptide chain as the polymerase domain. The exonuclease domain contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. The 3'-5' exonuclease domain of DNA polymerases has a fundamental role in reducing polymerase errors and is involved in proofreading activity. E. coli DNA Pol I is involved in genome replication but is not the main replicating enzyme. It is also implicated in DNA repair.
Probab=97.21 E-value=0.0014 Score=47.57 Aligned_cols=84 Identities=14% Similarity=0.152 Sum_probs=59.7
Q ss_pred CCcEEEEEEeeecCC--CCCceEEEeeeCCe-eEEEEcccc--------CCChHHHHHhhcCCCceEEeeeechhhhhhc
Q 037980 37 RQRLVGIDVKFNHRC--TKKAEMLILCAGNR-CLIIQLCHL--------GQIPESLKKFLADETICFAGMEMNGKVDGLG 105 (123)
Q Consensus 37 ~~~vvG~D~Ew~p~~--~~~vallQl~~~~~-cll~~l~~~--------~~~p~~L~~~L~d~~i~kvGv~i~~D~~kL~ 105 (123)
+...++||+|..... ..++..+++|.++. .+.+.+.+. ..+.+.|+++|+++.+.++|.+.+.|...|.
T Consensus 4 ~~~~~a~d~e~~~~~~~~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~v~hn~k~d~~~l~ 83 (193)
T cd06139 4 KAKVFAFDTETTSLDPMQAELVGISFAVEPGEAYYIPLGHDYGGEQLPREEVLAALKPLLEDPSIKKVGQNLKFDLHVLA 83 (193)
T ss_pred cCCeEEEEeecCCCCcCCCeEEEEEEEcCCCCEEEEecCCCccccCCCHHHHHHHHHHHHhCCCCcEEeeccHHHHHHHH
Confidence 567899999875432 45777899997754 555544321 1133449999999999999999999999987
Q ss_pred cCCCccCc-eeecHhh
Q 037980 106 RCNLRCKT-AVELGHL 120 (123)
Q Consensus 106 ~~gl~~~~-~vDL~~l 120 (123)
++|+...+ .+|..-+
T Consensus 84 ~~gi~~~~~~~Dt~l~ 99 (193)
T cd06139 84 NHGIELRGPAFDTMLA 99 (193)
T ss_pred HCCCCCCCCcccHHHH
Confidence 78887664 4665544
No 19
>KOG2206 consensus Exosome 3'-5' exoribonuclease complex, subunit PM/SCL-100 (Rrp6) [Translation, ribosomal structure and biogenesis]
Probab=94.16 E-value=0.028 Score=49.24 Aligned_cols=82 Identities=12% Similarity=0.080 Sum_probs=65.4
Q ss_pred CcEEEEEEeeecC--CCCCceEEEeeeCCeeEEEEccccC-CChHHHHHhhcCCCceEEeeeechhhhhhcc-CCCccCc
Q 037980 38 QRLVGIDVKFNHR--CTKKAEMLILCAGNRCLIIQLCHLG-QIPESLKKFLADETICFAGMEMNGKVDGLGR-CNLRCKT 113 (123)
Q Consensus 38 ~~vvG~D~Ew~p~--~~~~vallQl~~~~~cll~~l~~~~-~~p~~L~~~L~d~~i~kvGv~i~~D~~kL~~-~gl~~~~ 113 (123)
......|.|.... --+-++++|+.+...=|++....+. .+- -|+..+.||+|.||=-|...|+--|+| |||-+-+
T Consensus 212 ~~Efavdlehhsyrsf~gltclmqISTr~ed~iIDt~~l~~~i~-~l~e~fsdp~ivkvfhgaD~diiwlqrdfgiyvvn 290 (687)
T KOG2206|consen 212 VIEFAVDLEHHSYRSFLGLTCLMQISTRTEDFIIDTFKLRDHIG-ILNEVFSDPGIVKVFHGADTDIIWLQRDFGIYVVN 290 (687)
T ss_pred hhhhhhhccccchhhhcCceeEEEeeccchhheehhHHHHHHHH-HhhhhccCCCeEEEEecCccchhhhhccceEEEEe
Confidence 4455666665433 2357889999999999998876542 233 889999999999999999999999999 9999999
Q ss_pred eeecHhh
Q 037980 114 AVELGHL 120 (123)
Q Consensus 114 ~vDL~~l 120 (123)
++|...-
T Consensus 291 Lfdt~~a 297 (687)
T KOG2206|consen 291 LFDTIQA 297 (687)
T ss_pred chhhHHH
Confidence 9986543
No 20
>cd06125 DnaQ_like_exo DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily. The DnaQ-like exonuclease superfamily is a structurally conserved group of 3'-5' exonucleases, which catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. It is also called the DEDD superfamily, after the four invariant acidic residues present in the catalytic site of its members. The superfamily consists of DNA- and RNA-processing enzymes such as the proofreading domains of DNA polymerases, other DNA exonucleases, RNase D, RNase T, Oligoribonuclease and RNA exonucleases (REX). The DnaQ-like exonuclease domain contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, which are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. The conservation patterns of the three motifs may vary among different subfamilies. DnaQ-like exonucleases are classified as DEDDy
Probab=93.25 E-value=0.35 Score=32.14 Aligned_cols=70 Identities=17% Similarity=0.169 Sum_probs=49.0
Q ss_pred EEEEEeeecC--CCCCceEEEeeeC--CeeEEEEccccCCChHHHHHhhcCCC-ceEEeeeechhhhhhcc----CCC--
Q 037980 41 VGIDVKFNHR--CTKKAEMLILCAG--NRCLIIQLCHLGQIPESLKKFLADET-ICFAGMEMNGKVDGLGR----CNL-- 109 (123)
Q Consensus 41 vG~D~Ew~p~--~~~~vallQl~~~--~~cll~~l~~~~~~p~~L~~~L~d~~-i~kvGv~i~~D~~kL~~----~gl-- 109 (123)
+.||+|..-. ...++.++|++.+ ++-+++- +.++|+++. ..+||.+..-|..-|.+ +|+
T Consensus 1 ~~~DiEt~~~~~~~~~i~~i~~~~~~~~~~~~~~----------f~~~l~~~~~~v~V~hn~~fD~~fL~~~~~~~~~~~ 70 (96)
T cd06125 1 IAIDTEATGLDGAVHEIIEIALADVNPEDTAVID----------LKDILRDKPLAILVGHNGSFDLPFLNNRCAELGLKY 70 (96)
T ss_pred CEEEEECCCCCCCCCcEEEEEEEEccCCCEEEeh----------HHHHHhhCCCCEEEEeCcHHhHHHHHHHHHHcCCCC
Confidence 3689998543 5678899999877 3433322 888898877 88999999888766664 343
Q ss_pred --ccCceeecHhh
Q 037980 110 --RCKTAVELGHL 120 (123)
Q Consensus 110 --~~~~~vDL~~l 120 (123)
.....+|...+
T Consensus 71 p~~~~~~lDT~~l 83 (96)
T cd06125 71 PLLAGSWIDTIKL 83 (96)
T ss_pred CCcCCcEEEehHH
Confidence 33567777655
No 21
>cd06128 DNA_polA_exo DEDDy 3'-5' exonuclease domain of family-A DNA polymerases. The 3'-5' exonuclease domain of family-A DNA polymerases has a fundamental role in reducing polymerase errors and is involved in proofreading activity. Family-A DNA polymerases contain a DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-B DNA polymerases. The exonuclease domain contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, which are clustered around the active site and contain four invariant acidic residues that serve as ligands for the two metal ions required for catalysis. The Klenow fragment (KF) of Escherichia coli Pol I, the Thermus aquaticus (Taq) Pol I, and Bacillus stearothermophilus (BF) Pol I are examples of family-A DNA polymerases. They are involved in nucleotide excision repair and in the processing of Okazaki fragments that are generated during lagging strand synthesis. The N-terminal domains of BF Pol I and Taq Po
Probab=91.84 E-value=0.19 Score=35.35 Aligned_cols=62 Identities=18% Similarity=0.123 Sum_probs=42.3
Q ss_pred eEEEeeeCCeeEEEEccccCCChHHHHHhhcCCCceEEeeeechhhhhhccCCCccCce-eecH
Q 037980 56 EMLILCAGNRCLIIQLCHLGQIPESLKKFLADETICFAGMEMNGKVDGLGRCNLRCKTA-VELG 118 (123)
Q Consensus 56 allQl~~~~~cll~~l~~~~~~p~~L~~~L~d~~i~kvGv~i~~D~~kL~~~gl~~~~~-vDL~ 118 (123)
.-+-+|.++.++.+.+.. ...-+.|+.+|+|+++.|+|.+++.+...|.++|+...+. +|+.
T Consensus 21 ~glal~~~~~~~yi~~~~-~~~~~~l~~~l~~~~~~ki~~d~K~~~~~l~~~gi~l~~~~fD~~ 83 (151)
T cd06128 21 VGLAFAIEGVAAYIPVAH-DYALELLKPLLEDEKALKVGQNLKYDRVILANYGIELRGIAFDTM 83 (151)
T ss_pred EEEEEEcCCCeEEEeCCC-CcCHHHHHHHHcCCCCCEEeeehHHHHHHHHHCCCCCCCcchhHH
Confidence 335556555554443221 1023458999999999999999999998886699887765 5654
No 22
>COG0749 PolA DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]
Probab=90.30 E-value=0.81 Score=40.31 Aligned_cols=87 Identities=20% Similarity=0.257 Sum_probs=59.3
Q ss_pred ChHHHHHHHHHHHhhhcCCcEEEEEEeeecCCCCCceEEEe--eeCCeeEEEEccc-cC--CChHHHHHhhcCCCceEEe
Q 037980 20 HAALIDDNIAALKALLKRQRLVGIDVKFNHRCTKKAEMLIL--CAGNRCLIIQLCH-LG--QIPESLKKFLADETICFAG 94 (123)
Q Consensus 20 ~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~~~~~vallQl--~~~~~cll~~l~~-~~--~~p~~L~~~L~d~~i~kvG 94 (123)
+.+....|+..... ... ++||+|..--.+....++=+ |.++..+.+-+.+ .. ..-..|+.+|+|+.+.|+|
T Consensus 8 ~~~~~~~~~~~~~~---~~~-~a~~~et~~l~~~~~~lvg~s~~~~~~~~yi~~~~~~~~~~~~~~l~~~l~~~~~~kv~ 83 (593)
T COG0749 8 DLAVLNAWLTKLNA---AAN-IAFDTETDGLDPHGADLVGLSVASEEEAAYIPLLHGPEQLNVLAALKPLLEDEGIKKVG 83 (593)
T ss_pred HHHHHHHHHHHHhh---ccc-ceeeccccccCcccCCeeEEEeeccccceeEeeccchhhhhhHHHHHHHhhCcccchhc
Confidence 45667778877664 244 99999987553333333333 3333444444444 11 2446899999999999999
Q ss_pred eeechhhhhhccCCCc
Q 037980 95 MEMNGKVDGLGRCNLR 110 (123)
Q Consensus 95 v~i~~D~~kL~~~gl~ 110 (123)
.+.+-|.+-|.++|+.
T Consensus 84 ~~~K~d~~~l~~~Gi~ 99 (593)
T COG0749 84 QNLKYDYKVLANLGIE 99 (593)
T ss_pred cccchhHHHHHHcCCc
Confidence 9999999999998865
No 23
>PRK14975 bifunctional 3'-5' exonuclease/DNA polymerase; Provisional
Probab=81.45 E-value=1.9 Score=37.33 Aligned_cols=50 Identities=10% Similarity=-0.019 Sum_probs=40.1
Q ss_pred EeCChHHHHHHHHHHHhhhcCCcEEEEEEeeecCCCCCceEEEeeeCCeeEEEEc
Q 037980 17 VVDHAALIDDNIAALKALLKRQRLVGIDVKFNHRCTKKAEMLILCAGNRCLIIQL 71 (123)
Q Consensus 17 vt~~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~~~~~vallQl~~~~~cll~~l 71 (123)
+..+++....++.++.. ...+.+|+|...... .++++|++.++.++|+.-
T Consensus 5 ~I~~~~~l~~~~~~l~~----~~~~a~DtEf~r~~t-~l~liQ~~~~~~~~liDp 54 (553)
T PRK14975 5 VILAPEELGAALERLSP----AGVVAGDTETTGDDA-AAAAAQEGEEEPRWVWAS 54 (553)
T ss_pred EEeccchhHHHHHHhcc----CCceeCCccccCCcc-hhheeeecCCCceEEECc
Confidence 34566666777777754 789999999988655 899999999999999873
No 24
>TIGR00593 pola DNA polymerase I. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=73.86 E-value=3.6 Score=37.92 Aligned_cols=91 Identities=14% Similarity=0.064 Sum_probs=54.7
Q ss_pred ChHHHHHHHHHHHhhhcCCcEEEEEEeeecCCCCCceEEEeeeCC-e-eEEEEccc-----cCCChHHHHHhhcCCCceE
Q 037980 20 HAALIDDNIAALKALLKRQRLVGIDVKFNHRCTKKAEMLILCAGN-R-CLIIQLCH-----LGQIPESLKKFLADETICF 92 (123)
Q Consensus 20 ~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~~~~~vallQl~~~~-~-cll~~l~~-----~~~~p~~L~~~L~d~~i~k 92 (123)
+.+.+++|+.. .....++| ..+.| ...+..-+-+|.++ . .+-+.+.. .......|+.+|+|+.+.|
T Consensus 309 ~~~~~~~~~~~-----~~~~~~~~-~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~ 381 (887)
T TIGR00593 309 EAAPLANPAEK-----AEVGGFVL-ERLLD-QLKKALALAFATENQSYVAYASEADGIPLLTILTDDKFARWLLNEQIKK 381 (887)
T ss_pred CHHHHHHHHHh-----CcCCeEEE-cCccc-ccCceeEEEEEecCCCceEEEecccchhhhhHHHHHHHHHHHhCCCCcE
Confidence 44667777744 12234555 22222 12344556667654 3 22222220 1112245999999999999
Q ss_pred EeeeechhhhhhccCCCccCce-eec
Q 037980 93 AGMEMNGKVDGLGRCNLRCKTA-VEL 117 (123)
Q Consensus 93 vGv~i~~D~~kL~~~gl~~~~~-vDL 117 (123)
+|.+++.|.+-|.++|+...+. .|.
T Consensus 382 v~~n~K~d~~~l~~~gi~~~~~~~Dt 407 (887)
T TIGR00593 382 IGHDAKFLMHLLKREGIELGGVIFDT 407 (887)
T ss_pred EEeeHHHHHHHHHhCCCCCCCcchhH
Confidence 9999999999997799887653 443
No 25
>PF00169 PH: PH domain; InterPro: IPR001849 The pleckstrin homology (PH) domain is a domain of about 100 residues that occurs in a wide range of proteins involved in intracellular signalling or as constituents of the cytoskeleton [, , , , , , ]. The pleckstrin homology domain commonly found in eukaryotic signalling proteins. The domain family possesses multiple functions including the abilities to bind inositol phosphates, and various proteins. PH domains have been found to possess inserted domains (such as in PLC gamma, syntrophins) and to be inserted within other domains. Mutations in Brutons tyrosine kinase (Btk) within its PH domain cause X-linked agammaglobulinaemia (XLA) in patients. Point mutations cluster into the positively charged end of the molecule around the predicted binding site for phosphatidylinositol lipids. The 3D structure of several PH domains has been determined []. All known cases have a common structure consisting of two perpendicular anti-parallel beta sheets, followed by a C-terminal amphipathic helix. The loops connecting the beta-strands differ greatly in length, making the PH domain relatively difficult to detect. There are no totally invariant residues within the PH domain. Proteins reported to contain one more PH domains belong to the following families: Pleckstrin, the protein where this domain was first detected, is the major substrate of protein kinase C in platelets. Pleckstrin is one of the rare proteins to contains two PH domains. Ser/Thr protein kinases such as the Akt/Rac family, the beta-adrenergic receptor kinases, the mu isoform of PKC and the trypanosomal NrkA family. Tyrosine protein kinases belonging to the Btk/Itk/Tec subfamily. Insulin Receptor Substrate 1 (IRS-1). Regulators of small G-proteins like guanine nucleotide releasing factor GNRP (Ras-GRF) (which contains 2 PH domains), guanine nucleotide exchange proteins like vav, dbl, SoS and Saccharomyces cerevisiae CDC24, GTPase activating proteins like rasGAP and BEM2/IPL2, and the human break point cluster protein bcr. Cytoskeletal proteins such as dynamin (see IPR001401 from INTERPRO), Caenorhabditis elegans kinesin-like protein unc-104 (see IPR001752 from INTERPRO), spectrin beta-chain, syntrophin (2 PH domains) and S. cerevisiae nuclear migration protein NUM1. Mammalian phosphatidylinositol-specific phospholipase C (PI-PLC) (see IPR000909 from INTERPRO) isoforms gamma and delta. Isoform gamma contains two PH domains, the second one is split into two parts separated by about 400 residues. Oxysterol binding proteins OSBP, S. cerevisiae OSH1 and YHR073w. Mouse protein citron, a putative rho/rac effector that binds to the GTP-bound forms of rho and rac. Several S. cerevisiae proteins involved in cell cycle regulation and bud formation like BEM2, BEM3, BUD4 and the BEM1-binding proteins BOI2 (BEB1) and BOI1 (BOB1). C. elegans protein MIG-10. C. elegans hypothetical proteins C04D8.1, K06H7.4 and ZK632.12. S. cerevisiae hypothetical proteins YBR129c and YHR155w. ; GO: 0005515 protein binding; PDB: 1DYN_B 2DYN_B 3SNH_A 3ZYS_C 1X05_A 2I5F_A 1ZM0_B 1XX0_A 2I5C_C 3A8P_D ....
Probab=70.74 E-value=19 Score=22.17 Aligned_cols=31 Identities=10% Similarity=0.100 Sum_probs=25.8
Q ss_pred ceEEEecCCEEEEEEeCChHHHHHHHHHHHh
Q 037980 3 KYELDIQGNNVKVTVVDHAALIDDNIAALKA 33 (123)
Q Consensus 3 ~y~v~~~g~~i~vtvt~~~~~v~~wi~~~~~ 33 (123)
.|.|...+.......++++++.++|++.+..
T Consensus 71 ~f~i~~~~~~~~~~~~~s~~~~~~W~~~i~~ 101 (104)
T PF00169_consen 71 CFEITTPNGKSYLFSAESEEERKRWIQAIQK 101 (104)
T ss_dssp EEEEEETTSEEEEEEESSHHHHHHHHHHHHH
T ss_pred EEEEEeCCCcEEEEEcCCHHHHHHHHHHHHH
Confidence 4677788887777789999999999998864
No 26
>cd07027 RNAP_RPB11_like RPB11 subunit of RNA polymerase. The eukaryotic RPB11 subunit of RNA polymerase (RNAP), as well as its archaeal (L subunit) and bacterial (alpha subunit) counterparts, is involved in the assembly of RNAP subunits. RNAP is a large multi-subunit complex responsible for the synthesis of RNA. It is the principal enzyme of the transcription process, and is a final target in many regulatory pathways that control gene expression in all living cells. At least three distinct RNAP complexes are found in eukaryotic nuclei: RNAP I, RNAP II, and RNAP III, for the synthesis of ribosomal RNA precursor, mRNA precursor, and 5S and tRNA, respectively. A single distinct RNAP complex is found in prokaryotes and archaea, which may be responsible for the synthesis of all RNAs. The assembly of the two largest eukaryotic RNAP subunits that provide most of the enzyme's catalytic functions depends on the presence of RPB3/RPB11 heterodimer subunits. This is also true for the archaeal (D/
Probab=64.09 E-value=17 Score=23.86 Aligned_cols=36 Identities=14% Similarity=0.265 Sum_probs=27.2
Q ss_pred CCeeEEEEccccC-CChHHHHHh-hcCCCceEEeeeec
Q 037980 63 GNRCLIIQLCHLG-QIPESLKKF-LADETICFAGMEMN 98 (123)
Q Consensus 63 ~~~cll~~l~~~~-~~p~~L~~~-L~d~~i~kvGv~i~ 98 (123)
.+.|..|.+..-+ .+...|+.. +.||++.|+|+.+.
T Consensus 7 ~~n~~~~~i~~EdHTLgNlLr~~L~~~~~V~fAgY~vp 44 (83)
T cd07027 7 EKNSVTVEMENEDHTLGNLLREELLKDDQVDFARYYIK 44 (83)
T ss_pred CCCEEEEEEeCCCchHHHHHHHHHhcCCCeeEEEEecC
Confidence 4467778876654 477788855 59999999999983
No 27
>cd01246 PH_oxysterol_bp Oxysterol binding protein (OSBP) Pleckstrin homology (PH) domain. Oxysterol binding protein (OSBP) Pleckstrin homology (PH) domain. Oxysterol binding proteins are a multigene family that is conserved in yeast, flies, worms, mammals and plants. They all contain a C-terminal oxysterol binding domain, and most contain an N-terminal PH domain. OSBP PH domains bind to membrane phosphoinositides and thus likely play an important role in intracellular targeting. 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=63.55 E-value=19 Score=22.37 Aligned_cols=31 Identities=13% Similarity=0.146 Sum_probs=22.8
Q ss_pred ceEEEecCCEEEEEEeCChHHHHHHHHHHHh
Q 037980 3 KYELDIQGNNVKVTVVDHAALIDDNIAALKA 33 (123)
Q Consensus 3 ~y~v~~~g~~i~vtvt~~~~~v~~wi~~~~~ 33 (123)
.|.|...+.......+++.++.++|+..+..
T Consensus 60 ~F~i~~~~~~~~~~~a~s~~e~~~Wi~al~~ 90 (91)
T cd01246 60 CFTIDTGGDKTLHLRANSEEERQRWVDALEL 90 (91)
T ss_pred EEEEEcCCCCEEEEECCCHHHHHHHHHHHHh
Confidence 3555555546666678999999999988753
No 28
>PRK06310 DNA polymerase III subunit epsilon; Validated
Probab=63.28 E-value=68 Score=24.82 Aligned_cols=86 Identities=17% Similarity=0.200 Sum_probs=52.8
Q ss_pred cCCcEEEEEEeeecCCCCCceEEEeeeC----Ce-----eEEEEcccc--------CCC--------h------HHHHHh
Q 037980 36 KRQRLVGIDVKFNHRCTKKAEMLILCAG----NR-----CLIIQLCHL--------GQI--------P------ESLKKF 84 (123)
Q Consensus 36 ~~~~vvG~D~Ew~p~~~~~vallQl~~~----~~-----cll~~l~~~--------~~~--------p------~~L~~~ 84 (123)
++..++-||+|..--.+.+-.+||+|.- +. ..+++-... ..| | +.+.+|
T Consensus 5 ~~~~~v~~D~ETTGl~~~~d~IIEIa~v~v~~~~~~~~~~~li~P~~~I~~~a~~ihgIt~e~v~~~p~~~ev~~~~~~f 84 (250)
T PRK06310 5 KDTEFVCLDCETTGLDVKKDRIIEFAAIRFTFDEVIDSVEFLINPERVVSAESQRIHHISDAMLRDKPKIAEVFPQIKGF 84 (250)
T ss_pred cCCcEEEEEEeCCCCCCCCCeEEEEEEEEEECCeEEEEEEEEECcCCCCCHhhhhccCcCHHHHhCCCCHHHHHHHHHHH
Confidence 3567999999988655556678888751 21 122222110 011 1 366677
Q ss_pred hcCCCceEEeeeechhhhhhcc----CCCcc----CceeecHhhhh
Q 037980 85 LADETICFAGMEMNGKVDGLGR----CNLRC----KTAVELGHLAA 122 (123)
Q Consensus 85 L~d~~i~kvGv~i~~D~~kL~~----~gl~~----~~~vDL~~la~ 122 (123)
+.+ .-..||.++.-|...|.+ +|+.. ...+|...+|+
T Consensus 85 l~~-~~~lvghn~~FD~~~L~~~~~r~g~~~~~~~~~~iDtl~lar 129 (250)
T PRK06310 85 FKE-GDYIVGHSVGFDLQVLSQESERIGETFLSKHYYIIDTLRLAK 129 (250)
T ss_pred hCC-CCEEEEECHHHHHHHHHHHHHHcCCCccccCCcEEehHHHHH
Confidence 754 347899999999888864 45543 46788766654
No 29
>KOG2657 consensus Transmembrane glycoprotein nicastrin [Signal transduction mechanisms; Posttranslational modification, protein turnover, chaperones]
Probab=62.17 E-value=18 Score=31.77 Aligned_cols=63 Identities=19% Similarity=0.239 Sum_probs=39.9
Q ss_pred ceEEEecCCEEEEEEeCChHHHHHHHHHHHhhhcCCcEEEEEEeeecCCCCCceEEEeeeCCeeEEEEccccCCC-hHHH
Q 037980 3 KYELDIQGNNVKVTVVDHAALIDDNIAALKALLKRQRLVGIDVKFNHRCTKKAEMLILCAGNRCLIIQLCHLGQI-PESL 81 (123)
Q Consensus 3 ~y~v~~~g~~i~vtvt~~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~~~~~vallQl~~~~~cll~~l~~~~~~-p~~L 81 (123)
++-++++|.+ +++-..++.+.|+... +..+-.+||++-++. .-+.+ |.+|
T Consensus 282 kl~~~~d~~~----~~sv~nqtld~L~~~e---kSlrs~~f~ll~~s~----------------------~s~~lPPsSl 332 (596)
T KOG2657|consen 282 KLYVHVDGER----YQSVKNQTLDVLDRIE---KSLRSHAFDLLKPSG----------------------SSDRLPPSSL 332 (596)
T ss_pred eEEEEeccch----hhhHHHHHHHHHHHHH---hcccccCeeeecCCC----------------------CCCCCChHHH
Confidence 4555666655 4455666666666554 345668888876662 22344 4599
Q ss_pred HHhhc-CCCceEEe
Q 037980 82 KKFLA-DETICFAG 94 (123)
Q Consensus 82 ~~~L~-d~~i~kvG 94 (123)
.+||. ||++--|=
T Consensus 333 qsFlR~dpn~saVv 346 (596)
T KOG2657|consen 333 QSFLRADPNVSAVV 346 (596)
T ss_pred HHHHhhCCCcceEE
Confidence 99997 99876553
No 30
>cd07029 RNAP_I_III_AC19 AC19 subunit of Eukaryotic RNA polymerase (RNAP) I and RNAP III. The eukaryotic AC19 subunit of RNA polymerase (RNAP) I and RNAP III is involved in the assembly of RNAP subunits. RNAP is a large multi-subunit complex responsible for the synthesis of RNA. It is the principal enzyme of the transcription process, and is a final target in many regulatory pathways that control gene expression in all living cells. At least three distinct RNAP complexes are found in eukaryotic nuclei: RNAP I, RNAP II, and RNAP III. RNAP I is responsible for the synthesis of ribosomal RNA precursor, while RNAP III functions in the synthesis of 5S and tRNA. The AC19 subunit is the equivalent of the RPB11 subunit of RNAP II. The RPB11 subunit heterodimerizes with the RPB3 subunit, and together with RPB10 and RPB12, anchors the two largest subunits, RPB1 and RPB2, and stabilizes their association. The homology of AC19 to RPB11 suggests a similar function. The AC19 subunit is likely to ass
Probab=61.56 E-value=17 Score=23.95 Aligned_cols=35 Identities=14% Similarity=0.345 Sum_probs=26.1
Q ss_pred CeeEEEEccccC-CChHHHHHhh-cCCCceEEeeeec
Q 037980 64 NRCLIIQLCHLG-QIPESLKKFL-ADETICFAGMEMN 98 (123)
Q Consensus 64 ~~cll~~l~~~~-~~p~~L~~~L-~d~~i~kvGv~i~ 98 (123)
..|..|.+..-+ .+.-.|+..| .||++.|+|+.+.
T Consensus 8 ~n~~~~~i~~EdHTLgNlLr~~L~~~p~V~fagY~vp 44 (85)
T cd07029 8 ESCATFVFYGEDHTLGNSLRYVIMKNPEVEFCGYSIP 44 (85)
T ss_pred CCeEEEEEeCCCcchHHHHHHHHhhCCCceEEeeccc
Confidence 356777776543 4777888655 9999999999983
No 31
>PF10364 NKWYS: Putative capsular polysaccharide synthesis protein; InterPro: IPR018831 This entry contains proteins of no known function. They are found predominantly in Vibrio and cyanobacterial species and are characterised by having a NKWYS sequence motif.
Probab=58.64 E-value=25 Score=25.57 Aligned_cols=70 Identities=14% Similarity=0.185 Sum_probs=47.1
Q ss_pred HHHHHHHHhhhcCCcEEEEEEeeecC-CCCCceEEEeeeCCeeEEEEccccCCChHHHHHhhcCCCceEEeeeechh
Q 037980 25 DDNIAALKALLKRQRLVGIDVKFNHR-CTKKAEMLILCAGNRCLIIQLCHLGQIPESLKKFLADETICFAGMEMNGK 100 (123)
Q Consensus 25 ~~wi~~~~~~~~~~~vvG~D~Ew~p~-~~~~vallQl~~~~~cll~~l~~~~~~p~~L~~~L~d~~i~kvGv~i~~D 100 (123)
-.|.+.-+ ..++|||+=-.|- ...+-.++ ---.-+.+|+++-.++.+++.+++||.=+++..+-.+...+
T Consensus 34 ~~WFD~Ei-----k~~fGiDV~~~~Fd~~qGyqi~-~~~n~~lLlir~E~L~~~~~~i~efL~i~~f~l~~~N~a~n 104 (141)
T PF10364_consen 34 LNWFDNEI-----KKVFGIDVYSHPFDHEQGYQIF-NNDNFELLLIRCEKLDSLQEAIREFLGIDNFTLVNSNEAKN 104 (141)
T ss_pred hhHHHHHH-----HHhcCceeecCcCCCCCCeEEe-ecCCEEEEEEehhhhhhHHHHHHHHhCCCCccceecccccc
Confidence 45665544 3599999876665 33444442 12222689999999988999999999866666555555544
No 32
>PRK01146 DNA-directed RNA polymerase subunit L; Provisional
Probab=58.62 E-value=24 Score=23.17 Aligned_cols=35 Identities=17% Similarity=0.189 Sum_probs=26.4
Q ss_pred CeeEEEEccccC-CChHHHHHh-hcCCCceEEeeeec
Q 037980 64 NRCLIIQLCHLG-QIPESLKKF-LADETICFAGMEMN 98 (123)
Q Consensus 64 ~~cll~~l~~~~-~~p~~L~~~-L~d~~i~kvGv~i~ 98 (123)
+.+..|.+..-+ .+...|+.. +.||++.|+|+.+.
T Consensus 10 ~n~~~~~i~~EDHTlgNlLr~~L~~~~~V~fAgY~vp 46 (85)
T PRK01146 10 DNELELEIEGEDHTLMNLLKEELLEDPGVEAASYDID 46 (85)
T ss_pred CCEEEEEEeCCCchHHHHHHHHHhcCCCeeEEEeecC
Confidence 357777776654 477788854 59999999999875
No 33
>cd01247 PH_GPBP Goodpasture antigen binding protein (GPBP) Pleckstrin homology (PH) domain. Goodpasture antigen binding protein (GPBP) Pleckstrin homology (PH) domain. The GPBP protein is a kinase that phosphorylates an N-terminal region of the alpha 3 chain of type IV collagen , which is commonly known as the goodpasture antigen. It has has an N-terminal PH domain and a C-terminal START domain. 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. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cyt
Probab=57.20 E-value=37 Score=22.17 Aligned_cols=29 Identities=7% Similarity=0.042 Sum_probs=23.3
Q ss_pred eEEEecCCEEEEEEeCChHHHHHHHHHHH
Q 037980 4 YELDIQGNNVKVTVVDHAALIDDNIAALK 32 (123)
Q Consensus 4 y~v~~~g~~i~vtvt~~~~~v~~wi~~~~ 32 (123)
|.|...+.+.+-..++|+++.++|++.+.
T Consensus 61 F~i~~~~~r~~~L~A~s~~e~~~Wi~al~ 89 (91)
T cd01247 61 FDISVNENVVWYLRAENSQSRLLWMDSVV 89 (91)
T ss_pred EEEEeCCCeEEEEEeCCHHHHHHHHHHHh
Confidence 56666666777777899999999998875
No 34
>cd06926 RNAP_II_RPB11 RPB11 subunit of Eukaryotic RNA polymerase II. The eukaryotic RPB11 subunit of RNA polymerase (RNAP) II is involved in the assembly of RNAP subunits. RNAP is a large multi-subunit complex responsible for the synthesis of RNA. It is the principal enzyme of the transcription process, and is a final target in many regulatory pathways that control gene expression in all living cells. At least three distinct RNAP complexes are found in eukaryotic nuclei: RNAP I, RNAP II, and RNAP III. RNAP II is responsible for the synthesis of mRNA precursor. The RPB11 subunit heterodimerizes with the RPB3 subunit, and together with RPB10 and RPB12, anchors the two largest subunits, RPB1 and RPB2, and stabilizes their association.
Probab=55.94 E-value=36 Score=22.66 Aligned_cols=34 Identities=18% Similarity=0.333 Sum_probs=25.6
Q ss_pred eeEEEEccccC-CChHHHHH-hhcCCCceEEeeeec
Q 037980 65 RCLIIQLCHLG-QIPESLKK-FLADETICFAGMEMN 98 (123)
Q Consensus 65 ~cll~~l~~~~-~~p~~L~~-~L~d~~i~kvGv~i~ 98 (123)
.|..|.+..-+ .+--.|+. ++.||++.|+|+.+.
T Consensus 17 n~~~~~i~~EdHTLgNlLr~~L~~~~~V~fagY~vp 52 (93)
T cd06926 17 NAATFTINKEDHTLGNLLRMQLLKDPNVLFAGYKVP 52 (93)
T ss_pred cEEEEEEeCCCchHHHHHHHHHhcCCCeeEEeeccC
Confidence 57777776544 36677775 459999999999884
No 35
>cd06927 RNAP_L L subunit of Archaeal RNA polymerase. The archaeal L subunit of RNA polymerase (RNAP) is involved in the assembly of RNAP subunits. RNAP is a large multi-subunit complex responsible for the synthesis of RNA. It is the principal enzyme of the transcription process, and is a final target in many regulatory pathways that control gene expression in all living cells. A single distinct RNAP complex is found in archaea, which may be responsible for the synthesis of all RNAs. The archaeal RNAP harbors homologues of all eukaryotic RNAP II subunits with two exceptions (RPB8 and RPB9). The 12 archaeal subunits are designated by letters and can be divided into three functional groups that are engaged in: (I) catalysis (A'/A", B'/B" or B); (II) assembly (L, N, D and P); and (III) auxiliary functions (F, E, H and K). The assembly of the two largest archaeal RNAP subunits that provide most of the enzyme's catalytic functions depends on the presence of the archaeal D/L heterodimer.
Probab=54.59 E-value=32 Score=22.49 Aligned_cols=36 Identities=17% Similarity=0.183 Sum_probs=26.0
Q ss_pred CCeeEEEEccccC-CChHHHHHh-hcCCCceEEeeeec
Q 037980 63 GNRCLIIQLCHLG-QIPESLKKF-LADETICFAGMEMN 98 (123)
Q Consensus 63 ~~~cll~~l~~~~-~~p~~L~~~-L~d~~i~kvGv~i~ 98 (123)
.+.+..|.+..-+ .+.-.|+.- +.||++.|+|+.+.
T Consensus 7 ~~n~~~~~i~~EDHTlgNlLr~~L~~~~~V~fAgY~vp 44 (83)
T cd06927 7 EDNELELEIEGEDHTLLNLLKEELLRDPGVKVASYDIE 44 (83)
T ss_pred CCCEEEEEEeCCCchHHHHHHHHHhcCCCeEEEEeecC
Confidence 3456677766544 477788855 58899999999875
No 36
>PF13289 SIR2_2: SIR2-like domain
Probab=54.44 E-value=10 Score=25.67 Aligned_cols=29 Identities=28% Similarity=0.513 Sum_probs=22.8
Q ss_pred ChHHHHHhhcCCCceEEeeeech-hhhhhc
Q 037980 77 IPESLKKFLADETICFAGMEMNG-KVDGLG 105 (123)
Q Consensus 77 ~p~~L~~~L~d~~i~kvGv~i~~-D~~kL~ 105 (123)
++..|+++|.+..++|+|++..+ |.+.+.
T Consensus 76 ~~~~l~~~l~~~~~lfiGys~~D~~i~~~l 105 (143)
T PF13289_consen 76 FPNFLRSLLRSKTLLFIGYSFNDPDIRQLL 105 (143)
T ss_pred HHHHHHHHHcCCCEEEEEECCCCHHHHHHH
Confidence 66788899999999999999875 344443
No 37
>cd06133 ERI-1_3'hExo_like DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins. This subfamily is composed of Caenorhabditis elegans ERI-1, human 3' exonuclease (3'hExo), Drosophila exonuclease snipper (snp), and similar proteins from eukaryotes and bacteria. These are DEDDh-type DnaQ-like 3'-5' exonucleases containing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. ERI-1 has been implicated in the degradation of small interfering RNAs (RNAi). 3'hExo participates in the degradation of histone mRNAs. Snp is a non-essential exonuclease that efficiently degrades structured RNA and DNA substrates as long as there is a minimum of 2 nucleotides in the 3' overhang to initiate degradation. Snp is not a functional ho
Probab=52.47 E-value=78 Score=22.11 Aligned_cols=42 Identities=12% Similarity=0.176 Sum_probs=26.6
Q ss_pred HHHHhhcCC-CceEEeeeechhhhhhcc----CCC-----ccCceeecHhhhh
Q 037980 80 SLKKFLADE-TICFAGMEMNGKVDGLGR----CNL-----RCKTAVELGHLAA 122 (123)
Q Consensus 80 ~L~~~L~d~-~i~kvGv~i~~D~~kL~~----~gl-----~~~~~vDL~~la~ 122 (123)
.+.+|+.+. ....++.+ ..|...+.+ ++. .....+|++.++.
T Consensus 81 ~~~~~l~~~~~~~~v~~~-~~d~~~l~~~~~~~~~~~~~~~~~~~~D~~~~~~ 132 (176)
T cd06133 81 EFLEWLGKNGKYAFVTWG-DWDLKDLLQNQCKYKIINLPPFFRQWIDLKKEFA 132 (176)
T ss_pred HHHHHHHhCCCeEEEeec-HhhHHHHHHHHHHhcCCCCcccccceEEHHHHHH
Confidence 677788775 36777776 666554332 332 3457888887764
No 38
>smart00233 PH Pleckstrin homology domain. Domain commonly found in eukaryotic signalling proteins. The domain family possesses multiple functions including the abilities to bind inositol phosphates, and various proteins. PH domains have been found to possess inserted domains (such as in PLC gamma, syntrophins) and to be inserted within other domains. Mutations in Brutons tyrosine kinase (Btk) within its PH domain cause X-linked agammaglobulinaemia (XLA) in patients. Point mutations cluster into the positively charged end of the molecule around the predicted binding site for phosphatidylinositol lipids.
Probab=49.73 E-value=53 Score=19.52 Aligned_cols=30 Identities=10% Similarity=0.208 Sum_probs=22.3
Q ss_pred eEEEecCCEEEEEEeCChHHHHHHHHHHHh
Q 037980 4 YELDIQGNNVKVTVVDHAALIDDNIAALKA 33 (123)
Q Consensus 4 y~v~~~g~~i~vtvt~~~~~v~~wi~~~~~ 33 (123)
|.+...........+.++++..+|+..+..
T Consensus 70 f~l~~~~~~~~~f~~~s~~~~~~W~~~i~~ 99 (102)
T smart00233 70 FEIKTADRRSYLLQAESEEEREEWVDALRK 99 (102)
T ss_pred EEEEecCCceEEEEcCCHHHHHHHHHHHHH
Confidence 455555554566678999999999998864
No 39
>cd01260 PH_CNK Connector enhancer of KSR (Kinase suppressor of ras) (CNK) pleckstrin homology (PH) domain. Connector enhancer of KSR (Kinase suppressor of ras) (CNK) pleckstrin homology (PH) domain. CNK is believed to regulate the activity and the subcellular localization of RAS activated RAF. CNK is composed of N-terminal SAM and PDZ domains along with a central or C-terminal PH domain. 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. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, a well as cytoskelet
Probab=49.63 E-value=38 Score=21.73 Aligned_cols=30 Identities=3% Similarity=-0.073 Sum_probs=21.3
Q ss_pred eEEEecCCEEEEEEeCChHHHHHHHHHHHh
Q 037980 4 YELDIQGNNVKVTVVDHAALIDDNIAALKA 33 (123)
Q Consensus 4 y~v~~~g~~i~vtvt~~~~~v~~wi~~~~~ 33 (123)
|.|...+.+.+.-.+++++++.+|+..+..
T Consensus 66 F~I~~~~~~~~~f~a~s~~e~~~Wi~ai~~ 95 (96)
T cd01260 66 FKVCHPVYKSFYFAAETLDDLSQWVNHLIT 95 (96)
T ss_pred EEECCCCCcEEEEEeCCHHHHHHHHHHHHh
Confidence 344434535555678999999999988753
No 40
>cd00821 PH Pleckstrin homology (PH) domain. Pleckstrin homology (PH) domain. PH domains are only found in eukaryotes. They 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. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=47.70 E-value=53 Score=19.35 Aligned_cols=29 Identities=14% Similarity=0.211 Sum_probs=20.8
Q ss_pred eEEEecCCEEEEEEeCChHHHHHHHHHHH
Q 037980 4 YELDIQGNNVKVTVVDHAALIDDNIAALK 32 (123)
Q Consensus 4 y~v~~~g~~i~vtvt~~~~~v~~wi~~~~ 32 (123)
|.|......-....+.++++.++|+..+.
T Consensus 66 f~i~~~~~~~~~~~~~s~~~~~~W~~~l~ 94 (96)
T cd00821 66 FEIRTPDGRSYLLQAESEEEREEWIEALQ 94 (96)
T ss_pred EEEecCCCcEEEEEeCCHHHHHHHHHHHh
Confidence 45555553555556789999999998875
No 41
>COG4328 Predicted nuclease (RNAse H fold) [General function prediction only]
Probab=47.20 E-value=28 Score=27.59 Aligned_cols=35 Identities=31% Similarity=0.417 Sum_probs=26.8
Q ss_pred cEEEEEEeeecCCCCCceEEEeeeCCeeEEEEccccC
Q 037980 39 RLVGIDVKFNHRCTKKAEMLILCAGNRCLIIQLCHLG 75 (123)
Q Consensus 39 ~vvG~D~Ew~p~~~~~vallQl~~~~~cll~~l~~~~ 75 (123)
++||||.-|+-. ++....+|+..+ .|.|.-+.+-+
T Consensus 2 ~fvGiDlaW~~~-ppg~~cl~~~dg-~~~i~~~~rr~ 36 (266)
T COG4328 2 KFVGIDLAWASR-PPGLCCLQLADG-GLLIGDLARRD 36 (266)
T ss_pred ceEEeeeecccC-CCceEEEEEcCC-CceEeechhhh
Confidence 589999999873 356667888877 88888886543
No 42
>cd01265 PH_PARIS-1 PARIS-1 pleckstrin homology (PH) domain. PARIS-1 pleckstrin homology (PH) domain. PARIS-1 contains a PH domain and a TBC-type GTPase catalytic domain. 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=45.99 E-value=57 Score=21.26 Aligned_cols=29 Identities=17% Similarity=0.250 Sum_probs=22.5
Q ss_pred eEEEecCCEEEEEEeCChHHHHHHHHHHHh
Q 037980 4 YELDIQGNNVKVTVVDHAALIDDNIAALKA 33 (123)
Q Consensus 4 y~v~~~g~~i~vtvt~~~~~v~~wi~~~~~ 33 (123)
|.|.. +++.+...++|+++.++||+.+..
T Consensus 64 F~i~t-~~r~y~l~A~s~~e~~~Wi~al~~ 92 (95)
T cd01265 64 FEIHS-NNEVIALKASSDKQMNYWLQALQS 92 (95)
T ss_pred EEEEc-CCcEEEEECCCHHHHHHHHHHHHh
Confidence 55544 456678889999999999988764
No 43
>cd01251 PH_centaurin_alpha Centaurin alpha Pleckstrin homology (PH) domain. Centaurin alpha Pleckstrin homology (PH) domain. Centaurin alpha is a phophatidlyinositide binding protein consisting of an N-terminal ArfGAP domain and two PH domains. In response to growth factor activation, PI3K phosphorylates phosphatidylinositol 4,5-bisphosphate to phosphatidylinositol 3,4,5-trisphosphate. Centaurin alpha 1 is recruited to the plasma membrane following growth factor stimulation by specific binding of its PH domain to phosphatidylinositol 3,4,5-trisphosphate. Centaurin alpha 2 is constitutively bound to the plasma membrane since it binds phosphatidylinositol 4,5-bisphosphate and phosphatidylinositol 3,4,5-trisphosphate with equal affinity. 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 specifici
Probab=45.74 E-value=79 Score=20.95 Aligned_cols=24 Identities=13% Similarity=0.062 Sum_probs=20.0
Q ss_pred CEEEEEEeCChHHHHHHHHHHHhh
Q 037980 11 NNVKVTVVDHAALIDDNIAALKAL 34 (123)
Q Consensus 11 ~~i~vtvt~~~~~v~~wi~~~~~~ 34 (123)
.+.+...++++++.++||+.+...
T Consensus 76 ~Rty~l~a~s~~e~~~Wi~ai~~v 99 (103)
T cd01251 76 ERKFLFACETEQDRREWIAAFQNV 99 (103)
T ss_pred CeEEEEECCCHHHHHHHHHHHHHH
Confidence 566777889999999999988753
No 44
>PRK07740 hypothetical protein; Provisional
Probab=45.44 E-value=82 Score=24.28 Aligned_cols=104 Identities=14% Similarity=0.140 Sum_probs=58.8
Q ss_pred CChHHHHHHHHHHHhhh----------cCCcEEEEEEeeecCCCCC-ceEEEeee----CCee------EEEEccc----
Q 037980 19 DHAALIDDNIAALKALL----------KRQRLVGIDVKFNHRCTKK-AEMLILCA----GNRC------LIIQLCH---- 73 (123)
Q Consensus 19 ~~~~~v~~wi~~~~~~~----------~~~~vvG~D~Ew~p~~~~~-vallQl~~----~~~c------ll~~l~~---- 73 (123)
.+..+-..||+++.+-. ++..++-||+|++--.+.+ -.+||++. ++.. .+++-..
T Consensus 30 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vv~D~ETTGl~p~~~deIIeIgaV~~~~~~i~~~~f~~lv~P~~~i~~ 109 (244)
T PRK07740 30 DNALQQEAWIRSIQKEAKRDDVLDIPLTDLPFVVFDLETTGFSPQQGDEILSIGAVKTKGGEVETDTFYSLVKPKRPIPE 109 (244)
T ss_pred CchHHHHHHHHHHHHHhccCCccCCCccCCCEEEEEEeCCCCCCCCCCeEEEEEEEEEECCEEEEEEEEEEeCcCCCCCh
Confidence 34467788998885443 2457999999997543333 56788875 2211 0111110
Q ss_pred -------c--------CCChHHHHHhhcC-CCceEEeeeechhhhhhcc-----CCCcc-CceeecHhhhh
Q 037980 74 -------L--------GQIPESLKKFLAD-ETICFAGMEMNGKVDGLGR-----CNLRC-KTAVELGHLAA 122 (123)
Q Consensus 74 -------~--------~~~p~~L~~~L~d-~~i~kvGv~i~~D~~kL~~-----~gl~~-~~~vDL~~la~ 122 (123)
+ ..+++.+.+|++- .+-..||.++.-|..-|.+ ++... ...+|...+++
T Consensus 110 ~~~~ltGIt~e~l~~ap~~~evl~~f~~fi~~~~lVahna~fD~~fL~~~~~~~~~~~~~~~~iDt~~l~r 180 (244)
T PRK07740 110 HILELTGITAEDVAFAPPLAEVLHRFYAFIGAGVLVAHHAGHDKAFLRHALWRTYRQPFTHRLIDTMFLTK 180 (244)
T ss_pred hheeccCCCHHHHhCCCCHHHHHHHHHHHhCCCEEEEeCHHHHHHHHHHHHHHhcCCCcCCCeechHHHHH
Confidence 0 1133444444421 2347899999999877653 23322 36777776653
No 45
>cd01235 PH_SETbf Set binding factor Pleckstrin Homology (PH) domain. Set binding factor Pleckstrin Homology (PH) domain. Set binding factor is a myotubularin-related pseudo-phosphatase consisting of a Denn domain, a Gram domain, an inactive phosphatase domain, a SID motif and a C-terminal PH domain. Its PH domain is predicted to bind lipids based upon its ability to respond to phosphatidylinositol 3-kinase .
Probab=41.17 E-value=80 Score=20.11 Aligned_cols=24 Identities=0% Similarity=-0.071 Sum_probs=19.3
Q ss_pred CCEEEEEEeCChHHHHHHHHHHHh
Q 037980 10 GNNVKVTVVDHAALIDDNIAALKA 33 (123)
Q Consensus 10 g~~i~vtvt~~~~~v~~wi~~~~~ 33 (123)
+.+.+-..+++++++++|++.+..
T Consensus 76 ~~r~~~~~a~s~~e~~~Wi~ai~~ 99 (101)
T cd01235 76 SKRTYNFLAENINEAQRWKEKIQQ 99 (101)
T ss_pred CCceEEEECCCHHHHHHHHHHHHh
Confidence 455666678999999999998864
No 46
>PRK06549 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=40.78 E-value=31 Score=24.57 Aligned_cols=19 Identities=21% Similarity=0.524 Sum_probs=17.0
Q ss_pred CcceEEEecCCEEEEEEeC
Q 037980 1 MGKYELDIQGNNVKVTVVD 19 (123)
Q Consensus 1 ~~~y~v~~~g~~i~vtvt~ 19 (123)
|.+|.|.++|+...|++-.
T Consensus 2 mk~~~itvng~~y~V~vee 20 (130)
T PRK06549 2 LRKFKITIDGKEYLVEMEE 20 (130)
T ss_pred CceEEEEECCEEEEEEEEE
Confidence 6789999999999999865
No 47
>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function. It is found in some proteins described as Schlafen family members, which may have a role in hematopoeitic cell differentiation [].
Probab=39.92 E-value=44 Score=26.91 Aligned_cols=39 Identities=13% Similarity=0.109 Sum_probs=32.7
Q ss_pred CCEEEEEEeCChHHHHHHHHHHHhhh-cCCcEEEEEEeee
Q 037980 10 GNNVKVTVVDHAALIDDNIAALKALL-KRQRLVGIDVKFN 48 (123)
Q Consensus 10 g~~i~vtvt~~~~~v~~wi~~~~~~~-~~~~vvG~D~Ew~ 48 (123)
...+...++++++++.+||++..... ....+.|++-+|.
T Consensus 192 ~~~yd~~~f~~~~~~~~~i~~k~~~~~~~rlvA~~~w~~~ 231 (352)
T PF09848_consen 192 DENYDFRVFDSPEEMKEAIKEKNKEGGLSRLVAGYCWPWK 231 (352)
T ss_pred CCceeEEEECCHHHHHHHHHHHhcccCCceEEEecccccc
Confidence 56788899999999999998876543 2458999999999
No 48
>cd05780 DNA_polB_Kod1_like_exo DEDDy 3'-5' exonuclease domain of Pyrococcus kodakaraensis Kod1 and similar archaeal family-B DNA polymerases. The 3'-5' exonuclease domain of archaeal family-B DNA polymerases with similarity to Pyrococcus kodakaraensis Kod1, including polymerases from Desulfurococcus (D. Tok Pol) and Thermococcus gorgonarius (Tgo Pol). Kod1, D. Tok Pol, and Tgo Pol are thermostable enzymes that exhibit both polymerase and 3'-5' exonuclease activities. They are family-B DNA polymerases. Their amino termini harbor a DEDDy-type DnaQ-like 3'-5' exonuclease domain that contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and are involved in metal binding and catalysis. The exonuclease domain of family B polymerases contains a beta hairpin structure that plays an important role in active site switching in the event of nucleotide misincorporation. Members of this subfamily show
Probab=38.18 E-value=1.6e+02 Score=21.58 Aligned_cols=72 Identities=4% Similarity=0.191 Sum_probs=41.2
Q ss_pred CcEEEEEEeeecC----CCCCceEEEeeeCC----eeEEEEcc------ccC---CChHHHHHhhcC--CCceEEeeeec
Q 037980 38 QRLVGIDVKFNHR----CTKKAEMLILCAGN----RCLIIQLC------HLG---QIPESLKKFLAD--ETICFAGMEMN 98 (123)
Q Consensus 38 ~~vvG~D~Ew~p~----~~~~vallQl~~~~----~cll~~l~------~~~---~~p~~L~~~L~d--~~i~kvGv~i~ 98 (123)
.+++.||+|.... .+.+-.++|++... .++.++-. ... .+=..+.+++.. |++ .+|+++.
T Consensus 3 l~i~~fDIEt~~~~g~p~~~~d~Ii~Is~~~~~~~~~~~~~~~~~~~v~~~~~E~~lL~~F~~~i~~~dpdi-ivgyN~~ 81 (195)
T cd05780 3 LKILSFDIEVLNHEGEPNPEKDPIIMISFADEGGNKVITWKKFDLPFVEVVKTEKEMIKRFIEIVKEKDPDV-IYTYNGD 81 (195)
T ss_pred ceEEEEEEEecCCCCCCCCCCCcEEEEEEecCCCceEEEecCCCCCeEEEeCCHHHHHHHHHHHHHHcCCCE-EEecCCC
Confidence 4789999999622 33445667777532 23333211 011 122344455554 764 8999987
Q ss_pred h-hhhhhcc----CCCc
Q 037980 99 G-KVDGLGR----CNLR 110 (123)
Q Consensus 99 ~-D~~kL~~----~gl~ 110 (123)
+ |...|.. +|+.
T Consensus 82 ~FD~pyL~~R~~~~gi~ 98 (195)
T cd05780 82 NFDFPYLKKRAEKLGIE 98 (195)
T ss_pred CCcHHHHHHHHHHhCCC
Confidence 5 8888763 5664
No 49
>PF13656 RNA_pol_L_2: RNA polymerase Rpb3/Rpb11 dimerisation domain; PDB: 2Y0S_L 1I3Q_K 4A3D_K 2JA8_K 3GTP_K 1R9T_K 3PO2_K 4A3J_K 3HOX_K 2JA7_K ....
Probab=38.03 E-value=22 Score=22.79 Aligned_cols=22 Identities=27% Similarity=0.387 Sum_probs=17.1
Q ss_pred ChHHHHHh-hcCCCceEEeeeec
Q 037980 77 IPESLKKF-LADETICFAGMEMN 98 (123)
Q Consensus 77 ~p~~L~~~-L~d~~i~kvGv~i~ 98 (123)
+.-.|+.. +.||++.|+|+.+.
T Consensus 14 lgNlLr~~L~~~p~V~fagY~vp 36 (77)
T PF13656_consen 14 LGNLLRYELLKDPDVEFAGYRVP 36 (77)
T ss_dssp HHHHHHHCCTTSTTEEEEEEEES
T ss_pred HHHHHHHHHhhCCCeEEEEeccC
Confidence 55566654 59999999999884
No 50
>cd01233 Unc104 Unc-104 pleckstrin homology (PH) domain. Unc-104 pleckstrin homology (PH) domain. Unc-104 is a kinesin-like protein containing an N-terminal kinesin catalytic domain, followed by a forkhead associated domain with a C-terminal PH domain. These proteins are responsible for the transport of membrane vesicles along microtubules. The mechanism involves the binding of the PH domain to phosphatidiylinositol (4,5) P2-containing liposomes.
Probab=35.94 E-value=98 Score=20.23 Aligned_cols=25 Identities=12% Similarity=-0.085 Sum_probs=20.1
Q ss_pred cCCEEEEEEeCChHHHHHHHHHHHh
Q 037980 9 QGNNVKVTVVDHAALIDDNIAALKA 33 (123)
Q Consensus 9 ~g~~i~vtvt~~~~~v~~wi~~~~~ 33 (123)
.+++.+.-.++|+++.++||+.+..
T Consensus 72 t~~rt~~~~A~s~~e~~~Wi~ai~~ 96 (100)
T cd01233 72 TKHRGYLFQALSDKEMIDWLYALNP 96 (100)
T ss_pred CCCCEEEEEcCCHHHHHHHHHHhhh
Confidence 4556667778999999999998864
No 51
>cd01250 PH_centaurin Centaurin Pleckstrin homology (PH) domain. Centaurin Pleckstrin homology (PH) domain. Centaurin beta and gamma consist of a PH domain, an ArfGAP domain and three ankyrin repeats. Centaurain gamma also has an N-terminal Ras homology domain. Centaurin alpha has a different domain architecture and its PH domain is in a different subfamily. Centaurin can bind to phosphatidlyinositol (3,4,5)P3. 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=34.10 E-value=1e+02 Score=18.94 Aligned_cols=28 Identities=21% Similarity=0.147 Sum_probs=20.0
Q ss_pred eEEEecCCEEEEEEeCChHHHHHHHHHHH
Q 037980 4 YELDIQGNNVKVTVVDHAALIDDNIAALK 32 (123)
Q Consensus 4 y~v~~~g~~i~vtvt~~~~~v~~wi~~~~ 32 (123)
|.|.... ..+.-.+.++++.++|+..+.
T Consensus 65 f~i~~~~-~~~~f~a~s~~~~~~Wi~al~ 92 (94)
T cd01250 65 FEVISPT-KTWHFQADSEEERDDWISAIQ 92 (94)
T ss_pred EEEEcCC-cEEEEECCCHHHHHHHHHHHh
Confidence 3333333 556667899999999998875
No 52
>cd06127 DEDDh DEDDh 3'-5' exonuclease domain family. DEDDh exonucleases, part of the DnaQ-like (or DEDD) exonuclease superfamily, catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. These proteins contain four invariant acidic residues in three conserved sequence motifs termed ExoI, ExoII and ExoIII. DEDDh exonucleases are classified as such because of the presence of specific Hx(4)D conserved pattern at the ExoIII motif. The four conserved acidic residues are clustered around the active site and serve as ligands for the two metal ions required for catalysis. Most DEDDh exonucleases are the proofreading subunits (epsilon) or domains of bacterial DNA polymerase III, the main replicating enzyme in bacteria, which functions as the chromosomal replicase. Other members include other DNA and RNA exonucleases such as RNase T, Oligoribonuclease, and RNA exonuclease (REX), among others.
Probab=33.96 E-value=47 Score=22.21 Aligned_cols=41 Identities=15% Similarity=0.074 Sum_probs=30.0
Q ss_pred HHHHHhhcCCCceEEeeeechhhhhhcc-C---C--CccCceeecHhhh
Q 037980 79 ESLKKFLADETICFAGMEMNGKVDGLGR-C---N--LRCKTAVELGHLA 121 (123)
Q Consensus 79 ~~L~~~L~d~~i~kvGv~i~~D~~kL~~-~---g--l~~~~~vDL~~la 121 (123)
..+.+++++ -..+|.++.-|..-|.+ + | ..-...+|+..++
T Consensus 71 ~~~~~~l~~--~~~v~~n~~fD~~~l~~~~~~~~~~~~~~~~iDt~~~~ 117 (159)
T cd06127 71 PEFLEFLGG--RVLVAHNASFDLRFLNRELRRLGGPPLPNPWIDTLRLA 117 (159)
T ss_pred HHHHHHHCC--CEEEEeCcHhhHHHHHHHHHHhCCCCCCCCeeEHHHHH
Confidence 355667766 67899999999888876 3 2 4556888887765
No 53
>cd01406 SIR2-like Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation.
Probab=32.19 E-value=28 Score=26.37 Aligned_cols=28 Identities=25% Similarity=0.313 Sum_probs=21.5
Q ss_pred ChHHHHHhhcCCCceEEeeeech-hhhhh
Q 037980 77 IPESLKKFLADETICFAGMEMNG-KVDGL 104 (123)
Q Consensus 77 ~p~~L~~~L~d~~i~kvGv~i~~-D~~kL 104 (123)
+...|+.+|.+..++|+|++..+ +.+.|
T Consensus 169 ~~~~l~~ll~~~~~LFiG~S~~D~~i~~l 197 (242)
T cd01406 169 ATKFLKSDLEKYTVLFIGYSLTDPNIRYL 197 (242)
T ss_pred HHHHHHHHHhcCcEEEEEcCCCCCcHHHH
Confidence 34678899999999999999874 33333
No 54
>cd01257 PH_IRS Insulin receptor substrate (IRS) pleckstrin homology (PH) domain. Insulin receptor substrate (IRS) pleckstrin homology (PH) domain. PH domains are only found in eukaryotes, and are often involved in targeting proteins to the plasma membrane via lipid binding. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPases, adaptors, a well as cytoskeletal associated molecules and in lipid associated enzymes. The IRS PH domain targets IRS molecules to the plasma membrane, usually in response to insulin stimulation.
Probab=32.15 E-value=1.3e+02 Score=20.19 Aligned_cols=23 Identities=17% Similarity=0.084 Sum_probs=19.1
Q ss_pred CEEEEEEeCChHHHHHHHHHHHh
Q 037980 11 NNVKVTVVDHAALIDDNIAALKA 33 (123)
Q Consensus 11 ~~i~vtvt~~~~~v~~wi~~~~~ 33 (123)
.+.+...++++++.++|++.+..
T Consensus 78 dr~f~l~aese~E~~~Wi~~i~~ 100 (101)
T cd01257 78 DEYFAVAAENEAEQDSWYQALLE 100 (101)
T ss_pred CceEEEEeCCHHHHHHHHHHHhh
Confidence 35777889999999999998753
No 55
>cd01245 PH_RasGAP_CG5898 RAS GTPase-activating protein (GAP) CG5898 Pleckstrin homology (PH) domain. RAS GTPase-activating protein (GAP) CG5898 Pleckstrin homology (PH) domain. This protein has a domain architecture of SH2-SH3-SH2-PH-C2-Ras_GAP. 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. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, a well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=31.19 E-value=1.1e+02 Score=20.63 Aligned_cols=28 Identities=14% Similarity=0.127 Sum_probs=17.3
Q ss_pred eEEEecCC-EEEEEEeCChHHHHHHHHHHH
Q 037980 4 YELDIQGN-NVKVTVVDHAALIDDNIAALK 32 (123)
Q Consensus 4 y~v~~~g~-~i~vtvt~~~~~v~~wi~~~~ 32 (123)
|+|...+. .++-...++ ++.++||+.+.
T Consensus 68 Fel~~~~~~~~y~~~a~~-~er~~Wi~~l~ 96 (98)
T cd01245 68 FQIVERALPTVYYSCRSS-EERDKWIESLQ 96 (98)
T ss_pred EEEecCCCCeEEEEeCCH-HHHHHHHHHHh
Confidence 33433333 455444455 99999999875
No 56
>cd01264 PH_melted Melted pleckstrin homology (PH) domain. Melted pleckstrin homology (PH) domain. The melted protein has a C-terminal PH domain. 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. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPases, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=31.10 E-value=1.2e+02 Score=20.46 Aligned_cols=24 Identities=4% Similarity=0.113 Sum_probs=19.1
Q ss_pred cCCEEEEEEeCChHHHHHHHHHHH
Q 037980 9 QGNNVKVTVVDHAALIDDNIAALK 32 (123)
Q Consensus 9 ~g~~i~vtvt~~~~~v~~wi~~~~ 32 (123)
..++.+...++|+.+.++||+.+.
T Consensus 75 tp~rt~~l~A~se~e~e~WI~~i~ 98 (101)
T cd01264 75 TADKTYILKAKDEKNAEEWLQCLN 98 (101)
T ss_pred cCCceEEEEeCCHHHHHHHHHHHH
Confidence 444666677899999999998875
No 57
>PF05770 Ins134_P3_kin: Inositol 1, 3, 4-trisphosphate 5/6-kinase; InterPro: IPR008656 This entry represents inositol-tetrakisphosphate 1-kinase which is also called inositol 1,3,4-trisphosphate 5/6-kinase. Inositol-tetrakisphosphate 1-kinase can phosphorylate various inositol polyphosphate such as Ins(3,4,5,6)P4 or Ins(1,3,4)P3. This enzyme phosphorylates Ins(3,4,5,6)P4 at position 1 to form Ins(1,3,4,5,6)P5. This reaction is thought to have regulatory importance, since Ins(3,4,5,6)P4 is an inhibitor of plasma membrane Ca(2+)-activated Cl(-) channels, while Ins(1,3,4,5,6)P5 is not. It also phosphorylates Ins(1,3,4)P3 on O-5 and O-6 to form Ins(1,3,4,6)P4, an essential molecule in the hexakisphosphate (InsP6) pathway [, , , , ].; GO: 0000287 magnesium ion binding, 0005524 ATP binding, 0047325 inositol tetrakisphosphate 1-kinase activity, 0052725 inositol-1,3,4-trisphosphate 6-kinase activity, 0052726 inositol-1,3,4-trisphosphate 5-kinase activity, 0032957 inositol trisphosphate metabolic process, 0005622 intracellular; PDB: 1Z2P_X 1Z2O_X 1Z2N_X 2Q7D_A 2QB5_B 2ODT_X.
Probab=30.84 E-value=1.3e+02 Score=24.47 Aligned_cols=49 Identities=18% Similarity=0.294 Sum_probs=30.8
Q ss_pred HHHHHHHHHHhhhcCCcEEEEEEeeecCCCCCceEEEeeeCCeeEEEEcccc---C---CChHHHHHhhc
Q 037980 23 LIDDNIAALKALLKRQRLVGIDVKFNHRCTKKAEMLILCAGNRCLIIQLCHL---G---QIPESLKKFLA 86 (123)
Q Consensus 23 ~v~~wi~~~~~~~~~~~vvG~D~Ew~p~~~~~vallQl~~~~~cll~~l~~~---~---~~p~~L~~~L~ 86 (123)
.+.+|+++.+ +-..+|||+ +++--++++=+|+.+++. + .++.-|.+||.
T Consensus 252 ~la~~LR~~l----gL~LFgfDv-----------I~~~~t~~~~~VIDINyFPgY~~vp~f~~~l~~~~~ 306 (307)
T PF05770_consen 252 KLAKELRRAL----GLTLFGFDV-----------IRENGTGGRYYVIDINYFPGYKKVPDFESVLTDFIL 306 (307)
T ss_dssp HHHHHHHHHH----T-SEEEEEE-----------EEGCCT-SSEEEEEEEES--TTTSCTHHHHHHHHHH
T ss_pred HHHHHHHHHh----CcceeeeEE-----------EEEcCCCCcEEEEEeccCCCccCCCChHHHHHHHhh
Confidence 3445555555 468999998 555556556789999874 2 34456666664
No 58
>PF10453 NUFIP1: Nuclear fragile X mental retardation-interacting protein 1 (NUFIP1); InterPro: IPR019496 Nuclear fragile X mental retardation-interacting protein 1 (Nufip1) has been implicated in the assembly of the large subunit of the ribosome [] and in telomere maintenance []. It is known to bind RNA [] and is phosphorylated upon DNA damage []. This entry represents a conserved domain found within Nufip1. Some proteins containing this region also contain a CCCH zinc finger.
Probab=30.63 E-value=69 Score=19.55 Aligned_cols=26 Identities=19% Similarity=0.285 Sum_probs=18.4
Q ss_pred EEecCCEEEEEEeCChHHHHHHHHHHHhh
Q 037980 6 LDIQGNNVKVTVVDHAALIDDNIAALKAL 34 (123)
Q Consensus 6 v~~~g~~i~vtvt~~~~~v~~wi~~~~~~ 34 (123)
+...|..|.- .+++++.+|+.+-...
T Consensus 8 ~~~~g~~~~L---~t~eeI~~W~eERrk~ 33 (56)
T PF10453_consen 8 FHIPGTSIKL---QTPEEIAKWIEERRKN 33 (56)
T ss_pred ccCCCceeec---CCHHHHHHHHHHHHHc
Confidence 3445554433 5899999999988764
No 59
>PRK14436 acylphosphatase; Provisional
Probab=30.21 E-value=1.6e+02 Score=19.27 Aligned_cols=47 Identities=11% Similarity=0.172 Sum_probs=34.8
Q ss_pred eEEEecCCEEEEEEeCChHHHHHHHHHHHhhhcCCcEEEEEEeeecC
Q 037980 4 YELDIQGNNVKVTVVDHAALIDDNIAALKALLKRQRLVGIDVKFNHR 50 (123)
Q Consensus 4 y~v~~~g~~i~vtvt~~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~ 50 (123)
|.-+..+..+.+.+..+++.+++.++.+........|-.++.||.+.
T Consensus 35 ~V~N~~dG~Vei~~qG~~~~i~~f~~~l~~gp~~a~V~~v~~~~~~~ 81 (91)
T PRK14436 35 WVRNLPDGSVEAVLEGDEERVEALIGWAHQGPPLARVTRVEVKWEEP 81 (91)
T ss_pred EEEECCCCcEEEEEEcCHHHHHHHHHHHhhCCCceEEEEEEEEEcCC
Confidence 44455566788888999999999999887422344688889988874
No 60
>PF02381 MraZ: MraZ protein; InterPro: IPR020603 this entry represents the 70 amino acid region found duplicated in the bacterial proteins MraZ. These proteins may be DNA-binding transcription factors, its members are probably enzymes containing a conserved DXXXR motif that probably forms part of the active site.; PDB: 1N0F_E 1N0E_F 1N0G_A.
Probab=29.81 E-value=29 Score=21.43 Aligned_cols=21 Identities=29% Similarity=0.683 Sum_probs=15.8
Q ss_pred CChHHHHHhhcCC-CceEEeee
Q 037980 76 QIPESLKKFLADE-TICFAGME 96 (123)
Q Consensus 76 ~~p~~L~~~L~d~-~i~kvGv~ 96 (123)
.+|+.|++.|... .++++|.+
T Consensus 17 ~iP~~~R~~l~~~~~v~~~g~~ 38 (72)
T PF02381_consen 17 SIPAKFREHLGIEKEVVFVGFD 38 (72)
T ss_dssp E--CHHHHHTTSCSEEEEEECC
T ss_pred ecCHHHHhhhccCceEEEeccC
Confidence 3999999999888 67888865
No 61
>PLN02205 alpha,alpha-trehalose-phosphate synthase [UDP-forming]
Probab=29.78 E-value=1.5e+02 Score=27.53 Aligned_cols=62 Identities=18% Similarity=0.306 Sum_probs=37.5
Q ss_pred eEEEecCCEEEEEEeC---Ch---------HHHHHHHHHHHhhhc---CCcEEEEE-Eeee-----------------cC
Q 037980 4 YELDIQGNNVKVTVVD---HA---------ALIDDNIAALKALLK---RQRLVGID-VKFN-----------------HR 50 (123)
Q Consensus 4 y~v~~~g~~i~vtvt~---~~---------~~v~~wi~~~~~~~~---~~~vvG~D-~Ew~-----------------p~ 50 (123)
..+...|+.+.+.+-. ++ .++.++++++....+ +..++|.| +++. |.
T Consensus 291 ~~~~~~Gr~v~v~~~PigId~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ilgVDrlD~~KGi~~kl~A~e~~L~~~P~ 370 (854)
T PLN02205 291 IGLEYYGRTVSIKILPVGIHMGQLQSVLSLPETEAKVKELIKQFCDQDRIMLLGVDDMDIFKGISLKLLAMEQLLMQHPE 370 (854)
T ss_pred eeEEECCcEEEEEEEeCeEcHHHHHHHhcChhHHHHHHHHHHHhccCCCEEEEEccCcccccCHHHHHHHHHHHHHhCcc
Confidence 4556677766655321 12 223455666655442 45899999 3333 33
Q ss_pred CCCCceEEEeeeCCe
Q 037980 51 CTKKAEMLILCAGNR 65 (123)
Q Consensus 51 ~~~~vallQl~~~~~ 65 (123)
-..++.++|+|+.++
T Consensus 371 ~~gkvvlvQia~psr 385 (854)
T PLN02205 371 WQGKVVLVQIANPAR 385 (854)
T ss_pred ccCCEEEEEEecCCC
Confidence 468999999998654
No 62
>PF03633 Glyco_hydro_65C: Glycosyl hydrolase family 65, C-terminal domain ; InterPro: IPR005194 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This family of glycosyl hydrolases (GH65 from CAZY) contains this domain and includes vacuolar acid trehalase and maltose phosphorylases. Maltose phosphorylase (MP) is a dimeric enzyme that catalyzes the conversion of maltose and inorganic phosphate into beta-D-glucose-1-phosphate and glucose. The C-terminal domain forms a two layered jelly roll motif. This domain is situated at the base of the catalytic domain, however its function remains unknown [].; PDB: 1H54_A.
Probab=29.54 E-value=83 Score=18.24 Aligned_cols=19 Identities=16% Similarity=0.424 Sum_probs=13.8
Q ss_pred ceEEEecCCEEEEEEeCCh
Q 037980 3 KYELDIQGNNVKVTVVDHA 21 (123)
Q Consensus 3 ~y~v~~~g~~i~vtvt~~~ 21 (123)
+|.+.+.|..+.++++.+.
T Consensus 11 ~F~~~~rg~~l~v~i~~~~ 29 (54)
T PF03633_consen 11 SFRLRYRGHWLEVEITHEK 29 (54)
T ss_dssp EEEEEETTEEEEEEEETTE
T ss_pred EEEEEECCEEEEEEEECCE
Confidence 4677788888888877653
No 63
>PF14399 Transpep_BrtH: NlpC/p60-like transpeptidase
Probab=29.01 E-value=1.3e+02 Score=23.34 Aligned_cols=40 Identities=10% Similarity=0.027 Sum_probs=31.5
Q ss_pred CCEEEEEEeCChHHHHHHHHHHHhhhcCCcEEEEEEeeecC
Q 037980 10 GNNVKVTVVDHAALIDDNIAALKALLKRQRLVGIDVKFNHR 50 (123)
Q Consensus 10 g~~i~vtvt~~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~ 50 (123)
|-.+...-+++++.+-++|++.+.. +.+.++++|+-|-|.
T Consensus 63 G~~~~~~~~~~~~~~~~~l~~~l~~-g~pv~~~~D~~~lpy 102 (317)
T PF14399_consen 63 GIKYEWREFSSPDEAWEELKEALDA-GRPVIVWVDMYYLPY 102 (317)
T ss_pred CceEEEEecCCHHHHHHHHHHHHhC-CCceEEEeccccCCC
Confidence 4556667889999999999888763 568899999877765
No 64
>PF12973 Cupin_7: ChrR Cupin-like domain; PDB: 3O14_B 2Z2S_F 2Q1Z_B 3EBR_A.
Probab=28.54 E-value=65 Score=20.63 Aligned_cols=33 Identities=12% Similarity=0.135 Sum_probs=20.9
Q ss_pred eeecCCCCCceEEEeeeCC-----eeEEEEccccCCCh
Q 037980 46 KFNHRCTKKAEMLILCAGN-----RCLIIQLCHLGQIP 78 (123)
Q Consensus 46 Ew~p~~~~~vallQl~~~~-----~cll~~l~~~~~~p 78 (123)
+|+|+....++...|...+ .+.|+|+..-..+|
T Consensus 1 ~W~~~~~~Gv~~~~L~~~~~~~g~~~~L~r~~pG~~~p 38 (91)
T PF12973_consen 1 PWQPGPRPGVSVKPLHRDEGETGERVSLLRLEPGASLP 38 (91)
T ss_dssp --EE-CSTTEEEEEEEECSSSTTEEEEEEEE-TTEEEE
T ss_pred CCccCCCCCEEEEEeccCCCcccCEEEEEEECCCCCcC
Confidence 5888777888888888654 68888886543344
No 65
>cd01236 PH_outspread Outspread Pleckstrin homology (PH) domain. Outspread Pleckstrin homology (PH) domain. Outspread contains two PH domains and a C-terminal coiled-coil region. 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. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, a well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=28.53 E-value=1.4e+02 Score=20.15 Aligned_cols=24 Identities=8% Similarity=-0.035 Sum_probs=19.7
Q ss_pred cCCEEEEEEeCChHHHHHHHHHHH
Q 037980 9 QGNNVKVTVVDHAALIDDNIAALK 32 (123)
Q Consensus 9 ~g~~i~vtvt~~~~~v~~wi~~~~ 32 (123)
...+.+...++++++.++|++.+.
T Consensus 78 tp~R~f~l~Aete~E~~~Wi~~l~ 101 (104)
T cd01236 78 TPDKEHFIKAETKEEISWWLNMLM 101 (104)
T ss_pred CCCceEEEEeCCHHHHHHHHHHHH
Confidence 445677778899999999998775
No 66
>PRK14433 acylphosphatase; Provisional
Probab=28.17 E-value=1.7e+02 Score=18.96 Aligned_cols=48 Identities=15% Similarity=0.270 Sum_probs=34.8
Q ss_pred ceEEEecCCEEEEEEeCChHHHHHHHHHHHhhhcCCcEEEEEEeeecC
Q 037980 3 KYELDIQGNNVKVTVVDHAALIDDNIAALKALLKRQRLVGIDVKFNHR 50 (123)
Q Consensus 3 ~y~v~~~g~~i~vtvt~~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~ 50 (123)
.|.-+..+..+.+.+..+++.+++.++.+........|-.+..+|.+.
T Consensus 31 G~V~N~~dG~Vei~~~G~~~~i~~f~~~l~~gP~~a~V~~i~~~~~~~ 78 (87)
T PRK14433 31 GYAENLSDGRVEVVAEGPKEALERLLHWLRRGPRHARVEAVDVQWSEA 78 (87)
T ss_pred EEEEECCCCCEEEEEEECHHHHHHHHHHHhhCCCCcEEEEEEEEEcCC
Confidence 344455566688888999999999999887422334588888888774
No 67
>cd04748 Commd COMM_Domain, a family of domains found at the C-terminus of HCarG, the copper metabolism gene MURR1 product, and related proteins. Presumably all COMM_Domain containing proteins are located in the nucleus and the COMM domain plays a role in protein-protein interactions. Several family members have been shown to bind and inhibit NF-kappaB. Murr1/Commd1 is a protein involved in copper homeostasis, which has also been identified as a regulator of the human delta epithelial sodium channel. HCaRG, a nuclear protein that might be involved in cell proliferation, is negatively regulated by extracellular calcium concentration, and its basal mRNA levels are higher in hypertensive animals.
Probab=27.86 E-value=46 Score=21.40 Aligned_cols=23 Identities=9% Similarity=0.062 Sum_probs=16.8
Q ss_pred EEEEeeecC----------CCCCceEEEeeeCC
Q 037980 42 GIDVKFNHR----------CTKKAEMLILCAGN 64 (123)
Q Consensus 42 G~D~Ew~p~----------~~~~vallQl~~~~ 64 (123)
=-|++|+-. ...|.+++||=+.+
T Consensus 23 L~d~~Wrld~~~sS~~~~~~~~P~~~~~L~l~~ 55 (87)
T cd04748 23 LVDFDWRLDVQISSSSLAKVKQPTILVQLKLQV 55 (87)
T ss_pred eeeeeeEEEEEEchhHHHHhhCCeEEEEEEEec
Confidence 346888865 36789999998753
No 68
>PRK14495 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional
Probab=27.36 E-value=75 Score=27.38 Aligned_cols=32 Identities=25% Similarity=0.303 Sum_probs=25.6
Q ss_pred EEeCChHHHHHHHHHHHhhh---cCCcEEEEEEee
Q 037980 16 TVVDHAALIDDNIAALKALL---KRQRLVGIDVKF 47 (123)
Q Consensus 16 tvt~~~~~v~~wi~~~~~~~---~~~~vvG~D~Ew 47 (123)
.+..+..+++.||..++... ++...+|||.-.
T Consensus 204 ~~~~tR~~a~~~L~~~~~~~~~~g~r~LvGfDF~f 238 (452)
T PRK14495 204 SYHRTRADAEAHLNDLFAFELTAGRRVLAGFDFPF 238 (452)
T ss_pred cccccHHHHHHHHHHHHHHHHhCCCcEEEEeccCC
Confidence 44578999999999987765 467899999743
No 69
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=26.87 E-value=2.2e+02 Score=26.07 Aligned_cols=80 Identities=11% Similarity=0.157 Sum_probs=49.0
Q ss_pred EEEEEEeeecCCCCCceEEEeee----CCe-----eEEEEccc-c-------C-----------CCh---HHHHHhhcCC
Q 037980 40 LVGIDVKFNHRCTKKAEMLILCA----GNR-----CLIIQLCH-L-------G-----------QIP---ESLKKFLADE 88 (123)
Q Consensus 40 vvG~D~Ew~p~~~~~vallQl~~----~~~-----cll~~l~~-~-------~-----------~~p---~~L~~~L~d~ 88 (123)
.+.||+|++-..+.+-.+||++. ++. +.+++... + . .++ +.|.+|+.+
T Consensus 2 ~vvvD~ETTG~~~~~~~IIeig~v~v~~~~i~~~f~~~v~P~~~i~~~~~~ltGIt~e~l~~ap~~~ev~~~l~~~l~~- 80 (850)
T TIGR01407 2 YAVVDLETTGTQLSFDKIIQIGIVVVEDGEIVDTFHTDVNPNEPIPPFIQELTGISDNMLQQAPYFSQVAQEIYDLLED- 80 (850)
T ss_pred EEEEEEECCCCCCCCCeEEEEEEEEEECCEEEEEEEEEeCCCCCCChhhhhhcCcCHHHHhCCCCHHHHHHHHHHHhCC-
Confidence 68899999865556678888875 221 23333211 0 0 111 356667754
Q ss_pred CceEEeeeechhhhhhcc----CCCc--cCceeecHhhh
Q 037980 89 TICFAGMEMNGKVDGLGR----CNLR--CKTAVELGHLA 121 (123)
Q Consensus 89 ~i~kvGv~i~~D~~kL~~----~gl~--~~~~vDL~~la 121 (123)
-.+||.++.-|..-|.+ +|+. ....+|.-.++
T Consensus 81 -~~~VahN~~fD~~fL~~~~~~~g~~~~~~~~iDt~~l~ 118 (850)
T TIGR01407 81 -GIFVAHNVHFDLNFLAKALKDCGYEPLPKPRIDTVELA 118 (850)
T ss_pred -CEEEEeCcHHHHHHHHHHHHHcCCCCCCCCeEeHHHHH
Confidence 45899999999988864 5654 34567755554
No 70
>cd00900 PH-like Pleckstrin homology-like domain. Pleckstrin homology-like domain. This family includes the PH domain, both the Shc-like and IRS-like PTB domains, the ran-binding domain, the EVH1 domain, a domain in neurobeachin and the third domain of FERM. All of these domains have a PH fold, but lack significant sequence similarity. They are generally involved in targeting to protein to the appropriate cellular location or interacting with a binding partner. The PH domain is commonly found in eukaryotic signaling proteins. This domain family possesses multiple functions including the ability to bind inositol phosphates and to other proteins.
Probab=26.69 E-value=1.4e+02 Score=17.51 Aligned_cols=23 Identities=22% Similarity=0.179 Sum_probs=18.8
Q ss_pred CEEEEEEeCChHHHHHHHHHHHh
Q 037980 11 NNVKVTVVDHAALIDDNIAALKA 33 (123)
Q Consensus 11 ~~i~vtvt~~~~~v~~wi~~~~~ 33 (123)
.....-.+++.++++.|+..+.+
T Consensus 76 ~~~~~~~~~~~~~~~~W~~al~~ 98 (99)
T cd00900 76 RRVFVFQADSEEEAQEWVEALQQ 98 (99)
T ss_pred cEEEEEEcCCHHHHHHHHHHHhc
Confidence 56677778899999999988763
No 71
>KOG3438 consensus DNA-directed RNA polymerase, subunit L [Transcription]
Probab=26.42 E-value=93 Score=21.53 Aligned_cols=34 Identities=15% Similarity=0.283 Sum_probs=26.3
Q ss_pred eeEEEEccccC-CChHHHHHhh-cCCCceEEeeeec
Q 037980 65 RCLIIQLCHLG-QIPESLKKFL-ADETICFAGMEMN 98 (123)
Q Consensus 65 ~cll~~l~~~~-~~p~~L~~~L-~d~~i~kvGv~i~ 98 (123)
.+.-|++..-+ .+--+||-.+ .+|.+.|+|+.|.
T Consensus 16 ~~~Tf~~~eEDHTlgNalR~vI~k~peVefcGYtIP 51 (105)
T KOG3438|consen 16 SSATFQLREEDHTLGNALRYVIMKNPEVEFCGYTIP 51 (105)
T ss_pred CceEEEEEecCcchhHHHHHHHhcCCceEEEeccCC
Confidence 35666666544 4777999877 7999999999995
No 72
>PRK05641 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated
Probab=25.88 E-value=75 Score=23.13 Aligned_cols=19 Identities=21% Similarity=0.487 Sum_probs=16.7
Q ss_pred CcceEEEecCCEEEEEEeC
Q 037980 1 MGKYELDIQGNNVKVTVVD 19 (123)
Q Consensus 1 ~~~y~v~~~g~~i~vtvt~ 19 (123)
|++|.|.++|+...+.+-.
T Consensus 22 ~~~~~itvnG~~y~V~vee 40 (153)
T PRK05641 22 PGKFRVSFEGKTYEVEAKG 40 (153)
T ss_pred CccEEEEECCEEEEEEEEE
Confidence 7889999999999888855
No 73
>PRK06807 DNA polymerase III subunit epsilon; Validated
Probab=25.45 E-value=3.6e+02 Score=21.71 Aligned_cols=84 Identities=13% Similarity=0.070 Sum_probs=48.3
Q ss_pred CCcEEEEEEeeecCCCCCceEEEeeeC----Ce-----eEEEEccc-c------------------CCCh---HHHHHhh
Q 037980 37 RQRLVGIDVKFNHRCTKKAEMLILCAG----NR-----CLIIQLCH-L------------------GQIP---ESLKKFL 85 (123)
Q Consensus 37 ~~~vvG~D~Ew~p~~~~~vallQl~~~----~~-----cll~~l~~-~------------------~~~p---~~L~~~L 85 (123)
....|-||+|..--.+.+-.++|++.- .. ..+++... + ..++ +.+.+|+
T Consensus 7 ~~~~Vv~DlETTGl~p~~~eIIEIgaV~v~~g~i~~~f~~lVkP~~~I~~~a~~ihGIT~e~l~~~~~~~evl~~f~~fl 86 (313)
T PRK06807 7 PLDYVVIDFETTGFNPYNDKIIQVAAVKYRNHELVDQFVSYVNPERPIPDRITSLTGITNYRVSDAPTIEEVLPLFLAFL 86 (313)
T ss_pred CCCEEEEEEECCCCCCCCCeEEEEEEEEEECCEEEEEEEEEECcCCCCCHhhhccCCCCHHHHhCCCCHHHHHHHHHHHH
Confidence 357899999985323445678888841 11 11222110 0 0112 2555666
Q ss_pred cCCCceEEeeeechhhhhhcc----CCCc--cCceeecHhhhh
Q 037980 86 ADETICFAGMEMNGKVDGLGR----CNLR--CKTAVELGHLAA 122 (123)
Q Consensus 86 ~d~~i~kvGv~i~~D~~kL~~----~gl~--~~~~vDL~~la~ 122 (123)
.+. ..||.+..-|..-|.+ +|+. ....+|...+|.
T Consensus 87 ~~~--~lVaHNa~FD~~fL~~~~~~~gl~~~~~~~iDtl~la~ 127 (313)
T PRK06807 87 HTN--VIVAHNASFDMRFLKSNVNMLGLPEPKNKVIDTVFLAK 127 (313)
T ss_pred cCC--eEEEEcHHHHHHHHHHHHHHcCCCCCCCCEeeHHHHHH
Confidence 544 3489999999988875 4552 345777766653
No 74
>cd01252 PH_cytohesin Cytohesin Pleckstrin homology (PH) domain. Cytohesin Pleckstrin homology (PH) domain. Cytohesin is an ARF-Guanine nucleotide Exchange Factor (GEF), which has a Sec7-type Arf-GEFdomain and a pleckstrin homology domain. It specifically binds phosphatidylinositol-3,4,5-trisphosphate (PtdIns(3,4, 5)P3) via its PH domain and it acts as a PI 3-kinase effector mediating biological responses such as cell adhesion and membrane trafficking. PH domains are only found in eukaryotes. They 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=25.16 E-value=1.9e+02 Score=19.48 Aligned_cols=23 Identities=22% Similarity=0.202 Sum_probs=18.2
Q ss_pred EEEEEEeCChHHHHHHHHHHHhh
Q 037980 12 NVKVTVVDHAALIDDNIAALKAL 34 (123)
Q Consensus 12 ~i~vtvt~~~~~v~~wi~~~~~~ 34 (123)
..+..-++++++..+|++.+.+.
T Consensus 90 ~~~~~~A~s~~e~~~Wi~al~~~ 112 (125)
T cd01252 90 SVYRISAANDEEMDEWIKSIKAS 112 (125)
T ss_pred eEEEEECCCHHHHHHHHHHHHHH
Confidence 34445689999999999998764
No 75
>PRK14449 acylphosphatase; Provisional
Probab=24.94 E-value=2e+02 Score=18.65 Aligned_cols=47 Identities=17% Similarity=0.284 Sum_probs=34.9
Q ss_pred eEEEecCCEEEEEEeCChHHHHHHHHHHHhhhcCCcEEEEEEeeecC
Q 037980 4 YELDIQGNNVKVTVVDHAALIDDNIAALKALLKRQRLVGIDVKFNHR 50 (123)
Q Consensus 4 y~v~~~g~~i~vtvt~~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~ 50 (123)
|.-+..+..+.+.+..+++.+++.++.+.+......|-.++.+|.|.
T Consensus 34 ~V~N~~dG~Vei~~~G~~~~v~~f~~~l~~~~~~a~V~~i~~~~~~~ 80 (90)
T PRK14449 34 YAENLYDGSVEVVAEGDEENIKELINFIKTGLRWARVDNVEERWSDY 80 (90)
T ss_pred EEEECCCCeEEEEEEeCHHHHHHHHHHHhhCCCceEEEEEEEEEecC
Confidence 44445555788888899999999999988643344677888888764
No 76
>PRK14447 acylphosphatase; Provisional
Probab=24.67 E-value=2.1e+02 Score=18.81 Aligned_cols=41 Identities=15% Similarity=0.165 Sum_probs=30.5
Q ss_pred CCEEEEEEeCChHHHHHHHHHHHhhhcCCcEEEEEEeeecC
Q 037980 10 GNNVKVTVVDHAALIDDNIAALKALLKRQRLVGIDVKFNHR 50 (123)
Q Consensus 10 g~~i~vtvt~~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~ 50 (123)
|..+.+.+..+++.+++.++.+........|-.++.+|.+.
T Consensus 42 G~~Vei~~qG~~~~l~~f~~~l~~gp~~a~V~~v~~~~~~~ 82 (95)
T PRK14447 42 GRTVEAVLEGPRDAVLKVIEWARVGPPGARVEDVEVKWEEY 82 (95)
T ss_pred CCEEEEEEEeCHHHHHHHHHHHhhCCCCeEEEEEEEEEcCC
Confidence 33688888999999999999887432344677777777663
No 77
>cd01244 PH_RasGAP_CG9209 RAS_GTPase activating protein (GAP)_CG9209 pleckstrin homology (PH) domain. RAS_GTPase activating protein (GAP)_CG9209 pleckstrin homology (PH) domain. This protein consists of two C2 domains, followed by a RasGAP domain, a PH domain and a BTK domain. 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. PH domains are found in cellular signaling proteins such as serine/threonine kinase, tyrosine kinsases, regulators of G-proteins, endocytotic GTPAses, adaptors, as well as cytoskeletal associated molecules and in lipid associated enzymes.
Probab=24.60 E-value=1.9e+02 Score=19.25 Aligned_cols=28 Identities=11% Similarity=0.077 Sum_probs=19.4
Q ss_pred eEEEecCCEEEEEEeCChHHHHHHHHHHH
Q 037980 4 YELDIQGNNVKVTVVDHAALIDDNIAALK 32 (123)
Q Consensus 4 y~v~~~g~~i~vtvt~~~~~v~~wi~~~~ 32 (123)
|+|.-.. +..-..++++.+.++||..+.
T Consensus 69 fqivt~~-r~~yi~a~s~~E~~~Wi~al~ 96 (98)
T cd01244 69 ITIVCED-DTMQLQFEAPVEATDWLNALE 96 (98)
T ss_pred EEEEeCC-CeEEEECCCHHHHHHHHHHHh
Confidence 3443343 445556789999999998875
No 78
>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]
Probab=23.79 E-value=66 Score=29.57 Aligned_cols=39 Identities=21% Similarity=0.262 Sum_probs=22.9
Q ss_pred CCcEEEEEEeeecCCCCC-ceEEEeeeC--CeeEEEEccccCC
Q 037980 37 RQRLVGIDVKFNHRCTKK-AEMLILCAG--NRCLIIQLCHLGQ 76 (123)
Q Consensus 37 ~~~vvG~D~Ew~p~~~~~-vallQl~~~--~~cll~~l~~~~~ 76 (123)
..+++=||.+|.|+.+.. .|=+= =.| .-|+||||-..+.
T Consensus 667 AsRlil~D~dWNPa~d~QAmaR~~-RdGQKk~v~iYrLlatGt 708 (776)
T KOG0390|consen 667 ASRLILFDPDWNPAVDQQAMARAW-RDGQKKPVYIYRLLATGT 708 (776)
T ss_pred cceEEEeCCCCCchhHHHHHHHhc-cCCCcceEEEEEeecCCC
Confidence 568899999999982100 00000 001 1399999976653
No 79
>PRK10117 trehalose-6-phosphate synthase; Provisional
Probab=23.60 E-value=90 Score=26.92 Aligned_cols=40 Identities=20% Similarity=0.318 Sum_probs=26.7
Q ss_pred HHHHHHHhhh-cCCcEEEEE-Eee-----------------ecCCCCCceEEEeeeCCe
Q 037980 26 DNIAALKALL-KRQRLVGID-VKF-----------------NHRCTKKAEMLILCAGNR 65 (123)
Q Consensus 26 ~wi~~~~~~~-~~~~vvG~D-~Ew-----------------~p~~~~~vallQl~~~~~ 65 (123)
++++++.... ++..++|.| +++ .|.-..++.++|+|..++
T Consensus 243 ~~~~~lr~~~~~~~lilgVDRLDytKGi~~rl~Afe~fL~~~Pe~~gkvvlvQia~psR 301 (474)
T PRK10117 243 PKLAQLKAELKNVQNIFSVERLDYSKGLPERFLAYEALLEKYPQHHGKIRYTQIAPTSR 301 (474)
T ss_pred HHHHHHHHHcCCCeEEEEecccccccCHHHHHHHHHHHHHhChhhcCCEEEEEEcCCCC
Confidence 3455555444 356899999 333 343578999999998664
No 80
>cd03527 RuBisCO_small Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco Form I, present in plants and green algae, is composed of eight large and eight small subunits. The nearly identical small subunits are encoded by a family of nuclear genes. After translation, the small subunits are translocated across the chloroplast membrane, where an N-terminal signal peptide is cleaved off. While the large subunits contain the catalytic activities, it has been shown that the small subunits are important for catalysis by enhancing the catalytic rate through inducing conformational changes in the large subunits.
Probab=23.22 E-value=1.2e+02 Score=20.71 Aligned_cols=29 Identities=24% Similarity=0.221 Sum_probs=22.2
Q ss_pred CChHHHHHHHHHHHhhh--cCCcEEEEEEee
Q 037980 19 DHAALIDDNIAALKALL--KRQRLVGIDVKF 47 (123)
Q Consensus 19 ~~~~~v~~wi~~~~~~~--~~~~vvG~D~Ew 47 (123)
.++++|-.-|++-++.| ..-+++|||--+
T Consensus 57 ~d~~~Vl~ei~~C~~~~p~~YVRliG~D~~~ 87 (99)
T cd03527 57 TDPAQVLREIEACRKAYPDHYVRVVGFDNYK 87 (99)
T ss_pred CCHHHHHHHHHHHHHHCCCCeEEEEEEeCCc
Confidence 47888888888888776 345999999753
No 81
>PF00982 Glyco_transf_20: Glycosyltransferase family 20; InterPro: IPR001830 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. Glycosyltransferase family 20 GT20 from CAZY comprises enzymes with only one known activity; alpha, alpha-trehalose-phosphate synthase [UDP-forming] (2.4.1.15 from EC). Synthesis of trehalose in the yeast Saccharomyces cerevisiae is catalysed by the trehalose-6-phosphate (Tre6P) synthase/phosphatase complex, which is composed of at least three different subunits encoded by the genes TPS1, TPS2, and TSL1. Tps1 and Tps2 carry the catalytic activities of trehalose synthesis, namely Tre6P synthase (Tps1) and Tre6P phosphatase (Tps2), while TsI1 has regulatory functions. There is some evidence that TsI1 and Tps3 may share a common function with respect to regulation and/or structural stabilisation of the Tre6P synthase/phosphatase complex in exponentially growing, heat-shocked cells []. OtsA (trehalose-6-phosphate synthase) from Escherichia coli has homology to the full-length TPS1, the N-terminal part of TPS2 and an internal region of TPS3 (TSL1) of yeast [].; GO: 0003824 catalytic activity, 0005992 trehalose biosynthetic process; PDB: 1UQU_A 2WTX_A 1UQT_B 1GZ5_B.
Probab=23.00 E-value=71 Score=27.37 Aligned_cols=61 Identities=20% Similarity=0.421 Sum_probs=32.2
Q ss_pred EEEecCCEEEEEEeC---ChH---------HHHHHHHHHHhhhc--CCcEEEEE-Eee-----------------ecCCC
Q 037980 5 ELDIQGNNVKVTVVD---HAA---------LIDDNIAALKALLK--RQRLVGID-VKF-----------------NHRCT 52 (123)
Q Consensus 5 ~v~~~g~~i~vtvt~---~~~---------~v~~wi~~~~~~~~--~~~vvG~D-~Ew-----------------~p~~~ 52 (123)
.|..+|+.+.+.+.- ++. .+.++++++...++ ...++|.| +++ .|.-.
T Consensus 230 ~v~~~Gr~v~v~~~pigId~~~~~~~~~~~~v~~~~~~l~~~~~~~~~ii~gvDrld~~kGi~~kl~Afe~fL~~~P~~~ 309 (474)
T PF00982_consen 230 TVEYNGRRVRVGVFPIGIDPDAFAQLARSPEVQERAEELREKFKGKRKIIVGVDRLDYTKGIPEKLRAFERFLERYPEYR 309 (474)
T ss_dssp -EEETTEEEEEEE------HHHHHHHHH-S---HHHHHHHHHTTT-SEEEEEE--B-GGG-HHHHHHHHHHHHHH-GGGT
T ss_pred eEEECCEEEEEEEeeccCChHHHHhhccChHHHHHHHHHHHhcCCCcEEEEEeccchhhcCHHHHHHHHHHHHHhCcCcc
Confidence 577888888877532 222 23455666655543 26799999 222 23346
Q ss_pred CCceEEEeeeCCe
Q 037980 53 KKAEMLILCAGNR 65 (123)
Q Consensus 53 ~~vallQl~~~~~ 65 (123)
.++.++|+|..++
T Consensus 310 ~kv~liQi~~psr 322 (474)
T PF00982_consen 310 GKVVLIQIAVPSR 322 (474)
T ss_dssp TTEEEEEE--B-S
T ss_pred CcEEEEEEeeccC
Confidence 8999999998554
No 82
>PF00929 RNase_T: Exonuclease; InterPro: IPR013520 This entry includes a variety of exonuclease proteins, such as ribonuclease T [] and the epsilon subunit of DNA polymerase III. Ribonuclease T is responsible for the end-turnover of tRNA,and removes the terminal AMP residue from uncharged tRNA. DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria, and also exhibits 3' to 5' exonuclease activity.; PDB: 3CM6_A 3CM5_A 3CG7_A 1ZBU_B 1ZBH_A 1W0H_A 3NGY_C 2IS3_B 3NH1_C 3NH2_F ....
Probab=22.85 E-value=1.1e+02 Score=20.26 Aligned_cols=22 Identities=18% Similarity=0.182 Sum_probs=17.4
Q ss_pred EEEEEeeecCCCCCceEEEeee
Q 037980 41 VGIDVKFNHRCTKKAEMLILCA 62 (123)
Q Consensus 41 vG~D~Ew~p~~~~~vallQl~~ 62 (123)
|-||+|..-..+.+..++|++.
T Consensus 1 v~~D~Ettg~~~~~~~iieig~ 22 (164)
T PF00929_consen 1 VVFDTETTGLDPRQDEIIEIGA 22 (164)
T ss_dssp EEEEEEESSSTTTTCTEEEEEE
T ss_pred cEEEeEcCCCCCCCCeEEEEEE
Confidence 5699999876666788888886
No 83
>PRK14438 acylphosphatase; Provisional
Probab=22.70 E-value=2.3e+02 Score=18.47 Aligned_cols=47 Identities=13% Similarity=0.071 Sum_probs=34.4
Q ss_pred eEEEecCCEEEEEEeCChHHHHHHHHHHHhhhcCCcEEEEEEeeecC
Q 037980 4 YELDIQGNNVKVTVVDHAALIDDNIAALKALLKRQRLVGIDVKFNHR 50 (123)
Q Consensus 4 y~v~~~g~~i~vtvt~~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~ 50 (123)
|.-+..+..+...+..+++.++++++.+........|-.++.+|.+.
T Consensus 34 ~V~N~~dG~Vei~~qG~~~~i~~f~~~l~~gp~~a~V~~v~~~~~~~ 80 (91)
T PRK14438 34 WVKNLPNGSVQGCFEGEETDVAALIDWCHHGPSRARVSGVIVEREEF 80 (91)
T ss_pred EEEECCCCEEEEEEEECHHHHHHHHHHHhhCCCCcEEEEEEEEEcCC
Confidence 44456666788888889999999998886422334688888888774
No 84
>PF14714 KH_dom-like: KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; PDB: 2HJG_A 1MKY_A.
Probab=22.62 E-value=1.1e+02 Score=19.58 Aligned_cols=59 Identities=12% Similarity=0.101 Sum_probs=34.4
Q ss_pred hHHHHHHHHHHHhhhcCCcEEEEEEeeecCCCCCceEEEeeeCCeeEEEEccccCCChHHHHHhhcC
Q 037980 21 AALIDDNIAALKALLKRQRLVGIDVKFNHRCTKKAEMLILCAGNRCLIIQLCHLGQIPESLKKFLAD 87 (123)
Q Consensus 21 ~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~~~~~vallQl~~~~~cll~~l~~~~~~p~~L~~~L~d 87 (123)
-+.+.+|+++....+..+ .=| + ...--=+-|..+.---+++..++.+.+|++.+++|++
T Consensus 4 T~~LN~~l~~~~~~~~pp-~~g-----~--~~Ki~Y~tQv~~~PPtFv~f~N~~~~~~~sY~ryL~n 62 (80)
T PF14714_consen 4 TSELNRFLQKALERHPPP-SKG-----K--RLKIYYATQVGTRPPTFVLFVNDPELLPESYKRYLEN 62 (80)
T ss_dssp HHHHHHHHHHHHCCS--S-ETT-----C--C--EEEEEEEETTTTEEEEEES-CCC--HHHHHHHHH
T ss_pred HHHHHHHHHHHHHhCCCC-CCC-----c--eeEEEEEEeCCCCCCEEEEEeCCcccCCHHHHHHHHH
Confidence 367788998887643111 000 0 0001124566666668888999999999999999985
No 85
>cd00307 RuBisCO_small_like Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit and related proteins. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco Form I, present in plants and green algae, is composed of eight large and eight small subunits. The nearly identical small subunits are encoded by a family of nuclear genes. After translation, the small subunits are translocated across the chloroplast membrane, where an N-terminal signal peptide is cleaved off. While the large subunits contain the catalytic activities, it has been shown that the small subunits are important for catalysis by enhancing the catalytic rate through inducing conformational changes in the large subunits. This superfamily also contains specific proteins from cyanobacteria. CcmM plays a role in a CO2 concentrating mechanism, which cyanobacteria need to to overcome t
Probab=22.54 E-value=1.2e+02 Score=19.92 Aligned_cols=30 Identities=30% Similarity=0.257 Sum_probs=22.0
Q ss_pred CChHHHHHHHHHHHhhh--cCCcEEEEEEeee
Q 037980 19 DHAALIDDNIAALKALL--KRQRLVGIDVKFN 48 (123)
Q Consensus 19 ~~~~~v~~wi~~~~~~~--~~~~vvG~D~Ew~ 48 (123)
.++++|-.-|++-++.| ..-+++|||--++
T Consensus 42 ~~~~~Vl~el~~c~~~~p~~YVRlig~D~~~q 73 (84)
T cd00307 42 RSEAQVLAALEACLAEHPGEYVRLIGIDPKAK 73 (84)
T ss_pred CCHHHHHHHHHHHHHHCCCCeEEEEEEeCCcc
Confidence 46777877787777766 3459999997543
No 86
>PRK14424 acylphosphatase; Provisional
Probab=22.50 E-value=2.4e+02 Score=18.66 Aligned_cols=47 Identities=17% Similarity=0.208 Sum_probs=34.6
Q ss_pred eEEEecCCEEEEEEeCChHHHHHHHHHHHhhhcCCcEEEEEEeeecC
Q 037980 4 YELDIQGNNVKVTVVDHAALIDDNIAALKALLKRQRLVGIDVKFNHR 50 (123)
Q Consensus 4 y~v~~~g~~i~vtvt~~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~ 50 (123)
|.=+..+..+...+..++..+++.++.+........|..++.||.+.
T Consensus 38 ~V~N~~dG~Vei~~qG~~~~v~~f~~~l~~gp~~a~V~~v~~~~~~~ 84 (94)
T PRK14424 38 WVANLEDGTVEAMIQGPAAQIDRMLAWLRHGPPAARVTEVTFEERRT 84 (94)
T ss_pred EEEECCCCCEEEEEEECHHHHHHHHHHHHhCCCCcEEEEEEEEEeCC
Confidence 34445555688888889999999999887532345788888888774
No 87
>cd06130 DNA_pol_III_epsilon_like an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III. This subfamily is composed of uncharacterized bacterial proteins with similarity to the epsilon subunit of DNA polymerase III (Pol III), a multisubunit polymerase which is the main DNA replicating enzyme in bacteria, functioning as the chromosomal replicase. The Pol III holoenzyme is a complex of ten different subunits, three of which (alpha, epsilon, and theta) compose the catalytic core. The Pol III epsilon subunit, encoded by the dnaQ gene, is a DEDDh-type 3'-5' exonuclease which is responsible for the proofreading activity of the polymerase, increasing the fidelity of DNA synthesis. It contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that ser
Probab=22.21 E-value=1.2e+02 Score=20.70 Aligned_cols=40 Identities=18% Similarity=0.037 Sum_probs=28.3
Q ss_pred HHHHhhcCCCceEEeeeechhhhhhcc----CCCc--cCceeecHhhh
Q 037980 80 SLKKFLADETICFAGMEMNGKVDGLGR----CNLR--CKTAVELGHLA 121 (123)
Q Consensus 80 ~L~~~L~d~~i~kvGv~i~~D~~kL~~----~gl~--~~~~vDL~~la 121 (123)
.|.+++++ ...+|.++.-|...|.+ +|+. ....+|...++
T Consensus 70 ~l~~~l~~--~~lv~hn~~fD~~~l~~~~~~~g~~~~~~~~idt~~~~ 115 (156)
T cd06130 70 EIKPFLGG--SLVVAHNASFDRSVLRAALEAYGLPPPPYQYLCTVRLA 115 (156)
T ss_pred HHHHHhCC--CEEEEeChHHhHHHHHHHHHHcCCCCCCCCEEEHHHHH
Confidence 57777776 57899999999988864 4543 34567766554
No 88
>PRK14435 acylphosphatase; Provisional
Probab=22.10 E-value=2.4e+02 Score=18.40 Aligned_cols=46 Identities=7% Similarity=0.111 Sum_probs=33.3
Q ss_pred eEEEecCCEEEEEEeCChHHHHHHHHHHHhhhcCCcEEEEEEeeec
Q 037980 4 YELDIQGNNVKVTVVDHAALIDDNIAALKALLKRQRLVGIDVKFNH 49 (123)
Q Consensus 4 y~v~~~g~~i~vtvt~~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p 49 (123)
|.-+..+..+.+.+..+++.+++.++.+.+......|-.++.+|.|
T Consensus 33 ~V~N~~dG~Vei~~~G~~~~i~~f~~~l~~gp~~a~V~~v~~~~~~ 78 (90)
T PRK14435 33 YVMNMDDGSVFIHAEGDENALRRFLNEVAKGPPAAVVTNVSVEETT 78 (90)
T ss_pred EEEECCCCCEEEEEEECHHHHHHHHHHHhhCCCCcEEEEEEEEEcC
Confidence 4444555568888889999999999988742233457777887776
No 89
>cd01241 PH_Akt Akt pleckstrin homology (PH) domain. Akt pleckstrin homology (PH) domain. Akt (Protein Kinase B (PKB)) is a phosphatidylinositol 3'-kinase (PI3K)-dependent Ser/Thr kinase. The PH domain recruits Akt to the plasma membrane by binding to phosphoinositides (PtdIns-3,4-P2) and is required for activation. 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=21.82 E-value=2.1e+02 Score=18.76 Aligned_cols=17 Identities=18% Similarity=0.223 Sum_probs=14.6
Q ss_pred EeCChHHHHHHHHHHHh
Q 037980 17 VVDHAALIDDNIAALKA 33 (123)
Q Consensus 17 vt~~~~~v~~wi~~~~~ 33 (123)
.++++++.++||+.+.+
T Consensus 84 ~a~s~ee~~eWi~ai~~ 100 (102)
T cd01241 84 HVESPEEREEWIHAIQT 100 (102)
T ss_pred EeCCHHHHHHHHHHHHh
Confidence 47999999999998864
No 90
>PRK14450 acylphosphatase; Provisional
Probab=21.67 E-value=2.4e+02 Score=18.31 Aligned_cols=47 Identities=15% Similarity=0.289 Sum_probs=32.2
Q ss_pred eEEEe-cCCEEEEEEeCChHHHHHHHHHHHhhhcCCcEEEEEEeeecC
Q 037980 4 YELDI-QGNNVKVTVVDHAALIDDNIAALKALLKRQRLVGIDVKFNHR 50 (123)
Q Consensus 4 y~v~~-~g~~i~vtvt~~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~ 50 (123)
|.-+. +|+.+.+.+..+++.+++.++.+........|--++.+|.+.
T Consensus 33 ~V~N~~dG~~Vei~~~G~~~~v~~f~~~l~~gp~~a~V~~v~~~~~~~ 80 (91)
T PRK14450 33 YAKNLANGNEVEVVAEGDKDSLLEFLDLLRSGPPRAEVKEVETSWETA 80 (91)
T ss_pred EEEECCCCCEEEEEEEeCHHHHHHHHHHHhhCCCCcEEEEEEEEEcCC
Confidence 33344 444578788899999999999886422234577788887763
No 91
>PF15187 Augurin: Oesophageal cancer-related gene 4
Probab=21.10 E-value=55 Score=22.74 Aligned_cols=18 Identities=11% Similarity=0.178 Sum_probs=12.3
Q ss_pred ChHHHHHHHHHHHhhhcCCcEEEEE
Q 037980 20 HAALIDDNIAALKALLKRQRLVGID 44 (123)
Q Consensus 20 ~~~~v~~wi~~~~~~~~~~~vvG~D 44 (123)
+.-+|.+|++.++ -+|||
T Consensus 46 srPdVQQW~qQFl-------YmGFD 63 (114)
T PF15187_consen 46 SRPDVQQWYQQFL-------YMGFD 63 (114)
T ss_pred CCHHHHHHHHHHH-------Hhcch
Confidence 4456777777766 57888
No 92
>smart00479 EXOIII exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other exonucleases.
Probab=20.91 E-value=1.5e+02 Score=20.37 Aligned_cols=82 Identities=24% Similarity=0.286 Sum_probs=46.0
Q ss_pred EEEEEEeeecCCCCCceEEEeee----CCe-eEEEE-ccccC-C---------------------Ch---HHHHHhhcCC
Q 037980 40 LVGIDVKFNHRCTKKAEMLILCA----GNR-CLIIQ-LCHLG-Q---------------------IP---ESLKKFLADE 88 (123)
Q Consensus 40 vvG~D~Ew~p~~~~~vallQl~~----~~~-cll~~-l~~~~-~---------------------~p---~~L~~~L~d~ 88 (123)
.+-||+|..-..+.+..++|++. ++. .-.|+ +.+++ . +. ..|.+|+.+
T Consensus 2 ~v~~D~Ettg~~~~~~~Iieig~v~~~~~~~~~~f~~~v~p~~~i~~~~~~~~Git~~~l~~~~~~~~~~~~~~~~l~~- 80 (169)
T smart00479 2 LVVIDCETTGLDPGKDEIIEIAAVDVDGGRIIVVFDTYVKPDRPITDYATEIHGITPEMLDDAPTFEEVLEELLEFLKG- 80 (169)
T ss_pred EEEEEeeCCCCCCCCCeEEEEEEEEEECCEeEEEEEEEECCCCCCCHHHHHHhCCCHHHHhCCCCHHHHHHHHHHHhcC-
Confidence 67899998765555678889885 211 11111 11110 1 11 356677765
Q ss_pred CceEEeeeechhhhhhcc----CCCcc---CceeecHhhhh
Q 037980 89 TICFAGMEMNGKVDGLGR----CNLRC---KTAVELGHLAA 122 (123)
Q Consensus 89 ~i~kvGv~i~~D~~kL~~----~gl~~---~~~vDL~~la~ 122 (123)
....++-+++-|...|.+ +|+.. ...+|...+++
T Consensus 81 ~~~v~~n~~~fD~~~L~~~~~~~~~~~~~~~~~iD~~~~~~ 121 (169)
T smart00479 81 KILVAGNALNFDLRFLKLEHPRLGIKDPPKNPVIDTLKLAR 121 (169)
T ss_pred CEEEEeCCHHHhHHHHHHHHHHhCCCCCcCCCeeEHHHHHH
Confidence 333444444999988886 34432 24688776653
No 93
>PF12976 DUF3860: Domain of Unknown Function with PDB structure (DUF3860); InterPro: IPR024619 This protein family includes hypothetical protein (JCVI_PEP_1096688149193) whose crystal structure has been solved PDB:2OD5. The hypothetical protein is from an environmental metagenome (unidentified marine microbe).
Probab=20.89 E-value=97 Score=20.53 Aligned_cols=25 Identities=32% Similarity=0.464 Sum_probs=20.2
Q ss_pred CCChHHHHHhh-cCCCceEEeeeech
Q 037980 75 GQIPESLKKFL-ADETICFAGMEMNG 99 (123)
Q Consensus 75 ~~~p~~L~~~L-~d~~i~kvGv~i~~ 99 (123)
+.-|+.+-++| .|++|+++|---++
T Consensus 35 ~s~Pe~~~NiL~~D~~I~ri~T~rk~ 60 (92)
T PF12976_consen 35 NSCPEDVTNILEADESIVRIGTVRKS 60 (92)
T ss_pred CCCHHHHHHHHhccccceeeeeeccc
Confidence 46899999999 67899999975444
No 94
>PF12317 IFT46_B_C: Intraflagellar transport complex B protein 46 C terminal; InterPro: IPR022088 This entry represents proteins is found in eukaryotes. Proteins are typically between 298 and 416 amino acids in length. It is thought to be a flagellar protein of complex B and like all IFT proteins, it is required for transport of IFT particles into the flagella [].
Probab=20.86 E-value=98 Score=24.06 Aligned_cols=18 Identities=22% Similarity=0.256 Sum_probs=15.9
Q ss_pred eCChHHHHHHHHHHHhhh
Q 037980 18 VDHAALIDDNIAALKALL 35 (123)
Q Consensus 18 t~~~~~v~~wi~~~~~~~ 35 (123)
.+++.++++||+++...|
T Consensus 112 e~n~k~Id~WI~~i~elH 129 (214)
T PF12317_consen 112 EKNPKEIDKWIESIEELH 129 (214)
T ss_pred hhCHHHHHHHHHHHHHHH
Confidence 467899999999999887
No 95
>PRK14451 acylphosphatase; Provisional
Probab=20.51 E-value=2.6e+02 Score=18.21 Aligned_cols=47 Identities=9% Similarity=-0.004 Sum_probs=34.4
Q ss_pred eEEEecCCEEEEEEeCChHHHHHHHHHHHhhhcCCcEEEEEEeeecC
Q 037980 4 YELDIQGNNVKVTVVDHAALIDDNIAALKALLKRQRLVGIDVKFNHR 50 (123)
Q Consensus 4 y~v~~~g~~i~vtvt~~~~~v~~wi~~~~~~~~~~~vvG~D~Ew~p~ 50 (123)
|.-+..+..+...+..+++.+++.++.+........|-.++.+|.|.
T Consensus 34 ~V~N~~dG~Vei~~qG~~~~i~~f~~~l~~gp~~a~V~~v~~~~~~~ 80 (89)
T PRK14451 34 WARNLADGRVEVFACGKEDKLEEFYTWLQKGPLNARVDVCTRENLPW 80 (89)
T ss_pred EEEECCCCCEEEEEEECHHHHHHHHHHHhhCCCceEEEEEEEEEcCC
Confidence 44455566688888999999999999887432344677788888774
No 96
>cd03735 SOCS_SOCS1 SOCS (suppressors of cytokine signaling) box of SOCS1-like proteins. Together with CIS1, the CIS/SOCS family of proteins is characterized by the presence of a C-terminal SOCS box and a central SH2 domain. SOCS1, like CIS1 and SOCS3, is involved in the down-regulation of the JAK/STAT pathway. SOCS1 has a dual function as a direct potent JAK kinase inhibitor and as a component of an E3 ubiquitin-ligase complex recruiting substrates to the protein degradation machinery.
Probab=20.47 E-value=54 Score=19.00 Aligned_cols=13 Identities=23% Similarity=0.340 Sum_probs=10.8
Q ss_pred CChHHHHHhhcCC
Q 037980 76 QIPESLKKFLADE 88 (123)
Q Consensus 76 ~~p~~L~~~L~d~ 88 (123)
.+|..|+++|.+-
T Consensus 27 pLP~~LKdyL~~y 39 (43)
T cd03735 27 PLNPVLKDYLKSF 39 (43)
T ss_pred cCCHHHHHHHHhC
Confidence 4889999999763
No 97
>COG0090 RplB Ribosomal protein L2 [Translation, ribosomal structure and biogenesis]
Probab=20.15 E-value=1.4e+02 Score=24.05 Aligned_cols=32 Identities=9% Similarity=0.200 Sum_probs=27.4
Q ss_pred EEEEEeeecCCCCCceEEEeeeCCeeEEEEcc
Q 037980 41 VGIDVKFNHRCTKKAEMLILCAGNRCLIIQLC 72 (123)
Q Consensus 41 vG~D~Ew~p~~~~~vallQl~~~~~cll~~l~ 72 (123)
.-.|+|+.|....++|+|-+..+++.||+.-.
T Consensus 77 ~V~~IeyDP~RsA~IAlv~y~dGek~yilAp~ 108 (275)
T COG0090 77 KVEDIEYDPNRSAPIALVVYEDGEKRYILAPE 108 (275)
T ss_pred EEEEEEECCCCCcceEEEEecCCCEEEEEccC
Confidence 44689999999999999999999999887653
No 98
>cd04436 DEP_fRgd2 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in fungal RhoGAP (GTPase-activator protein) Rgd2-like proteins. Rgd2-like proteins share a common domain architecture, containing, beside the RhoGAP domain, a DEP and a FCH (Fes/CIP4 homology) domain. Yeast Rgd2 is a GAP protein for Cdc42 and Rho5.
Probab=20.06 E-value=97 Score=20.57 Aligned_cols=30 Identities=13% Similarity=0.157 Sum_probs=23.8
Q ss_pred CcceEEEecCCEEEEEEeCChHHHHHHHHHHHh
Q 037980 1 MGKYELDIQGNNVKVTVVDHAALIDDNIAALKA 33 (123)
Q Consensus 1 ~~~y~v~~~g~~i~vtvt~~~~~v~~wi~~~~~ 33 (123)
|++|.|++-|..- -|++-+++-+|+.+...
T Consensus 15 ~~~~kvPilGty~---nt~sG~~Iv~~L~~n~~ 44 (84)
T cd04436 15 LADYKVPILGTYQ---NTSSGSEIVSWLQENMP 44 (84)
T ss_pred Cccceeccccccc---CcccHHHHHHHHHHcCC
Confidence 5788999988542 46899999999988763
Done!