Query 028531
Match_columns 208
No_of_seqs 216 out of 1028
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 12:57:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028531.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028531hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0193 Pth Peptidyl-tRNA hydr 100.0 7.2E-74 1.6E-78 481.2 18.8 179 17-195 1-189 (190)
2 cd02406 CRS2 Chloroplast RNA s 100.0 4.8E-73 1E-77 478.6 19.9 180 17-196 1-190 (191)
3 TIGR00447 pth peptidyl-tRNA hy 100.0 2.3E-71 4.9E-76 467.5 20.7 177 18-194 1-188 (188)
4 PRK05426 peptidyl-tRNA hydrola 100.0 9.4E-70 2E-74 458.0 20.6 178 17-195 1-188 (189)
5 PF01195 Pept_tRNA_hydro: Pept 100.0 1.4E-68 3E-73 448.5 16.1 174 20-193 1-184 (184)
6 cd00462 PTH Peptidyl-tRNA hydr 100.0 4E-68 8.6E-73 442.0 18.2 162 20-181 1-171 (171)
7 KOG2255 Peptidyl-tRNA hydrolas 100.0 1.6E-52 3.4E-57 352.8 13.2 173 17-193 38-221 (224)
8 cd06070 H2MP_like-2 Putative [ 95.0 0.3 6.5E-06 39.0 9.7 85 20-139 1-97 (140)
9 PRK11544 hycI hydrogenase 3 ma 91.4 3.9 8.5E-05 33.3 10.8 130 19-184 3-146 (156)
10 PRK12362 germination protease; 89.2 3.4 7.3E-05 38.1 9.4 124 6-145 88-230 (318)
11 cd06062 H2MP_MemB-H2up Endopep 88.9 10 0.00022 30.2 12.7 90 20-139 2-102 (146)
12 TIGR00130 frhD coenzyme F420-r 85.7 17 0.00037 29.2 12.5 95 18-139 4-108 (153)
13 TIGR00142 hycI hydrogenase mat 83.7 20 0.00044 28.5 12.7 92 20-140 2-101 (146)
14 COG0680 HyaD Ni,Fe-hydrogenase 80.5 31 0.00068 28.4 12.3 130 17-180 2-154 (160)
15 cd06064 H2MP_F420-Reduc Endope 80.0 29 0.00063 27.7 11.0 93 20-140 1-106 (150)
16 TIGR00072 hydrog_prot hydrogen 63.8 7.3 0.00016 31.0 2.9 90 20-139 1-101 (145)
17 cd06067 H2MP_MemB-H2evol Endop 60.8 80 0.0017 24.8 11.2 93 20-142 1-101 (136)
18 PF06154 YagB_YeeU_YfjZ: YagB/ 59.9 16 0.00036 28.3 4.1 29 155-183 36-64 (103)
19 PF03418 Peptidase_A25: Germin 56.7 14 0.00031 34.5 3.9 128 15-160 94-248 (354)
20 PF14490 HHH_4: Helix-hairpin- 48.9 9.6 0.00021 28.3 1.2 26 31-56 45-72 (94)
21 PRK02858 germination protease; 47.0 14 0.0003 34.8 2.2 123 5-145 96-242 (369)
22 PRK10466 hybD hydrogenase 2 ma 46.3 30 0.00064 28.2 3.8 30 18-51 2-31 (164)
23 TIGR01441 GPR GPR endopeptidas 45.8 15 0.00032 34.5 2.2 123 5-145 86-232 (358)
24 cd06068 H2MP_like-1 Putative [ 45.5 21 0.00045 28.4 2.7 26 20-49 1-26 (144)
25 PRK09256 hypothetical protein; 45.4 11 0.00023 30.7 1.1 25 105-129 3-29 (138)
26 PF06466 PCAF_N: PCAF (P300/CB 41.4 47 0.001 29.8 4.6 55 140-194 135-197 (252)
27 cd06066 H2MP_NAD-link-bidir En 39.7 33 0.00071 27.1 3.1 27 20-50 1-27 (139)
28 cd00736 bacteriophage_lambda_l 39.0 52 0.0011 27.2 4.2 42 153-194 81-122 (151)
29 cd06063 H2MP_Cyano-H2up This g 38.9 37 0.00079 27.1 3.2 26 20-49 2-27 (146)
30 PHA00415 25 baseplate wedge su 36.1 84 0.0018 25.1 4.9 69 107-180 8-85 (131)
31 COG2897 SseA Rhodanese-related 34.0 40 0.00086 30.6 3.0 30 80-109 69-98 (285)
32 COG2179 Predicted hydrolase of 31.2 35 0.00075 29.0 2.0 29 85-113 95-123 (175)
33 cd00518 H2MP Hydrogenase speci 31.0 51 0.0011 25.8 2.9 89 20-139 1-99 (139)
34 COG4981 Enoyl reductase domain 30.4 89 0.0019 31.4 4.9 71 70-160 150-238 (717)
35 PF13075 DUF3939: Protein of u 29.7 1.6E+02 0.0034 24.3 5.5 57 101-182 31-92 (140)
36 PF11458 Mistic: Membrane-inte 28.8 1E+02 0.0023 22.9 3.9 25 157-181 2-26 (84)
37 PF07431 DUF1512: Protein of u 28.5 2.3E+02 0.005 26.7 7.0 67 37-105 184-253 (355)
38 PF08282 Hydrolase_3: haloacid 27.1 44 0.00095 27.0 1.9 27 84-110 186-212 (254)
39 PRK10264 hydrogenase 1 maturat 26.7 3.9E+02 0.0086 22.6 15.0 134 18-181 5-157 (195)
40 KOG1486 GTP-binding protein DR 25.4 2.8E+02 0.006 25.7 6.8 73 32-106 148-220 (364)
41 PRK10870 transcriptional repre 24.7 70 0.0015 26.3 2.7 38 152-189 137-175 (176)
42 PF13443 HTH_26: Cro/C1-type H 24.0 16 0.00036 24.3 -1.0 27 83-109 37-63 (63)
43 COG2344 AT-rich DNA-binding pr 23.9 56 0.0012 28.5 2.0 27 3-29 71-97 (211)
44 PF11242 DUF2774: Protein of u 23.7 34 0.00073 24.4 0.5 24 80-103 7-30 (63)
45 PF00472 RF-1: RF-1 domain; I 23.1 57 0.0012 25.2 1.8 22 108-129 5-28 (113)
46 PF11775 CobT_C: Cobalamin bio 22.8 1.3E+02 0.0028 26.5 4.1 56 82-139 115-173 (219)
47 PRK10976 putative hydrolase; P 22.8 50 0.0011 28.1 1.5 26 85-110 191-216 (266)
48 KOG2882 p-Nitrophenyl phosphat 22.7 73 0.0016 29.4 2.6 38 70-113 217-254 (306)
49 PRK10513 sugar phosphate phosp 22.4 49 0.0011 28.1 1.4 25 86-110 198-222 (270)
50 cd06392 PBP1_iGluR_delta_1 N-t 22.2 91 0.002 29.2 3.3 33 73-110 116-148 (400)
51 TIGR00685 T6PP trehalose-phosp 22.2 1.6E+02 0.0035 25.0 4.6 40 69-110 154-193 (244)
52 PRK06437 hypothetical protein; 22.0 1.3E+02 0.0029 20.9 3.3 29 85-113 19-47 (67)
53 PF12896 Apc4: Anaphase-promot 21.7 1.1E+02 0.0024 25.4 3.4 44 149-192 90-133 (210)
54 COG1214 Inactive homolog of me 20.9 1.3E+02 0.0028 25.8 3.7 32 19-54 61-92 (220)
55 PF15479 DUF4639: Domain of un 20.7 2.1E+02 0.0045 28.4 5.3 53 150-207 27-79 (576)
56 COG2607 Predicted ATPase (AAA+ 20.6 61 0.0013 29.5 1.7 31 91-121 129-159 (287)
57 PRK08179 prfH peptide chain re 20.6 74 0.0016 27.4 2.1 28 103-130 95-124 (200)
58 PF13873 Myb_DNA-bind_5: Myb/S 20.1 2.4E+02 0.0052 19.5 4.4 24 156-179 3-26 (78)
No 1
>COG0193 Pth Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=7.2e-74 Score=481.24 Aligned_cols=179 Identities=41% Similarity=0.745 Sum_probs=173.2
Q ss_pred CCeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCC-CccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHh
Q 028531 17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISM-NTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAY 95 (208)
Q Consensus 17 ~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~-~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~ 95 (208)
.++|||||||||++|+.||||||||++|.||++++.++ +.++|.+.++++.+.+++|+|+||+||||+||++|.++++|
T Consensus 1 ~~kLIVGLGNPG~~Y~~TRHNvGf~~vD~La~~~~~~~~~~~kf~~~~~~~~i~g~kv~l~kP~TyMNlSG~~V~~~~~f 80 (190)
T COG0193 1 MMKLIVGLGNPGKKYAKTRHNVGFMVVDLLARRLNLSFKEEKKFNGLVAKGTIEGEKVILLKPTTYMNLSGKAVGALASF 80 (190)
T ss_pred CcEEEEECCCCchhhcccchhHHHHHHHHHHHHhCCCCccccccCceeEEEEeCCcEEEEecCccceeCcHHHHHHHHHH
Confidence 37899999999999999999999999999999999998 55789999999999999999999999999999999999999
Q ss_pred cCCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC---------CCCCCCCCCCccccccccCCHHHHHHH
Q 028531 96 YKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR---------GIGRPPGQMDPKAFLLQKFNAIARERI 166 (208)
Q Consensus 96 ~ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg---------GIGrP~~~~~v~~yVLs~f~~~E~~~l 166 (208)
|++++++|+|||||||||+|++|+|.+||+|||||||||+++|| |||||+.+++|++|||++|+++|++.+
T Consensus 81 y~i~~~~ilVvhDdLdl~~G~vrlk~~Gg~gGHNGlKSi~~~lGt~~f~RlRiGIGrP~~~~~v~~~VL~~f~~~E~~~l 160 (190)
T COG0193 81 YKIKPEDILVVHDELDLPLGKVRLKLGGGAGGHNGLKSIIAHLGTNNFYRLRIGIGRPGNGEDVADYVLGKFSKEERELL 160 (190)
T ss_pred hCCCHHHEEEEeeccCCCCceEEEEcCCCCCCcccHHHHHHHhCCCccceEEEEcCCCCCCCchhHhhcCCCCHHHHHHH
Confidence 99999999999999999999999999999999999999999999 999998888999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhcCHHHHHHHhhch
Q 028531 167 DTALQEGVEVLKLLLSKGLTESARHFNTI 195 (208)
Q Consensus 167 ~~~i~~a~~~l~~~~~~~~~~amn~~n~~ 195 (208)
++++++|+++++.++..+++++||+||+.
T Consensus 161 ~~~~~~a~~~~~~~~~~~~~~~mn~~~~~ 189 (190)
T COG0193 161 DKAIDKAADALELLLEGDFEKAMNKLNAL 189 (190)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHhcc
Confidence 99999999999999999999999999974
No 2
>cd02406 CRS2 Chloroplast RNA splicing 2 (CRS2) is a nuclear-encoded protein required for the splicing of group II introns in the chloroplast. CRS2 forms stable complexes with two CRS2-associated factors, CAF1 and CAF2, which are required for the splicing of distinct subsets of CRS2-dependent introns. CRS2 is closely related to bacterial peptidyl-tRNA hydrolases (PTH).
Probab=100.00 E-value=4.8e-73 Score=478.60 Aligned_cols=180 Identities=64% Similarity=1.127 Sum_probs=172.2
Q ss_pred CCeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhc
Q 028531 17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYY 96 (208)
Q Consensus 17 ~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~ 96 (208)
.|+|||||||||++|++|||||||+++|.||++++.++++.++++.++++.+.+++++|+||+||||+||+||+++++||
T Consensus 1 ~~~LIvGLGNPG~~Y~~TRHNiGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMN~SG~aV~~~~~~y 80 (191)
T cd02406 1 TPWLIAGLGNPGNKYKGTRHNVGFEMVDRIAEAEGITMNTIQFKSLLGIGSIGDVPVLLAKPQTYMNYSGESVGPLAAYY 80 (191)
T ss_pred CcEEEEEcCCCchhhCcCchhHHHHHHHHHHHHcCCCccccccceEEEEEEECCeEEEEEeCCCchhcCHHHHHHHHHHh
Confidence 47899999999999999999999999999999999987767888999999999999999999999999999999999999
Q ss_pred CCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhh-C---------CCCCCCCCCCccccccccCCHHHHHHH
Q 028531 97 KLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNF-R---------GIGRPPGQMDPKAFLLQKFNAIARERI 166 (208)
Q Consensus 97 ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~L-g---------GIGrP~~~~~v~~yVLs~f~~~E~~~l 166 (208)
+|+++++||||||||||+|++|+|.+||+|||||||||+++| | |||||+.+.++++|||++|+++|++.+
T Consensus 81 ki~~~~ilVihDdldl~~G~irlk~gGs~gGHNGlkSI~~~Lggt~~f~RlrIGIGrP~~~~~v~~yVL~~f~~~E~~~l 160 (191)
T cd02406 81 KVPLRHILVIYDDMSLPNGVLRLQPKGGHGRHNGLQSVIEHLDGSREFPRLSIGIGSPPGKMDPRAFLLQKFSSEEREQI 160 (191)
T ss_pred CCCHHHEEEEEECCCCCCCeEEEcCCCCCCCcCCHHHHHHHhCCCCCeEEEEEEeCCCCCCCchhhhhcCCCCHHHHHHH
Confidence 999999999999999999999999999999999999999999 5 999997667899999999999999999
Q ss_pred HHHHHHHHHHHHHHHhcCHHHHHHHhhchh
Q 028531 167 DTALQEGVEVLKLLLSKGLTESARHFNTIQ 196 (208)
Q Consensus 167 ~~~i~~a~~~l~~~~~~~~~~amn~~n~~~ 196 (208)
+++++.|+++++.|+.++++++||+||+..
T Consensus 161 ~~~~~~a~~~~~~~~~~~~~~~~n~~n~~~ 190 (191)
T cd02406 161 DTALEQGVDAVRTLVLKGFNGSAERFNLVQ 190 (191)
T ss_pred HHHHHHHHHHHHHHHHCCHHHHHHHHhCCC
Confidence 999999999999999999999999999643
No 3
>TIGR00447 pth peptidyl-tRNA hydrolase. The natural substrate for this enzyme may be peptidyl-tRNAs that drop off the ribosome during protein synthesis. Peptidyl-tRNA hydrolase is a bacterial protein; YHR189W from Saccharomyces cerevisiae appears to be orthologous and likely has the same function.
Probab=100.00 E-value=2.3e-71 Score=467.50 Aligned_cols=177 Identities=42% Similarity=0.748 Sum_probs=169.3
Q ss_pred CeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCc-cccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhc
Q 028531 18 PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNT-VHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYY 96 (208)
Q Consensus 18 ~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~-~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~ 96 (208)
|+|||||||||++|++|||||||+++|.||++++.++.+ .++.+.+++..+.+++++|+||+||||+||++|+++++||
T Consensus 1 ~~LIvGLGNPG~~Y~~TRHNiGf~~ld~La~~~~~~~~~~~~~~~~~~~~~~~~~~v~L~kP~TyMN~SG~~V~~~~~~~ 80 (188)
T TIGR00447 1 IKLIVGLGNPGKKYAGTRHNAGFWVLDLLASRLGLSLRTEKKFFGYTERGLLSGKKVILLKPLTYMNLSGEAVRALASFY 80 (188)
T ss_pred CEEEEEeCCCchhhCcCchHHHHHHHHHHHHHcCcCCcccccceEEEEEEEECCeEEEEEeCCcchhcCcHHHHHHHHHh
Confidence 689999999999999999999999999999999998763 4677888888898999999999999999999999999999
Q ss_pred CCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC---------CCCCCCCCCCccccccccCCHHHHHHHH
Q 028531 97 KLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR---------GIGRPPGQMDPKAFLLQKFNAIARERID 167 (208)
Q Consensus 97 ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg---------GIGrP~~~~~v~~yVLs~f~~~E~~~l~ 167 (208)
+|+++++||||||||||+|++|+|++||+|||||||||+++|| |||||+.+.++++|||++|+++|++.++
T Consensus 81 ~i~~~~ilVihDdldl~~G~irlk~~G~~gGHNGlkSI~~~lgt~~f~RlrIGIGrP~~~~~v~~yVL~~f~~~e~~~l~ 160 (188)
T TIGR00447 81 RIKPAELLVVHDELDLPLGKVRLKMGGGAGGHNGLKSIISHLGTNNFNRLRIGIGSPGGSNKVVEFVLSKFTKSELPLLE 160 (188)
T ss_pred CCChHHEEEEEecCCCCCceEEEecCCCCCCcCCHHHHHHHhCCCCcceEEEEeCCCCCCCchhhhccCCCCHHHHHHHH
Confidence 9999999999999999999999999999999999999999999 9999987678999999999999999999
Q ss_pred HHHHHHHHHHHHHHhcC-HHHHHHHhhc
Q 028531 168 TALQEGVEVLKLLLSKG-LTESARHFNT 194 (208)
Q Consensus 168 ~~i~~a~~~l~~~~~~~-~~~amn~~n~ 194 (208)
++++.++++++.|+.++ ++++||+||+
T Consensus 161 ~~i~~~~~~~~~~~~~~~~~~~~n~~n~ 188 (188)
T TIGR00447 161 KALDKAVEALEMSFSEGAFLKAMNRFNS 188 (188)
T ss_pred HHHHHHHHHHHHHHHCCCHHHHHHHhhC
Confidence 99999999999999999 9999999985
No 4
>PRK05426 peptidyl-tRNA hydrolase; Provisional
Probab=100.00 E-value=9.4e-70 Score=457.96 Aligned_cols=178 Identities=42% Similarity=0.772 Sum_probs=169.2
Q ss_pred CCeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCC-ccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHh
Q 028531 17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMN-TVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAY 95 (208)
Q Consensus 17 ~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~-~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~ 95 (208)
.|||||||||||++|++|||||||+++|.||++++..+. ..++.+.+++..+++.+++|+||+||||+||++|++++++
T Consensus 1 ~~~LivGLGNPG~~Y~~TRHNvGf~~ld~la~~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMN~SG~~V~~~~~~ 80 (189)
T PRK05426 1 MMKLIVGLGNPGPEYANTRHNIGFMVVDELARRLGGSLKEKKKFKGLIAEGRINGEKVILLKPQTYMNLSGKAVAALANF 80 (189)
T ss_pred CcEEEEEeCCCchhhCcCchHHHHHHHHHHHHHcCCCCcccccccEEEEEEEECCeEEEEEeCCcchhcCcHHHHHHHHH
Confidence 379999999999999999999999999999999887654 4567889999999889999999999999999999999999
Q ss_pred cCCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC---------CCCCCCCCCCccccccccCCHHHHHHH
Q 028531 96 YKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR---------GIGRPPGQMDPKAFLLQKFNAIARERI 166 (208)
Q Consensus 96 ~ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg---------GIGrP~~~~~v~~yVLs~f~~~E~~~l 166 (208)
|+|++++++|||||+|+|+|++|+|.+||+|||||||||+++|| |||||+ ..++++|||++|+++|++.+
T Consensus 81 ~~i~~~~ilVihDdldl~~G~~r~k~gGs~~GHNGlkSI~~~lgt~~f~RlriGIGrP~-~~~v~~yVL~~f~~~E~~~l 159 (189)
T PRK05426 81 YKIPPEDILVIHDDLDLPPGKIRLKKGGGAGGHNGLKSIIAHLGTQDFWRLRIGIGRPD-KKKVVDYVLGKFSKEEQELL 159 (189)
T ss_pred hCCCHHHEEEEEecCCCCCceEEEecCCCCCCcCCHHHHHHHhCCCCeeEEEEEeCCCC-CCCcchhhcCCCCHHHHHHH
Confidence 99999999999999999999999999999999999999999999 999997 56799999999999999999
Q ss_pred HHHHHHHHHHHHHHHhcCHHHHHHHhhch
Q 028531 167 DTALQEGVEVLKLLLSKGLTESARHFNTI 195 (208)
Q Consensus 167 ~~~i~~a~~~l~~~~~~~~~~amn~~n~~ 195 (208)
+++++.|+++++.|++++++++||++|+.
T Consensus 160 ~~~~~~a~~~v~~~~~~~~~~~~~~~n~~ 188 (189)
T PRK05426 160 DKAIDKAADAIELLLEGGFEKAMNKFNSK 188 (189)
T ss_pred HHHHHHHHHHHHHHHHCCHHHHHHHHhCC
Confidence 99999999999999999999999999964
No 5
>PF01195 Pept_tRNA_hydro: Peptidyl-tRNA hydrolase; InterPro: IPR001328 Peptidyl-tRNA hydrolase (3.1.1.29 from EC) (PTH) is a bacterial enzyme that cleaves peptidyl-tRNA or N-acyl-aminoacyl-tRNA to yield free peptides or N-acyl-amino acids and tRNA. The natural substrate for this enzyme may be peptidyl-tRNA which drop off the ribosome during protein synthesis [, ]. Bacterial PTH has been found to be evolutionary related to a yeast protein [].; GO: 0004045 aminoacyl-tRNA hydrolase activity; PDB: 3KJZ_A 3KK0_A 3P2J_A 3V2I_A 3TCN_A 3TD6_A 2Z2K_A 3TD2_A 2Z2J_B 2JRC_A ....
Probab=100.00 E-value=1.4e-68 Score=448.53 Aligned_cols=174 Identities=43% Similarity=0.819 Sum_probs=154.5
Q ss_pred eEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccc-cceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhcCC
Q 028531 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVH-CKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKL 98 (208)
Q Consensus 20 LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k-~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~ki 98 (208)
|||||||||++|++|||||||+++|+||++++.++...+ +.+.+++..+.+.+++|+||+||||+||++|++++++|++
T Consensus 1 LivGLGNPG~~Y~~TRHNvG~~~ld~la~~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP~TyMN~SG~~V~~~~~~~~i 80 (184)
T PF01195_consen 1 LIVGLGNPGPKYENTRHNVGFMVLDRLASRLGLSWKQKKKFKSLISEGSIKGEKVILLKPQTYMNLSGKAVKKILSFYKI 80 (184)
T ss_dssp EEEE---SSTTTTTSGGGHHHHHHHHHHHHTT---EEEGGGTEEEEEEEETTEEEEEEEESSTGGGHHHHHHHHHHHTT-
T ss_pred CEEEcCCCChhhcCCCcCchHHHHHHHHHHhCCCccccccceeEEEEEEEeeeeEEEEcCCCeEeCccHhHHHHHHHhCC
Confidence 799999999999999999999999999999998886554 7888888889999999999999999999999999999999
Q ss_pred CCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC---------CCCCCCCCCCccccccccCCHHHHHHHHHH
Q 028531 99 PLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR---------GIGRPPGQMDPKAFLLQKFNAIARERIDTA 169 (208)
Q Consensus 99 ~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg---------GIGrP~~~~~v~~yVLs~f~~~E~~~l~~~ 169 (208)
++++++|||||+|+|+|++|+|++||+|||||||||+++|| |||||++..++++|||++|+++|++.++++
T Consensus 81 ~~~~ilVihDdldl~~G~irlk~~Gs~~GHNGlkSI~~~Lgt~~f~RlrIGIGrp~~~~~v~~yVL~~f~~~E~~~l~~~ 160 (184)
T PF01195_consen 81 PPENILVIHDDLDLPLGKIRLKKGGSSGGHNGLKSIIQHLGTEDFPRLRIGIGRPPSKEDVADYVLSKFSPEERELLDKV 160 (184)
T ss_dssp -GGGEEEEEEETTSSTTEEEEEESS--TT-HHHHHHHHHCTSSGSEEEEEEE--TSTTSGHHHHHTSB-HHHHHHHHHHH
T ss_pred CcceEEEEEeccCCCCCeEEEccCCCCCCCCCHHHHHHHhccccceeEEEecCCCCCcchHHHHHhcCCCHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999 999998777899999999999999999999
Q ss_pred HHHHHHHHHHHHhcCHHHHHHHhh
Q 028531 170 LQEGVEVLKLLLSKGLTESARHFN 193 (208)
Q Consensus 170 i~~a~~~l~~~~~~~~~~amn~~n 193 (208)
++.|+++++.|+++++++|||+||
T Consensus 161 ~~~a~~~l~~~i~~~~~~~mn~~n 184 (184)
T PF01195_consen 161 IPQAAEALEQIIEGGFEKAMNKFN 184 (184)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCHHHHHHHhC
Confidence 999999999999999999999998
No 6
>cd00462 PTH Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through abortion of translation and is essential for cell viability.This group also contains chloroplast RNA splicing 2 (CRS2), which is closely related nuclear-encoded protein required for the splicing of nine group II introns in chloroplasts.
Probab=100.00 E-value=4e-68 Score=442.00 Aligned_cols=162 Identities=51% Similarity=0.916 Sum_probs=155.9
Q ss_pred eEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhcCCC
Q 028531 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLP 99 (208)
Q Consensus 20 LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~ki~ 99 (208)
|||||||||++|++|||||||+++|+||++++.++.+.++.++++++.+.+++++|+||+||||+||++|.++++||+++
T Consensus 1 LIvGLGNPG~~Y~~TRHNvGf~~ld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~kP~TyMN~SG~~V~~~~~~~~i~ 80 (171)
T cd00462 1 LIVGLGNPGPKYENTRHNVGFMVLDALAERYGVSFKKKKKKGLVGEGRIGGEKVLLLKPQTYMNLSGEAVAALANFYKIP 80 (171)
T ss_pred CEEEECCCCcccCcCchHHHHHHHHHHHHHcCCCCCccccCEEEEEEEECCEEEEEEeCCcccccccHHHHHHHHhcCCC
Confidence 69999999999999999999999999999999988777778999999999999999999999999999999999999999
Q ss_pred CCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC---------CCCCCCCCCCccccccccCCHHHHHHHHHHH
Q 028531 100 LNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR---------GIGRPPGQMDPKAFLLQKFNAIARERIDTAL 170 (208)
Q Consensus 100 ~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg---------GIGrP~~~~~v~~yVLs~f~~~E~~~l~~~i 170 (208)
++++||||||+|||+|++|+|++||+|||||||||+++|| |||||+.+.++++|||++|+++|++.+++++
T Consensus 81 ~~~ilVihDdldl~~G~vrlk~~G~~gGHNGlkSI~~~lgt~~f~RlriGIGrP~~~~~v~~yVL~~f~~~E~~~l~~~~ 160 (171)
T cd00462 81 PEDILVIHDDLDLPLGKIRLKKGGGSGGHNGLKSIIAHLGTEDFPRLRIGIGRPPNKMDVADYVLSKFSKEERELLEEAI 160 (171)
T ss_pred hhHEEEEEecCCCCCceEEEeCCCCCCCCCCHHHHHHHhCCCCeeEEEEEeCCCCCCCChhhhhcCCCCHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999 9999987779999999999999999999999
Q ss_pred HHHHHHHHHHH
Q 028531 171 QEGVEVLKLLL 181 (208)
Q Consensus 171 ~~a~~~l~~~~ 181 (208)
+.|+++++.|+
T Consensus 161 ~~~~~~~~~~~ 171 (171)
T cd00462 161 EKAADALEDIL 171 (171)
T ss_pred HHHHHHHHHhC
Confidence 99999998763
No 7
>KOG2255 consensus Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.6e-52 Score=352.83 Aligned_cols=173 Identities=55% Similarity=0.985 Sum_probs=153.7
Q ss_pred CCeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhc
Q 028531 17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYY 96 (208)
Q Consensus 17 ~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~ 96 (208)
.+|+|+||||||++|..|||||||.++|.||++++++..+.+.++..+-+.+++..+++++|++|||.||++|.+++..|
T Consensus 38 k~wli~GLGNPg~~y~gTRHnvG~~Ml~~larrlgv~~nt~s~~a~~~l~~v~d~~~~llrp~qymN~SgesV~kva~~y 117 (224)
T KOG2255|consen 38 KPWLIVGLGNPGSKYVGTRHNVGFEMLDMLARRLGVPMNTISSKALEGLGLVGDVPILLLRPQQYMNFSGESVGKVAALY 117 (224)
T ss_pred CceEEEecCCCcccccccchhhHHHHHHHHHHHhCCcccccCcccccceeeecceeeEeeCcHhhhccccchhhhhHHhh
Confidence 35899999999999999999999999999999999987766656666777888999999999999999999999999999
Q ss_pred CCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC----------CCCCCCCCCCccccccccCCHHHHH-H
Q 028531 97 KLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR----------GIGRPPGQMDPKAFLLQKFNAIARE-R 165 (208)
Q Consensus 97 ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg----------GIGrP~~~~~v~~yVLs~f~~~E~~-~ 165 (208)
+++.++++||||||++|+|++|+|++||++||||+||++.+++ |||||++.+|+.+|||++|++.|++ .
T Consensus 118 ~i~~~~ivvIhDEl~l~~Gkl~Lrp~gs~rgHNGvrs~~~~l~g~~~fpRL~iGIGrppg~~d~~a~vLskfsp~e~ke~ 197 (224)
T KOG2255|consen 118 KIPLRHIVVIHDELELPLGKLRLRPGGSHRGHNGVRSVFNCLNGRRSFPRLSIGIGRPPGNEDVKAFVLSKFSPAEQKEL 197 (224)
T ss_pred cchheeEEEEeccccCcCceEEeccCCCccccccHHHHHhhccCCcccceeeeecCCCCCchhhhHHHHHhcChhhhHHH
Confidence 9999999999999999999999999999999999999999999 9999999999999999999999998 5
Q ss_pred HHHHHHHHHHHHHHHHhcCHHHHHHHhh
Q 028531 166 IDTALQEGVEVLKLLLSKGLTESARHFN 193 (208)
Q Consensus 166 l~~~i~~a~~~l~~~~~~~~~~amn~~n 193 (208)
|+..++.+.. ++.+++..-.++||
T Consensus 198 Let~l~~~~~----lil~~l~~~is~~~ 221 (224)
T KOG2255|consen 198 LETLLEHVKT----LILQGLQQSISRFN 221 (224)
T ss_pred HHHHHhhhHH----HHHHHHHHhcccCc
Confidence 5555555444 44455555556665
No 8
>cd06070 H2MP_like-2 Putative [NiFe] hydrogenase-specific C-terminal protease. Sequence comparison shows similarity to hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing and assembly with other subunits. Hydrogenase maturation endopeptidases are responsible for the proteolytic processing, liberating a short C-terminal peptide by cleaving after a His or an Arg residue, e.g., HycI (E. coli) is involved in processing of HypE (the large subunit of hydrogenases 3). This cleavage is nickel dependent.
Probab=95.04 E-value=0.3 Score=38.95 Aligned_cols=85 Identities=18% Similarity=0.222 Sum_probs=51.5
Q ss_pred eEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhcCCC
Q 028531 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLP 99 (208)
Q Consensus 20 LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~ki~ 99 (208)
||+|+|||=. .-==+|+.++++|++ .++ -++. .|.....++..+ .
T Consensus 1 lVlGiGN~l~----~DDg~G~~v~~~L~~-~~v---------------------~vi~-------~g~~~~~ll~~i--~ 45 (140)
T cd06070 1 LIIGVGNRLY----GDDGFGSCLAEALEQ-CGA---------------------PVFD-------GGLDGFGLLSHL--E 45 (140)
T ss_pred CEEEECchhc----ccCcHHHHHHHHHhh-CCC---------------------EEEE-------CCCcHHHHHHHH--c
Confidence 6899999953 223499999999976 111 0110 122222334433 2
Q ss_pred CCcEEEEeccCC--CCCceEEEecC---------CCCCCCC-chHHHHHhhC
Q 028531 100 LNRVLVFHDDMG--LPCGVLRLRHN---------GGHGGHN-GLKSVMNNFR 139 (208)
Q Consensus 100 ~~~ilVihDDld--lp~G~irlk~~---------Gs~gGHN-GLkSI~~~Lg 139 (208)
..+.+||.|=++ .++|.++++.. .+...|+ |+.++.+.+.
T Consensus 46 ~~d~viiVDA~~~~~~pG~~~~~~~~~~~~~~~~~~~s~H~~~l~~~l~~~~ 97 (140)
T cd06070 46 NYDIVIFIDVAVIDEDVGVFKITPEPASVAEQISFETDAHRLGPAHLLLLLK 97 (140)
T ss_pred CCCEEEEEEeecCCCCCeEEEEecCchhccccccCCCCCCcCCHHHHHHHHH
Confidence 345667777654 68998888553 2224676 9999877766
No 9
>PRK11544 hycI hydrogenase 3 maturation protease; Provisional
Probab=91.40 E-value=3.9 Score=33.26 Aligned_cols=130 Identities=15% Similarity=0.148 Sum_probs=67.6
Q ss_pred eeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhcCC
Q 028531 19 WLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKL 98 (208)
Q Consensus 19 ~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~ki 98 (208)
.+|+|+|||-.. ===+|..++++|.+.. .+ . +.++.=.| .|.-+...++.+
T Consensus 3 ~lVlGiGN~L~g----DDGvG~~v~~~L~~~~-~~------~------------v~vid~gt----~~~~~~~~i~~~-- 53 (156)
T PRK11544 3 DVVLTVGNSMMG----DDGAGPLLAEKLAAAP-KG------G------------WVVIDGGS----APENDIVAIREL-- 53 (156)
T ss_pred EEEEEeCccccc----cCcHHHHHHHHHhccC-CC------C------------eEEEECCC----CHHHHHHHHHhc--
Confidence 589999999643 2349999999997642 10 0 11111011 122222222221
Q ss_pred CCCcEEEEecc--CCCCCceEEEecCC------CCCCC-CchHHHHHhhCCCCCCCCC----CCcccccc-ccCCHHHHH
Q 028531 99 PLNRVLVFHDD--MGLPCGVLRLRHNG------GHGGH-NGLKSVMNNFRGIGRPPGQ----MDPKAFLL-QKFNAIARE 164 (208)
Q Consensus 99 ~~~~ilVihDD--ldlp~G~irlk~~G------s~gGH-NGLkSI~~~LgGIGrP~~~----~~v~~yVL-s~f~~~E~~ 164 (208)
.+ +.+||.|= .+.++|+++.-... +...| -||..+++.+.| +++.- ..+.++=+ ..+|++
T Consensus 54 ~~-d~vIiVDA~~~g~~PG~v~~~~~~~~~~~~~~s~H~~~l~~~l~~l~~--~~p~v~iigI~~~~~~~g~~LS~~--- 127 (156)
T PRK11544 54 RP-ERLLIVDATDMGLNPGEIRIIDPDDIAEMFMMTTHNMPLNYLIDQLKE--DVPEVIFLGIQPDIVGFYYPMTQP--- 127 (156)
T ss_pred CC-CEEEEEECCccCcCCCEEEEEchhhcccccCCCCCcCCHHHHHHHHhc--CCCcEEEEEEEeeeccCCCCCCHH---
Confidence 22 55666674 56799999874211 22345 488888887763 33210 01112211 244443
Q ss_pred HHHHHHHHHHHHHHHHHhcC
Q 028531 165 RIDTALQEGVEVLKLLLSKG 184 (208)
Q Consensus 165 ~l~~~i~~a~~~l~~~~~~~ 184 (208)
+.+.++++++.++.|..++
T Consensus 128 -v~~av~~~~~~l~~~~~~~ 146 (156)
T PRK11544 128 -VKDAVETVYQRLEGWEGNG 146 (156)
T ss_pred -HHHHHHHHHHHHHHhhccC
Confidence 4445666777777776543
No 10
>PRK12362 germination protease; Provisional
Probab=89.18 E-value=3.4 Score=38.09 Aligned_cols=124 Identities=19% Similarity=0.206 Sum_probs=70.6
Q ss_pred HHHHHhhcCCCCCeeEEEecCccCCcCcccchHHHHHHHHHHHH-cCCCCCccccceEEEEEEECC-eeEEEEeC----C
Q 028531 6 FLRRGFCTAVARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAES-QGISMNTVHCKATFGQGFVGD-APVLLAKP----Q 79 (208)
Q Consensus 6 ~~~~~~~~~~~~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~-~~~~~~~~k~~~~~~~~~~~~-~~v~L~kP----~ 79 (208)
.++..+.-......|||||||.- -|--..|-.+++.|.-. +-.. ++++..-.+ ..|.-+-| +
T Consensus 88 ~L~~ll~~~~~~~iLVvGLGN~~----vTpDaLGP~Vv~~l~vTrhl~~--------~~~~~~~~~~~pV~AiaPGVmg~ 155 (318)
T PRK12362 88 ELKKLINLDKEMTVLVVGLGNWN----VTPDALGPKVVSKLMVTRHLKE--------YAPEEIDEGIRPVCAIAPGVLGI 155 (318)
T ss_pred HHHHHhCCCCCCcEEEEEcCCCC----cCccccchhhhhhhhhhhhhhh--------hcCchhcCCCCcceEecCCcccc
Confidence 34444422344668999999973 59999999999988642 2111 111111111 23444434 4
Q ss_pred chhcccchhHHHHHHhcCCCCCcEEEEeccCC----CCCc-eEEEecCC---CCCCCCchHHH-HHhhC----CCCCCC
Q 028531 80 TYMNLSGESTGPLAAYYKLPLNRVLVFHDDMG----LPCG-VLRLRHNG---GHGGHNGLKSV-MNNFR----GIGRPP 145 (208)
Q Consensus 80 TyMNlSG~aV~~~~~~~ki~~~~ilVihDDld----lp~G-~irlk~~G---s~gGHNGLkSI-~~~Lg----GIGrP~ 145 (208)
|=||. ++-++.+.+.++ .+++|.-|-+- --+| +|++.-.| |+|=.|==+.| -+.|| .||=|.
T Consensus 156 TGiet-~Eii~gIv~k~k---pd~IIAIDALaar~~~Rl~~tIQisdtGI~PGSGVGN~R~~l~~etLGVPVIAIGVPT 230 (318)
T PRK12362 156 TGIET-AEIIKGVVEKIK---PDLVIAIDALAARSVERVNTTIQISDTGISPGSGVGNKRMGINEETLGVPVIAIGVPT 230 (318)
T ss_pred cchhH-HHHHHHHHHhcC---CCEEEEEeccccCCHHHccCeEEECCCCCCCCccCCCcccccCHHHcCCCEEEEcCCe
Confidence 55654 355666776665 45777778775 2467 78887665 33322322222 35677 777774
No 11
>cd06062 H2MP_MemB-H2up Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD from E. coli is well studied in this group. Maturation of [NiFe] hydrogenases include proteolytic processing of large subunit, assembly with other subunits, and formation of the nickel metallocenter. Hydrogenase maturation endopeptidase (HybD) cleaves a short C-terminal peptide after a His or an Arg residue in the large subunit (pre-HybC) of hydrogenase 2 (hyb operon) in E. coli. This cleavage is nickel dependent. A variety of endopeptidases belong to this group that are similar in function and sequence homology. They include such proteins as HynC, HoxM, and HupD.
Probab=88.94 E-value=10 Score=30.20 Aligned_cols=90 Identities=22% Similarity=0.256 Sum_probs=53.0
Q ss_pred eEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhcCCC
Q 028531 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLP 99 (208)
Q Consensus 20 LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~ki~ 99 (208)
+|+|+|||-.. -==+|+.+++.|++.+..+.. +.+ + ..|.....++....
T Consensus 2 lV~GiGN~l~g----DDG~G~~va~~L~~~~~~~~~-----------------v~v------i-~~~~~~~~l~~~l~-- 51 (146)
T cd06062 2 LVLGIGNILLA----DEGIGVHAVERLEENYSFPEN-----------------VEL------I-DGGTLGLELLPYIE-- 51 (146)
T ss_pred EEEEECccccc----cCcHHHHHHHHHHHhcCCCCC-----------------eEE------E-ECCCCHHHHHHHHh--
Confidence 79999999532 235999999999887433210 111 1 11212223333221
Q ss_pred CCcEEEEeccC--CCCCceEEEecC---------CCCCCCCchHHHHHhhC
Q 028531 100 LNRVLVFHDDM--GLPCGVLRLRHN---------GGHGGHNGLKSVMNNFR 139 (208)
Q Consensus 100 ~~~ilVihDDl--dlp~G~irlk~~---------Gs~gGHNGLkSI~~~Lg 139 (208)
..+.+|+.|=+ +.++|+++.-.. ..+..+-++..+++.+.
T Consensus 52 ~~d~viiVDA~~~g~~pG~i~~~~~~~~~~~~~~~~s~H~~~l~~~l~~~~ 102 (146)
T cd06062 52 EADRLIIVDAVDAGGPPGTVYRFEGEDVPAFLSAKLSAHQVGLLEVLALAE 102 (146)
T ss_pred cCCEEEEEEcccCCCCCCeEEEEechhccccccCCcCcccCCHHHHHHHHH
Confidence 24677777864 779999876421 22444567888887765
No 12
>TIGR00130 frhD coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit). FrhD is not part of the active FRH heterotrimer, but is probably a protease required for maturation. Alternative name: 8-hydroxy-5-deazaflavin (F420) reducing hydrogenase (FRH) subunit delta.
Probab=85.66 E-value=17 Score=29.25 Aligned_cols=95 Identities=19% Similarity=0.181 Sum_probs=53.3
Q ss_pred CeeEEEecCccCCcCcccchHHHHHHHHHHHH-cCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhc
Q 028531 18 PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAES-QGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYY 96 (208)
Q Consensus 18 ~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~-~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~ 96 (208)
+.+|+|+|||-. .-==+|..++++|+++ +..+ . .+.+ ++........+....
T Consensus 4 ~ilVlGiGN~l~----gDDGvG~~v~~~L~~~~~~~~--~---------------~v~v------id~gt~~~~~l~~~~ 56 (153)
T TIGR00130 4 EILVVGCGNILF----GDDGFGPAVIEYLKENGVEKP--D---------------NVCL------IDAGTGAPHFVFTLI 56 (153)
T ss_pred eEEEEEeCcccc----ccCcHhHHHHHHHHHhCCCCC--C---------------CeEE------EECCCcHHHHHHHHh
Confidence 468999999952 2235999999999863 2211 0 0111 111111111111111
Q ss_pred CCCCCcEEEEecc--CCCCCceEEEecC-----C-CCCCC-CchHHHHHhhC
Q 028531 97 KLPLNRVLVFHDD--MGLPCGVLRLRHN-----G-GHGGH-NGLKSVMNNFR 139 (208)
Q Consensus 97 ki~~~~ilVihDD--ldlp~G~irlk~~-----G-s~gGH-NGLkSI~~~Lg 139 (208)
.+...+.+||-|= .+.++|+++.-.. + +...| -|+..+++.+.
T Consensus 57 ~~~~~d~vIivDA~~~~~~PG~v~~~~~~~~~~~~~~s~H~~~l~~~l~~l~ 108 (153)
T TIGR00130 57 PQSKWKKIIVVDIADFGAEPGTLRVLNVDELPNGRYMDAHGWSLAYPLHDLE 108 (153)
T ss_pred hhcCCCEEEEEEccCCCcCCCEEEEEchHHcCCCCCCCCccCCHHHHHHHhc
Confidence 2334566777785 5789999987431 2 22345 59999998765
No 13
>TIGR00142 hycI hydrogenase maturation protease HycI. Hydrogenase maturation protease is a protease that is involved in the C-terminal processing of HycE,the large subunit of hydrogenase 3 from E.Coli. This protein seems to be found in E.Coli and in Archaea.
Probab=83.73 E-value=20 Score=28.53 Aligned_cols=92 Identities=14% Similarity=0.143 Sum_probs=52.0
Q ss_pred eEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhcCCC
Q 028531 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLP 99 (208)
Q Consensus 20 LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~ki~ 99 (208)
+|+|+|||-.. ===+|..++++|.+.+... .+.++.-.| .|.-...+++.++
T Consensus 2 lVlGiGN~l~~----DDG~G~~v~~~L~~~~~~~------------------~v~v~d~gt----~~~~~~~~~~~~~-- 53 (146)
T TIGR00142 2 VLLCVGNELMG----DDGAGPYLAEKCAAAPKEE------------------NWVVINAGT----VPENFTVAIRELR-- 53 (146)
T ss_pred EEEEeCccccc----cCcHHHHHHHHHHhccCCC------------------CEEEEECCC----ChHHHHHHHHhcC--
Confidence 79999999643 2349999999998653210 011111111 1221212233222
Q ss_pred CCcEEEEeccC--CCCCceEEEecC-----CCCCCC-CchHHHHHhhCC
Q 028531 100 LNRVLVFHDDM--GLPCGVLRLRHN-----GGHGGH-NGLKSVMNNFRG 140 (208)
Q Consensus 100 ~~~ilVihDDl--dlp~G~irlk~~-----Gs~gGH-NGLkSI~~~LgG 140 (208)
.+.+||.|-+ +.++|+++.-.. .+..-| .|+..+++.+.+
T Consensus 54 -~d~viivDA~~~g~~PG~v~~~~~~~~~~~~~s~H~~~l~~ll~~~~~ 101 (146)
T TIGR00142 54 -PTHILIVDATDMGLNPGEVRIIDDDIIEMYSMSTHNMPLSYLVDYLKE 101 (146)
T ss_pred -CCEEEEEECcccCCCCCeEEEEChhhccccccCcCcCCHHHHHHHHHh
Confidence 3566666764 569999887432 122455 599998877653
No 14
>COG0680 HyaD Ni,Fe-hydrogenase maturation factor [Energy production and conversion]
Probab=80.48 E-value=31 Score=28.45 Aligned_cols=130 Identities=17% Similarity=0.170 Sum_probs=72.5
Q ss_pred CCeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeC-CchhcccchhHHHHHHh
Q 028531 17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKP-QTYMNLSGESTGPLAAY 95 (208)
Q Consensus 17 ~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP-~TyMNlSG~aV~~~~~~ 95 (208)
.+.+|+|+|||=. .-==+|-.++++|.+++.-.- .+-++.= +--+|+.+
T Consensus 2 ~~ilIlG~GN~L~----~DDG~Gv~vae~L~~~~~~~~-----------------~v~vid~Gt~~~~l~~--------- 51 (160)
T COG0680 2 MRILILGVGNILM----GDDGFGVRVAEKLKKRYKPPE-----------------NVEVIDGGTAGPNLLG--------- 51 (160)
T ss_pred CeEEEEeeCCccc----ccCcccHHHHHHHHHhcCCCC-----------------CeEEEEcCCCcHHHHH---------
Confidence 4579999999943 334589999999988753211 1111111 01122221
Q ss_pred cCCCCCcEEEEeccCCC--CCceEEEec------CCCCC---CC-CchHHHHHhhC---CC-------CCCCCCCCcccc
Q 028531 96 YKLPLNRVLVFHDDMGL--PCGVLRLRH------NGGHG---GH-NGLKSVMNNFR---GI-------GRPPGQMDPKAF 153 (208)
Q Consensus 96 ~ki~~~~ilVihDDldl--p~G~irlk~------~Gs~g---GH-NGLkSI~~~Lg---GI-------GrP~~~~~v~~y 153 (208)
.+...+-+||.|=++. .+|++++-+ ...+. .| .++..+++.+. |+ .-|.. ...+
T Consensus 52 -~l~~~d~vIIVDav~~g~epG~v~~i~~e~i~~~~~~~~~s~H~~~~~~~L~~~~~~~~~~~~~~~~~v~~~--~~~~- 127 (160)
T COG0680 52 -LLAGYDPVIIVDAVLFGLEPGEVRIIDPEEIPAYSSASKDSAHELPLSELLALLKELGGLPVLILGVQVPIV--SLPE- 127 (160)
T ss_pred -HhcCCCcEEEEEeeecCCCCceEEEechhhcccccccCCCccccCCHHHHHHHHHHhcCCceEEEEEeecee--cccc-
Confidence 2223344788886555 599998743 23343 57 57777777766 22 22111 1111
Q ss_pred ccccCCHHHHHHHHHHHHHHHHHHHHH
Q 028531 154 LLQKFNAIARERIDTALQEGVEVLKLL 180 (208)
Q Consensus 154 VLs~f~~~E~~~l~~~i~~a~~~l~~~ 180 (208)
+-..+|++=++.++.+++.+.+.++.+
T Consensus 128 ~~~~lS~ev~~a~~~av~~i~~~l~~~ 154 (160)
T COG0680 128 FGGGLSPEVEEAVDKAVERILEELREW 154 (160)
T ss_pred cccccCHHHHHHHHHHHHHHHHHHHhh
Confidence 235677766666677777666666554
No 15
>cd06064 H2MP_F420-Reduc Endopeptidases belonging to F420-reducing hydrogenases group. These hydrogenases from methanogens are encoded by the fru, frc, or frh genes. Sequence comparison indicates that fruD and frcD gene products from Methanococcus voltae are similar to HycI protease of Escherichia coli and are putatively involved in the C-terminal processing of large subunits (FruA and FrcA respectively). FrhD (F420 reducing hydrogenase delta subunit) enzyme belongs to the gene cluster of 8-hydroxy-5-deazaflavin (F420) reducing hydrogenase (FRH) from the thermophilic methanogen Methanobacterium thermoautotrophicum delta H. FrhD subunit is putatively involved in the processing of the coenzyme F420 hydrogenase-processing. It is similar to those frhD genes found in Methanomicrobia and Methanobacteria. It is different from the FrhD conserved domain found in methyl viologen-reducing hydrogenase and F420-non-reducing hydrogenase iron-sulfur subunit D.
Probab=79.96 E-value=29 Score=27.73 Aligned_cols=93 Identities=17% Similarity=0.200 Sum_probs=53.7
Q ss_pred eEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHH-HHhcC-
Q 028531 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPL-AAYYK- 97 (208)
Q Consensus 20 LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~-~~~~k- 97 (208)
||+|+|||-. .-==+|+.++++|++++..+ . .+.++. .|.....+ ..+..
T Consensus 1 lViGiGN~l~----gDDgvG~~va~~l~~~~~~~--~---------------~v~vid-------~g~~~~~~~~~~~~~ 52 (150)
T cd06064 1 LVVGCGNILF----GDDGFGPAVIEELEKLELLP--D---------------NVQVID-------AGTGAPHLLFTLLDE 52 (150)
T ss_pred CEEEECCccc----ccCcHHHHHHHHHHhccCCC--C---------------CEEEEE-------CCCcHHHHHHHHHhc
Confidence 6899999953 23359999999998754211 0 011111 22212111 11111
Q ss_pred CCCCcEEEEeccC--CCCCceEEEecC------C---CCCCCCchHHHHHhhCC
Q 028531 98 LPLNRVLVFHDDM--GLPCGVLRLRHN------G---GHGGHNGLKSVMNNFRG 140 (208)
Q Consensus 98 i~~~~ilVihDDl--dlp~G~irlk~~------G---s~gGHNGLkSI~~~LgG 140 (208)
....+.+||.|=+ +.++|+++.... . .+-.+-|+.++++.+.+
T Consensus 53 ~~~~d~viivDA~~~g~~pG~v~~~~~~~~~~~~~~~~s~H~~~l~~~l~~~~~ 106 (150)
T cd06064 53 ESKPKKIIIVDAIDFGLEPGTLKKISVDELPPGKYYDFDAHSWPLADPLHELKD 106 (150)
T ss_pred cCCCCEEEEEEecCCCCCCCeEEEEehhhcccccCCCcCCCcCCHHHHHHHHHh
Confidence 1225677777874 779999887432 1 23445899999987654
No 16
>TIGR00072 hydrog_prot hydrogenase maturation protease. HycI and HoxM are well-characterized as responsible for C-terminal protease activity on their respective hydrogenase large chains. A large number of homologous proteins appear responsible for the maturation of various forms of hydrogenase.
Probab=63.80 E-value=7.3 Score=30.99 Aligned_cols=90 Identities=20% Similarity=0.236 Sum_probs=51.5
Q ss_pred eEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhcCCC
Q 028531 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLP 99 (208)
Q Consensus 20 LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~ki~ 99 (208)
||+|+|||-.. -==+|..++++|++++..+. . +-++ + -|.....++.+..
T Consensus 1 lViGiGN~l~~----DDg~G~~v~~~L~~~~~~~~------~-----------v~~i------d-~g~~~~~l~~~l~-- 50 (145)
T TIGR00072 1 LVLGIGNILRG----DDGFGPRVAERLEERYEFPP------G-----------VEVL------D-GGTLGLELLDAIE-- 50 (145)
T ss_pred CEEEECchhcc----cCcHHHHHHHHHHHhcCCCC------C-----------eEEE------E-CCCCHHHHHHHHh--
Confidence 68999999532 23599999999998643210 0 0011 0 0111123333332
Q ss_pred CCcEEEEeccC--CCCCceEEEec--------CCCCCCC-CchHHHHHhhC
Q 028531 100 LNRVLVFHDDM--GLPCGVLRLRH--------NGGHGGH-NGLKSVMNNFR 139 (208)
Q Consensus 100 ~~~ilVihDDl--dlp~G~irlk~--------~Gs~gGH-NGLkSI~~~Lg 139 (208)
..+.+||.|=. +.++|+++.-. .++...| -|+..+++.+.
T Consensus 51 ~~d~viiVDA~~~g~~pG~v~~~~~~~~~~~~~~~~s~H~~~l~~~l~~~~ 101 (145)
T TIGR00072 51 GADRVIVVDAVDSGAEPGTVRRLPGEDLPAFLGGKLSTHQLGLSEVLALLE 101 (145)
T ss_pred CCCEEEEEEccCCCcCCceEEEEchhhccccccCCCCcCcCCHHHHHHHHH
Confidence 24566677765 55999998632 1233345 58888887765
No 17
>cd06067 H2MP_MemB-H2evol Endopeptidases belonging to membrane-bound hydrogen evolving hydrogenase group. In hydrogenase 3 from E coli, the maturation of the large subunit (HycE) requires the cleavage of a C-terminal peptide by the endopeptidase HycI, before the final formation of the [NiFe] metallocenter. HycI protease is a monomer and lacks characteristic signature motifs of serine, zinc, cysteine, or acid proteases and thus its cleavage reaction is not inhibited by conventional inhibitors of serine and metalloproteases. Such hydrogenases as those from Methanosarcina barkeri (EchCE) and Rhodospirillum rubrum (CooLH) also belong to this group of membrane-bound hydrogen evolving hydrogenase. Sequence comparison of the large subunits from related hydrogenase indicates that in contrast to EchE (358 amino acids) and CooH (361 amino acids), the large subunit HycE (569 amino acids) contains an extra carboxy-terminal stretch of 32 amino acids that is cleaved during the maturation process. In
Probab=60.78 E-value=80 Score=24.76 Aligned_cols=93 Identities=16% Similarity=0.175 Sum_probs=52.5
Q ss_pred eEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhcCCC
Q 028531 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLP 99 (208)
Q Consensus 20 LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~ki~ 99 (208)
+|+|+|||-.. -==+|..++++|.++. . . + +-++.-. ..|.-+...++. .
T Consensus 1 ~VlGiGN~L~~----DDgvG~~v~~~L~~~~--~-~--------------~--v~vid~g----t~~~~~~~~l~~---~ 50 (136)
T cd06067 1 VLLGVGNELRG----DDGAGPLLAEKLEDLP--N-P--------------N--WLVIDGG----TVPENFTGKIRE---E 50 (136)
T ss_pred CEEEeCccccc----cCcHHHHHHHHHHhcC--C-C--------------C--EEEEECC----CCHHHHHHHHHh---c
Confidence 58999999532 3359999999998753 1 0 0 1111111 122222121211 1
Q ss_pred CCcEEEEeccC--CCCCceEEEecCC-----CCCCC-CchHHHHHhhCCCC
Q 028531 100 LNRVLVFHDDM--GLPCGVLRLRHNG-----GHGGH-NGLKSVMNNFRGIG 142 (208)
Q Consensus 100 ~~~ilVihDDl--dlp~G~irlk~~G-----s~gGH-NGLkSI~~~LgGIG 142 (208)
..+.+||.|=+ +.++|+++.-... ....| -|+.++.+.+...+
T Consensus 51 ~~d~vIiVDAv~~g~~PG~v~~~~~~~~~~~~~s~H~~~l~~~L~~~~~~~ 101 (136)
T cd06067 51 KPDLIVIVDAADMGLEPGEIRIIDPEEIAEYFFSTHTLPLSILIDYLREST 101 (136)
T ss_pred CCCEEEEEECCccCcCCCEEEEEchhhcccccCCCCcCCHHHHHHHHHhcC
Confidence 23567777875 4599999874321 12345 59999888877554
No 18
>PF06154 YagB_YeeU_YfjZ: YagB/YeeU/YfjZ family; InterPro: IPR009320 This family of proteins includes three proteins from Escherichia coli proteins YagB, YeeU and YfjZ. The function of these proteins is unknown. They are about 120 amino acids in length.; PDB: 2H28_A 2INW_B 2JN7_A 2EA9_A.
Probab=59.88 E-value=16 Score=28.34 Aligned_cols=29 Identities=21% Similarity=0.332 Sum_probs=23.3
Q ss_pred cccCCHHHHHHHHHHHHHHHHHHHHHHhc
Q 028531 155 LQKFNAIARERIDTALQEGVEVLKLLLSK 183 (208)
Q Consensus 155 Ls~f~~~E~~~l~~~i~~a~~~l~~~~~~ 183 (208)
-+.||++|...|+++++...+-+|..+..
T Consensus 36 ~G~Fs~~~~~~Ld~aFP~~ikqlE~ml~s 64 (103)
T PF06154_consen 36 TGTFSEEEAQHLDQAFPLFIKQLELMLTS 64 (103)
T ss_dssp ES---HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred EEEcCHHHHHHHHhHhHHHHHHHHHHHhc
Confidence 38999999999999999999999988864
No 19
>PF03418 Peptidase_A25: Germination protease This family belongs to family A25 of the peptidase classification.; InterPro: IPR005080 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. Metalloproteases are the most diverse of the four main types of protease, with more than 30 families identified to date []. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as abXHEbbHbc, where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family A25 (gpr protease family, clan AE). These are tetrameric proteases that makes the rate-limiting first cut in the small, acid-soluble spore proteins (SASP) of Bacillus subtilis and related species during spore germination. The enzyme lacks clear homology to other known proteases. It processes its own amino end before becoming active to cleave SASPs. ; GO: 0008233 peptidase activity, 0006508 proteolysis, 0009847 spore germination; PDB: 1C8B_A.
Probab=56.71 E-value=14 Score=34.51 Aligned_cols=128 Identities=22% Similarity=0.325 Sum_probs=49.2
Q ss_pred CCCCeeEEEecCccCCcCcccchHHHHHHHHHH-HHcCCCCCccccceEEEEEEECC-eeEEEEeCCchhcccc----hh
Q 028531 15 VARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFA-ESQGISMNTVHCKATFGQGFVGD-APVLLAKPQTYMNLSG----ES 88 (208)
Q Consensus 15 ~~~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La-~~~~~~~~~~k~~~~~~~~~~~~-~~v~L~kP~TyMNlSG----~a 88 (208)
+....|||||||. .-|--..|-.++|.+. .++=..+..... ..+ ..|.-+-| --|=..| +.
T Consensus 94 ~~~~iLVVGLGN~----~vTPDALGP~vv~~l~VTRHL~~~~pe~~--------~~g~r~VsaiaP-GVmg~TGiET~eI 160 (354)
T PF03418_consen 94 KEASILVVGLGNW----NVTPDALGPRVVENLLVTRHLFELQPEEV--------DEGYRPVSAIAP-GVMGQTGIETAEI 160 (354)
T ss_dssp TT--EEEEE-S-S----SSGGG-HHHHHHHT----HHHHHHS--SS---------SS---EEEE-S-GGG---SS-HHHH
T ss_pred CCCeEEEEeCCCc----CCCccccchhhhhhhhhhhhhhhhCchhh--------ccCcceeeEEcC-CccccccccHHHH
Confidence 3355799999996 3599999999999663 222111000001 011 23444455 3444445 55
Q ss_pred HHHHHHhcCCCCCcEEEEeccCC-----CCCceEEEecCC-----CCCCC-CchHHHHHhhC----CCCCCCCC------
Q 028531 89 TGPLAAYYKLPLNRVLVFHDDMG-----LPCGVLRLRHNG-----GHGGH-NGLKSVMNNFR----GIGRPPGQ------ 147 (208)
Q Consensus 89 V~~~~~~~ki~~~~ilVihDDld-----lp~G~irlk~~G-----s~gGH-NGLkSI~~~Lg----GIGrP~~~------ 147 (208)
|+.+++..| -+++|.-|-|. -=--+|+|.--| |-|-| ++|- -+.|| .||=|.-=
T Consensus 161 i~gvv~~~k---Pd~VIaIDALAaRs~~Rl~~TIQisDTGI~PGSGVGN~R~~l~--~etLGvPVIAIGVPTVVdA~tI~ 235 (354)
T PF03418_consen 161 IKGVVEKIK---PDLVIAIDALAARSLERLNTTIQISDTGIHPGSGVGNHRKELN--EETLGVPVIAIGVPTVVDAATIV 235 (354)
T ss_dssp HHHHHHHH-----SEEEEEEEE--SSGGGSSSEEEEETT-B-S-SSSS----BSS--S---------------EEEEEEE
T ss_pred HHHHHHhhC---CCEEEEehhhhcCchhhccCeEEecCCCcCCCCCcCcccccCC--HHHcCCCEEEEcCCeeechHHHH
Confidence 666676554 35777778653 223456665433 34455 4433 24566 66666320
Q ss_pred CCccccccccCCH
Q 028531 148 MDPKAFLLQKFNA 160 (208)
Q Consensus 148 ~~v~~yVLs~f~~ 160 (208)
.|..++++..|..
T Consensus 236 ~Dtid~~~~~~~~ 248 (354)
T PF03418_consen 236 NDTIDYLLKHFGR 248 (354)
T ss_dssp --EES---HHHHT
T ss_pred HHHHHHHHHHHHH
Confidence 1444777777744
No 20
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=48.94 E-value=9.6 Score=28.32 Aligned_cols=26 Identities=27% Similarity=0.478 Sum_probs=19.3
Q ss_pred cCccc--chHHHHHHHHHHHHcCCCCCc
Q 028531 31 YKGTR--HNVGFEMIDAFAESQGISMNT 56 (208)
Q Consensus 31 Y~~TR--HNvGf~vld~La~~~~~~~~~ 56 (208)
|.-+. --+||..+|.+|.++|++...
T Consensus 45 Y~L~~~i~gi~F~~aD~iA~~~g~~~~d 72 (94)
T PF14490_consen 45 YRLIEDIDGIGFKTADKIALKLGIEPDD 72 (94)
T ss_dssp TCCCB-SSSSBHHHHHHHHHTTT--TT-
T ss_pred HHHHHHccCCCHHHHHHHHHHcCCCCCC
Confidence 66666 678999999999999987543
No 21
>PRK02858 germination protease; Provisional
Probab=46.97 E-value=14 Score=34.75 Aligned_cols=123 Identities=16% Similarity=0.219 Sum_probs=63.2
Q ss_pred HHHHHHhhc---CCCCCeeEEEecCccCCcCcccchHHHHHHHHHH-HHcCCCCCccccceEEEEEEECC-eeEEEEeCC
Q 028531 5 RFLRRGFCT---AVARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFA-ESQGISMNTVHCKATFGQGFVGD-APVLLAKPQ 79 (208)
Q Consensus 5 ~~~~~~~~~---~~~~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La-~~~~~~~~~~k~~~~~~~~~~~~-~~v~L~kP~ 79 (208)
+.|+.++.. ......|||||||- .-|--..|-.+++.|. .++=........ -.+ ..|.-+-|
T Consensus 96 ~~l~~ll~~~~~~~~~~vLVVGLGN~----~VTPDALGP~vv~~l~VTRHL~~~~p~~~--------~~g~r~VsAiaP- 162 (369)
T PRK02858 96 KEFSAFLEELGITKEASCLIVGLGNW----NVTPDALGPLVVENVLVTRHLFQLQPESV--------EEGFRPVSAIAP- 162 (369)
T ss_pred HHHHHHHHhcCCCCCCcEEEEeCCCc----CCCccccChheecceeeehhhhhhcchhh--------ccCCceeeEEcC-
Confidence 344555532 23356899999995 4688999999998654 221111100000 011 23333444
Q ss_pred chhcc----cchhHHHHHHhcCCCCCcEEEEeccCCCC-----CceEEEecC-----CCCCCC-CchHHHHHhhC----C
Q 028531 80 TYMNL----SGESTGPLAAYYKLPLNRVLVFHDDMGLP-----CGVLRLRHN-----GGHGGH-NGLKSVMNNFR----G 140 (208)
Q Consensus 80 TyMNl----SG~aV~~~~~~~ki~~~~ilVihDDldlp-----~G~irlk~~-----Gs~gGH-NGLkSI~~~Lg----G 140 (208)
--|=. +++.|+.+++..| -+++|.-|-|.-- -=+|+|.-- .|-|-| ++|- -+.|| .
T Consensus 163 GVmg~TGiET~EIIkgIVek~K---PD~VIaIDALAaRs~~Rln~TIQIsDTGI~PGSGVGN~R~~l~--~etLGVPVIA 237 (369)
T PRK02858 163 GVMGITGIETSDIIYGIIEKTK---PDFVIAIDALAARSIERVNTTIQISDTGIHPGSGVGNKRKELS--KETLGIPVIA 237 (369)
T ss_pred CcccccchhHHHHHHHHHHhhC---CCEEEEechhhcCchhhccCeEEecCCCcCCCCCcCccccccC--HHHcCCCEEE
Confidence 22333 4466666776544 3577777865321 224555433 334444 3433 35677 6
Q ss_pred CCCCC
Q 028531 141 IGRPP 145 (208)
Q Consensus 141 IGrP~ 145 (208)
||=|.
T Consensus 238 IGVPT 242 (369)
T PRK02858 238 IGVPT 242 (369)
T ss_pred EcCCe
Confidence 66663
No 22
>PRK10466 hybD hydrogenase 2 maturation endopeptidase; Provisional
Probab=46.27 E-value=30 Score=28.24 Aligned_cols=30 Identities=23% Similarity=0.351 Sum_probs=22.9
Q ss_pred CeeEEEecCccCCcCcccchHHHHHHHHHHHHcC
Q 028531 18 PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQG 51 (208)
Q Consensus 18 ~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~ 51 (208)
+.+|+|+|||-. +-==+|..++++|.+.+.
T Consensus 2 ~ilVlGiGN~l~----gDDGvG~~va~~L~~~~~ 31 (164)
T PRK10466 2 RILVLGVGNILL----TDEAIGVRIVEALEQRYI 31 (164)
T ss_pred ceEEEEECchhh----ccCcHHHHHHHHHHHhcC
Confidence 468999999953 233599999999987654
No 23
>TIGR01441 GPR GPR endopeptidase. This model describes a tetrameric protease that makes the rate-limiting first cut in the small, acid-soluble spore proteins (SASP) of Bacillus subtilis and related species. The enzyme lacks clear homology to other known proteases. It processes its own amino end before becoming active to cleave SASPs.
Probab=45.84 E-value=15 Score=34.48 Aligned_cols=123 Identities=16% Similarity=0.252 Sum_probs=64.1
Q ss_pred HHHHHHhhc--C-CCCCeeEEEecCccCCcCcccchHHHHHHHHHH-HHcCCCCCccccceEEEEEEECC-eeEEEEeCC
Q 028531 5 RFLRRGFCT--A-VARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFA-ESQGISMNTVHCKATFGQGFVGD-APVLLAKPQ 79 (208)
Q Consensus 5 ~~~~~~~~~--~-~~~~~LIvGLGNPG~~Y~~TRHNvGf~vld~La-~~~~~~~~~~k~~~~~~~~~~~~-~~v~L~kP~ 79 (208)
+.|+.++.. . +....|||||||- .-|--..|-.+++.|. .++=........ -.+ ..|.-+-|
T Consensus 86 ~~l~~ll~~~~~~~~~~iLVVGLGN~----~VTPDALGP~vv~~l~VTRHL~~~~p~~~--------~~g~r~VsaiaP- 152 (358)
T TIGR01441 86 DEFSKFISKLKIDKDMTCLVVGLGNW----NVTPDALGPKVVENLLVTRHLFKLIPESV--------DEGIRPVSAVAP- 152 (358)
T ss_pred HHHHHHHhhccCCCCCcEEEEeCCCc----CCCccccChheecceeeehhhhhhcchhh--------ccCCceeeEEcC-
Confidence 344555532 2 3356899999996 4588999999998764 222111111111 011 23344444
Q ss_pred chhcc----cchhHHHHHHhcCCCCCcEEEEeccCCCC-----CceEEEecCC-----CCCCC-CchHHHHHhhC----C
Q 028531 80 TYMNL----SGESTGPLAAYYKLPLNRVLVFHDDMGLP-----CGVLRLRHNG-----GHGGH-NGLKSVMNNFR----G 140 (208)
Q Consensus 80 TyMNl----SG~aV~~~~~~~ki~~~~ilVihDDldlp-----~G~irlk~~G-----s~gGH-NGLkSI~~~Lg----G 140 (208)
--|=. +++.|+.+++..| -+++|.-|-|.-- -=+|+|.--| |-|-| ++|- -+.|| .
T Consensus 153 GVmg~TGiET~EIIkgiVek~k---PD~VIaIDALAaRs~~Rln~TIQIsDTGI~PGSGVGN~R~~l~--~etLGVPVIA 227 (358)
T TIGR01441 153 GVMGITGIETSDIIRGIIEQIK---PDFVIAIDALAARKMERVNSTIQISDTGIHPGSGVGNKRKELS--KKTLGVPVIA 227 (358)
T ss_pred CccccccccHHHHHHHHHHhhC---CCEEEEechhhcCchhhccCeEEecCCCcCCCCCcCccccccC--HHHcCCCEEE
Confidence 23333 4466677776544 3577777865321 2245554333 33444 3432 35677 6
Q ss_pred CCCCC
Q 028531 141 IGRPP 145 (208)
Q Consensus 141 IGrP~ 145 (208)
||=|.
T Consensus 228 IGVPT 232 (358)
T TIGR01441 228 VGVPT 232 (358)
T ss_pred EcCCe
Confidence 67664
No 24
>cd06068 H2MP_like-1 Putative [NiFe] hydrogenase-specific C-terminal protease. Sequence comparison shows similarity to hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing and assembly with other subunits. Hydrogenase maturation endopeptidases are responsible for the proteolytic processing, liberating a short C-terminal peptide by cleaving after a His or an Arg residue, e.g., HycI (E. coli) is involved in processing of HypE (the large subunit of hydrogenases 3). This cleavage is nickel dependent.
Probab=45.46 E-value=21 Score=28.39 Aligned_cols=26 Identities=23% Similarity=0.279 Sum_probs=20.5
Q ss_pred eEEEecCccCCcCcccchHHHHHHHHHHHH
Q 028531 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAES 49 (208)
Q Consensus 20 LIvGLGNPG~~Y~~TRHNvGf~vld~La~~ 49 (208)
||+|+|||-.. ===+|..++++|+++
T Consensus 1 lViGiGN~l~~----DDGvG~~v~~~L~~~ 26 (144)
T cd06068 1 LVAGVGNIFLG----DDGFGVEVARRLRPR 26 (144)
T ss_pred CEEEECccccc----cCcHHHHHHHHHhcc
Confidence 68999999643 224999999999865
No 25
>PRK09256 hypothetical protein; Provisional
Probab=45.39 E-value=11 Score=30.67 Aligned_cols=25 Identities=28% Similarity=0.485 Sum_probs=20.0
Q ss_pred EEeccCCCCCceEEEe--cCCCCCCCC
Q 028531 105 VFHDDMGLPCGVLRLR--HNGGHGGHN 129 (208)
Q Consensus 105 VihDDldlp~G~irlk--~~Gs~gGHN 129 (208)
-|.+++++|...++++ .++|.||+|
T Consensus 3 ~~~~~~~i~~~~l~~~~~RSSGPGGQ~ 29 (138)
T PRK09256 3 RITRRLVIPENELEWRFIRASGPGGQN 29 (138)
T ss_pred ccCccCccCHHHeEEEEEEcCCCCccc
Confidence 3678899998887776 688999985
No 26
>PF06466 PCAF_N: PCAF (P300/CBP-associated factor) N-terminal domain; InterPro: IPR009464 This region is spliced out of Q92830 from SWISSPROT isoform 2. It is predicted to be of a mixed alpha/beta fold - though predominantly helical.; GO: 0004402 histone acetyltransferase activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=41.36 E-value=47 Score=29.77 Aligned_cols=55 Identities=16% Similarity=0.216 Sum_probs=35.9
Q ss_pred CCCCCCCC-CC----ccccccccCC---HHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHhhc
Q 028531 140 GIGRPPGQ-MD----PKAFLLQKFN---AIARERIDTALQEGVEVLKLLLSKGLTESARHFNT 194 (208)
Q Consensus 140 GIGrP~~~-~~----v~~yVLs~f~---~~E~~~l~~~i~~a~~~l~~~~~~~~~~amn~~n~ 194 (208)
=+|.||.. .+ |.+||+.+|+ +.|++.+-++-....-.+..|--+..+.-....+.
T Consensus 135 plG~PPFE~PsI~k~V~nfv~~kf~~l~~~E~q~m~elakmFL~~lN~W~le~ps~~~~~~~~ 197 (252)
T PF06466_consen 135 PLGKPPFEKPSIEKAVTNFVLYKFSHLPQKEWQTMYELAKMFLHCLNHWKLEAPSQRRQRSNA 197 (252)
T ss_pred CCCCCCCCCccHHHHHHHHHHHHccCCCcHHHHHHHHHHHHHHHHHhhccCCChHHHHhhcCc
Confidence 46777653 23 4589999885 66877776666666666666666666666666554
No 27
>cd06066 H2MP_NAD-link-bidir Endopeptidases that belong to the bidirectional NAD-linked hydrogenase group. This group of endopeptidases are highly specific carboxyl-terminal protease (HoxW protease) which releases a 24-amino-acid peptide from HoxH prior to progression of subunit assembly. These bidirectional hydrogenases are heteropentamers encoded by the hox (hydrogen oxidation) genes, in which complex HoxEFU shows the diaphorase activity, and HoxYH constitutes the NiFe-hydrogenase.
Probab=39.69 E-value=33 Score=27.09 Aligned_cols=27 Identities=26% Similarity=0.417 Sum_probs=21.2
Q ss_pred eEEEecCccCCcCcccchHHHHHHHHHHHHc
Q 028531 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQ 50 (208)
Q Consensus 20 LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~ 50 (208)
||+|+|||=. .-==+|..++++|++++
T Consensus 1 lVlGvGN~l~----~DDGvG~~v~~~L~~~~ 27 (139)
T cd06066 1 LVIGYGNPLR----GDDGLGPAVAERIEEWL 27 (139)
T ss_pred CEEEeCCccc----cccchhHHHHHHHHhhC
Confidence 6899999943 23359999999998874
No 28
>cd00736 bacteriophage_lambda_lysozyme The lysozyme from bacteriophage lambda hydrolyses the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc), as do other lysozymes. But unlike other lysozymes, bacteriophage lambda does not produce a reducing end upon cleavage of the peptidoglycan but rather uses the 6-OH of the same MurNAc residue to produce a 1,6-anhydromuramic acid terminal residue and is therefore a lytic transglycosylase. An identical 1,6-anhydro bond is formed in bacterial peptidoglycans by the action of the lytic transglycosylases of E. coli. However, they differ structurally.
Probab=38.99 E-value=52 Score=27.21 Aligned_cols=42 Identities=12% Similarity=0.201 Sum_probs=32.3
Q ss_pred cccccCCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHhhc
Q 028531 153 FLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESARHFNT 194 (208)
Q Consensus 153 yVLs~f~~~E~~~l~~~i~~a~~~l~~~~~~~~~~amn~~n~ 194 (208)
+=|..|+|+.++.+.-.+-+...++..+....++.||+++..
T Consensus 81 ~gl~~F~P~~QD~~A~~Li~~~gal~~i~~G~~~~a~~~La~ 122 (151)
T cd00736 81 YGLYDFSPESQDLVAYQLIRERGALPDILAGRIEQAIAKLSN 122 (151)
T ss_pred cCCCCCCHHHHHHHHHHHHHHcCcHHHHHcCCHHHHHHHHHh
Confidence 445899999999886544444557888888889999998774
No 29
>cd06063 H2MP_Cyano-H2up This group of endopeptidases include HupW enzymes that are specific to the cyanobacterial hydrogenase and are involved in the C-terminal cleavage of the hydrogenase large subunit precursor protein. Cyanobacterial nickel-iron (NiFe)-hydrogenases are found exclusively in the N2-fixing strains and are encoded by hup (hydrogen uptake) genes. These uptake hydrogenases are heterodimers with a large (hupL) and small subunit (hupS) and catalyze the consumption of the H2 produced during N2 fixation. Sequence similarity shows that the putative metal-binding resides are well conserved in this group of hydrogen maturation proteases. This group also includes such proteins as the hydrogenase III from Aquifex aeolicus.
Probab=38.86 E-value=37 Score=27.06 Aligned_cols=26 Identities=23% Similarity=0.319 Sum_probs=20.5
Q ss_pred eEEEecCccCCcCcccchHHHHHHHHHHHH
Q 028531 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAES 49 (208)
Q Consensus 20 LIvGLGNPG~~Y~~TRHNvGf~vld~La~~ 49 (208)
+|+|+|||-.. -==+|..++++|++.
T Consensus 2 lVlGiGN~L~~----DDG~G~~v~~~L~~~ 27 (146)
T cd06063 2 TIIGCGNLNRG----DDGVGPILIRRLQAY 27 (146)
T ss_pred EEEEECCcccc----cCcHHHHHHHHHhhc
Confidence 79999999532 234999999999864
No 30
>PHA00415 25 baseplate wedge subunit
Probab=36.07 E-value=84 Score=25.13 Aligned_cols=69 Identities=13% Similarity=0.216 Sum_probs=43.7
Q ss_pred eccCCCCCceEEEecCCCCCCCCchHHHHHhhC-----CCC----CCCCCCCccccccccCCHHHHHHHHHHHHHHHHHH
Q 028531 107 HDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR-----GIG----RPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVL 177 (208)
Q Consensus 107 hDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg-----GIG----rP~~~~~v~~yVLs~f~~~E~~~l~~~i~~a~~~l 177 (208)
+=|+|+.||.=. ..|.-.==.|..||.+++. -.| ||.-+.++.+++-.+.++.-...+...+. +||
T Consensus 8 ~~d~~~~~~~~~--~tg~l~~~~~~~sI~qsI~~IL~T~~GER~~rPdfG~~l~~l~f~p~~~~~~~~i~~~I~---~AI 82 (131)
T PHA00415 8 YSDIDPNFKKSP--WNKDVSAVKGARAIKNSLLGIVTTRKGERPFDPNFGCDISDQLFENMDPLTADTIERNIE---SAI 82 (131)
T ss_pred eecCCcccCcCC--cCCCeeeeCCHHHHHHHHHHHhCCCCCccccCcccCcchHHHhcCCCCHHHHHHHHHHHH---HHH
Confidence 568888877521 1222222368899999988 444 56656688899999888766555554444 445
Q ss_pred HHH
Q 028531 178 KLL 180 (208)
Q Consensus 178 ~~~ 180 (208)
..|
T Consensus 83 ~~~ 85 (131)
T PHA00415 83 RNY 85 (131)
T ss_pred HHh
Confidence 444
No 31
>COG2897 SseA Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]
Probab=34.03 E-value=40 Score=30.55 Aligned_cols=30 Identities=23% Similarity=0.133 Sum_probs=26.6
Q ss_pred chhcccchhHHHHHHhcCCCCCcEEEEecc
Q 028531 80 TYMNLSGESTGPLAAYYKLPLNRVLVFHDD 109 (208)
Q Consensus 80 TyMNlSG~aV~~~~~~~ki~~~~ilVihDD 109 (208)
.=|=.|.+...+++...+|..++.||+|||
T Consensus 69 ~~~lp~~e~fa~~~~~~GI~~d~tVVvYdd 98 (285)
T COG2897 69 PHMLPSPEQFAKLLGELGIRNDDTVVVYDD 98 (285)
T ss_pred CCCCCCHHHHHHHHHHcCCCCCCEEEEECC
Confidence 455578888999999999999999999999
No 32
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=31.18 E-value=35 Score=29.01 Aligned_cols=29 Identities=17% Similarity=0.158 Sum_probs=24.9
Q ss_pred cchhHHHHHHhcCCCCCcEEEEeccCCCC
Q 028531 85 SGESTGPLAAYYKLPLNRVLVFHDDMGLP 113 (208)
Q Consensus 85 SG~aV~~~~~~~ki~~~~ilVihDDldlp 113 (208)
++.+..++++.++++++++++|-|.|=-+
T Consensus 95 ~~~~fr~Al~~m~l~~~~vvmVGDqL~TD 123 (175)
T COG2179 95 FGRAFRRALKEMNLPPEEVVMVGDQLFTD 123 (175)
T ss_pred cHHHHHHHHHHcCCChhHEEEEcchhhhh
Confidence 56788899999999999999999988433
No 33
>cd00518 H2MP Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing and assembly with other subunits. Hydrogenase maturation endopeptidases are responsible for the proteolytic processing, liberating a short C-terminal peptide by cleaving after a His or an Arg residue, e.g., HycI (E. coli) is involved in processing of HypE, the large subunit of hydrogenase 3. This cleavage is nickel dependent. This CD also includes such hydrogenase-processing proteins as HydD, HupW, and HoxW, as well as, proteins of the F420-reducing hydrogenase of methanogens (e.g., FrcD). Also included, is the Pyrococcus furiosus FrxA protein, a bifunctional endopeptidase/ sulfhydrogenase found in NADP-reducing hyperthermophiles.The Pyrococcus FrxA is not related to those found in Helicobacter pylori.
Probab=31.04 E-value=51 Score=25.80 Aligned_cols=89 Identities=19% Similarity=0.189 Sum_probs=52.1
Q ss_pred eEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhcCCC
Q 028531 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLP 99 (208)
Q Consensus 20 LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~ki~ 99 (208)
+|+|+|||=. .-==+|..++++|.++.. + . .+-++ +. |.....++....
T Consensus 1 lViGiGN~l~----~DDGvG~~v~~~L~~~~~-~-~----------------~v~~i------d~-gt~~~~l~~~l~-- 49 (139)
T cd00518 1 LVLGIGNPLR----GDDGFGPAVAERLEERYL-P-P----------------GVEVI------DG-GTLGLELLDLLE-- 49 (139)
T ss_pred CEEEECCccc----ccCcHHHHHHHHHHhcCC-C-C----------------CeEEE------EC-CCCHHHHHHHHh--
Confidence 6899999942 223599999999988642 0 0 01111 11 111122333222
Q ss_pred CCcEEEEeccCC--CCCceEEEec------CCC-CCCC-CchHHHHHhhC
Q 028531 100 LNRVLVFHDDMG--LPCGVLRLRH------NGG-HGGH-NGLKSVMNNFR 139 (208)
Q Consensus 100 ~~~ilVihDDld--lp~G~irlk~------~Gs-~gGH-NGLkSI~~~Lg 139 (208)
..+.+||.|=.+ .++|+++.-. ..+ ...| -|+..+++.+.
T Consensus 50 ~~d~viiVDA~~~~~~pG~i~~~~~~~~~~~~~~~s~H~~~l~~~l~~~~ 99 (139)
T cd00518 50 GADRVIIVDAVDSGGEPGTVRRLEPEELPAYLSALSTHQLGLAELLALLR 99 (139)
T ss_pred cCCeEEEEECccCCCCCCeEEEEchhhcccccCCCCCccCCHHHHHHHHH
Confidence 256677778764 6999988732 111 1345 49999998877
No 34
>COG4981 Enoyl reductase domain of yeast-type FAS1 [Lipid metabolism]
Probab=30.40 E-value=89 Score=31.45 Aligned_cols=71 Identities=23% Similarity=0.397 Sum_probs=43.4
Q ss_pred CeeEEEEeCCchhcccchhHHHHHHhcCCCCCcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhh-----------
Q 028531 70 DAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNF----------- 138 (208)
Q Consensus 70 ~~~v~L~kP~TyMNlSG~aV~~~~~~~ki~~~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~L----------- 138 (208)
|-+.+.+||-|- ++|++..+--+-.|+-=||+| -.||.+|||.--.+...-|
T Consensus 150 G~~yv~fKPGtI-----eqI~svi~IAka~P~~pIilq------------~egGraGGHHSweDld~llL~tYs~lR~~~ 212 (717)
T COG4981 150 GFPYVAFKPGTI-----EQIRSVIRIAKANPTFPIILQ------------WEGGRAGGHHSWEDLDDLLLATYSELRSRD 212 (717)
T ss_pred CceeEEecCCcH-----HHHHHHHHHHhcCCCCceEEE------------EecCccCCccchhhcccHHHHHHHHHhcCC
Confidence 446788899765 555554443343444444443 1478899998755543221
Q ss_pred ------C-CCCCCCCCCCccccccccCCH
Q 028531 139 ------R-GIGRPPGQMDPKAFLLQKFNA 160 (208)
Q Consensus 139 ------g-GIGrP~~~~~v~~yVLs~f~~ 160 (208)
| |||.|. +.+.|+-+++|.
T Consensus 213 NIvl~vGgGiGtp~---~aa~YLTGeWSt 238 (717)
T COG4981 213 NIVLCVGGGIGTPD---DAAPYLTGEWST 238 (717)
T ss_pred CEEEEecCCcCChh---hcccccccchhh
Confidence 2 999874 556788877764
No 35
>PF13075 DUF3939: Protein of unknown function (DUF3939)
Probab=29.67 E-value=1.6e+02 Score=24.26 Aligned_cols=57 Identities=18% Similarity=0.331 Sum_probs=39.2
Q ss_pred CcEEEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhCCCCCCCCCCCcccccccc-----CCHHHHHHHHHHHHHHHH
Q 028531 101 NRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFRGIGRPPGQMDPKAFLLQK-----FNAIARERIDTALQEGVE 175 (208)
Q Consensus 101 ~~ilVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~LgGIGrP~~~~~v~~yVLs~-----f~~~E~~~l~~~i~~a~~ 175 (208)
..-++|.||-.+.+-.+ ...||||-.- .|-+|+ |.++|++. ...++.+..
T Consensus 31 ~rt~lv~~d~~iD~~~L-----------------~~yL~g~p~q-------~FymSkeTyeifeeee~~i-p~~iD~VQ~ 85 (140)
T PF13075_consen 31 NRTILVNDDQSIDFERL-----------------APYLGGIPDQ-------RFYMSKETYEIFEEEEKDI-PKEIDKVQK 85 (140)
T ss_pred ceEEEEcCCceecHHHH-----------------hhhcCCCCCc-------ceeeeHHHHHhhhHHHHhC-HHHHHHHHH
Confidence 45789999999888764 4577787431 355554 55555544 445888888
Q ss_pred HHHHHHh
Q 028531 176 VLKLLLS 182 (208)
Q Consensus 176 ~l~~~~~ 182 (208)
|+..+.+
T Consensus 86 AVD~Y~~ 92 (140)
T PF13075_consen 86 AVDQYVK 92 (140)
T ss_pred HHHHHHH
Confidence 9988886
No 36
>PF11458 Mistic: Membrane-integrating protein Mistic; InterPro: IPR021078 Mistic is an integral membrane protein that folds autonomously into the membrane []. It is conserved in the Bacilli bacteria. The protein forms a helical bundle with a polar lipid-facing surface. Mistic can be used for high-level production of other membrane proteins in their native conformations [].
Probab=28.78 E-value=1e+02 Score=22.92 Aligned_cols=25 Identities=24% Similarity=0.325 Sum_probs=18.9
Q ss_pred cCCHHHHHHHHHHHHHHHHHHHHHH
Q 028531 157 KFNAIARERIDTALQEGVEVLKLLL 181 (208)
Q Consensus 157 ~f~~~E~~~l~~~i~~a~~~l~~~~ 181 (208)
+.+.+|+++|..+|++..+.+..++
T Consensus 2 KVt~~EkeQLS~AID~mnEGLD~fI 26 (84)
T PF11458_consen 2 KVTDQEKEQLSTAIDRMNEGLDTFI 26 (84)
T ss_pred CCchHHHHHHHHHHHHHHhhHHHHH
Confidence 4577899999988888777666555
No 37
>PF07431 DUF1512: Protein of unknown function (DUF1512); InterPro: IPR009995 This family consists of several archaeal proteins of around 370 residues in length. The function of this family is unknown.
Probab=28.51 E-value=2.3e+02 Score=26.70 Aligned_cols=67 Identities=9% Similarity=0.058 Sum_probs=47.2
Q ss_pred hHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeC---CchhcccchhHHHHHHhcCCCCCcEEE
Q 028531 37 NVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKP---QTYMNLSGESTGPLAAYYKLPLNRVLV 105 (208)
Q Consensus 37 NvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP---~TyMNlSG~aV~~~~~~~ki~~~~ilV 105 (208)
.+|=+++-.|...... ...-++..+++..+.+.+++++|+ -.=.=.=|+||..+.+.++-.++.|+-
T Consensus 184 gaGPLVA~~l~~~~~~--~~~~~dtv~~e~~~egRrv~viKA~GPGstVGrpgeave~i~~~~~~k~~~IIT 253 (355)
T PF07431_consen 184 GAGPLVAGRLMENCSK--WEIAKDTVIAECEFEGRRVYVIKAEGPGSTVGRPGEAVEYIVEKLGGKVDLIIT 253 (355)
T ss_pred CcchHHHHHHHhcCcc--cccccccEEEEEEECCcEEEEEeccCCCccCCChHHHHHHHHHHhcCCccEEEE
Confidence 4677888888775443 222345677888999999999995 444455578899999988666665554
No 38
>PF08282 Hydrolase_3: haloacid dehalogenase-like hydrolase; InterPro: IPR013200 The Haloacid Dehydrogenase (HAD) superfamily includes phosphatases, phosphonatases, P-type ATPases, beta-phosphoglucomutases, phosphomannomutases, and dehalogenases, which are involved in a variety of cellular processes ranging from amino acid biosynthesis to detoxification []. This HAD domain is found in several distinct enzymes including: Phospholipid-transporting ATPase 1 (3.6.3.1 from EC), a putative lipid-flipping enzyme involved in cold tolerance in Arabidopsis [] 3-deoxy-D-manno-octulosonate (KDO) 8-phosphate phosphatase (3.1.3.45 from EC), which catalyses the final step in the biosynthesis of KDO - a component of lipopolysaccharide in Gram-negative bacteria [] Mannosyl-3-phosphoglycerate phosphatase (3.1.3.70 from EC), which hydrolyzes mannosyl-3-phosphoglycerate to form the osmolyte mannosylglycerate [] Phosphoglycolate phopshatase (3.1.3.18 from EC), which catalyses the dephosphorylation of 2-phosphoglycolate [] ; PDB: 2B30_B 3R4C_A 1XVI_B 3IJ5_B 3MMZ_C 3L7Y_A 1XPJ_C 1RLT_B 1RLM_B 2HF2_A ....
Probab=27.11 E-value=44 Score=27.04 Aligned_cols=27 Identities=19% Similarity=0.333 Sum_probs=23.6
Q ss_pred ccchhHHHHHHhcCCCCCcEEEEeccC
Q 028531 84 LSGESTGPLAAYYKLPLNRVLVFHDDM 110 (208)
Q Consensus 84 lSG~aV~~~~~~~ki~~~~ilVihDDl 110 (208)
.=|.++..+++.+++++++++++=|+.
T Consensus 186 sK~~ai~~l~~~~~i~~~~~~~~GD~~ 212 (254)
T PF08282_consen 186 SKGSAIKYLLEYLGISPEDIIAFGDSE 212 (254)
T ss_dssp SHHHHHHHHHHHHTTSGGGEEEEESSG
T ss_pred CHHHHHHHHhhhcccccceeEEeeccc
Confidence 346888999999999999999999875
No 39
>PRK10264 hydrogenase 1 maturation protease; Provisional
Probab=26.66 E-value=3.9e+02 Score=22.57 Aligned_cols=134 Identities=21% Similarity=0.216 Sum_probs=73.4
Q ss_pred CeeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhcC
Q 028531 18 PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYK 97 (208)
Q Consensus 18 ~~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~k 97 (208)
..+|+|+|||=. .-==+|..++++|.+++..+.. +.++.=. ..|. .++.+..
T Consensus 5 rilVlGiGN~L~----gDDGvG~~va~~L~~~~~~~~~-----------------V~vid~G----t~g~---~ll~~i~ 56 (195)
T PRK10264 5 RVVVMGLGNLLW----ADEGFGVRVAERLYAHYHWPEY-----------------VEIVDGG----TQGL---NLLGYVE 56 (195)
T ss_pred CEEEEEeCcccc----ccCcHHHHHHHHHHhhcCCCCC-----------------eEEEECC----CCHH---HHHHHHc
Confidence 468999999932 2234999999999876542210 1111000 1122 3333322
Q ss_pred CCCCcEEEEeccC--CCCCceEEEecC---------CCCCCC-CchHHHHHhhCCCCCCCCCC-----Cccc--cccccC
Q 028531 98 LPLNRVLVFHDDM--GLPCGVLRLRHN---------GGHGGH-NGLKSVMNNFRGIGRPPGQM-----DPKA--FLLQKF 158 (208)
Q Consensus 98 i~~~~ilVihDDl--dlp~G~irlk~~---------Gs~gGH-NGLkSI~~~LgGIGrP~~~~-----~v~~--yVLs~f 158 (208)
..+.+||.|=+ +.++|+++.-.. .+..-| -|+..+++...=.|+.|... .+.+ ..=-.+
T Consensus 57 --~~d~vIiVDAv~~g~~PGtv~~~~~~~~~~~~~~~~~S~H~~~l~~~L~l~~l~g~~P~~v~iiGiep~~~~~~g~~L 134 (195)
T PRK10264 57 --SASHLLILDAIDYGLEPGTLRTYAGERIPAYLSAKKMSLHQNSFSEVLALADIRGHLPAHIALVGLQPAMLDDYGGSL 134 (195)
T ss_pred --CCCEEEEEECCccCCCCCeEEEEehhhcccccccCCcCcccCCHHHHHHHHHHcCCCCCeEEEEEEEEeEecCCCCCC
Confidence 24567777754 568999887432 112334 68888876432012222111 1111 122477
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHH
Q 028531 159 NAIARERIDTALQEGVEVLKLLL 181 (208)
Q Consensus 159 ~~~E~~~l~~~i~~a~~~l~~~~ 181 (208)
|++=++.++++++.+.+.++.|.
T Consensus 135 Sp~V~~av~~~v~~i~~~l~~~~ 157 (195)
T PRK10264 135 SELAREQLPAAEQAALAQLAAWG 157 (195)
T ss_pred CHHHHHHHHHHHHHHHHHHHHcC
Confidence 88777788888777777776665
No 40
>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]
Probab=25.35 E-value=2.8e+02 Score=25.65 Aligned_cols=73 Identities=19% Similarity=0.173 Sum_probs=57.0
Q ss_pred CcccchHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhcccchhHHHHHHhcCCCCCcEEEE
Q 028531 32 KGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVF 106 (208)
Q Consensus 32 ~~TRHNvGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMNlSG~aV~~~~~~~ki~~~~ilVi 106 (208)
.-|+|+.--..++.=.+..|+.+.+.+.+-.+.....+|-++-.--|.|-|| -+.+..++..|+|.-.++++=
T Consensus 148 Datk~e~qr~~le~ELe~vGiRLNk~~Pniy~k~kk~gGi~f~~T~~lT~~~--ek~i~~ILheykI~Naevl~R 220 (364)
T KOG1486|consen 148 DATKSEDQREILEKELEAVGIRLNKRKPNIYFKKKKTGGISFNTTVPLTHCD--EKLIYTILHEYKIHNAEVLFR 220 (364)
T ss_pred cCCcchhHHHHHHHHHHHhceeccCCCCCeEEEeeccCCeEEeeeecccccc--HHHHHHHHHHHeeccceEEEe
Confidence 3478888888888888888999888777666666666777888888988765 477889999999977666653
No 41
>PRK10870 transcriptional repressor MprA; Provisional
Probab=24.68 E-value=70 Score=26.33 Aligned_cols=38 Identities=11% Similarity=0.229 Sum_probs=26.3
Q ss_pred ccccccCCHHHHHHHHHHHHHHHHHHHHHHhcC-HHHHH
Q 028531 152 AFLLQKFNAIARERIDTALQEGVEVLKLLLSKG-LTESA 189 (208)
Q Consensus 152 ~yVLs~f~~~E~~~l~~~i~~a~~~l~~~~~~~-~~~am 189 (208)
+-+++.|+++|++.+...+.+..+.++..-.+| +-+||
T Consensus 137 ~~~~~~ls~~e~~~l~~~L~kl~~~l~~~~~~~~~~~~~ 175 (176)
T PRK10870 137 HQLWSALSTTEKDQLEQITRKLLSRLDQMEQDGVVLEAM 175 (176)
T ss_pred HHHHhcCCHHHHHHHHHHHHHHHHHHHhhCCCchhhhhc
Confidence 456788888888888888777777776654443 44444
No 42
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=23.96 E-value=16 Score=24.29 Aligned_cols=27 Identities=15% Similarity=0.169 Sum_probs=18.0
Q ss_pred cccchhHHHHHHhcCCCCCcEEEEecc
Q 028531 83 NLSGESTGPLAAYYKLPLNRVLVFHDD 109 (208)
Q Consensus 83 NlSG~aV~~~~~~~ki~~~~ilVihDD 109 (208)
+.|-..+..+++++++++++++...+|
T Consensus 37 ~~~~~~l~~ia~~l~~~~~el~~~~~d 63 (63)
T PF13443_consen 37 NPSLDTLEKIAKALNCSPEELFEYEPD 63 (63)
T ss_dssp ---HHHHHHHHHHHT--HHHCTECCE-
T ss_pred cccHHHHHHHHHHcCCCHHHHhhcCCC
Confidence 345577889999999999999877665
No 43
>COG2344 AT-rich DNA-binding protein [General function prediction only]
Probab=23.95 E-value=56 Score=28.51 Aligned_cols=27 Identities=22% Similarity=0.393 Sum_probs=19.2
Q ss_pred HHHHHHHHhhcCCCCCeeEEEecCccC
Q 028531 3 INRFLRRGFCTAVARPWLFVGLGNPGD 29 (208)
Q Consensus 3 ~~~~~~~~~~~~~~~~~LIvGLGNPG~ 29 (208)
|.+||.+.+...+.--.+|||.||-|.
T Consensus 71 L~~ff~~~Lg~~~~tnviiVG~GnlG~ 97 (211)
T COG2344 71 LRDFFDDLLGQDKTTNVIIVGVGNLGR 97 (211)
T ss_pred HHHHHHHHhCCCcceeEEEEccChHHH
Confidence 556666666655555568999999775
No 44
>PF11242 DUF2774: Protein of unknown function (DUF2774); InterPro: IPR021404 This entry is represented by Bacteriophage T4, Gp24.3; it is a family of uncharacterised viral proteins.
Probab=23.66 E-value=34 Score=24.44 Aligned_cols=24 Identities=21% Similarity=0.213 Sum_probs=20.8
Q ss_pred chhcccchhHHHHHHhcCCCCCcE
Q 028531 80 TYMNLSGESTGPLAAYYKLPLNRV 103 (208)
Q Consensus 80 TyMNlSG~aV~~~~~~~ki~~~~i 103 (208)
-||..||....+|++.++|.+.++
T Consensus 7 hflhE~g~~FveIAr~~~i~a~e~ 30 (63)
T PF11242_consen 7 HFLHESGLSFVEIARKIGITAKEV 30 (63)
T ss_pred hhHHHcCCcHHHHHHHhCCCHHHH
Confidence 478999999999999999987654
No 45
>PF00472 RF-1: RF-1 domain; InterPro: IPR000352 Peptide chain release factors (RFs) are required for the termination of protein biosynthesis []. At present two classes of RFs can be distinguished. Class I RFs bind to ribosomes that have encountered a stop codon at their decoding site and induce release of the nascent polypeptide. Class II RFs are GTP-binding proteins that interact with class I RFs and enhance class I RF activity. In prokaryotes there are two class I RFs that act in a codon specific manner []: RF-1 (gene prfA) mediates UAA and UAG-dependent termination while RF-2 (gene prfB) mediates UAA and UGA-dependent termination. RF-1 and RF-2 are structurally and evolutionary related proteins which have been shown to be part of a larger family [].; GO: 0003747 translation release factor activity, 0006415 translational termination; PDB: 2JY9_A 1ZBT_A 1GQE_A 3F1G_X 3F1E_X 1RQ0_C 4DH9_Y 2JVA_A 1J26_A 3D5A_X ....
Probab=23.10 E-value=57 Score=25.19 Aligned_cols=22 Identities=27% Similarity=0.634 Sum_probs=16.1
Q ss_pred ccCCCCCceEEEe--cCCCCCCCC
Q 028531 108 DDMGLPCGVLRLR--HNGGHGGHN 129 (208)
Q Consensus 108 DDldlp~G~irlk--~~Gs~gGHN 129 (208)
.++++|...+.+. +++|.||+|
T Consensus 5 ~~~~i~~~dl~~~~~RssGpGGQ~ 28 (113)
T PF00472_consen 5 KEIDIPEKDLEISFSRSSGPGGQN 28 (113)
T ss_dssp SSSCC-GGGEEEEEEESSSSSSCH
T ss_pred cccccCHHHeEEEEEecCCCCCCc
Confidence 4677888877776 688899985
No 46
>PF11775 CobT_C: Cobalamin biosynthesis protein CobT VWA domain
Probab=22.81 E-value=1.3e+02 Score=26.48 Aligned_cols=56 Identities=21% Similarity=0.248 Sum_probs=30.3
Q ss_pred hcccchhHHHHHHhcCCCCC--cE-EEEeccCCCCCceEEEecCCCCCCCCchHHHHHhhC
Q 028531 82 MNLSGESTGPLAAYYKLPLN--RV-LVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR 139 (208)
Q Consensus 82 MNlSG~aV~~~~~~~ki~~~--~i-lVihDDldlp~G~irlk~~Gs~gGHNGLkSI~~~Lg 139 (208)
=|..|+|+..+.+...-.++ +| +||.|= -|...--+..+.+.-=.+=||.+++...
T Consensus 115 eniDGeAl~~a~~rL~~r~e~rkiLiViSDG--~P~d~st~~~n~~~~L~~HLr~vi~~ie 173 (219)
T PF11775_consen 115 ENIDGEALRWAAERLLARPEQRKILIVISDG--APADDSTLSANDGDYLDAHLRQVIAEIE 173 (219)
T ss_pred cCCcHHHHHHHHHHHHcCCccceEEEEEeCC--CcCcccccccCChHHHHHHHHHHHHHHh
Confidence 38899999977765433333 34 566663 3443322322333222345677776654
No 47
>PRK10976 putative hydrolase; Provisional
Probab=22.77 E-value=50 Score=28.07 Aligned_cols=26 Identities=23% Similarity=0.379 Sum_probs=22.9
Q ss_pred cchhHHHHHHhcCCCCCcEEEEeccC
Q 028531 85 SGESTGPLAAYYKLPLNRVLVFHDDM 110 (208)
Q Consensus 85 SG~aV~~~~~~~ki~~~~ilVihDDl 110 (208)
-|.+++.+++.++|++++++++=|..
T Consensus 191 Kg~al~~l~~~lgi~~~~viafGD~~ 216 (266)
T PRK10976 191 KGHALEAVAKKLGYSLKDCIAFGDGM 216 (266)
T ss_pred hHHHHHHHHHHcCCCHHHeEEEcCCc
Confidence 37889999999999999999998854
No 48
>KOG2882 consensus p-Nitrophenyl phosphatase [Inorganic ion transport and metabolism]
Probab=22.73 E-value=73 Score=29.38 Aligned_cols=38 Identities=24% Similarity=0.426 Sum_probs=31.2
Q ss_pred CeeEEEEeCCchhcccchhHHHHHHhcCCCCCcEEEEeccCCCC
Q 028531 70 DAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLP 113 (208)
Q Consensus 70 ~~~v~L~kP~TyMNlSG~aV~~~~~~~ki~~~~ilVihDDldlp 113 (208)
-+.+++=||.++|= ..+.+.|+|.|++.+.|-|-+|-+
T Consensus 217 R~P~v~GKP~~~m~------~~l~~~~~i~psRt~mvGDRL~TD 254 (306)
T KOG2882|consen 217 RQPIVLGKPSTFMF------EYLLEKFNIDPSRTCMVGDRLDTD 254 (306)
T ss_pred CCCeecCCCCHHHH------HHHHHHcCCCcceEEEEcccchhh
Confidence 35688999999983 346788999999999999988654
No 49
>PRK10513 sugar phosphate phosphatase; Provisional
Probab=22.39 E-value=49 Score=28.14 Aligned_cols=25 Identities=20% Similarity=0.268 Sum_probs=22.6
Q ss_pred chhHHHHHHhcCCCCCcEEEEeccC
Q 028531 86 GESTGPLAAYYKLPLNRVLVFHDDM 110 (208)
Q Consensus 86 G~aV~~~~~~~ki~~~~ilVihDDl 110 (208)
|.++..+++.++|++++++++=|..
T Consensus 198 g~al~~l~~~~gi~~~~v~afGD~~ 222 (270)
T PRK10513 198 GTGVKSLAEHLGIKPEEVMAIGDQE 222 (270)
T ss_pred HHHHHHHHHHhCCCHHHEEEECCch
Confidence 6888999999999999999999865
No 50
>cd06392 PBP1_iGluR_delta_1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 may be closer related to non-NMDA receptors. In contrast to GluRdelta2, GluRdel
Probab=22.20 E-value=91 Score=29.23 Aligned_cols=33 Identities=24% Similarity=0.317 Sum_probs=25.6
Q ss_pred EEEEeCCchhcccchhHHHHHHhcCCCCCcEEEEeccC
Q 028531 73 VLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDM 110 (208)
Q Consensus 73 v~L~kP~TyMNlSG~aV~~~~~~~ki~~~~ilVihDDl 110 (208)
.++++|..+.|. |+..++.+|+. .++++||||=
T Consensus 116 ~~~lrp~~~~~~---Ai~dlV~~~~W--~~v~~iYD~d 148 (400)
T cd06392 116 TLAARPPVRLND---VMLKLVTELRW--QKFIVFYDSE 148 (400)
T ss_pred eEEecCchHHHH---HHHHHHHhCCC--cEEEEEEECc
Confidence 478899644433 99999999987 6899999753
No 51
>TIGR00685 T6PP trehalose-phosphatase. At least 18 distinct sequences from Arabidopsis have been identified, roughly half of these are of the fungal type, with a fused synthase and half are like the bacterial members having only the phosphatase domain. It has been suggested that trehalose is being used in Arabidopsis as a regulatory molecule in development and possibly other processes.
Probab=22.18 E-value=1.6e+02 Score=25.04 Aligned_cols=40 Identities=20% Similarity=0.073 Sum_probs=32.7
Q ss_pred CCeeEEEEeCCchhcccchhHHHHHHhcCCCCCcEEEEeccC
Q 028531 69 GDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDM 110 (208)
Q Consensus 69 ~~~~v~L~kP~TyMNlSG~aV~~~~~~~ki~~~~ilVihDDl 110 (208)
.+..++-++|... .-|.++..+++.+++++++++.|=||.
T Consensus 154 ~g~~~~e~~p~~~--~Kg~a~~~~~~~~~~~~~~~i~iGD~~ 193 (244)
T TIGR00685 154 DGKAVVELKPRFV--NKGEIVKRLLWHQPGSGISPVYLGDDI 193 (244)
T ss_pred ECCeEEEEeeCCC--CHHHHHHHHHHhcccCCCceEEEcCCC
Confidence 3456677788755 678999999999999889999999885
No 52
>PRK06437 hypothetical protein; Provisional
Probab=21.99 E-value=1.3e+02 Score=20.92 Aligned_cols=29 Identities=7% Similarity=-0.011 Sum_probs=24.5
Q ss_pred cchhHHHHHHhcCCCCCcEEEEeccCCCC
Q 028531 85 SGESTGPLAAYYKLPLNRVLVFHDDMGLP 113 (208)
Q Consensus 85 SG~aV~~~~~~~ki~~~~ilVihDDldlp 113 (208)
.|..|+++++.++++++.+.|.++.--+|
T Consensus 19 ~~~tv~dLL~~Lgi~~~~vaV~vNg~iv~ 47 (67)
T PRK06437 19 HELTVNDIIKDLGLDEEEYVVIVNGSPVL 47 (67)
T ss_pred CCCcHHHHHHHcCCCCccEEEEECCEECC
Confidence 44678999999999999999998877666
No 53
>PF12896 Apc4: Anaphase-promoting complex, cyclosome, subunit 4; InterPro: IPR024790 Apc4 is one of the larger of the subunits of the anaphase-promoting complex (APC) or cyclosome. The anaphase-promoting complex is a multiprotein subunit E3 ubiquitin ligase complex that controls segregation of chromosomes and exit from mitosis in eukaryotes [, ]. Results in Caenorhabditis elegans show that the primary essential role of the spindle assembly checkpoint is not in the chromosome segregation process itself but rather in delaying anaphase onset until all chromosomes are properly attached to the spindle. The APC is likely to be required for all metaphase-to-anaphase transitions in a multicellular organism []. This entry represents the long domain downstream of the WD40 repeat/s that are present on the Apc4 subunits.
Probab=21.67 E-value=1.1e+02 Score=25.39 Aligned_cols=44 Identities=18% Similarity=0.295 Sum_probs=37.8
Q ss_pred CccccccccCCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHh
Q 028531 149 DPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESARHF 192 (208)
Q Consensus 149 ~v~~yVLs~f~~~E~~~l~~~i~~a~~~l~~~~~~~~~~amn~~ 192 (208)
.+.+|....+++.-.+++++.++.+.+.+..++.+.+..|+.++
T Consensus 90 ~l~~fL~~~l~erglKr~~k~~~~~y~~i~~l~~~~l~pa~erl 133 (210)
T PF12896_consen 90 ALKQFLVNQLGERGLKRWEKAVDSAYSSIRKLLFEHLIPALERL 133 (210)
T ss_pred HHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 66799999999999999999999999999988887777776554
No 54
>COG1214 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=20.87 E-value=1.3e+02 Score=25.84 Aligned_cols=32 Identities=28% Similarity=0.579 Sum_probs=27.1
Q ss_pred eeEEEecCccCCcCcccchHHHHHHHHHHHHcCCCC
Q 028531 19 WLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISM 54 (208)
Q Consensus 19 ~LIvGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~ 54 (208)
.+.||.| ||+ |.+.| ||.-++..||-.+++++
T Consensus 61 ~iav~~G-PGS-FTGlR--IG~~~AkgLA~~l~ipl 92 (220)
T COG1214 61 AIAVAKG-PGS-FTGLR--IGVAFAKGLALALNIPL 92 (220)
T ss_pred EEEEccC-CCc-ccchh--hHHHHHHHHHHHcCCCE
Confidence 5889998 896 88888 78888999999988875
No 55
>PF15479 DUF4639: Domain of unknown function (DUF4639)
Probab=20.72 E-value=2.1e+02 Score=28.42 Aligned_cols=53 Identities=11% Similarity=0.147 Sum_probs=33.8
Q ss_pred ccccccccCCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHhhchhhhhhhhccCCC
Q 028531 150 PKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESARHFNTIQKYKHIRLQNMP 207 (208)
Q Consensus 150 v~~yVLs~f~~~E~~~l~~~i~~a~~~l~~~~~~~~~~amn~~n~~~~~~~~~~~~~~ 207 (208)
..|-|=++|++.|...|-+ .+.+.+.+-+++++=++.+|+.+- ..||.-|..|
T Consensus 27 ~vDIVPGR~~E~eW~~L~~-~EegEd~v~DIv~dil~~vm~~~f----~~Yl~~Q~iP 79 (576)
T PF15479_consen 27 QVDIVPGRLTEAEWNALME-LEEGEDFVGDIVEDILDRVMEIIF----KRYLTKQCIP 79 (576)
T ss_pred cceecCCccCHHHHHHHHh-hhcchhHHHHHHHHHHHHHHHHHH----HHHHHhcccc
Confidence 3589999999999887633 344455555555555556666543 4566666554
No 56
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=20.65 E-value=61 Score=29.45 Aligned_cols=31 Identities=16% Similarity=0.300 Sum_probs=24.4
Q ss_pred HHHHhcCCCCCcEEEEeccCCCCCceEEEec
Q 028531 91 PLAAYYKLPLNRVLVFHDDMGLPCGVLRLRH 121 (208)
Q Consensus 91 ~~~~~~ki~~~~ilVihDDldlp~G~irlk~ 121 (208)
.++...+..++.+||+|||+...-|.-..|.
T Consensus 129 ~l~~~Lr~~~~kFIlFcDDLSFe~gd~~yK~ 159 (287)
T COG2607 129 DLVELLRARPEKFILFCDDLSFEEGDDAYKA 159 (287)
T ss_pred HHHHHHhcCCceEEEEecCCCCCCCchHHHH
Confidence 3455556678999999999999999876654
No 57
>PRK08179 prfH peptide chain release factor-like protein; Reviewed
Probab=20.62 E-value=74 Score=27.44 Aligned_cols=28 Identities=21% Similarity=0.359 Sum_probs=22.0
Q ss_pred EEEEeccCCCCCceEEEe--cCCCCCCCCc
Q 028531 103 VLVFHDDMGLPCGVLRLR--HNGGHGGHNG 130 (208)
Q Consensus 103 ilVihDDldlp~G~irlk--~~Gs~gGHNG 130 (208)
+.|+-.+++++...+++. +.+|+||+|=
T Consensus 95 V~v~~~~~~i~~~dl~~~~~RssGpGGQ~V 124 (200)
T PRK08179 95 IGRFSADEEEQSDEIRFETLRSSGPGGQHV 124 (200)
T ss_pred EEEeCCcCccCHHHeEEEEEEccCCccccc
Confidence 556667888999999876 5789999953
No 58
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=20.11 E-value=2.4e+02 Score=19.53 Aligned_cols=24 Identities=13% Similarity=0.250 Sum_probs=17.5
Q ss_pred ccCCHHHHHHHHHHHHHHHHHHHH
Q 028531 156 QKFNAIARERIDTALQEGVEVLKL 179 (208)
Q Consensus 156 s~f~~~E~~~l~~~i~~a~~~l~~ 179 (208)
.+||++|.+.|-+.+..-.+.++.
T Consensus 3 ~~fs~~E~~~Lv~~v~~~~~il~~ 26 (78)
T PF13873_consen 3 PNFSEEEKEILVELVEKHKDILEN 26 (78)
T ss_pred CCCCHHHHHHHHHHHHHhHHHHhc
Confidence 479999999887776665555543
Done!