Query 028433
Match_columns 209
No_of_seqs 216 out of 1047
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 11:27:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028433.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028433hhsearch_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 5.2E-74 1.1E-78 483.2 18.7 179 17-196 1-189 (190)
2 cd02406 CRS2 Chloroplast RNA s 100.0 5.9E-73 1.3E-77 478.9 20.1 180 17-197 1-190 (191)
3 TIGR00447 pth peptidyl-tRNA hy 100.0 4E-71 8.8E-76 466.8 20.5 177 18-195 1-188 (188)
4 PRK05426 peptidyl-tRNA hydrola 100.0 1.4E-69 3.1E-74 457.6 20.5 178 17-196 1-188 (189)
5 PF01195 Pept_tRNA_hydro: Pept 100.0 3.6E-68 7.9E-73 446.7 16.7 174 20-194 1-184 (184)
6 cd00462 PTH Peptidyl-tRNA hydr 100.0 9.1E-68 2E-72 440.6 17.9 162 20-182 1-171 (171)
7 KOG2255 Peptidyl-tRNA hydrolas 100.0 5.6E-52 1.2E-56 350.5 12.9 172 18-194 39-221 (224)
8 cd06070 H2MP_like-2 Putative [ 95.0 0.26 5.5E-06 39.4 9.2 85 20-140 1-97 (140)
9 PRK11544 hycI hydrogenase 3 ma 93.6 1.2 2.6E-05 36.4 10.6 130 19-185 3-146 (156)
10 cd06062 H2MP_MemB-H2up Endopep 93.0 3.2 7E-05 33.2 12.0 124 20-174 2-142 (146)
11 COG0680 HyaD Ni,Fe-hydrogenase 90.5 7 0.00015 32.4 11.6 130 17-181 2-154 (160)
12 TIGR00130 frhD coenzyme F420-r 90.1 8.8 0.00019 31.0 12.0 95 18-140 4-108 (153)
13 PRK12362 germination protease; 86.8 5.6 0.00012 36.8 9.3 126 5-146 87-230 (318)
14 TIGR00142 hycI hydrogenase mat 86.1 16 0.00034 29.2 12.3 91 20-140 2-100 (146)
15 TIGR00072 hydrog_prot hydrogen 73.0 3.4 7.4E-05 33.0 2.8 90 20-140 1-101 (145)
16 cd06064 H2MP_F420-Reduc Endope 56.4 11 0.00023 30.3 2.7 93 20-141 1-106 (150)
17 PRK10466 hybD hydrogenase 2 ma 55.7 17 0.00037 29.7 3.8 30 18-52 2-31 (164)
18 PF06154 YagB_YeeU_YfjZ: YagB/ 54.3 23 0.0005 27.6 4.1 32 152-184 33-64 (103)
19 PF03418 Peptidase_A25: Germin 50.8 19 0.00042 33.8 3.7 127 16-161 95-248 (354)
20 PRK09256 hypothetical protein; 49.3 8.8 0.00019 31.2 1.1 26 106-131 3-30 (138)
21 cd06068 H2MP_like-1 Putative [ 49.1 16 0.00034 29.1 2.6 26 20-50 1-26 (144)
22 PF14490 HHH_4: Helix-hairpin- 46.8 12 0.00025 27.9 1.4 27 26-56 43-71 (94)
23 cd06067 H2MP_MemB-H2evol Endop 45.0 21 0.00045 28.2 2.7 93 20-143 1-101 (136)
24 cd00518 H2MP Hydrogenase speci 43.7 24 0.00052 27.7 2.9 89 20-140 1-99 (139)
25 cd06066 H2MP_NAD-link-bidir En 43.0 26 0.00056 27.8 2.9 27 20-51 1-27 (139)
26 PRK02858 germination protease; 40.5 21 0.00045 33.7 2.3 80 16-112 110-195 (369)
27 cd06063 H2MP_Cyano-H2up This g 40.3 31 0.00066 27.6 3.0 26 20-50 2-27 (146)
28 TIGR01441 GPR GPR endopeptidas 39.7 22 0.00047 33.5 2.3 80 16-112 100-185 (358)
29 PF06466 PCAF_N: PCAF (P300/CB 39.4 53 0.0011 29.5 4.6 55 141-195 135-197 (252)
30 PF13075 DUF3939: Protein of u 36.8 95 0.0021 25.6 5.3 59 101-184 30-93 (140)
31 cd00736 bacteriophage_lambda_l 36.6 59 0.0013 27.0 4.2 42 154-195 81-122 (151)
32 PHA00415 25 baseplate wedge su 35.5 80 0.0017 25.3 4.7 69 108-181 8-85 (131)
33 COG2897 SseA Rhodanese-related 34.0 41 0.00089 30.5 3.1 30 81-110 69-98 (285)
34 COG2179 Predicted hydrolase of 33.4 31 0.00068 29.4 2.1 29 86-114 95-123 (175)
35 KOG1486 GTP-binding protein DR 32.6 1.8E+02 0.0038 27.0 6.8 73 32-107 148-220 (364)
36 PF07431 DUF1512: Protein of u 31.4 1.9E+02 0.0042 27.2 7.1 128 39-183 185-333 (355)
37 PF13443 HTH_26: Cro/C1-type H 30.8 13 0.00028 24.9 -0.6 27 84-110 37-63 (63)
38 PF08282 Hydrolase_3: haloacid 28.5 45 0.00098 27.0 2.3 25 87-111 188-212 (254)
39 KOG2882 p-Nitrophenyl phosphat 28.2 53 0.0011 30.3 2.8 40 70-115 216-255 (306)
40 PRK10870 transcriptional repre 27.6 57 0.0012 26.9 2.7 38 153-190 137-175 (176)
41 PF15608 PELOTA_1: PELOTA RNA 26.3 1.7E+02 0.0037 22.7 4.9 16 39-54 20-35 (100)
42 PRK10513 sugar phosphate phosp 26.0 40 0.00087 28.7 1.6 25 87-111 198-222 (270)
43 PRK10976 putative hydrolase; P 26.0 43 0.00093 28.5 1.7 26 86-111 191-216 (266)
44 PF00472 RF-1: RF-1 domain; I 25.5 47 0.001 25.7 1.7 22 109-130 5-28 (113)
45 PF11242 DUF2774: Protein of u 25.0 27 0.00058 25.0 0.2 24 81-104 7-30 (63)
46 PF11458 Mistic: Membrane-inte 24.6 1.3E+02 0.0028 22.5 3.7 25 158-182 2-26 (84)
47 PRK10264 hydrogenase 1 maturat 24.1 1.2E+02 0.0026 25.8 4.1 133 19-182 6-157 (195)
48 PF06342 DUF1057: Alpha/beta h 23.5 2.4E+02 0.0052 26.0 6.1 62 106-169 24-94 (297)
49 COG2607 Predicted ATPase (AAA+ 23.5 48 0.001 30.2 1.6 30 92-121 129-158 (287)
50 PRK08179 prfH peptide chain re 23.4 59 0.0013 28.1 2.1 28 104-131 95-124 (200)
51 PRK06437 hypothetical protein; 23.0 1.1E+02 0.0023 21.4 3.1 29 86-114 19-47 (67)
52 PF13873 Myb_DNA-bind_5: Myb/S 22.9 1.9E+02 0.0042 20.1 4.4 39 157-195 3-50 (78)
53 TIGR01485 SPP_plant-cyano sucr 22.9 79 0.0017 26.9 2.8 27 85-111 167-193 (249)
54 PF14156 AbbA_antirepres: Anti 22.6 93 0.002 22.2 2.6 18 156-173 6-23 (63)
55 cd06392 PBP1_iGluR_delta_1 N-t 22.5 99 0.0021 29.1 3.6 33 74-111 116-148 (400)
56 COG5343 Uncharacterized protei 22.3 1.1E+02 0.0025 27.1 3.6 31 152-182 19-52 (240)
57 PRK15126 thiamin pyrimidine py 21.9 47 0.001 28.5 1.2 26 86-111 189-214 (272)
58 PTZ00397 macrophage migration 21.7 1E+02 0.0022 23.4 2.9 75 35-113 17-105 (116)
59 TIGR03072 release_prfH putativ 21.4 83 0.0018 27.2 2.6 28 104-131 94-123 (200)
60 COG4128 Zot Zonula occludens t 20.9 89 0.0019 29.4 2.8 42 84-125 36-77 (398)
61 cd01896 DRG The developmentall 20.7 3.4E+02 0.0073 23.1 6.3 65 44-111 97-161 (233)
62 PF12896 Apc4: Anaphase-promot 20.6 1.2E+02 0.0026 25.2 3.4 50 142-193 84-133 (210)
63 TIGR02463 MPGP_rel mannosyl-3- 20.6 92 0.002 25.7 2.7 26 86-111 180-205 (221)
64 PRK01158 phosphoglycolate phos 20.4 59 0.0013 26.8 1.5 25 87-111 159-183 (230)
65 TIGR01683 thiS thiamine biosyn 20.1 1.4E+02 0.003 20.3 3.1 28 87-114 13-40 (64)
No 1
>COG0193 Pth Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.2e-74 Score=483.17 Aligned_cols=179 Identities=41% Similarity=0.745 Sum_probs=173.6
Q ss_pred CCeeEEEecCcccCcCCCcchHHHHHHHHHHHHHcCCCC-CccccceEEEEEEECCeeEEEEeCCchhhhchhhHHHHHH
Q 028433 17 RPWLFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQGISM-NTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAA 95 (209)
Q Consensus 17 ~~~LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~~~~~-~~~k~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~ 95 (209)
.|+|||||||||++|+.|||| ||||++|.||++++.++ +.++|.++++++.+.+++|+|+||+||||+||++|.++++
T Consensus 1 ~~kLIVGLGNPG~~Y~~TRHN-vGf~~vD~La~~~~~~~~~~~kf~~~~~~~~i~g~kv~l~kP~TyMNlSG~~V~~~~~ 79 (190)
T COG0193 1 MMKLIVGLGNPGKKYAKTRHN-VGFMVVDLLARRLNLSFKEEKKFNGLVAKGTIEGEKVILLKPTTYMNLSGKAVGALAS 79 (190)
T ss_pred CcEEEEECCCCchhhcccchh-HHHHHHHHHHHHhCCCCccccccCceeEEEEeCCcEEEEecCccceeCcHHHHHHHHH
Confidence 478999999999999999999 99999999999999998 5678999999999999999999999999999999999999
Q ss_pred hcCCCCCceEEEeecCCCCCceEEEecCCCCCCCCchHHHHHhcC---------CCCCCCCCCCccccccCcCCHHHHHH
Q 028433 96 YYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR---------GIGRPPGQMDPKAFLLQKFNAIARER 166 (209)
Q Consensus 96 ~~ki~~~~ilVvhDDldlp~G~irlk~gGs~gGHNGLkSIi~~Lg---------GIGrP~~~~~v~~yVLs~fs~~E~~~ 166 (209)
||+++|++|||||||||||+|++|+|.+||+|||||||||+++|| |||||+.+++|++|||++|+++|++.
T Consensus 80 fy~i~~~~ilVvhDdLdl~~G~vrlk~~Gg~gGHNGlKSi~~~lGt~~f~RlRiGIGrP~~~~~v~~~VL~~f~~~E~~~ 159 (190)
T COG0193 80 FYKIKPEDILVVHDELDLPLGKVRLKLGGGAGGHNGLKSIIAHLGTNNFYRLRIGIGRPGNGEDVADYVLGKFSKEEREL 159 (190)
T ss_pred HhCCCHHHEEEEeeccCCCCceEEEEcCCCCCCcccHHHHHHHhCCCccceEEEEcCCCCCCCchhHhhcCCCCHHHHHH
Confidence 999999999999999999999999999999999999999999999 99999888899999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhcCHHHHHHhhhch
Q 028433 167 IDTALQEGVEVLKLLLSKGLTESARHFNTI 196 (209)
Q Consensus 167 l~~~i~~~~~al~~~l~~~~~~amn~~N~~ 196 (209)
|++++++++++++.|++.++++|||+||+.
T Consensus 160 l~~~~~~a~~~~~~~~~~~~~~~mn~~~~~ 189 (190)
T COG0193 160 LDKAIDKAADALELLLEGDFEKAMNKLNAL 189 (190)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHhcc
Confidence 999999999999999999999999999974
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=5.9e-73 Score=478.92 Aligned_cols=180 Identities=64% Similarity=1.127 Sum_probs=172.5
Q ss_pred CCeeEEEecCcccCcCCCcchHHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhhhchhhHHHHHHh
Q 028433 17 RPWLFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAY 96 (209)
Q Consensus 17 ~~~LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~ 96 (209)
.|+|||||||||++|++|||| |||+++|.||+++++++++.+++++++++.+.+++|+|+||+||||+||+||+++++|
T Consensus 1 ~~~LIvGLGNPG~~Y~~TRHN-iGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMN~SG~aV~~~~~~ 79 (191)
T cd02406 1 TPWLIAGLGNPGNKYKGTRHN-VGFEMVDRIAEAEGITMNTIQFKSLLGIGSIGDVPVLLAKPQTYMNYSGESVGPLAAY 79 (191)
T ss_pred CcEEEEEcCCCchhhCcCchh-HHHHHHHHHHHHcCCCccccccceEEEEEEECCeEEEEEeCCCchhcCHHHHHHHHHH
Confidence 478999999999999999999 9999999999999998876788899999999999999999999999999999999999
Q ss_pred cCCCCCceEEEeecCCCCCceEEEecCCCCCCCCchHHHHHhc-C---------CCCCCCCCCCccccccCcCCHHHHHH
Q 028433 97 YKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNF-R---------GIGRPPGQMDPKAFLLQKFNAIARER 166 (209)
Q Consensus 97 ~ki~~~~ilVvhDDldlp~G~irlk~gGs~gGHNGLkSIi~~L-g---------GIGrP~~~~~v~~yVLs~fs~~E~~~ 166 (209)
|+++++++||||||||||+|++|+|.+||+|||||||||+++| | |||||+.+.++++|||++|+++|++.
T Consensus 80 yki~~~~ilVihDdldl~~G~irlk~gGs~gGHNGlkSI~~~Lggt~~f~RlrIGIGrP~~~~~v~~yVL~~f~~~E~~~ 159 (191)
T cd02406 80 YKVPLRHILVIYDDMSLPNGVLRLQPKGGHGRHNGLQSVIEHLDGSREFPRLSIGIGSPPGKMDPRAFLLQKFSSEEREQ 159 (191)
T ss_pred hCCCHHHEEEEEECCCCCCCeEEEcCCCCCCCcCCHHHHHHHhCCCCCeEEEEEEeCCCCCCCchhhhhcCCCCHHHHHH
Confidence 9999999999999999999999999999999999999999999 5 99999776789999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhcCHHHHHHhhhchh
Q 028433 167 IDTALQEGVEVLKLLLSKGLTESARHFNTIQ 197 (209)
Q Consensus 167 l~~~i~~~~~al~~~l~~~~~~amn~~N~~~ 197 (209)
|+++++.++++++.|+.+++++|||+||+.+
T Consensus 160 l~~~~~~a~~~~~~~~~~~~~~~~n~~n~~~ 190 (191)
T cd02406 160 IDTALEQGVDAVRTLVLKGFNGSAERFNLVQ 190 (191)
T ss_pred HHHHHHHHHHHHHHHHHCCHHHHHHHHhCCC
Confidence 9999999999999999999999999999754
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=4e-71 Score=466.75 Aligned_cols=177 Identities=42% Similarity=0.743 Sum_probs=169.6
Q ss_pred CeeEEEecCcccCcCCCcchHHHHHHHHHHHHHcCCCCC-ccccceEEEEEEECCeeEEEEeCCchhhhchhhHHHHHHh
Q 028433 18 PWLFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQGISMN-TVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAY 96 (209)
Q Consensus 18 ~~LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~~~~~~-~~k~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~ 96 (209)
|+|||||||||++|++|||| ||||++|.||++++.+++ +.++.+++++..+.+++|+|+||+||||+||++|+++++|
T Consensus 1 ~~LIvGLGNPG~~Y~~TRHN-iGf~~ld~La~~~~~~~~~~~~~~~~~~~~~~~~~~v~L~kP~TyMN~SG~~V~~~~~~ 79 (188)
T TIGR00447 1 IKLIVGLGNPGKKYAGTRHN-AGFWVLDLLASRLGLSLRTEKKFFGYTERGLLSGKKVILLKPLTYMNLSGEAVRALASF 79 (188)
T ss_pred CEEEEEeCCCchhhCcCchH-HHHHHHHHHHHHcCcCCcccccceEEEEEEEECCeEEEEEeCCcchhcCcHHHHHHHHH
Confidence 68999999999999999999 999999999999998876 3567788888889999999999999999999999999999
Q ss_pred cCCCCCceEEEeecCCCCCceEEEecCCCCCCCCchHHHHHhcC---------CCCCCCCCCCccccccCcCCHHHHHHH
Q 028433 97 YKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR---------GIGRPPGQMDPKAFLLQKFNAIARERI 167 (209)
Q Consensus 97 ~ki~~~~ilVvhDDldlp~G~irlk~gGs~gGHNGLkSIi~~Lg---------GIGrP~~~~~v~~yVLs~fs~~E~~~l 167 (209)
|+++++++||||||||||+|++|+|++||+|||||||||+++|| |||||+.+.++++|||++|+++|++.+
T Consensus 80 ~~i~~~~ilVihDdldl~~G~irlk~~G~~gGHNGlkSI~~~lgt~~f~RlrIGIGrP~~~~~v~~yVL~~f~~~e~~~l 159 (188)
T TIGR00447 80 YRIKPAELLVVHDELDLPLGKVRLKMGGGAGGHNGLKSIISHLGTNNFNRLRIGIGSPGGSNKVVEFVLSKFTKSELPLL 159 (188)
T ss_pred hCCChHHEEEEEecCCCCCceEEEecCCCCCCcCCHHHHHHHhCCCCcceEEEEeCCCCCCCchhhhccCCCCHHHHHHH
Confidence 99999999999999999999999999999999999999999999 999998777899999999999999999
Q ss_pred HHHHHHHHHHHHHHHhcC-HHHHHHhhhc
Q 028433 168 DTALQEGVEVLKLLLSKG-LTESARHFNT 195 (209)
Q Consensus 168 ~~~i~~~~~al~~~l~~~-~~~amn~~N~ 195 (209)
+++++.++++++.|++++ +++|||+||+
T Consensus 160 ~~~i~~~~~~~~~~~~~~~~~~~~n~~n~ 188 (188)
T TIGR00447 160 EKALDKAVEALEMSFSEGAFLKAMNRFNS 188 (188)
T ss_pred HHHHHHHHHHHHHHHHCCCHHHHHHHhhC
Confidence 999999999999999988 9999999985
No 4
>PRK05426 peptidyl-tRNA hydrolase; Provisional
Probab=100.00 E-value=1.4e-69 Score=457.61 Aligned_cols=178 Identities=42% Similarity=0.772 Sum_probs=169.5
Q ss_pred CCeeEEEecCcccCcCCCcchHHHHHHHHHHHHHcCCCCC-ccccceEEEEEEECCeeEEEEeCCchhhhchhhHHHHHH
Q 028433 17 RPWLFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQGISMN-TVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAA 95 (209)
Q Consensus 17 ~~~LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~~~~~~-~~k~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~ 95 (209)
+|+|||||||||++|++|||| |||+++|.||++++..+. ..++.+.++++.+.+++++|+||+||||+||++|.++++
T Consensus 1 ~~~LivGLGNPG~~Y~~TRHN-vGf~~ld~la~~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMN~SG~~V~~~~~ 79 (189)
T PRK05426 1 MMKLIVGLGNPGPEYANTRHN-IGFMVVDELARRLGGSLKEKKKFKGLIAEGRINGEKVILLKPQTYMNLSGKAVAALAN 79 (189)
T ss_pred CcEEEEEeCCCchhhCcCchH-HHHHHHHHHHHHcCCCCcccccccEEEEEEEECCeEEEEEeCCcchhcCcHHHHHHHH
Confidence 379999999999999999999 999999999999887654 457788999999988999999999999999999999999
Q ss_pred hcCCCCCceEEEeecCCCCCceEEEecCCCCCCCCchHHHHHhcC---------CCCCCCCCCCccccccCcCCHHHHHH
Q 028433 96 YYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR---------GIGRPPGQMDPKAFLLQKFNAIARER 166 (209)
Q Consensus 96 ~~ki~~~~ilVvhDDldlp~G~irlk~gGs~gGHNGLkSIi~~Lg---------GIGrP~~~~~v~~yVLs~fs~~E~~~ 166 (209)
||++++++++|||||+|+|+|++|+|.+||+|||||||||+++|| |||||+ ..++++|||++|+++|++.
T Consensus 80 ~~~i~~~~ilVihDdldl~~G~~r~k~gGs~~GHNGlkSI~~~lgt~~f~RlriGIGrP~-~~~v~~yVL~~f~~~E~~~ 158 (189)
T PRK05426 80 FYKIPPEDILVIHDDLDLPPGKIRLKKGGGAGGHNGLKSIIAHLGTQDFWRLRIGIGRPD-KKKVVDYVLGKFSKEEQEL 158 (189)
T ss_pred HhCCCHHHEEEEEecCCCCCceEEEecCCCCCCcCCHHHHHHHhCCCCeeEEEEEeCCCC-CCCcchhhcCCCCHHHHHH
Confidence 999999999999999999999999999999999999999999999 999997 5679999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhcCHHHHHHhhhch
Q 028433 167 IDTALQEGVEVLKLLLSKGLTESARHFNTI 196 (209)
Q Consensus 167 l~~~i~~~~~al~~~l~~~~~~amn~~N~~ 196 (209)
++++++.|+++++.|++++++++||+||++
T Consensus 159 l~~~~~~a~~~v~~~~~~~~~~~~~~~n~~ 188 (189)
T PRK05426 159 LDKAIDKAADAIELLLEGGFEKAMNKFNSK 188 (189)
T ss_pred HHHHHHHHHHHHHHHHHCCHHHHHHHHhCC
Confidence 999999999999999999999999999964
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=3.6e-68 Score=446.67 Aligned_cols=174 Identities=43% Similarity=0.819 Sum_probs=154.7
Q ss_pred eEEEecCcccCcCCCcchHHHHHHHHHHHHHcCCCCCcc-ccceEEEEEEECCeeEEEEeCCchhhhchhhHHHHHHhcC
Q 028433 20 LFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQGISMNTV-HCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYK 98 (209)
Q Consensus 20 LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~~~~~~~~-k~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~k 98 (209)
|||||||||++|++|||| |||+++|+||++++.++... ++++.++++.+.+++++|+||+||||+||++|++++++|+
T Consensus 1 LivGLGNPG~~Y~~TRHN-vG~~~ld~la~~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP~TyMN~SG~~V~~~~~~~~ 79 (184)
T PF01195_consen 1 LIVGLGNPGPKYENTRHN-VGFMVLDRLASRLGLSWKQKKKFKSLISEGSIKGEKVILLKPQTYMNLSGKAVKKILSFYK 79 (184)
T ss_dssp EEEE---SSTTTTTSGGG-HHHHHHHHHHHHTT---EEEGGGTEEEEEEEETTEEEEEEEESSTGGGHHHHHHHHHHHTT
T ss_pred CEEEcCCCChhhcCCCcC-chHHHHHHHHHHhCCCccccccceeEEEEEEEeeeeEEEEcCCCeEeCccHhHHHHHHHhC
Confidence 799999999999999999 99999999999999888654 4788899888999999999999999999999999999999
Q ss_pred CCCCceEEEeecCCCCCceEEEecCCCCCCCCchHHHHHhcC---------CCCCCCCCCCccccccCcCCHHHHHHHHH
Q 028433 99 LPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR---------GIGRPPGQMDPKAFLLQKFNAIARERIDT 169 (209)
Q Consensus 99 i~~~~ilVvhDDldlp~G~irlk~gGs~gGHNGLkSIi~~Lg---------GIGrP~~~~~v~~yVLs~fs~~E~~~l~~ 169 (209)
+++++++|||||+|+|+|++|+|++||+|||||||||+++|| |||||+.+.++++|||++|+++|++.+++
T Consensus 80 i~~~~ilVihDdldl~~G~irlk~~Gs~~GHNGlkSI~~~Lgt~~f~RlrIGIGrp~~~~~v~~yVL~~f~~~E~~~l~~ 159 (184)
T PF01195_consen 80 IPPENILVIHDDLDLPLGKIRLKKGGSSGGHNGLKSIIQHLGTEDFPRLRIGIGRPPSKEDVADYVLSKFSPEERELLDK 159 (184)
T ss_dssp --GGGEEEEEEETTSSTTEEEEEESS--TT-HHHHHHHHHCTSSGSEEEEEEE--TSTTSGHHHHHTSB-HHHHHHHHHH
T ss_pred CCcceEEEEEeccCCCCCeEEEccCCCCCCCCCHHHHHHHhccccceeEEEecCCCCCcchHHHHHhcCCCHHHHHHHHH
Confidence 999999999999999999999999999999999999999999 99999877889999999999999999999
Q ss_pred HHHHHHHHHHHHHhcCHHHHHHhhh
Q 028433 170 ALQEGVEVLKLLLSKGLTESARHFN 194 (209)
Q Consensus 170 ~i~~~~~al~~~l~~~~~~amn~~N 194 (209)
+++.|+++++.|+++++++|||+||
T Consensus 160 ~~~~a~~~l~~~i~~~~~~~mn~~n 184 (184)
T PF01195_consen 160 VIPQAAEALEQIIEGGFEKAMNKFN 184 (184)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHCCHHHHHHHhC
Confidence 9999999999999999999999998
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=9.1e-68 Score=440.57 Aligned_cols=162 Identities=51% Similarity=0.916 Sum_probs=156.0
Q ss_pred eEEEecCcccCcCCCcchHHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhhhchhhHHHHHHhcCC
Q 028433 20 LFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKL 99 (209)
Q Consensus 20 LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki 99 (209)
|||||||||++|++|||| ||||++|+||++++.++.+.++.++++++.+.+++++|+||+||||+||++|.++++||++
T Consensus 1 LIvGLGNPG~~Y~~TRHN-vGf~~ld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~kP~TyMN~SG~~V~~~~~~~~i 79 (171)
T cd00462 1 LIVGLGNPGPKYENTRHN-VGFMVLDALAERYGVSFKKKKKKGLVGEGRIGGEKVLLLKPQTYMNLSGEAVAALANFYKI 79 (171)
T ss_pred CEEEECCCCcccCcCchH-HHHHHHHHHHHHcCCCCCccccCEEEEEEEECCEEEEEEeCCcccccccHHHHHHHHhcCC
Confidence 799999999999999999 9999999999999998877777899999999999999999999999999999999999999
Q ss_pred CCCceEEEeecCCCCCceEEEecCCCCCCCCchHHHHHhcC---------CCCCCCCCCCccccccCcCCHHHHHHHHHH
Q 028433 100 PLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR---------GIGRPPGQMDPKAFLLQKFNAIARERIDTA 170 (209)
Q Consensus 100 ~~~~ilVvhDDldlp~G~irlk~gGs~gGHNGLkSIi~~Lg---------GIGrP~~~~~v~~yVLs~fs~~E~~~l~~~ 170 (209)
+++++||||||||||+|++|+|++||+|||||||||+++|| |||||+.+.++++|||++|+++|++.++++
T Consensus 80 ~~~~ilVihDdldl~~G~vrlk~~G~~gGHNGlkSI~~~lgt~~f~RlriGIGrP~~~~~v~~yVL~~f~~~E~~~l~~~ 159 (171)
T cd00462 80 PPEDILVIHDDLDLPLGKIRLKKGGGSGGHNGLKSIIAHLGTEDFPRLRIGIGRPPNKMDVADYVLSKFSKEERELLEEA 159 (171)
T ss_pred ChhHEEEEEecCCCCCceEEEeCCCCCCCCCCHHHHHHHhCCCCeeEEEEEeCCCCCCCChhhhhcCCCCHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999 999998777999999999999999999999
Q ss_pred HHHHHHHHHHHH
Q 028433 171 LQEGVEVLKLLL 182 (209)
Q Consensus 171 i~~~~~al~~~l 182 (209)
++.++++++.|+
T Consensus 160 ~~~~~~~~~~~~ 171 (171)
T cd00462 160 IEKAADALEDIL 171 (171)
T ss_pred HHHHHHHHHHhC
Confidence 999999998763
No 7
>KOG2255 consensus Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.6e-52 Score=350.48 Aligned_cols=172 Identities=56% Similarity=0.993 Sum_probs=153.0
Q ss_pred CeeEEEecCcccCcCCCcchHHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhhhchhhHHHHHHhc
Q 028433 18 PWLFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYY 97 (209)
Q Consensus 18 ~~LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ 97 (209)
+|+|+||||||++|..|||| |||.++|.||++.+++..+...++..+-+.+++..++|++|++|||.||++|.+++..|
T Consensus 39 ~wli~GLGNPg~~y~gTRHn-vG~~Ml~~larrlgv~~nt~s~~a~~~l~~v~d~~~~llrp~qymN~SgesV~kva~~y 117 (224)
T KOG2255|consen 39 PWLIVGLGNPGSKYVGTRHN-VGFEMLDMLARRLGVPMNTISSKALEGLGLVGDVPILLLRPQQYMNFSGESVGKVAALY 117 (224)
T ss_pred ceEEEecCCCcccccccchh-hHHHHHHHHHHHhCCcccccCcccccceeeecceeeEeeCcHhhhccccchhhhhHHhh
Confidence 58999999999999999999 99999999999999986655556666777888999999999999999999999999999
Q ss_pred CCCCCceEEEeecCCCCCceEEEecCCCCCCCCchHHHHHhcC----------CCCCCCCCCCccccccCcCCHHHHH-H
Q 028433 98 KLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR----------GIGRPPGQMDPKAFLLQKFNAIARE-R 166 (209)
Q Consensus 98 ki~~~~ilVvhDDldlp~G~irlk~gGs~gGHNGLkSIi~~Lg----------GIGrP~~~~~v~~yVLs~fs~~E~~-~ 166 (209)
+++.++++||||||++|+|++|+|++||++||||+||++.+++ |||||++++|+.+|||++|++.|++ .
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 9999999999999999999999999999999999999999998 9999999999999999999999998 5
Q ss_pred HHHHHHHHHHHHHHHHhcCHHHHHHhhh
Q 028433 167 IDTALQEGVEVLKLLLSKGLTESARHFN 194 (209)
Q Consensus 167 l~~~i~~~~~al~~~l~~~~~~amn~~N 194 (209)
|+..++.+ +.++.+++..-.++||
T Consensus 198 Let~l~~~----~~lil~~l~~~is~~~ 221 (224)
T KOG2255|consen 198 LETLLEHV----KTLILQGLQQSISRFN 221 (224)
T ss_pred HHHHHhhh----HHHHHHHHHHhcccCc
Confidence 55555444 4444455656666665
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=94.97 E-value=0.26 Score=39.41 Aligned_cols=85 Identities=18% Similarity=0.216 Sum_probs=51.4
Q ss_pred eEEEecCcccCcCCCcchHHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhhhchhhHHHHHHhcCC
Q 028433 20 LFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKL 99 (209)
Q Consensus 20 LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki 99 (209)
||+|+|||=.. -= .+|..++++|++ .++ -++. .|.....++.++
T Consensus 1 lVlGiGN~l~~----DD-g~G~~v~~~L~~-~~v---------------------~vi~-------~g~~~~~ll~~i-- 44 (140)
T cd06070 1 LIIGVGNRLYG----DD-GFGSCLAEALEQ-CGA---------------------PVFD-------GGLDGFGLLSHL-- 44 (140)
T ss_pred CEEEECchhcc----cC-cHHHHHHHHHhh-CCC---------------------EEEE-------CCCcHHHHHHHH--
Confidence 69999999532 22 399999999976 111 0011 111222333333
Q ss_pred CCCceEEEeecCC--CCCceEEEecC---------CCCCCCC-chHHHHHhcC
Q 028433 100 PLNRVLVFHDDMG--LPCGVLRLRHN---------GGHGGHN-GLKSVMNNFR 140 (209)
Q Consensus 100 ~~~~ilVvhDDld--lp~G~irlk~g---------Gs~gGHN-GLkSIi~~Lg 140 (209)
...+.+||.|=++ .++|.++++.. .+...|. |+.++.+.+.
T Consensus 45 ~~~d~viiVDA~~~~~~pG~~~~~~~~~~~~~~~~~~~s~H~~~l~~~l~~~~ 97 (140)
T cd06070 45 ENYDIVIFIDVAVIDEDVGVFKITPEPASVAEQISFETDAHRLGPAHLLLLLK 97 (140)
T ss_pred cCCCEEEEEEeecCCCCCeEEEEecCchhccccccCCCCCCcCCHHHHHHHHH
Confidence 2455677777654 68998888653 2235788 9998876655
No 9
>PRK11544 hycI hydrogenase 3 maturation protease; Provisional
Probab=93.60 E-value=1.2 Score=36.36 Aligned_cols=130 Identities=15% Similarity=0.152 Sum_probs=66.5
Q ss_pred eeEEEecCcccCcCCCcchHHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhhhchhhHHHHHHhcC
Q 028433 19 WLFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYK 98 (209)
Q Consensus 19 ~LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~k 98 (209)
.+|+|+|||-.. -= -+|..++++|++.. . . . +.++.=.| .|.-+....+.+
T Consensus 3 ~lVlGiGN~L~g----DD-GvG~~v~~~L~~~~-~--~----~------------v~vid~gt----~~~~~~~~i~~~- 53 (156)
T PRK11544 3 DVVLTVGNSMMG----DD-GAGPLLAEKLAAAP-K--G----G------------WVVIDGGS----APENDIVAIREL- 53 (156)
T ss_pred EEEEEeCccccc----cC-cHHHHHHHHHhccC-C--C----C------------eEEEECCC----CHHHHHHHHHhc-
Confidence 589999999532 22 49999999997642 1 1 0 11111111 122111122211
Q ss_pred CCCCceEEEeec--CCCCCceEEEecCC------CCCCCC-chHHHHHhcCCCCCCCCC----CCcccccc-CcCCHHHH
Q 028433 99 LPLNRVLVFHDD--MGLPCGVLRLRHNG------GHGGHN-GLKSVMNNFRGIGRPPGQ----MDPKAFLL-QKFNAIAR 164 (209)
Q Consensus 99 i~~~~ilVvhDD--ldlp~G~irlk~gG------s~gGHN-GLkSIi~~LgGIGrP~~~----~~v~~yVL-s~fs~~E~ 164 (209)
.+ +.+||.|= .+.++|+++.-... +..-|. ||..+++.+.| +++.- ..+.++=+ ..+|++=
T Consensus 54 -~~-d~vIiVDA~~~g~~PG~v~~~~~~~~~~~~~~s~H~~~l~~~l~~l~~--~~p~v~iigI~~~~~~~g~~LS~~v- 128 (156)
T PRK11544 54 -RP-ERLLIVDATDMGLNPGEIRIIDPDDIAEMFMMTTHNMPLNYLIDQLKE--DVPEVIFLGIQPDIVGFYYPMTQPV- 128 (156)
T ss_pred -CC-CEEEEEECCccCcCCCEEEEEchhhcccccCCCCCcCCHHHHHHHHhc--CCCcEEEEEEEeeeccCCCCCCHHH-
Confidence 23 55666674 56799999874211 123555 78888877663 33210 01112211 2444444
Q ss_pred HHHHHHHHHHHHHHHHHHhcC
Q 028433 165 ERIDTALQEGVEVLKLLLSKG 185 (209)
Q Consensus 165 ~~l~~~i~~~~~al~~~l~~~ 185 (209)
+++++++++.++.|...+
T Consensus 129 ---~~av~~~~~~l~~~~~~~ 146 (156)
T PRK11544 129 ---KDAVETVYQRLEGWEGNG 146 (156)
T ss_pred ---HHHHHHHHHHHHHhhccC
Confidence 445566666777776543
No 10
>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=92.98 E-value=3.2 Score=33.21 Aligned_cols=124 Identities=20% Similarity=0.270 Sum_probs=64.4
Q ss_pred eEEEecCcccCcCCCcchHHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhhhchhhHHHHHHhcCC
Q 028433 20 LFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKL 99 (209)
Q Consensus 20 LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki 99 (209)
+|+|+|||-.. -= .+|..++++|++++..... +.+ ++ .|.....++..+
T Consensus 2 lV~GiGN~l~g----DD-G~G~~va~~L~~~~~~~~~-----------------v~v------i~-~~~~~~~l~~~l-- 50 (146)
T cd06062 2 LVLGIGNILLA----DE-GIGVHAVERLEENYSFPEN-----------------VEL------ID-GGTLGLELLPYI-- 50 (146)
T ss_pred EEEEECccccc----cC-cHHHHHHHHHHHhcCCCCC-----------------eEE------EE-CCCCHHHHHHHH--
Confidence 79999999422 12 4999999999877532210 101 11 011112222222
Q ss_pred CCCceEEEeecC--CCCCceEEEecC---------CCCCCCCchHHHHHhcCCCCCCCCCC-----Ccccccc-CcCCHH
Q 028433 100 PLNRVLVFHDDM--GLPCGVLRLRHN---------GGHGGHNGLKSVMNNFRGIGRPPGQM-----DPKAFLL-QKFNAI 162 (209)
Q Consensus 100 ~~~~ilVvhDDl--dlp~G~irlk~g---------Gs~gGHNGLkSIi~~LgGIGrP~~~~-----~v~~yVL-s~fs~~ 162 (209)
...+.+|+.|=+ +.++|+++.-.. ..+.-+-++..+++.+.=.|+++.+. .+.++=. ..+|++
T Consensus 51 ~~~d~viiVDA~~~g~~pG~i~~~~~~~~~~~~~~~~s~H~~~l~~~l~~~~~~~~~~~~v~ivgie~~~~~~g~~LS~~ 130 (146)
T cd06062 51 EEADRLIIVDAVDAGGPPGTVYRFEGEDVPAFLSAKLSAHQVGLLEVLALAELLGDLPPEIVLIGVQPESIEWGLELSPE 130 (146)
T ss_pred hcCCEEEEEEcccCCCCCCeEEEEechhccccccCCcCcccCCHHHHHHHHHHcCCCCCeEEEEEEEEeeccCCCCCCHH
Confidence 124677777864 779999876421 12334446787777655223322111 1111111 366666
Q ss_pred HHHHHHHHHHHH
Q 028433 163 ARERIDTALQEG 174 (209)
Q Consensus 163 E~~~l~~~i~~~ 174 (209)
=++.++++++.+
T Consensus 131 v~~av~~~~~~i 142 (146)
T cd06062 131 VAAALPTAIEAV 142 (146)
T ss_pred HHHHHHHHHHHH
Confidence 666665555443
No 11
>COG0680 HyaD Ni,Fe-hydrogenase maturation factor [Energy production and conversion]
Probab=90.50 E-value=7 Score=32.37 Aligned_cols=130 Identities=17% Similarity=0.179 Sum_probs=72.9
Q ss_pred CCeeEEEecCcccCcCCCcchHHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeC-CchhhhchhhHHHHHH
Q 028433 17 RPWLFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKP-QTYMNLSGESTGPLAA 95 (209)
Q Consensus 17 ~~~LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~KP-~TyMNlSG~aV~~~~~ 95 (209)
++.+|+|+|||=- .-== +|-.++++|.+++...- .|-++.= +--+|+.+.
T Consensus 2 ~~ilIlG~GN~L~----~DDG-~Gv~vae~L~~~~~~~~-----------------~v~vid~Gt~~~~l~~~------- 52 (160)
T COG0680 2 MRILILGVGNILM----GDDG-FGVRVAEKLKKRYKPPE-----------------NVEVIDGGTAGPNLLGL------- 52 (160)
T ss_pred CeEEEEeeCCccc----ccCc-ccHHHHHHHHHhcCCCC-----------------CeEEEEcCCCcHHHHHH-------
Confidence 4579999999942 2344 99999999998754221 1111111 122344332
Q ss_pred hcCCCCCceEEEeecCCC--CCceEEEec------CCCCC---CCC-chHHHHHhcC----------CCCCCCCCCCccc
Q 028433 96 YYKLPLNRVLVFHDDMGL--PCGVLRLRH------NGGHG---GHN-GLKSVMNNFR----------GIGRPPGQMDPKA 153 (209)
Q Consensus 96 ~~ki~~~~ilVvhDDldl--p~G~irlk~------gGs~g---GHN-GLkSIi~~Lg----------GIGrP~~~~~v~~ 153 (209)
+...+-+||.|=++. .+|++++=+ ...+. .|+ ++..+++.+. |+.-|+. ...+
T Consensus 53 ---l~~~d~vIIVDav~~g~epG~v~~i~~e~i~~~~~~~~~s~H~~~~~~~L~~~~~~~~~~~~~~~~~v~~~--~~~~ 127 (160)
T COG0680 53 ---LAGYDPVIIVDAVLFGLEPGEVRIIDPEEIPAYSSASKDSAHELPLSELLALLKELGGLPVLILGVQVPIV--SLPE 127 (160)
T ss_pred ---hcCCCcEEEEEeeecCCCCceEEEechhhcccccccCCCccccCCHHHHHHHHHHhcCCceEEEEEeecee--cccc
Confidence 223344778886554 599998643 33444 686 5666666665 2332211 1112
Q ss_pred cccCcCCHHHHHHHHHHHHHHHHHHHHH
Q 028433 154 FLLQKFNAIARERIDTALQEGVEVLKLL 181 (209)
Q Consensus 154 yVLs~fs~~E~~~l~~~i~~~~~al~~~ 181 (209)
+-..+|++=++.++.+++.+.+.++.+
T Consensus 128 -~~~~lS~ev~~a~~~av~~i~~~l~~~ 154 (160)
T COG0680 128 -FGGGLSPEVEEAVDKAVERILEELREW 154 (160)
T ss_pred -cccccCHHHHHHHHHHHHHHHHHHHhh
Confidence 225667666666677766666666554
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=90.12 E-value=8.8 Score=31.02 Aligned_cols=95 Identities=19% Similarity=0.190 Sum_probs=53.3
Q ss_pred CeeEEEecCcccCcCCCcchHHHHHHHHHHHHH-cCCCCCccccceEEEEEEECCeeEEEEeCCchhhhchhhHHHHHHh
Q 028433 18 PWLFVGLGNPGDKYKGTRHNQVGFEMIDAFAES-QGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAY 96 (209)
Q Consensus 18 ~~LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~-~~~~~~~~k~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~ 96 (209)
..+|+|+|||-.. -= -+|..++++|+++ +..+ . .+.+ ++........+..+
T Consensus 4 ~ilVlGiGN~l~g----DD-GvG~~v~~~L~~~~~~~~--~---------------~v~v------id~gt~~~~~l~~~ 55 (153)
T TIGR00130 4 EILVVGCGNILFG----DD-GFGPAVIEYLKENGVEKP--D---------------NVCL------IDAGTGAPHFVFTL 55 (153)
T ss_pred eEEEEEeCccccc----cC-cHhHHHHHHHHHhCCCCC--C---------------CeEE------EECCCcHHHHHHHH
Confidence 4689999999522 22 3999999999863 2211 0 0111 11111111111112
Q ss_pred cCCCCCceEEEeec--CCCCCceEEEecC-----C-CCCCCC-chHHHHHhcC
Q 028433 97 YKLPLNRVLVFHDD--MGLPCGVLRLRHN-----G-GHGGHN-GLKSVMNNFR 140 (209)
Q Consensus 97 ~ki~~~~ilVvhDD--ldlp~G~irlk~g-----G-s~gGHN-GLkSIi~~Lg 140 (209)
..+...+.+||-|= .+.++|+++.-.. + +...|. |+.++++.+.
T Consensus 56 ~~~~~~d~vIivDA~~~~~~PG~v~~~~~~~~~~~~~~s~H~~~l~~~l~~l~ 108 (153)
T TIGR00130 56 IPQSKWKKIIVVDIADFGAEPGTLRVLNVDELPNGRYMDAHGWSLAYPLHDLE 108 (153)
T ss_pred hhhcCCCEEEEEEccCCCcCCCEEEEEchHHcCCCCCCCCccCCHHHHHHHhc
Confidence 12334567777785 5789999987431 2 224566 8999887765
No 13
>PRK12362 germination protease; Provisional
Probab=86.76 E-value=5.6 Score=36.75 Aligned_cols=126 Identities=19% Similarity=0.242 Sum_probs=73.7
Q ss_pred HHHHHhhhcCCCCCeeEEEecCcccCcCCCcchHHHHHHHHHHHHHcCCCCCccccceEEEEEEECC-eeEEEEeC----
Q 028433 5 RFLRRGFCTAVARPWLFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQGISMNTVHCKATFGQGFVGD-APVLLAKP---- 79 (209)
Q Consensus 5 ~~~~~~~~~~~~~~~LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~-~~v~L~KP---- 79 (209)
+.++..+.-......|||||||. .-|--. .|-.+++.|.-.... ..++++..-.+ ..|.-.-|
T Consensus 87 ~~L~~ll~~~~~~~iLVvGLGN~----~vTpDa-LGP~Vv~~l~vTrhl-------~~~~~~~~~~~~~pV~AiaPGVmg 154 (318)
T PRK12362 87 KELKKLINLDKEMTVLVVGLGNW----NVTPDA-LGPKVVSKLMVTRHL-------KEYAPEEIDEGIRPVCAIAPGVLG 154 (318)
T ss_pred HHHHHHhCCCCCCcEEEEEcCCC----CcCccc-cchhhhhhhhhhhhh-------hhhcCchhcCCCCcceEecCCccc
Confidence 33444442234456899999997 458999 999999988643111 01111110011 23444444
Q ss_pred CchhhhchhhHHHHHHhcCCCCCceEEEeecCC----CCCc-eEEEecCC---CCCCCCchHHHH-HhcC----CCCCCC
Q 028433 80 QTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMG----LPCG-VLRLRHNG---GHGGHNGLKSVM-NNFR----GIGRPP 146 (209)
Q Consensus 80 ~TyMNlSG~aV~~~~~~~ki~~~~ilVvhDDld----lp~G-~irlk~gG---s~gGHNGLkSIi-~~Lg----GIGrP~ 146 (209)
+|=||.+ +.++.+.+.++ .+++|.-|-+- --+| +|.+...| |+|=.|==+.|. +.|| .||=|.
T Consensus 155 ~TGiet~-Eii~gIv~k~k---pd~IIAIDALaar~~~Rl~~tIQisdtGI~PGSGVGN~R~~l~~etLGVPVIAIGVPT 230 (318)
T PRK12362 155 ITGIETA-EIIKGVVEKIK---PDLVIAIDALAARSVERVNTTIQISDTGISPGSGVGNKRMGINEETLGVPVIAIGVPT 230 (318)
T ss_pred ccchhHH-HHHHHHHHhcC---CCEEEEEeccccCCHHHccCeEEECCCCCCCCccCCCcccccCHHHcCCCEEEEcCCe
Confidence 5777754 56777877765 46788888875 2367 78887766 343334323333 5677 777774
No 14
>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=86.09 E-value=16 Score=29.23 Aligned_cols=91 Identities=15% Similarity=0.170 Sum_probs=51.1
Q ss_pred eEEEecCcccCcCCCcchHHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhhhchhhHHHHHHhcCC
Q 028433 20 LFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKL 99 (209)
Q Consensus 20 LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki 99 (209)
+|+|+|||-..= = -+|..++++|.+.+... .+.++.-.| .|.-.-.+.+.++
T Consensus 2 lVlGiGN~l~~D----D-G~G~~v~~~L~~~~~~~------------------~v~v~d~gt----~~~~~~~~~~~~~- 53 (146)
T TIGR00142 2 VLLCVGNELMGD----D-GAGPYLAEKCAAAPKEE------------------NWVVINAGT----VPENFTVAIRELR- 53 (146)
T ss_pred EEEEeCcccccc----C-cHHHHHHHHHHhccCCC------------------CEEEEECCC----ChHHHHHHHHhcC-
Confidence 799999995322 2 49999999998653210 011111112 1221112222222
Q ss_pred CCCceEEEeecC--CCCCceEEEecCC-----CCCCCC-chHHHHHhcC
Q 028433 100 PLNRVLVFHDDM--GLPCGVLRLRHNG-----GHGGHN-GLKSVMNNFR 140 (209)
Q Consensus 100 ~~~~ilVvhDDl--dlp~G~irlk~gG-----s~gGHN-GLkSIi~~Lg 140 (209)
.+.+||.|-+ +.++|+++.-... +..-|. |+..+++.+.
T Consensus 54 --~d~viivDA~~~g~~PG~v~~~~~~~~~~~~~s~H~~~l~~ll~~~~ 100 (146)
T TIGR00142 54 --PTHILIVDATDMGLNPGEVRIIDDDIIEMYSMSTHNMPLSYLVDYLK 100 (146)
T ss_pred --CCEEEEEECcccCCCCCeEEEEChhhccccccCcCcCCHHHHHHHHH
Confidence 3566666765 5699998874321 224555 8888877765
No 15
>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=73.00 E-value=3.4 Score=32.95 Aligned_cols=90 Identities=19% Similarity=0.241 Sum_probs=50.6
Q ss_pred eEEEecCcccCcCCCcchHHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhhhchhhHHHHHHhcCC
Q 028433 20 LFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKL 99 (209)
Q Consensus 20 LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki 99 (209)
||+|+|||-.. -= .+|..++++|++++.... .. . .+... + .|. .++.+..
T Consensus 1 lViGiGN~l~~----DD-g~G~~v~~~L~~~~~~~~---~v----~--~id~g-------~-----~~~---~l~~~l~- 50 (145)
T TIGR00072 1 LVLGIGNILRG----DD-GFGPRVAERLEERYEFPP---GV----E--VLDGG-------T-----LGL---ELLDAIE- 50 (145)
T ss_pred CEEEECchhcc----cC-cHHHHHHHHHHHhcCCCC---Ce----E--EEECC-------C-----CHH---HHHHHHh-
Confidence 69999999422 12 499999999988653210 00 0 01100 0 121 2333332
Q ss_pred CCCceEEEeecC--CCCCceEEEec--------CCCCCCCC-chHHHHHhcC
Q 028433 100 PLNRVLVFHDDM--GLPCGVLRLRH--------NGGHGGHN-GLKSVMNNFR 140 (209)
Q Consensus 100 ~~~~ilVvhDDl--dlp~G~irlk~--------gGs~gGHN-GLkSIi~~Lg 140 (209)
..+.+||.|=. +.++|+++.-. .++...|. |+.++++.+.
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 24566777865 55999998632 12333555 8888887665
No 16
>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=56.42 E-value=11 Score=30.28 Aligned_cols=93 Identities=18% Similarity=0.241 Sum_probs=52.1
Q ss_pred eEEEecCcccCcCCCcchHHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhhhchhhH-HHHHHhcC
Q 028433 20 LFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGEST-GPLAAYYK 98 (209)
Q Consensus 20 LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV-~~~~~~~k 98 (209)
||+|+|||-.. -= .+|..++++|++++... . .+.++. .|... ..+..+..
T Consensus 1 lViGiGN~l~g----DD-gvG~~va~~l~~~~~~~--~---------------~v~vid-------~g~~~~~~~~~~~~ 51 (150)
T cd06064 1 LVVGCGNILFG----DD-GFGPAVIEELEKLELLP--D---------------NVQVID-------AGTGAPHLLFTLLD 51 (150)
T ss_pred CEEEECCcccc----cC-cHHHHHHHHHHhccCCC--C---------------CEEEEE-------CCCcHHHHHHHHHh
Confidence 68999999532 22 49999999998754211 0 011111 22211 11111111
Q ss_pred -CCCCceEEEeecC--CCCCceEEEecCC--------CCCCC-CchHHHHHhcCC
Q 028433 99 -LPLNRVLVFHDDM--GLPCGVLRLRHNG--------GHGGH-NGLKSVMNNFRG 141 (209)
Q Consensus 99 -i~~~~ilVvhDDl--dlp~G~irlk~gG--------s~gGH-NGLkSIi~~LgG 141 (209)
....+.+||.|=+ +.++|+++....- +...| -|+.++++.+.+
T Consensus 52 ~~~~~d~viivDA~~~g~~pG~v~~~~~~~~~~~~~~~~s~H~~~l~~~l~~~~~ 106 (150)
T cd06064 52 EESKPKKIIIVDAIDFGLEPGTLKKISVDELPPGKYYDFDAHSWPLADPLHELKD 106 (150)
T ss_pred ccCCCCEEEEEEecCCCCCCCeEEEEehhhcccccCCCcCCCcCCHHHHHHHHHh
Confidence 1235677777875 7799998874321 12345 588888876553
No 17
>PRK10466 hybD hydrogenase 2 maturation endopeptidase; Provisional
Probab=55.66 E-value=17 Score=29.73 Aligned_cols=30 Identities=20% Similarity=0.326 Sum_probs=22.6
Q ss_pred CeeEEEecCcccCcCCCcchHHHHHHHHHHHHHcC
Q 028433 18 PWLFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQG 52 (209)
Q Consensus 18 ~~LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~~ 52 (209)
..+|+|+|||-.. -= -+|..++++|.+.+.
T Consensus 2 ~ilVlGiGN~l~g----DD-GvG~~va~~L~~~~~ 31 (164)
T PRK10466 2 RILVLGVGNILLT----DE-AIGVRIVEALEQRYI 31 (164)
T ss_pred ceEEEEECchhhc----cC-cHHHHHHHHHHHhcC
Confidence 4689999999532 22 399999999987654
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=54.32 E-value=23 Score=27.62 Aligned_cols=32 Identities=19% Similarity=0.313 Sum_probs=24.6
Q ss_pred cccccCcCCHHHHHHHHHHHHHHHHHHHHHHhc
Q 028433 152 KAFLLQKFNAIARERIDTALQEGVEVLKLLLSK 184 (209)
Q Consensus 152 ~~yVLs~fs~~E~~~l~~~i~~~~~al~~~l~~ 184 (209)
++++ +.||++|...|+++++...+-+|..+..
T Consensus 33 A~i~-G~Fs~~~~~~Ld~aFP~~ikqlE~ml~s 64 (103)
T PF06154_consen 33 AGIT-GTFSEEEAQHLDQAFPLFIKQLELMLTS 64 (103)
T ss_dssp EEEE-S---HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCeE-EEcCHHHHHHHHhHhHHHHHHHHHHHhc
Confidence 3444 8999999999999999999999988863
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=50.84 E-value=19 Score=33.77 Aligned_cols=127 Identities=21% Similarity=0.311 Sum_probs=48.7
Q ss_pred CCCeeEEEecCcccCcCCCcchHHHHHHHHHHHH-HcCCCCCccccceEEEEEEECC-eeEEEEeCCchhhh----chhh
Q 028433 16 ARPWLFVGLGNPGDKYKGTRHNQVGFEMIDAFAE-SQGISMNTVHCKATFGQGFVGD-APVLLAKPQTYMNL----SGES 89 (209)
Q Consensus 16 ~~~~LIvGLGNPG~~Y~~TRHN~vGf~vld~La~-~~~~~~~~~k~~~~~~~~~~~~-~~v~L~KP~TyMNl----SG~a 89 (209)
...-|||||||. .-|.-. .|-.++|.+-- ++=..+..... ..+ ..|.-+-| --|=. +++.
T Consensus 95 ~~~iLVVGLGN~----~vTPDA-LGP~vv~~l~VTRHL~~~~pe~~--------~~g~r~VsaiaP-GVmg~TGiET~eI 160 (354)
T PF03418_consen 95 EASILVVGLGNW----NVTPDA-LGPRVVENLLVTRHLFELQPEEV--------DEGYRPVSAIAP-GVMGQTGIETAEI 160 (354)
T ss_dssp T--EEEEE-S-S----SSGGG--HHHHHHHT----HHHHHHS--SS---------SS---EEEE-S-GGG---SS-HHHH
T ss_pred CCeEEEEeCCCc----CCCccc-cchhhhhhhhhhhhhhhhCchhh--------ccCcceeeEEcC-CccccccccHHHH
Confidence 345799999996 468999 99999996532 11000000000 011 23444445 23333 4466
Q ss_pred HHHHHHhcCCCCCceEEEeecCC-----CCCceEEEecCC-----CCCCC-CchHHHHHhcC----CCCCCCCC------
Q 028433 90 TGPLAAYYKLPLNRVLVFHDDMG-----LPCGVLRLRHNG-----GHGGH-NGLKSVMNNFR----GIGRPPGQ------ 148 (209)
Q Consensus 90 V~~~~~~~ki~~~~ilVvhDDld-----lp~G~irlk~gG-----s~gGH-NGLkSIi~~Lg----GIGrP~~~------ 148 (209)
|+.+++..| -+++|.-|-|. -=--+|++.--| |-|-| ++|- .+.|| .||=|.-=
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 777777655 35777778653 223456665444 33444 3332 24556 56655320
Q ss_pred CCccccccCcCCH
Q 028433 149 MDPKAFLLQKFNA 161 (209)
Q Consensus 149 ~~v~~yVLs~fs~ 161 (209)
.|..|+++..|..
T Consensus 236 ~Dtid~~~~~~~~ 248 (354)
T PF03418_consen 236 NDTIDYLLKHFGR 248 (354)
T ss_dssp --EES---HHHHT
T ss_pred HHHHHHHHHHHHH
Confidence 2334666666633
No 20
>PRK09256 hypothetical protein; Provisional
Probab=49.26 E-value=8.8 Score=31.23 Aligned_cols=26 Identities=27% Similarity=0.424 Sum_probs=20.6
Q ss_pred EEeecCCCCCceEEEe--cCCCCCCCCc
Q 028433 106 VFHDDMGLPCGVLRLR--HNGGHGGHNG 131 (209)
Q Consensus 106 VvhDDldlp~G~irlk--~gGs~gGHNG 131 (209)
-|.+++++|...++++ +++|.||+|=
T Consensus 3 ~~~~~~~i~~~~l~~~~~RSSGPGGQ~V 30 (138)
T PRK09256 3 RITRRLVIPENELEWRFIRASGPGGQNV 30 (138)
T ss_pred ccCccCccCHHHeEEEEEEcCCCCcccc
Confidence 3678899988887766 7889999873
No 21
>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=49.09 E-value=16 Score=29.14 Aligned_cols=26 Identities=23% Similarity=0.229 Sum_probs=20.4
Q ss_pred eEEEecCcccCcCCCcchHHHHHHHHHHHHH
Q 028433 20 LFVGLGNPGDKYKGTRHNQVGFEMIDAFAES 50 (209)
Q Consensus 20 LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~ 50 (209)
||+|+|||-..= = -+|..++++|+++
T Consensus 1 lViGiGN~l~~D----D-GvG~~v~~~L~~~ 26 (144)
T cd06068 1 LVAGVGNIFLGD----D-GFGVEVARRLRPR 26 (144)
T ss_pred CEEEECcccccc----C-cHHHHHHHHHhcc
Confidence 699999996332 2 3999999999864
No 22
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=46.80 E-value=12 Score=27.94 Aligned_cols=27 Identities=33% Similarity=0.600 Sum_probs=20.3
Q ss_pred CcccCcCCCc--chHHHHHHHHHHHHHcCCCCC
Q 028433 26 NPGDKYKGTR--HNQVGFEMIDAFAESQGISMN 56 (209)
Q Consensus 26 NPG~~Y~~TR--HN~vGf~vld~La~~~~~~~~ 56 (209)
|| |.-.. -. +||-.+|.+|.++|+...
T Consensus 43 nP---Y~L~~~i~g-i~F~~aD~iA~~~g~~~~ 71 (94)
T PF14490_consen 43 NP---YRLIEDIDG-IGFKTADKIALKLGIEPD 71 (94)
T ss_dssp -S---TCCCB-SSS-SBHHHHHHHHHTTT--TT
T ss_pred Ch---HHHHHHccC-CCHHHHHHHHHHcCCCCC
Confidence 66 77777 66 999999999999998754
No 23
>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=44.99 E-value=21 Score=28.17 Aligned_cols=93 Identities=17% Similarity=0.183 Sum_probs=51.7
Q ss_pred eEEEecCcccCcCCCcchHHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhhhchhhHHHHHHhcCC
Q 028433 20 LFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKL 99 (209)
Q Consensus 20 LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki 99 (209)
+|+|+|||-.. -= .+|..++++|.++. . . + +-++.-.| .|.-+....+.
T Consensus 1 ~VlGiGN~L~~----DD-gvG~~v~~~L~~~~-~--~--------------~--v~vid~gt----~~~~~~~~l~~--- 49 (136)
T cd06067 1 VLLGVGNELRG----DD-GAGPLLAEKLEDLP-N--P--------------N--WLVIDGGT----VPENFTGKIRE--- 49 (136)
T ss_pred CEEEeCccccc----cC-cHHHHHHHHHHhcC-C--C--------------C--EEEEECCC----CHHHHHHHHHh---
Confidence 58999999532 22 49999999998753 1 0 0 11111111 12221111111
Q ss_pred CCCceEEEeecC--CCCCceEEEecCC-----CCCCCC-chHHHHHhcCCCC
Q 028433 100 PLNRVLVFHDDM--GLPCGVLRLRHNG-----GHGGHN-GLKSVMNNFRGIG 143 (209)
Q Consensus 100 ~~~~ilVvhDDl--dlp~G~irlk~gG-----s~gGHN-GLkSIi~~LgGIG 143 (209)
...+.+||.|=+ +.++|+++.-... ....|. |+.++.+.+...+
T Consensus 50 ~~~d~vIiVDAv~~g~~PG~v~~~~~~~~~~~~~s~H~~~l~~~L~~~~~~~ 101 (136)
T cd06067 50 EKPDLIVIVDAADMGLEPGEIRIIDPEEIAEYFFSTHTLPLSILIDYLREST 101 (136)
T ss_pred cCCCEEEEEECCccCcCCCEEEEEchhhcccccCCCCcCCHHHHHHHHHhcC
Confidence 124566777875 4599999874321 134565 8888887776544
No 24
>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=43.70 E-value=24 Score=27.70 Aligned_cols=89 Identities=19% Similarity=0.178 Sum_probs=51.6
Q ss_pred eEEEecCcccCcCCCcchHHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhhhchhhHHHHHHhcCC
Q 028433 20 LFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKL 99 (209)
Q Consensus 20 LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki 99 (209)
+|+|+|||=.. -= -+|..++++|++++.. . .+-++ +. |...-.++....
T Consensus 1 lViGiGN~l~~----DD-GvG~~v~~~L~~~~~~--~----------------~v~~i------d~-gt~~~~l~~~l~- 49 (139)
T cd00518 1 LVLGIGNPLRG----DD-GFGPAVAERLEERYLP--P----------------GVEVI------DG-GTLGLELLDLLE- 49 (139)
T ss_pred CEEEECCcccc----cC-cHHHHHHHHHHhcCCC--C----------------CeEEE------EC-CCCHHHHHHHHh-
Confidence 68999999422 22 3999999999876420 0 01111 11 111112222222
Q ss_pred CCCceEEEeecCC--CCCceEEEecC-----CCC--CCCC-chHHHHHhcC
Q 028433 100 PLNRVLVFHDDMG--LPCGVLRLRHN-----GGH--GGHN-GLKSVMNNFR 140 (209)
Q Consensus 100 ~~~~ilVvhDDld--lp~G~irlk~g-----Gs~--gGHN-GLkSIi~~Lg 140 (209)
..+.+||.|=.+ .++|+++.-.. ... ..|. |+.++++.+.
T Consensus 50 -~~d~viiVDA~~~~~~pG~i~~~~~~~~~~~~~~~s~H~~~l~~~l~~~~ 99 (139)
T cd00518 50 -GADRVIIVDAVDSGGEPGTVRRLEPEELPAYLSALSTHQLGLAELLALLR 99 (139)
T ss_pred -cCCeEEEEECccCCCCCCeEEEEchhhcccccCCCCCccCCHHHHHHHHH
Confidence 256677778765 69999887321 111 3566 9999988876
No 25
>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=43.01 E-value=26 Score=27.77 Aligned_cols=27 Identities=26% Similarity=0.400 Sum_probs=20.9
Q ss_pred eEEEecCcccCcCCCcchHHHHHHHHHHHHHc
Q 028433 20 LFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQ 51 (209)
Q Consensus 20 LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~ 51 (209)
||+|+|||=.. -= -+|..++++|++++
T Consensus 1 lVlGvGN~l~~----DD-GvG~~v~~~L~~~~ 27 (139)
T cd06066 1 LVIGYGNPLRG----DD-GLGPAVAERIEEWL 27 (139)
T ss_pred CEEEeCCcccc----cc-chhHHHHHHHHhhC
Confidence 68999999422 22 39999999998774
No 26
>PRK02858 germination protease; Provisional
Probab=40.54 E-value=21 Score=33.71 Aligned_cols=80 Identities=18% Similarity=0.200 Sum_probs=44.6
Q ss_pred CCCeeEEEecCcccCcCCCcchHHHHHHHHHHHHHcCC-CCCccccceEEEEEEECC-eeEEEEeC----Cchhhhchhh
Q 028433 16 ARPWLFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQGI-SMNTVHCKATFGQGFVGD-APVLLAKP----QTYMNLSGES 89 (209)
Q Consensus 16 ~~~~LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~~~-~~~~~k~~~~~~~~~~~~-~~v~L~KP----~TyMNlSG~a 89 (209)
...-|||||||- .-|.-. .|-.+++.|.-.-.+ ....... . .+ ..|.-+-| +|=| .+++.
T Consensus 110 ~~~vLVVGLGN~----~VTPDA-LGP~vv~~l~VTRHL~~~~p~~~----~----~g~r~VsAiaPGVmg~TGi-ET~EI 175 (369)
T PRK02858 110 EASCLIVGLGNW----NVTPDA-LGPLVVENVLVTRHLFQLQPESV----E----EGFRPVSAIAPGVMGITGI-ETSDI 175 (369)
T ss_pred CCcEEEEeCCCc----CCCccc-cChheecceeeehhhhhhcchhh----c----cCCceeeEEcCCcccccch-hHHHH
Confidence 355799999996 568888 999999865421111 1000000 0 11 12333334 3444 35567
Q ss_pred HHHHHHhcCCCCCceEEEeecCC
Q 028433 90 TGPLAAYYKLPLNRVLVFHDDMG 112 (209)
Q Consensus 90 V~~~~~~~ki~~~~ilVvhDDld 112 (209)
|+.+++..| -+++|+-|-|.
T Consensus 176 IkgIVek~K---PD~VIaIDALA 195 (369)
T PRK02858 176 IYGIIEKTK---PDFVIAIDALA 195 (369)
T ss_pred HHHHHHhhC---CCEEEEechhh
Confidence 777877654 35777778653
No 27
>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=40.32 E-value=31 Score=27.57 Aligned_cols=26 Identities=23% Similarity=0.301 Sum_probs=20.2
Q ss_pred eEEEecCcccCcCCCcchHHHHHHHHHHHHH
Q 028433 20 LFVGLGNPGDKYKGTRHNQVGFEMIDAFAES 50 (209)
Q Consensus 20 LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~ 50 (209)
+|+|+|||-.. -= -+|..++++|++.
T Consensus 2 lVlGiGN~L~~----DD-G~G~~v~~~L~~~ 27 (146)
T cd06063 2 TIIGCGNLNRG----DD-GVGPILIRRLQAY 27 (146)
T ss_pred EEEEECCcccc----cC-cHHHHHHHHHhhc
Confidence 79999999532 22 3999999999864
No 28
>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=39.67 E-value=22 Score=33.47 Aligned_cols=80 Identities=18% Similarity=0.191 Sum_probs=45.1
Q ss_pred CCCeeEEEecCcccCcCCCcchHHHHHHHHHHHH-HcCCCCCccccceEEEEEEECC-eeEEEEeC----Cchhhhchhh
Q 028433 16 ARPWLFVGLGNPGDKYKGTRHNQVGFEMIDAFAE-SQGISMNTVHCKATFGQGFVGD-APVLLAKP----QTYMNLSGES 89 (209)
Q Consensus 16 ~~~~LIvGLGNPG~~Y~~TRHN~vGf~vld~La~-~~~~~~~~~k~~~~~~~~~~~~-~~v~L~KP----~TyMNlSG~a 89 (209)
...-|||||||- .-|.-. .|-.+++.|.- ++=......+. . .+ ..|.-+-| +|=| .+++.
T Consensus 100 ~~~iLVVGLGN~----~VTPDA-LGP~vv~~l~VTRHL~~~~p~~~----~----~g~r~VsaiaPGVmg~TGi-ET~EI 165 (358)
T TIGR01441 100 DMTCLVVGLGNW----NVTPDA-LGPKVVENLLVTRHLFKLIPESV----D----EGIRPVSAVAPGVMGITGI-ETSDI 165 (358)
T ss_pred CCcEEEEeCCCc----CCCccc-cChheecceeeehhhhhhcchhh----c----cCCceeeEEcCCccccccc-cHHHH
Confidence 345799999996 568888 99999887642 11111100011 0 11 23333444 3334 35567
Q ss_pred HHHHHHhcCCCCCceEEEeecCC
Q 028433 90 TGPLAAYYKLPLNRVLVFHDDMG 112 (209)
Q Consensus 90 V~~~~~~~ki~~~~ilVvhDDld 112 (209)
|+.+++..| | +++|+-|-|.
T Consensus 166 IkgiVek~k--P-D~VIaIDALA 185 (358)
T TIGR01441 166 IRGIIEQIK--P-DFVIAIDALA 185 (358)
T ss_pred HHHHHHhhC--C-CEEEEechhh
Confidence 777877654 3 5777778653
No 29
>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=39.39 E-value=53 Score=29.54 Aligned_cols=55 Identities=16% Similarity=0.216 Sum_probs=36.1
Q ss_pred CCCCCCCC-CC----ccccccCcCC---HHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHhhhc
Q 028433 141 GIGRPPGQ-MD----PKAFLLQKFN---AIARERIDTALQEGVEVLKLLLSKGLTESARHFNT 195 (209)
Q Consensus 141 GIGrP~~~-~~----v~~yVLs~fs---~~E~~~l~~~i~~~~~al~~~l~~~~~~amn~~N~ 195 (209)
=+|.||.. .+ |.+||+.+|+ +.|++.+-++-....-.+..|--+..+.-.+..+.
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 46777753 23 3499999885 67877776665566666666666666666655554
No 30
>PF13075 DUF3939: Protein of unknown function (DUF3939)
Probab=36.79 E-value=95 Score=25.58 Aligned_cols=59 Identities=17% Similarity=0.343 Sum_probs=40.5
Q ss_pred CCceEEEeecCCCCCceEEEecCCCCCCCCchHHHHHhcCCCCCCCCCCCccccccCc-----CCHHHHHHHHHHHHHHH
Q 028433 101 LNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFRGIGRPPGQMDPKAFLLQK-----FNAIARERIDTALQEGV 175 (209)
Q Consensus 101 ~~~ilVvhDDldlp~G~irlk~gGs~gGHNGLkSIi~~LgGIGrP~~~~~v~~yVLs~-----fs~~E~~~l~~~i~~~~ 175 (209)
....++|.||-.+.+-.+ ...||||-.- .|-+|+ |.++|++. ...++.+.
T Consensus 30 i~rt~lv~~d~~iD~~~L-----------------~~yL~g~p~q-------~FymSkeTyeifeeee~~i-p~~iD~VQ 84 (140)
T PF13075_consen 30 INRTILVNDDQSIDFERL-----------------APYLGGIPDQ-------RFYMSKETYEIFEEEEKDI-PKEIDKVQ 84 (140)
T ss_pred CceEEEEcCCceecHHHH-----------------hhhcCCCCCc-------ceeeeHHHHHhhhHHHHhC-HHHHHHHH
Confidence 346689999999887654 5678887432 355555 55555544 44589999
Q ss_pred HHHHHHHhc
Q 028433 176 EVLKLLLSK 184 (209)
Q Consensus 176 ~al~~~l~~ 184 (209)
.||+.+.++
T Consensus 85 ~AVD~Y~~e 93 (140)
T PF13075_consen 85 KAVDQYVKE 93 (140)
T ss_pred HHHHHHHHh
Confidence 999998863
No 31
>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=36.64 E-value=59 Score=26.98 Aligned_cols=42 Identities=12% Similarity=0.201 Sum_probs=32.1
Q ss_pred cccCcCCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHhhhc
Q 028433 154 FLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESARHFNT 195 (209)
Q Consensus 154 yVLs~fs~~E~~~l~~~i~~~~~al~~~l~~~~~~amn~~N~ 195 (209)
+=|..|+|+.++.+.-.+-+-..++..+..+.++.||+++..
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 335899999999886544444557888888889999998763
No 32
>PHA00415 25 baseplate wedge subunit
Probab=35.52 E-value=80 Score=25.34 Aligned_cols=69 Identities=13% Similarity=0.217 Sum_probs=44.7
Q ss_pred eecCCCCCceEEEecCCCCCCCCchHHHHHhcC-----CCC----CCCCCCCccccccCcCCHHHHHHHHHHHHHHHHHH
Q 028433 108 HDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFR-----GIG----RPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVL 178 (209)
Q Consensus 108 hDDldlp~G~irlk~gGs~gGHNGLkSIi~~Lg-----GIG----rP~~~~~v~~yVLs~fs~~E~~~l~~~i~~~~~al 178 (209)
+-|+|+.||.=.. -|.-.==.|..||.+++. -.| ||.-+.++.+++-.+.++.-...+...+. +||
T Consensus 8 ~~d~~~~~~~~~~--tg~l~~~~~~~sI~qsI~~IL~T~~GER~~rPdfG~~l~~l~f~p~~~~~~~~i~~~I~---~AI 82 (131)
T PHA00415 8 YSDIDPNFKKSPW--NKDVSAVKGARAIKNSLLGIVTTRKGERPFDPNFGCDISDQLFENMDPLTADTIERNIE---SAI 82 (131)
T ss_pred eecCCcccCcCCc--CCCeeeeCCHHHHHHHHHHHhCCCCCccccCcccCcchHHHhcCCCCHHHHHHHHHHHH---HHH
Confidence 5688888875322 233233457889999988 444 67666688899999887776666655444 444
Q ss_pred HHH
Q 028433 179 KLL 181 (209)
Q Consensus 179 ~~~ 181 (209)
..|
T Consensus 83 ~~~ 85 (131)
T PHA00415 83 RNY 85 (131)
T ss_pred HHh
Confidence 444
No 33
>COG2897 SseA Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]
Probab=34.03 E-value=41 Score=30.54 Aligned_cols=30 Identities=23% Similarity=0.133 Sum_probs=27.3
Q ss_pred chhhhchhhHHHHHHhcCCCCCceEEEeec
Q 028433 81 TYMNLSGESTGPLAAYYKLPLNRVLVFHDD 110 (209)
Q Consensus 81 TyMNlSG~aV~~~~~~~ki~~~~ilVvhDD 110 (209)
.=|=.|.+...++++..+|..++.||||||
T Consensus 69 ~~~lp~~e~fa~~~~~~GI~~d~tVVvYdd 98 (285)
T COG2897 69 PHMLPSPEQFAKLLGELGIRNDDTVVVYDD 98 (285)
T ss_pred CCCCCCHHHHHHHHHHcCCCCCCEEEEECC
Confidence 467778899999999999999999999999
No 34
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=33.44 E-value=31 Score=29.38 Aligned_cols=29 Identities=17% Similarity=0.158 Sum_probs=25.4
Q ss_pred chhhHHHHHHhcCCCCCceEEEeecCCCC
Q 028433 86 SGESTGPLAAYYKLPLNRVLVFHDDMGLP 114 (209)
Q Consensus 86 SG~aV~~~~~~~ki~~~~ilVvhDDldlp 114 (209)
++.++.++++.++++++++++|-|.|=.+
T Consensus 95 ~~~~fr~Al~~m~l~~~~vvmVGDqL~TD 123 (175)
T COG2179 95 FGRAFRRALKEMNLPPEEVVMVGDQLFTD 123 (175)
T ss_pred cHHHHHHHHHHcCCChhHEEEEcchhhhh
Confidence 57889999999999999999999998433
No 35
>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]
Probab=32.62 E-value=1.8e+02 Score=26.98 Aligned_cols=73 Identities=19% Similarity=0.164 Sum_probs=57.2
Q ss_pred CCCcchHHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhhhchhhHHHHHHhcCCCCCceEEE
Q 028433 32 KGTRHNQVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVF 107 (209)
Q Consensus 32 ~~TRHN~vGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki~~~~ilVv 107 (209)
..|+|+ .-...++.=.+..|+.+.+.+.+-++.....+|-++-.--|.|-||. +.+..++..|+|--.++++=
T Consensus 148 Datk~e-~qr~~le~ELe~vGiRLNk~~Pniy~k~kk~gGi~f~~T~~lT~~~e--k~i~~ILheykI~Naevl~R 220 (364)
T KOG1486|consen 148 DATKSE-DQREILEKELEAVGIRLNKRKPNIYFKKKKTGGISFNTTVPLTHCDE--KLIYTILHEYKIHNAEVLFR 220 (364)
T ss_pred cCCcch-hHHHHHHHHHHHhceeccCCCCCeEEEeeccCCeEEeeeeccccccH--HHHHHHHHHHeeccceEEEe
Confidence 457888 77778877777889998887777666666677778888889887765 67889999999987776653
No 36
>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=31.44 E-value=1.9e+02 Score=27.25 Aligned_cols=128 Identities=16% Similarity=0.166 Sum_probs=74.6
Q ss_pred HHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCc---hhhhchhhHHHHHHhcCCCCCceEEEeecCCCCC
Q 028433 39 VGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQT---YMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPC 115 (209)
Q Consensus 39 vGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~KP~T---yMNlSG~aV~~~~~~~ki~~~~ilVvhDDldlp~ 115 (209)
+|=+++-+|...... ...-++..+++..+.|.+++++|+.- =.=.=|++|..+.+.++-.++.||-| |=.
T Consensus 185 aGPLVA~~l~~~~~~--~~~~~dtv~~e~~~egRrv~viKA~GPGstVGrpgeave~i~~~~~~k~~~IITV-DAA---- 257 (355)
T PF07431_consen 185 AGPLVAGRLMENCSK--WEIAKDTVIAECEFEGRRVYVIKAEGPGSTVGRPGEAVEYIVEKLGGKVDLIITV-DAA---- 257 (355)
T ss_pred cchHHHHHHHhcCcc--cccccccEEEEEEECCcEEEEEeccCCCccCCChHHHHHHHHHHhcCCccEEEEe-hhh----
Confidence 677777777765443 22234566788899999999999644 44555788999999886666665543 422
Q ss_pred ceEEEecCCCCCCCCchHHHHHhcC----CCCCCCC--------C-CCccccccCcCCHHHHH-----HHHHHHHHHHHH
Q 028433 116 GVLRLRHNGGHGGHNGLKSVMNNFR----GIGRPPG--------Q-MDPKAFLLQKFNAIARE-----RIDTALQEGVEV 177 (209)
Q Consensus 116 G~irlk~gGs~gGHNGLkSIi~~Lg----GIGrP~~--------~-~~v~~yVLs~fs~~E~~-----~l~~~i~~~~~a 177 (209)
+|.-|---| ||.+-.| |+|. +. + .-+-+=++=|.|.+|.- .+.++.+++.+-
T Consensus 258 ----LKLEGE~TG-----~vAEGvGvAiGg~G~-EK~~IE~~Atky~IPl~AiiIKms~~EAit~M~keI~~a~~~a~~~ 327 (355)
T PF07431_consen 258 ----LKLEGEETG-----SVAEGVGVAIGGPGV-EKFNIERIATKYGIPLYAIIIKMSMEEAITPMTKEIYEAVDKAVER 327 (355)
T ss_pred ----hhccCcccc-----chhhccccccCCCCh-hhhhHHHHHHhcCCCceeeeeecCHHHHHHHhHHHHHHHHHHHHHH
Confidence 232221111 4555455 6662 21 0 11224577889888854 333444555555
Q ss_pred HHHHHh
Q 028433 178 LKLLLS 183 (209)
Q Consensus 178 l~~~l~ 183 (209)
+..++.
T Consensus 328 v~~iI~ 333 (355)
T PF07431_consen 328 VKEIIR 333 (355)
T ss_pred HHHHHH
Confidence 555554
No 37
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=30.84 E-value=13 Score=24.91 Aligned_cols=27 Identities=15% Similarity=0.169 Sum_probs=18.5
Q ss_pred hhchhhHHHHHHhcCCCCCceEEEeec
Q 028433 84 NLSGESTGPLAAYYKLPLNRVLVFHDD 110 (209)
Q Consensus 84 NlSG~aV~~~~~~~ki~~~~ilVvhDD 110 (209)
+.|-..+..+++++++++++++...+|
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 456678889999999999999887765
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=28.48 E-value=45 Score=26.96 Aligned_cols=25 Identities=20% Similarity=0.387 Sum_probs=22.9
Q ss_pred hhhHHHHHHhcCCCCCceEEEeecC
Q 028433 87 GESTGPLAAYYKLPLNRVLVFHDDM 111 (209)
Q Consensus 87 G~aV~~~~~~~ki~~~~ilVvhDDl 111 (209)
|.++..+++.+++++++++++=|+.
T Consensus 188 ~~ai~~l~~~~~i~~~~~~~~GD~~ 212 (254)
T PF08282_consen 188 GSAIKYLLEYLGISPEDIIAFGDSE 212 (254)
T ss_dssp HHHHHHHHHHHTTSGGGEEEEESSG
T ss_pred HHHHHHHhhhcccccceeEEeeccc
Confidence 7789999999999999999999875
No 39
>KOG2882 consensus p-Nitrophenyl phosphatase [Inorganic ion transport and metabolism]
Probab=28.24 E-value=53 Score=30.33 Aligned_cols=40 Identities=25% Similarity=0.451 Sum_probs=32.7
Q ss_pred CCeeEEEEeCCchhhhchhhHHHHHHhcCCCCCceEEEeecCCCCC
Q 028433 70 GDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPC 115 (209)
Q Consensus 70 ~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki~~~~ilVvhDDldlp~ 115 (209)
+-+.+++=||.++|= ..+.+.|+|.|++.+.|-|-||-+.
T Consensus 216 ~R~P~v~GKP~~~m~------~~l~~~~~i~psRt~mvGDRL~TDI 255 (306)
T KOG2882|consen 216 GRQPIVLGKPSTFMF------EYLLEKFNIDPSRTCMVGDRLDTDI 255 (306)
T ss_pred cCCCeecCCCCHHHH------HHHHHHcCCCcceEEEEcccchhhh
Confidence 345789999999983 3467889999999999999887654
No 40
>PRK10870 transcriptional repressor MprA; Provisional
Probab=27.60 E-value=57 Score=26.92 Aligned_cols=38 Identities=11% Similarity=0.229 Sum_probs=26.4
Q ss_pred ccccCcCCHHHHHHHHHHHHHHHHHHHHHHhcC-HHHHH
Q 028433 153 AFLLQKFNAIARERIDTALQEGVEVLKLLLSKG-LTESA 190 (209)
Q Consensus 153 ~yVLs~fs~~E~~~l~~~i~~~~~al~~~l~~~-~~~am 190 (209)
+-+++.++++|++.+...+.+..+.++..-++| +-+||
T Consensus 137 ~~~~~~ls~~e~~~l~~~L~kl~~~l~~~~~~~~~~~~~ 175 (176)
T PRK10870 137 HQLWSALSTTEKDQLEQITRKLLSRLDQMEQDGVVLEAM 175 (176)
T ss_pred HHHHhcCCHHHHHHHHHHHHHHHHHHHhhCCCchhhhhc
Confidence 456788888888888888777777776655443 55554
No 41
>PF15608 PELOTA_1: PELOTA RNA binding domain
Probab=26.27 E-value=1.7e+02 Score=22.71 Aligned_cols=16 Identities=38% Similarity=0.621 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHcCCC
Q 028433 39 VGFEMIDAFAESQGIS 54 (209)
Q Consensus 39 vGf~vld~La~~~~~~ 54 (209)
.|+-+++.++++|+++
T Consensus 20 ~g~~~v~~i~~~~gI~ 35 (100)
T PF15608_consen 20 QGWAEVERIAERYGIS 35 (100)
T ss_pred HHHHHHHHHHHHhCCC
Confidence 8999999999999986
No 42
>PRK10513 sugar phosphate phosphatase; Provisional
Probab=26.05 E-value=40 Score=28.69 Aligned_cols=25 Identities=20% Similarity=0.268 Sum_probs=23.0
Q ss_pred hhhHHHHHHhcCCCCCceEEEeecC
Q 028433 87 GESTGPLAAYYKLPLNRVLVFHDDM 111 (209)
Q Consensus 87 G~aV~~~~~~~ki~~~~ilVvhDDl 111 (209)
|.+++.+++.+++++++++++=|..
T Consensus 198 g~al~~l~~~~gi~~~~v~afGD~~ 222 (270)
T PRK10513 198 GTGVKSLAEHLGIKPEEVMAIGDQE 222 (270)
T ss_pred HHHHHHHHHHhCCCHHHEEEECCch
Confidence 7889999999999999999999865
No 43
>PRK10976 putative hydrolase; Provisional
Probab=25.97 E-value=43 Score=28.52 Aligned_cols=26 Identities=23% Similarity=0.379 Sum_probs=23.3
Q ss_pred chhhHHHHHHhcCCCCCceEEEeecC
Q 028433 86 SGESTGPLAAYYKLPLNRVLVFHDDM 111 (209)
Q Consensus 86 SG~aV~~~~~~~ki~~~~ilVvhDDl 111 (209)
-|.+++.+++.+++++++++++=|..
T Consensus 191 Kg~al~~l~~~lgi~~~~viafGD~~ 216 (266)
T PRK10976 191 KGHALEAVAKKLGYSLKDCIAFGDGM 216 (266)
T ss_pred hHHHHHHHHHHcCCCHHHeEEEcCCc
Confidence 37889999999999999999999864
No 44
>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=25.46 E-value=47 Score=25.72 Aligned_cols=22 Identities=27% Similarity=0.634 Sum_probs=16.2
Q ss_pred ecCCCCCceEEEe--cCCCCCCCC
Q 028433 109 DDMGLPCGVLRLR--HNGGHGGHN 130 (209)
Q Consensus 109 DDldlp~G~irlk--~gGs~gGHN 130 (209)
.++++|...+.+. +++|.||+|
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 4677788877776 688899986
No 45
>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=25.01 E-value=27 Score=25.03 Aligned_cols=24 Identities=21% Similarity=0.213 Sum_probs=21.1
Q ss_pred chhhhchhhHHHHHHhcCCCCCce
Q 028433 81 TYMNLSGESTGPLAAYYKLPLNRV 104 (209)
Q Consensus 81 TyMNlSG~aV~~~~~~~ki~~~~i 104 (209)
-||..||.+..+|++.++|.+.++
T Consensus 7 hflhE~g~~FveIAr~~~i~a~e~ 30 (63)
T PF11242_consen 7 HFLHESGLSFVEIARKIGITAKEV 30 (63)
T ss_pred hhHHHcCCcHHHHHHHhCCCHHHH
Confidence 479999999999999999988664
No 46
>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=24.61 E-value=1.3e+02 Score=22.54 Aligned_cols=25 Identities=24% Similarity=0.325 Sum_probs=19.9
Q ss_pred cCCHHHHHHHHHHHHHHHHHHHHHH
Q 028433 158 KFNAIARERIDTALQEGVEVLKLLL 182 (209)
Q Consensus 158 ~fs~~E~~~l~~~i~~~~~al~~~l 182 (209)
+.+.+|++.|..+|++..+.++.++
T Consensus 2 KVt~~EkeQLS~AID~mnEGLD~fI 26 (84)
T PF11458_consen 2 KVTDQEKEQLSTAIDRMNEGLDTFI 26 (84)
T ss_pred CCchHHHHHHHHHHHHHHhhHHHHH
Confidence 4577899999999998877776665
No 47
>PRK10264 hydrogenase 1 maturation protease; Provisional
Probab=24.13 E-value=1.2e+02 Score=25.82 Aligned_cols=133 Identities=22% Similarity=0.224 Sum_probs=72.1
Q ss_pred eeEEEecCcccCcCCCcchHHHHHHHHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhhhchhhHHHHHHhcC
Q 028433 19 WLFVGLGNPGDKYKGTRHNQVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYK 98 (209)
Q Consensus 19 ~LIvGLGNPG~~Y~~TRHN~vGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~k 98 (209)
.+|+|+|||=-. -= -+|-.++++|.+++..+.. |.++.=.| .|. .++.+..
T Consensus 6 ilVlGiGN~L~g----DD-GvG~~va~~L~~~~~~~~~-----------------V~vid~Gt----~g~---~ll~~i~ 56 (195)
T PRK10264 6 VVVMGLGNLLWA----DE-GFGVRVAERLYAHYHWPEY-----------------VEIVDGGT----QGL---NLLGYVE 56 (195)
T ss_pred EEEEEeCccccc----cC-cHHHHHHHHHHhhcCCCCC-----------------eEEEECCC----CHH---HHHHHHc
Confidence 589999999321 22 4999999999876542210 11111000 111 2333322
Q ss_pred CCCCceEEEeecC--CCCCceEEEecCC---------CCCCC-CchHHHHHhcCCCCCCCCCC-----Cccc--cccCcC
Q 028433 99 LPLNRVLVFHDDM--GLPCGVLRLRHNG---------GHGGH-NGLKSVMNNFRGIGRPPGQM-----DPKA--FLLQKF 159 (209)
Q Consensus 99 i~~~~ilVvhDDl--dlp~G~irlk~gG---------s~gGH-NGLkSIi~~LgGIGrP~~~~-----~v~~--yVLs~f 159 (209)
..+.+||.|=+ +.++|+++.-... +..-| -|+.++++...=.|+.|..- .+.+ ..=-.+
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 24567777854 5689998874321 11234 47777775322012222111 1111 122467
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHH
Q 028433 160 NAIARERIDTALQEGVEVLKLLL 182 (209)
Q Consensus 160 s~~E~~~l~~~i~~~~~al~~~l 182 (209)
|++=+..++++++.+.+.++.|.
T Consensus 135 Sp~V~~av~~~v~~i~~~l~~~~ 157 (195)
T PRK10264 135 SELAREQLPAAEQAALAQLAAWG 157 (195)
T ss_pred CHHHHHHHHHHHHHHHHHHHHcC
Confidence 88888888888887777776665
No 48
>PF06342 DUF1057: Alpha/beta hydrolase of unknown function (DUF1057); InterPro: IPR010463 This entry consists of proteins of unknown function which have an alpha/beta hydrolase fold.
Probab=23.51 E-value=2.4e+02 Score=26.00 Aligned_cols=62 Identities=21% Similarity=0.343 Sum_probs=42.5
Q ss_pred EEeecCCCC--CceEEEecCCCCCCCCchHHHHHhcC-------CCCCCCCCCCccccccCcCCHHHHHHHHH
Q 028433 106 VFHDDMGLP--CGVLRLRHNGGHGGHNGLKSVMNNFR-------GIGRPPGQMDPKAFLLQKFNAIARERIDT 169 (209)
Q Consensus 106 VvhDDldlp--~G~irlk~gGs~gGHNGLkSIi~~Lg-------GIGrP~~~~~v~~yVLs~fs~~E~~~l~~ 169 (209)
|..|++.-. +|++ +-.-||.|.||-.|=|...|- ||--|..+ .+..|---.++.+|+...-+
T Consensus 24 ~y~D~~~~gs~~gTV-v~~hGsPGSH~DFkYi~~~l~~~~iR~I~iN~PGf~-~t~~~~~~~~~n~er~~~~~ 94 (297)
T PF06342_consen 24 VYEDSLPSGSPLGTV-VAFHGSPGSHNDFKYIRPPLDEAGIRFIGINYPGFG-FTPGYPDQQYTNEERQNFVN 94 (297)
T ss_pred EEEecCCCCCCceeE-EEecCCCCCccchhhhhhHHHHcCeEEEEeCCCCCC-CCCCCcccccChHHHHHHHH
Confidence 444665433 5644 678999999999988887776 66677643 34455556788888886543
No 49
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=23.49 E-value=48 Score=30.18 Aligned_cols=30 Identities=17% Similarity=0.319 Sum_probs=24.0
Q ss_pred HHHHhcCCCCCceEEEeecCCCCCceEEEe
Q 028433 92 PLAAYYKLPLNRVLVFHDDMGLPCGVLRLR 121 (209)
Q Consensus 92 ~~~~~~ki~~~~ilVvhDDldlp~G~irlk 121 (209)
.++...+..++..||++|||..+-|.-..|
T Consensus 129 ~l~~~Lr~~~~kFIlFcDDLSFe~gd~~yK 158 (287)
T COG2607 129 DLVELLRARPEKFILFCDDLSFEEGDDAYK 158 (287)
T ss_pred HHHHHHhcCCceEEEEecCCCCCCCchHHH
Confidence 345555667899999999999999987665
No 50
>PRK08179 prfH peptide chain release factor-like protein; Reviewed
Probab=23.40 E-value=59 Score=28.11 Aligned_cols=28 Identities=21% Similarity=0.359 Sum_probs=22.3
Q ss_pred eEEEeecCCCCCceEEEe--cCCCCCCCCc
Q 028433 104 VLVFHDDMGLPCGVLRLR--HNGGHGGHNG 131 (209)
Q Consensus 104 ilVvhDDldlp~G~irlk--~gGs~gGHNG 131 (209)
+.|+-.+++++...+++. +.+|+||+|=
T Consensus 95 V~v~~~~~~i~~~dl~~~~~RssGpGGQ~V 124 (200)
T PRK08179 95 IGRFSADEEEQSDEIRFETLRSSGPGGQHV 124 (200)
T ss_pred EEEeCCcCccCHHHeEEEEEEccCCccccc
Confidence 556667888999999976 6889999964
No 51
>PRK06437 hypothetical protein; Provisional
Probab=23.01 E-value=1.1e+02 Score=21.43 Aligned_cols=29 Identities=7% Similarity=-0.011 Sum_probs=24.4
Q ss_pred chhhHHHHHHhcCCCCCceEEEeecCCCC
Q 028433 86 SGESTGPLAAYYKLPLNRVLVFHDDMGLP 114 (209)
Q Consensus 86 SG~aV~~~~~~~ki~~~~ilVvhDDldlp 114 (209)
.|.+|+++++.++++++.+.|+++.--+|
T Consensus 19 ~~~tv~dLL~~Lgi~~~~vaV~vNg~iv~ 47 (67)
T PRK06437 19 HELTVNDIIKDLGLDEEEYVVIVNGSPVL 47 (67)
T ss_pred CCCcHHHHHHHcCCCCccEEEEECCEECC
Confidence 34678999999999999999998877666
No 52
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=22.94 E-value=1.9e+02 Score=20.06 Aligned_cols=39 Identities=18% Similarity=0.233 Sum_probs=24.9
Q ss_pred CcCCHHHHHHHHHHHHHHHHHHHH---------HHhcCHHHHHHhhhc
Q 028433 157 QKFNAIARERIDTALQEGVEVLKL---------LLSKGLTESARHFNT 195 (209)
Q Consensus 157 s~fs~~E~~~l~~~i~~~~~al~~---------~l~~~~~~amn~~N~ 195 (209)
.+||++|.+.|-+.+..-.+.++. .-..-++...+.||.
T Consensus 3 ~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~ 50 (78)
T PF13873_consen 3 PNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNA 50 (78)
T ss_pred CCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHh
Confidence 479999999887776665555543 112335566666665
No 53
>TIGR01485 SPP_plant-cyano sucrose-6F-phosphate phosphohydrolase. Sucrose phosphate synthase (SPS), the prior step in the biosynthesis of sucrose contains a domain which exhibits considerable similarity to SPP albeit without conservation of the catalytic residues. The catalytic machinery of the synthase resides in another domain. It seems likely that the phosphatase-like domain is involved in substrate binding, possibly binding both substrates in a "product-like" orientation prior to ligation by the synthase catalytic domain.
Probab=22.89 E-value=79 Score=26.86 Aligned_cols=27 Identities=19% Similarity=0.114 Sum_probs=23.9
Q ss_pred hchhhHHHHHHhcCCCCCceEEEeecC
Q 028433 85 LSGESTGPLAAYYKLPLNRVLVFHDDM 111 (209)
Q Consensus 85 lSG~aV~~~~~~~ki~~~~ilVvhDDl 111 (209)
..|.++..+++.|++++++++++=|..
T Consensus 167 ~K~~al~~l~~~~~i~~~~~i~~GD~~ 193 (249)
T TIGR01485 167 GKGQALQYLLQKLAMEPSQTLVCGDSG 193 (249)
T ss_pred ChHHHHHHHHHHcCCCccCEEEEECCh
Confidence 457889999999999999999999974
No 54
>PF14156 AbbA_antirepres: Antirepressor AbbA
Probab=22.56 E-value=93 Score=22.22 Aligned_cols=18 Identities=6% Similarity=0.183 Sum_probs=13.5
Q ss_pred cCcCCHHHHHHHHHHHHH
Q 028433 156 LQKFNAIARERIDTALQE 173 (209)
Q Consensus 156 Ls~fs~~E~~~l~~~i~~ 173 (209)
..+||.||++.|-+++=.
T Consensus 6 ~~rlt~EE~~LLLdiLf~ 23 (63)
T PF14156_consen 6 IERLTEEEKKLLLDILFQ 23 (63)
T ss_pred HHHhhHHHHHHHHHHHHH
Confidence 378999999988665433
No 55
>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=22.53 E-value=99 Score=29.07 Aligned_cols=33 Identities=24% Similarity=0.384 Sum_probs=25.6
Q ss_pred EEEEeCCchhhhchhhHHHHHHhcCCCCCceEEEeecC
Q 028433 74 VLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDM 111 (209)
Q Consensus 74 v~L~KP~TyMNlSG~aV~~~~~~~ki~~~~ilVvhDDl 111 (209)
.++++|..+.| .|+..++++|+. .++++||||=
T Consensus 116 ~~~lrp~~~~~---~Ai~dlV~~~~W--~~v~~iYD~d 148 (400)
T cd06392 116 TLAARPPVRLN---DVMLKLVTELRW--QKFIVFYDSE 148 (400)
T ss_pred eEEecCchHHH---HHHHHHHHhCCC--cEEEEEEECc
Confidence 47888864333 399999999987 6899999754
No 56
>COG5343 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.29 E-value=1.1e+02 Score=27.14 Aligned_cols=31 Identities=10% Similarity=0.153 Sum_probs=24.0
Q ss_pred cccccCcCCHHHHHHHHHHHHH---HHHHHHHHH
Q 028433 152 KAFLLQKFNAIARERIDTALQE---GVEVLKLLL 182 (209)
Q Consensus 152 ~~yVLs~fs~~E~~~l~~~i~~---~~~al~~~l 182 (209)
.+|||+-.+.+|+..++..++. ....++.|-
T Consensus 19 ~EYVlG~L~a~err~~E~ri~~d~dfa~~V~rwq 52 (240)
T COG5343 19 AEYVLGVLSAEERRAAERRIETDGDFAALVARWQ 52 (240)
T ss_pred hhheeecccHHHHHHHHHHhcchHHHHHHHHHHH
Confidence 5999999999999999988764 344455444
No 57
>PRK15126 thiamin pyrimidine pyrophosphate hydrolase; Provisional
Probab=21.88 E-value=47 Score=28.47 Aligned_cols=26 Identities=27% Similarity=0.409 Sum_probs=23.4
Q ss_pred chhhHHHHHHhcCCCCCceEEEeecC
Q 028433 86 SGESTGPLAAYYKLPLNRVLVFHDDM 111 (209)
Q Consensus 86 SG~aV~~~~~~~ki~~~~ilVvhDDl 111 (209)
-|.+++.+++.++|++++++++=|..
T Consensus 189 Kg~al~~l~~~~gi~~~~v~afGD~~ 214 (272)
T PRK15126 189 KGAALAVLSQHLGLSLADCMAFGDAM 214 (272)
T ss_pred hHHHHHHHHHHhCCCHHHeEEecCCH
Confidence 58899999999999999999998854
No 58
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=21.72 E-value=1e+02 Score=23.41 Aligned_cols=75 Identities=15% Similarity=0.078 Sum_probs=40.8
Q ss_pred cchHHHHHHHHHHHHHcCCCCCccccceE--EE--EEEECC--eeEEE-----EeC---CchhhhchhhHHHHHHhcCCC
Q 028433 35 RHNQVGFEMIDAFAESQGISMNTVHCKAT--FG--QGFVGD--APVLL-----AKP---QTYMNLSGESTGPLAAYYKLP 100 (209)
Q Consensus 35 RHN~vGf~vld~La~~~~~~~~~~k~~~~--~~--~~~~~~--~~v~L-----~KP---~TyMNlSG~aV~~~~~~~ki~ 100 (209)
+.. +--.+-+.+++.++.+-. +... .. ...+++ ++..+ ..+ ...-.++......+.+..+++
T Consensus 17 ~~~-~~~~~~~~l~~~lgkPe~---~~~v~~~~~~~m~f~g~~~p~a~v~i~~~g~~~~e~k~~l~~~i~~~l~~~lgi~ 92 (116)
T PTZ00397 17 ADA-ALSDIENAIADVLGKPLS---YIMSGYDYQKHMRFGGSHDGCCFVRVTSIGGISRSNNSSIAAAITKILASHLKVK 92 (116)
T ss_pred HHH-HHHHHHHHHHHHhCCChH---HEEEEEeCCceEEECCCCCceEEEEEEEecCCCHHHHHHHHHHHHHHHHHHhCcC
Confidence 555 677777888888886532 1100 00 011121 12222 221 223334444444566678999
Q ss_pred CCceEEEeecCCC
Q 028433 101 LNRVLVFHDDMGL 113 (209)
Q Consensus 101 ~~~ilVvhDDldl 113 (209)
++++.|+..|++-
T Consensus 93 ~~rv~I~f~~~~~ 105 (116)
T PTZ00397 93 SERVYIEFKDCSA 105 (116)
T ss_pred cccEEEEEEECCh
Confidence 9999999998853
No 59
>TIGR03072 release_prfH putative peptide chain release factor H. Members of this protein family are bacterial proteins homologous to peptide chain release factors 1 (RF-1, product of the prfA gene), and 2 (RF-2, product of the prfB gene). The member from Escherichia coli K-12, designated prfH, appears to be a pseudogene. This class I release factor is always found as the downstream gene of a two-gene operon.
Probab=21.41 E-value=83 Score=27.22 Aligned_cols=28 Identities=21% Similarity=0.331 Sum_probs=21.5
Q ss_pred eEEEeecCCCCCceEEEe--cCCCCCCCCc
Q 028433 104 VLVFHDDMGLPCGVLRLR--HNGGHGGHNG 131 (209)
Q Consensus 104 ilVvhDDldlp~G~irlk--~gGs~gGHNG 131 (209)
+.|+-.+++++...+++. +++|+||+|=
T Consensus 94 V~v~~~~~~i~~~dl~~~~~RssGpGGQ~v 123 (200)
T TIGR03072 94 VQRFSASEEATEDEIRFETLRSSGPGGQHV 123 (200)
T ss_pred EEEecCccccChhheEEEEEECCCCCcccc
Confidence 445556888999999886 6778999764
No 60
>COG4128 Zot Zonula occludens toxin [General function prediction only]
Probab=20.92 E-value=89 Score=29.41 Aligned_cols=42 Identities=14% Similarity=0.165 Sum_probs=35.9
Q ss_pred hhchhhHHHHHHhcCCCCCceEEEeecCCCCCceEEEecCCC
Q 028433 84 NLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGG 125 (209)
Q Consensus 84 NlSG~aV~~~~~~~ki~~~~ilVvhDDldlp~G~irlk~gGs 125 (209)
|.-|--...+.++|+-.+.+++|+-||++-+=|...++.-|+
T Consensus 36 NVrGl~ler~~~~~pd~~~~i~I~n~D~~~~d~~~~m~~~~~ 77 (398)
T COG4128 36 NVRGLQLERITERYPDATGEIIIVNDDVLKADFFPFMGGEGS 77 (398)
T ss_pred ecccccHHHHHHhccCCCCceEEEeccccCcccchhhcceee
Confidence 777888889999999999999999999999988777665554
No 61
>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins. GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.
Probab=20.75 E-value=3.4e+02 Score=23.12 Aligned_cols=65 Identities=20% Similarity=0.259 Sum_probs=34.5
Q ss_pred HHHHHHHcCCCCCccccceEEEEEEECCeeEEEEeCCchhhhchhhHHHHHHhcCCCCCceEEEeecC
Q 028433 44 IDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDM 111 (209)
Q Consensus 44 ld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki~~~~ilVvhDDl 111 (209)
+....+..|+.+.+....-.+.....++-.+.-.-+++- .+-+.|+++++.|+|...++ .+.+|+
T Consensus 97 ~~~~l~~~gi~l~~~~~~v~~~~~~~ggi~~~~~~~~~~--~~~~~v~~~l~~~~i~~~~v-~~~~~~ 161 (233)
T cd01896 97 LERELEGVGIRLNKRPPNITIKKKKKGGINITSTVPLTK--LDEKTIKAILREYKIHNADV-LIREDI 161 (233)
T ss_pred HHHHHHHcCceecCCCCeEEEEEEecCCEEEeccCCCCC--CCHHHHHHHHHHhCeeeEEE-EEccCC
Confidence 333444566654433222222222333333333334444 46688999999999975555 555555
No 62
>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=20.56 E-value=1.2e+02 Score=25.20 Aligned_cols=50 Identities=18% Similarity=0.292 Sum_probs=40.0
Q ss_pred CCCCCCCCCccccccCcCCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHhh
Q 028433 142 IGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESARHF 193 (209)
Q Consensus 142 IGrP~~~~~v~~yVLs~fs~~E~~~l~~~i~~~~~al~~~l~~~~~~amn~~ 193 (209)
-|.+. ..+.+|....+++.-.++++++++.+.+.+..++.+.+.-|+.++
T Consensus 84 tG~~s--~~l~~fL~~~l~erglKr~~k~~~~~y~~i~~l~~~~l~pa~erl 133 (210)
T PF12896_consen 84 TGHAS--PALKQFLVNQLGERGLKRWEKAVDSAYSSIRKLLFEHLIPALERL 133 (210)
T ss_pred hcCCC--HHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34443 367799999999999999999999999999988887766666553
No 63
>TIGR02463 MPGP_rel mannosyl-3-phosphoglycerate phosphatase-related protein. This family consists of members of the HAD superfamily, subfamily IIB. All members are closely related to mannosyl-3-phosphoglycerate phosphatase, the second enzyme in a two-step pathway for biosynthesis of mannosylglycerate, a compatible solute present in some thermophiles and in Dehalococcoides ethenogenes. However, members of this family are separable in a neighbor-joining tree constructed from a multiple sequence alignment and are found only in mesophiles that lack the companion mannosyl-3-phosphoglycerate synthase (TIGR02460). Members of this family are like to act on a compound related to yet distinct from mannosyl-3-phosphoglycerate.
Probab=20.55 E-value=92 Score=25.65 Aligned_cols=26 Identities=27% Similarity=0.308 Sum_probs=23.2
Q ss_pred chhhHHHHHHhcCCCCCceEEEeecC
Q 028433 86 SGESTGPLAAYYKLPLNRVLVFHDDM 111 (209)
Q Consensus 86 SG~aV~~~~~~~ki~~~~ilVvhDDl 111 (209)
-|.++..+++.+++++++++.+=|..
T Consensus 180 Kg~al~~l~~~lgi~~~~vi~~GD~~ 205 (221)
T TIGR02463 180 KGKAANWLKATYNQPDVKTLGLGDGP 205 (221)
T ss_pred HHHHHHHHHHHhCCCCCcEEEECCCH
Confidence 67889999999999999999998854
No 64
>PRK01158 phosphoglycolate phosphatase; Provisional
Probab=20.39 E-value=59 Score=26.82 Aligned_cols=25 Identities=20% Similarity=0.205 Sum_probs=23.0
Q ss_pred hhhHHHHHHhcCCCCCceEEEeecC
Q 028433 87 GESTGPLAAYYKLPLNRVLVFHDDM 111 (209)
Q Consensus 87 G~aV~~~~~~~ki~~~~ilVvhDDl 111 (209)
|.++..+++.+++++++++++=|..
T Consensus 159 g~al~~l~~~~~i~~~~~i~~GD~~ 183 (230)
T PRK01158 159 GTGLKKLAELMGIDPEEVAAIGDSE 183 (230)
T ss_pred HHHHHHHHHHhCCCHHHEEEECCch
Confidence 8999999999999999999999854
No 65
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=20.14 E-value=1.4e+02 Score=20.29 Aligned_cols=28 Identities=25% Similarity=0.205 Sum_probs=23.1
Q ss_pred hhhHHHHHHhcCCCCCceEEEeecCCCC
Q 028433 87 GESTGPLAAYYKLPLNRVLVFHDDMGLP 114 (209)
Q Consensus 87 G~aV~~~~~~~ki~~~~ilVvhDDldlp 114 (209)
|.+|..+++.++++++.+.|.++.--+|
T Consensus 13 ~~tv~~ll~~l~~~~~~v~v~vN~~iv~ 40 (64)
T TIGR01683 13 GLTLAALLESLGLDPRRVAVAVNGEIVP 40 (64)
T ss_pred CCcHHHHHHHcCCCCCeEEEEECCEEcC
Confidence 4568999999999998888888876555
Done!