Query 032666
Match_columns 136
No_of_seqs 132 out of 1022
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 04:23:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032666.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032666hhsearch_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 9.4E-56 2E-60 346.1 11.0 118 18-135 2-120 (190)
2 cd02406 CRS2 Chloroplast RNA s 100.0 2.1E-55 4.5E-60 345.1 12.3 119 17-135 1-119 (191)
3 cd00462 PTH Peptidyl-tRNA hydr 100.0 3.6E-54 7.7E-59 333.0 12.2 116 20-135 1-116 (171)
4 TIGR00447 pth peptidyl-tRNA hy 100.0 7.6E-54 1.6E-58 335.4 12.6 118 18-135 1-119 (188)
5 PRK05426 peptidyl-tRNA hydrola 100.0 9.4E-53 2E-57 329.4 12.6 119 17-135 1-120 (189)
6 PF01195 Pept_tRNA_hydro: Pept 100.0 4.4E-51 9.6E-56 318.0 10.6 115 20-134 1-116 (184)
7 KOG2255 Peptidyl-tRNA hydrolas 100.0 8.5E-43 1.8E-47 274.5 9.6 118 17-134 38-155 (224)
8 PRK10466 hybD hydrogenase 2 ma 73.2 5.7 0.00012 30.0 3.9 30 18-51 2-31 (164)
9 cd06062 H2MP_MemB-H2up Endopep 72.5 5.5 0.00012 29.4 3.6 28 19-50 1-28 (146)
10 TIGR00130 frhD coenzyme F420-r 71.9 4.7 0.0001 30.1 3.2 29 17-49 3-31 (153)
11 COG0680 HyaD Ni,Fe-hydrogenase 69.8 5.6 0.00012 30.4 3.2 31 17-51 2-32 (160)
12 TIGR00072 hydrog_prot hydrogen 67.2 6.2 0.00013 29.0 2.9 28 20-51 1-28 (145)
13 cd06064 H2MP_F420-Reduc Endope 64.8 6.9 0.00015 29.0 2.8 27 20-50 1-27 (150)
14 PRK10264 hydrogenase 1 maturat 64.8 13 0.00028 29.3 4.4 31 17-51 4-34 (195)
15 cd00518 H2MP Hydrogenase speci 63.0 8.5 0.00019 28.0 2.9 27 20-50 1-27 (139)
16 PF03418 Peptidase_A25: Germin 62.1 10 0.00022 32.9 3.7 29 15-47 94-122 (354)
17 cd06066 H2MP_NAD-link-bidir En 60.8 10 0.00022 27.8 3.0 27 20-50 1-27 (139)
18 cd06067 H2MP_MemB-H2evol Endop 58.4 11 0.00023 27.5 2.8 27 20-50 1-27 (136)
19 cd06068 H2MP_like-1 Putative [ 57.5 9.6 0.00021 28.0 2.4 26 20-49 1-26 (144)
20 cd06063 H2MP_Cyano-H2up This g 56.6 13 0.00028 27.4 3.0 27 19-49 1-27 (146)
21 TIGR00142 hycI hydrogenase mat 56.5 12 0.00027 27.5 2.9 28 19-50 1-28 (146)
22 cd06070 H2MP_like-2 Putative [ 56.2 12 0.00026 27.4 2.8 25 20-48 1-25 (140)
23 PRK12362 germination protease; 54.9 16 0.00035 31.3 3.6 102 7-123 89-200 (318)
24 PRK11544 hycI hydrogenase 3 ma 52.5 18 0.0004 27.1 3.3 27 19-49 3-29 (156)
25 PRK02858 germination protease; 51.3 11 0.00025 32.8 2.2 28 16-47 110-137 (369)
26 TIGR01441 GPR GPR endopeptidas 50.9 12 0.00025 32.7 2.1 80 16-111 100-185 (358)
27 PF14490 HHH_4: Helix-hairpin- 48.6 12 0.00025 25.8 1.5 25 31-55 45-71 (94)
28 COG2179 Predicted hydrolase of 46.8 15 0.00032 29.0 2.0 29 85-113 95-123 (175)
29 COG2897 SseA Rhodanese-related 46.4 21 0.00046 29.9 3.0 31 80-110 69-99 (285)
30 KOG2882 p-Nitrophenyl phosphat 44.3 21 0.00045 30.5 2.7 40 69-114 216-255 (306)
31 COG4841 Uncharacterized protei 40.9 21 0.00045 25.4 1.8 25 107-131 14-41 (95)
32 PF11242 DUF2774: Protein of u 40.5 13 0.00028 24.7 0.7 24 80-103 7-30 (63)
33 COG2607 Predicted ATPase (AAA+ 39.8 18 0.00039 30.5 1.6 30 91-120 129-158 (287)
34 COG5381 Uncharacterized protei 38.9 58 0.0013 25.5 4.1 22 30-51 56-77 (184)
35 PF02789 Peptidase_M17_N: Cyto 38.1 26 0.00056 24.3 2.0 33 16-48 52-84 (126)
36 PF08282 Hydrolase_3: haloacid 36.4 28 0.00061 25.9 2.1 25 86-110 188-212 (254)
37 COG4128 Zot Zonula occludens t 35.3 38 0.00083 29.5 2.9 41 83-123 36-76 (398)
38 PF07431 DUF1512: Protein of u 33.8 1.9E+02 0.0042 25.2 6.9 68 37-106 184-254 (355)
39 PF13443 HTH_26: Cro/C1-type H 33.3 8.2 0.00018 23.9 -1.1 27 83-109 37-63 (63)
40 PRK06437 hypothetical protein; 31.0 68 0.0015 20.7 3.0 29 85-113 19-47 (67)
41 PRK10513 sugar phosphate phosp 29.7 33 0.00071 26.9 1.5 25 86-110 198-222 (270)
42 PRK10976 putative hydrolase; P 29.0 36 0.00078 26.7 1.7 26 85-110 191-216 (266)
43 PTZ00397 macrophage migration 28.0 62 0.0014 22.7 2.6 30 83-112 76-105 (116)
44 TIGR01485 SPP_plant-cyano sucr 28.0 59 0.0013 25.4 2.7 27 85-111 168-194 (249)
45 PF13242 Hydrolase_like: HAD-h 27.1 62 0.0013 20.6 2.3 24 89-112 10-33 (75)
46 PF03808 Glyco_tran_WecB: Glyc 26.9 25 0.00055 26.6 0.4 28 15-52 100-127 (172)
47 KOG1486 GTP-binding protein DR 26.3 3E+02 0.0064 23.7 6.7 73 32-106 148-220 (364)
48 PF09807 DUF2348: Uncharacteri 25.9 98 0.0021 25.1 3.7 97 2-112 34-146 (249)
49 cd01445 TST_Repeats Thiosulfat 25.7 84 0.0018 22.9 3.0 22 88-109 82-103 (138)
50 PRK08179 prfH peptide chain re 24.2 62 0.0014 25.8 2.2 28 102-129 94-123 (200)
51 PRK15126 thiamin pyrimidine py 24.2 41 0.00088 26.6 1.2 26 85-110 189-214 (272)
52 TIGR02463 MPGP_rel mannosyl-3- 23.8 76 0.0017 24.0 2.6 26 85-110 180-205 (221)
53 PRK01158 phosphoglycolate phos 23.3 49 0.0011 25.1 1.4 26 86-111 159-184 (230)
54 TIGR02471 sucr_syn_bact_C sucr 23.1 56 0.0012 25.3 1.7 28 84-111 159-186 (236)
55 COG1186 PrfB Protein chain rel 22.8 59 0.0013 26.8 1.9 24 106-129 101-126 (239)
56 PRK05988 formate dehydrogenase 22.2 2.9E+02 0.0063 20.8 5.5 58 39-96 91-154 (156)
57 cd01896 DRG The developmentall 22.0 3.6E+02 0.0078 21.1 6.2 21 81-101 133-153 (233)
58 TIGR01683 thiS thiamine biosyn 21.8 1.5E+02 0.0032 18.6 3.3 28 86-113 13-40 (64)
59 PRK07571 bidirectional hydroge 21.7 2.5E+02 0.0055 21.6 5.1 59 39-97 104-168 (169)
60 PF05116 S6PP: Sucrose-6F-phos 21.7 68 0.0015 25.5 2.0 27 85-111 166-192 (247)
61 TIGR03072 release_prfH putativ 21.5 90 0.0019 24.9 2.6 27 103-129 94-122 (200)
62 TIGR00696 wecB_tagA_cpsF bacte 21.5 43 0.00092 25.9 0.8 16 15-30 99-114 (177)
63 smart00852 MoCF_biosynth Proba 21.5 51 0.0011 23.5 1.2 35 77-111 11-45 (135)
64 TIGR00013 taut 4-oxalocrotonat 21.2 1.2E+02 0.0025 18.5 2.7 22 91-112 27-48 (63)
65 KOG3731 Sulfatases [Carbohydra 21.2 69 0.0015 29.2 2.1 49 75-123 8-58 (541)
66 TIGR01482 SPP-subfamily Sucros 20.9 68 0.0015 24.2 1.8 27 84-110 149-175 (225)
67 PF05673 DUF815: Protein of un 20.9 1.1E+02 0.0024 25.3 3.1 30 90-119 95-124 (249)
68 TIGR01452 PGP_euk phosphoglyco 20.4 41 0.0009 27.0 0.5 38 72-115 197-236 (279)
69 COG0056 AtpA F0F1-type ATP syn 20.3 66 0.0014 29.2 1.8 24 85-111 241-264 (504)
70 PF14681 UPRTase: Uracil phosp 20.3 1.3E+02 0.0028 23.5 3.3 35 69-106 120-157 (207)
71 COG0561 Cof Predicted hydrolas 20.0 66 0.0014 25.2 1.6 27 85-111 190-216 (264)
72 cd01786 STE50_RA Ubiquitin-lik 20.0 1.1E+02 0.0024 22.0 2.5 28 87-114 39-71 (98)
No 1
>COG0193 Pth Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=9.4e-56 Score=346.09 Aligned_cols=118 Identities=45% Similarity=0.780 Sum_probs=113.7
Q ss_pred ceeEEEecCCcCCcCcCcchHHHHHHHHHHHHhCCCC-CcceeeeEEEEEEECCeeEEEEeCCchhhcchhcHHHHHHhc
Q 032666 18 PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISM-NTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYY 96 (136)
Q Consensus 18 ~~LivGLGNPG~~Y~~TRHNvG~~~ld~La~~~~~~~-~~~~~~~~~~~~~~~~~~v~L~kP~tyMN~SG~~V~~~~~~~ 96 (136)
++|||||||||++|+.|||||||+++|.||++++.++ +.+++.+.++++.+++++|+|+||+||||+||++|.++++||
T Consensus 2 ~kLIVGLGNPG~~Y~~TRHNvGf~~vD~La~~~~~~~~~~~kf~~~~~~~~i~g~kv~l~kP~TyMNlSG~~V~~~~~fy 81 (190)
T COG0193 2 MKLIVGLGNPGKKYAKTRHNVGFMVVDLLARRLNLSFKEEKKFNGLVAKGTIEGEKVILLKPTTYMNLSGKAVGALASFY 81 (190)
T ss_pred cEEEEECCCCchhhcccchhHHHHHHHHHHHHhCCCCccccccCceeEEEEeCCcEEEEecCccceeCcHHHHHHHHHHh
Confidence 6899999999999999999999999999999999998 556888999999999999999999999999999999999999
Q ss_pred CCCCCcEEEEeccCCCCCceEEEecCCCCCCCCcccccc
Q 032666 97 KLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGCVYWS 135 (136)
Q Consensus 97 ki~~~~ilVvhDDldl~~Gkvrlk~~Gs~~GHNGlk~i~ 135 (136)
++++++++|||||||+|+|++|+|.+||++||||||||.
T Consensus 82 ~i~~~~ilVvhDdLdl~~G~vrlk~~Gg~gGHNGlKSi~ 120 (190)
T COG0193 82 KIKPEDILVVHDELDLPLGKVRLKLGGGAGGHNGLKSII 120 (190)
T ss_pred CCCHHHEEEEeeccCCCCceEEEEcCCCCCCcccHHHHH
Confidence 999999999999999999999999999999999999984
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=2.1e-55 Score=345.13 Aligned_cols=119 Identities=67% Similarity=1.150 Sum_probs=113.6
Q ss_pred CceeEEEecCCcCCcCcCcchHHHHHHHHHHHHhCCCCCcceeeeEEEEEEECCeeEEEEeCCchhhcchhcHHHHHHhc
Q 032666 17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYY 96 (136)
Q Consensus 17 ~~~LivGLGNPG~~Y~~TRHNvG~~~ld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~kP~tyMN~SG~~V~~~~~~~ 96 (136)
+|+|||||||||++|++|||||||+++|.||+++++++++.++.+.+++..+.+++|+|+||+||||+||++|+++++||
T Consensus 1 ~~~LIvGLGNPG~~Y~~TRHNiGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMN~SG~aV~~~~~~y 80 (191)
T cd02406 1 TPWLIAGLGNPGNKYKGTRHNVGFEMVDRIAEAEGITMNTIQFKSLLGIGSIGDVPVLLAKPQTYMNYSGESVGPLAAYY 80 (191)
T ss_pred CcEEEEEcCCCchhhCcCchhHHHHHHHHHHHHcCCCccccccceEEEEEEECCeEEEEEeCCCchhcCHHHHHHHHHHh
Confidence 47899999999999999999999999999999999887666778888998899999999999999999999999999999
Q ss_pred CCCCCcEEEEeccCCCCCceEEEecCCCCCCCCcccccc
Q 032666 97 KLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGCVYWS 135 (136)
Q Consensus 97 ki~~~~ilVvhDDldl~~Gkvrlk~~Gs~~GHNGlk~i~ 135 (136)
++++++++|||||||+|+|++|+|.+||++||||||||.
T Consensus 81 ki~~~~ilVihDdldl~~G~irlk~gGs~gGHNGlkSI~ 119 (191)
T cd02406 81 KVPLRHILVIYDDMSLPNGVLRLQPKGGHGRHNGLQSVI 119 (191)
T ss_pred CCCHHHEEEEEECCCCCCCeEEEcCCCCCCCcCCHHHHH
Confidence 999999999999999999999999999999999999984
No 3
>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=3.6e-54 Score=333.00 Aligned_cols=116 Identities=54% Similarity=0.931 Sum_probs=111.2
Q ss_pred eEEEecCCcCCcCcCcchHHHHHHHHHHHHhCCCCCcceeeeEEEEEEECCeeEEEEeCCchhhcchhcHHHHHHhcCCC
Q 032666 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLP 99 (136)
Q Consensus 20 LivGLGNPG~~Y~~TRHNvG~~~ld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~kP~tyMN~SG~~V~~~~~~~ki~ 99 (136)
|||||||||++|++|||||||+++|+||++++.++++.++.+.+++..+.+++++|+||+||||+||++|.+++++|+++
T Consensus 1 LIvGLGNPG~~Y~~TRHNvGf~~ld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~kP~TyMN~SG~~V~~~~~~~~i~ 80 (171)
T cd00462 1 LIVGLGNPGPKYENTRHNVGFMVLDALAERYGVSFKKKKKKGLVGEGRIGGEKVLLLKPQTYMNLSGEAVAALANFYKIP 80 (171)
T ss_pred CEEEECCCCcccCcCchHHHHHHHHHHHHHcCCCCCccccCEEEEEEEECCEEEEEEeCCcccccccHHHHHHHHhcCCC
Confidence 69999999999999999999999999999999988766667899999999999999999999999999999999999999
Q ss_pred CCcEEEEeccCCCCCceEEEecCCCCCCCCcccccc
Q 032666 100 LNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGCVYWS 135 (136)
Q Consensus 100 ~~~ilVvhDDldl~~Gkvrlk~~Gs~~GHNGlk~i~ 135 (136)
+++++|||||||+|+|++|+|++||++||||||||.
T Consensus 81 ~~~ilVihDdldl~~G~vrlk~~G~~gGHNGlkSI~ 116 (171)
T cd00462 81 PEDILVIHDDLDLPLGKIRLKKGGGSGGHNGLKSII 116 (171)
T ss_pred hhHEEEEEecCCCCCceEEEeCCCCCCCCCCHHHHH
Confidence 999999999999999999999999999999999984
No 4
>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=7.6e-54 Score=335.41 Aligned_cols=118 Identities=46% Similarity=0.774 Sum_probs=111.5
Q ss_pred ceeEEEecCCcCCcCcCcchHHHHHHHHHHHHhCCCCCc-ceeeeEEEEEEECCeeEEEEeCCchhhcchhcHHHHHHhc
Q 032666 18 PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNT-VHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYY 96 (136)
Q Consensus 18 ~~LivGLGNPG~~Y~~TRHNvG~~~ld~La~~~~~~~~~-~~~~~~~~~~~~~~~~v~L~kP~tyMN~SG~~V~~~~~~~ 96 (136)
|+|||||||||++|+.|||||||+++|+||++++.++++ .++.+.+++..+++++|+|+||+||||+||++|++++++|
T Consensus 1 ~~LIvGLGNPG~~Y~~TRHNiGf~~ld~La~~~~~~~~~~~~~~~~~~~~~~~~~~v~L~kP~TyMN~SG~~V~~~~~~~ 80 (188)
T TIGR00447 1 IKLIVGLGNPGKKYAGTRHNAGFWVLDLLASRLGLSLRTEKKFFGYTERGLLSGKKVILLKPLTYMNLSGEAVRALASFY 80 (188)
T ss_pred CEEEEEeCCCchhhCcCchHHHHHHHHHHHHHcCcCCcccccceEEEEEEEECCeEEEEEeCCcchhcCcHHHHHHHHHh
Confidence 689999999999999999999999999999999988753 4566788888888999999999999999999999999999
Q ss_pred CCCCCcEEEEeccCCCCCceEEEecCCCCCCCCcccccc
Q 032666 97 KLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGCVYWS 135 (136)
Q Consensus 97 ki~~~~ilVvhDDldl~~Gkvrlk~~Gs~~GHNGlk~i~ 135 (136)
++++++++|||||||+|+|++|+|++||++||||||||.
T Consensus 81 ~i~~~~ilVihDdldl~~G~irlk~~G~~gGHNGlkSI~ 119 (188)
T TIGR00447 81 RIKPAELLVVHDELDLPLGKVRLKMGGGAGGHNGLKSII 119 (188)
T ss_pred CCChHHEEEEEecCCCCCceEEEecCCCCCCcCCHHHHH
Confidence 999999999999999999999999999999999999984
No 5
>PRK05426 peptidyl-tRNA hydrolase; Provisional
Probab=100.00 E-value=9.4e-53 Score=329.38 Aligned_cols=119 Identities=46% Similarity=0.801 Sum_probs=111.6
Q ss_pred CceeEEEecCCcCCcCcCcchHHHHHHHHHHHHhCCCCC-cceeeeEEEEEEECCeeEEEEeCCchhhcchhcHHHHHHh
Q 032666 17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMN-TVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAY 95 (136)
Q Consensus 17 ~~~LivGLGNPG~~Y~~TRHNvG~~~ld~La~~~~~~~~-~~~~~~~~~~~~~~~~~v~L~kP~tyMN~SG~~V~~~~~~ 95 (136)
.|+|||||||||++|++|||||||+++|.||++++..+. ..++.+.+++..+++.+++|+||+||||+||++|++++++
T Consensus 1 ~~~LivGLGNPG~~Y~~TRHNvGf~~ld~la~~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMN~SG~~V~~~~~~ 80 (189)
T PRK05426 1 MMKLIVGLGNPGPEYANTRHNIGFMVVDELARRLGGSLKEKKKFKGLIAEGRINGEKVILLKPQTYMNLSGKAVAALANF 80 (189)
T ss_pred CcEEEEEeCCCchhhCcCchHHHHHHHHHHHHHcCCCCcccccccEEEEEEEECCeEEEEEeCCcchhcCcHHHHHHHHH
Confidence 368999999999999999999999999999999877654 3466788899889889999999999999999999999999
Q ss_pred cCCCCCcEEEEeccCCCCCceEEEecCCCCCCCCcccccc
Q 032666 96 YKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGCVYWS 135 (136)
Q Consensus 96 ~ki~~~~ilVvhDDldl~~Gkvrlk~~Gs~~GHNGlk~i~ 135 (136)
|++++++++|||||+|+|+|++|+|.+||++||||||||.
T Consensus 81 ~~i~~~~ilVihDdldl~~G~~r~k~gGs~~GHNGlkSI~ 120 (189)
T PRK05426 81 YKIPPEDILVIHDDLDLPPGKIRLKKGGGAGGHNGLKSII 120 (189)
T ss_pred hCCCHHHEEEEEecCCCCCceEEEecCCCCCCcCCHHHHH
Confidence 9999999999999999999999999999999999999984
No 6
>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=4.4e-51 Score=318.02 Aligned_cols=115 Identities=47% Similarity=0.845 Sum_probs=99.2
Q ss_pred eEEEecCCcCCcCcCcchHHHHHHHHHHHHhCCCCCcce-eeeEEEEEEECCeeEEEEeCCchhhcchhcHHHHHHhcCC
Q 032666 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVH-CKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKL 98 (136)
Q Consensus 20 LivGLGNPG~~Y~~TRHNvG~~~ld~La~~~~~~~~~~~-~~~~~~~~~~~~~~v~L~kP~tyMN~SG~~V~~~~~~~ki 98 (136)
|||||||||++|++|||||||+++|+||+.++.+++..+ +.+.+++..+.+.+++|+||+||||+||++|++++++|++
T Consensus 1 LivGLGNPG~~Y~~TRHNvG~~~ld~la~~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP~TyMN~SG~~V~~~~~~~~i 80 (184)
T PF01195_consen 1 LIVGLGNPGPKYENTRHNVGFMVLDRLASRLGLSWKQKKKFKSLISEGSIKGEKVILLKPQTYMNLSGKAVKKILSFYKI 80 (184)
T ss_dssp EEEE---SSTTTTTSGGGHHHHHHHHHHHHTT---EEEGGGTEEEEEEEETTEEEEEEEESSTGGGHHHHHHHHHHHTT-
T ss_pred CEEEcCCCChhhcCCCcCchHHHHHHHHHHhCCCccccccceeEEEEEEEeeeeEEEEcCCCeEeCccHhHHHHHHHhCC
Confidence 799999999999999999999999999999998876544 6788888889999999999999999999999999999999
Q ss_pred CCCcEEEEeccCCCCCceEEEecCCCCCCCCccccc
Q 032666 99 PLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGCVYW 134 (136)
Q Consensus 99 ~~~~ilVvhDDldl~~Gkvrlk~~Gs~~GHNGlk~i 134 (136)
++++++|||||+|+|+|++|+|.+||++||||||||
T Consensus 81 ~~~~ilVihDdldl~~G~irlk~~Gs~~GHNGlkSI 116 (184)
T PF01195_consen 81 PPENILVIHDDLDLPLGKIRLKKGGSSGGHNGLKSI 116 (184)
T ss_dssp -GGGEEEEEEETTSSTTEEEEEESS--TT-HHHHHH
T ss_pred CcceEEEEEeccCCCCCeEEEccCCCCCCCCCHHHH
Confidence 999999999999999999999999999999999998
No 7
>KOG2255 consensus Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=8.5e-43 Score=274.53 Aligned_cols=118 Identities=59% Similarity=1.060 Sum_probs=110.1
Q ss_pred CceeEEEecCCcCCcCcCcchHHHHHHHHHHHHhCCCCCcceeeeEEEEEEECCeeEEEEeCCchhhcchhcHHHHHHhc
Q 032666 17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYY 96 (136)
Q Consensus 17 ~~~LivGLGNPG~~Y~~TRHNvG~~~ld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~kP~tyMN~SG~~V~~~~~~~ 96 (136)
.+|+|+||||||++|..|||||||.|+|.||++.+++..+.+.++..+-+.+++.++++++|++|||.||++|.+++..|
T Consensus 38 k~wli~GLGNPg~~y~gTRHnvG~~Ml~~larrlgv~~nt~s~~a~~~l~~v~d~~~~llrp~qymN~SgesV~kva~~y 117 (224)
T KOG2255|consen 38 KPWLIVGLGNPGSKYVGTRHNVGFEMLDMLARRLGVPMNTISSKALEGLGLVGDVPILLLRPQQYMNFSGESVGKVAALY 117 (224)
T ss_pred CceEEEecCCCcccccccchhhHHHHHHHHHHHhCCcccccCcccccceeeecceeeEeeCcHhhhccccchhhhhHHhh
Confidence 46999999999999999999999999999999999987655555566677788999999999999999999999999999
Q ss_pred CCCCCcEEEEeccCCCCCceEEEecCCCCCCCCccccc
Q 032666 97 KLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGCVYW 134 (136)
Q Consensus 97 ki~~~~ilVvhDDldl~~Gkvrlk~~Gs~~GHNGlk~i 134 (136)
+++.++++||||||++|+|++++|++||++||||+||+
T Consensus 118 ~i~~~~ivvIhDEl~l~~Gkl~Lrp~gs~rgHNGvrs~ 155 (224)
T KOG2255|consen 118 KIPLRHIVVIHDELELPLGKLRLRPGGSHRGHNGVRSV 155 (224)
T ss_pred cchheeEEEEeccccCcCceEEeccCCCccccccHHHH
Confidence 99999999999999999999999999999999999985
No 8
>PRK10466 hybD hydrogenase 2 maturation endopeptidase; Provisional
Probab=73.17 E-value=5.7 Score=30.03 Aligned_cols=30 Identities=23% Similarity=0.347 Sum_probs=22.7
Q ss_pred ceeEEEecCCcCCcCcCcchHHHHHHHHHHHHhC
Q 032666 18 PWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQG 51 (136)
Q Consensus 18 ~~LivGLGNPG~~Y~~TRHNvG~~~ld~La~~~~ 51 (136)
+.+|+|+|||- .+-==+|..+++.|.+.+.
T Consensus 2 ~ilVlGiGN~l----~gDDGvG~~va~~L~~~~~ 31 (164)
T PRK10466 2 RILVLGVGNIL----LTDEAIGVRIVEALEQRYI 31 (164)
T ss_pred ceEEEEECchh----hccCcHHHHHHHHHHHhcC
Confidence 46899999993 1223499999999987654
No 9
>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=72.54 E-value=5.5 Score=29.38 Aligned_cols=28 Identities=21% Similarity=0.400 Sum_probs=21.5
Q ss_pred eeEEEecCCcCCcCcCcchHHHHHHHHHHHHh
Q 032666 19 WLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQ 50 (136)
Q Consensus 19 ~LivGLGNPG~~Y~~TRHNvG~~~ld~La~~~ 50 (136)
.+|+|+|||-- .-==+|..+++.|++.+
T Consensus 1 ilV~GiGN~l~----gDDG~G~~va~~L~~~~ 28 (146)
T cd06062 1 ILVLGIGNILL----ADEGIGVHAVERLEENY 28 (146)
T ss_pred CEEEEECcccc----ccCcHHHHHHHHHHHhc
Confidence 37999999941 12349999999998874
No 10
>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=71.91 E-value=4.7 Score=30.06 Aligned_cols=29 Identities=28% Similarity=0.281 Sum_probs=21.7
Q ss_pred CceeEEEecCCcCCcCcCcchHHHHHHHHHHHH
Q 032666 17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAES 49 (136)
Q Consensus 17 ~~~LivGLGNPG~~Y~~TRHNvG~~~ld~La~~ 49 (136)
++.+|+|+|||-- .-==+|..++++|++.
T Consensus 3 ~~ilVlGiGN~l~----gDDGvG~~v~~~L~~~ 31 (153)
T TIGR00130 3 HEILVVGCGNILF----GDDGFGPAVIEYLKEN 31 (153)
T ss_pred ceEEEEEeCcccc----ccCcHhHHHHHHHHHh
Confidence 4578999999931 1224999999999863
No 11
>COG0680 HyaD Ni,Fe-hydrogenase maturation factor [Energy production and conversion]
Probab=69.78 E-value=5.6 Score=30.43 Aligned_cols=31 Identities=16% Similarity=0.219 Sum_probs=24.2
Q ss_pred CceeEEEecCCcCCcCcCcchHHHHHHHHHHHHhC
Q 032666 17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQG 51 (136)
Q Consensus 17 ~~~LivGLGNPG~~Y~~TRHNvG~~~ld~La~~~~ 51 (136)
.+++|+|+|||= ..-==+|..+++.|++.+.
T Consensus 2 ~~ilIlG~GN~L----~~DDG~Gv~vae~L~~~~~ 32 (160)
T COG0680 2 MRILILGVGNIL----MGDDGFGVRVAEKLKKRYK 32 (160)
T ss_pred CeEEEEeeCCcc----cccCcccHHHHHHHHHhcC
Confidence 467999999993 2344689999999998764
No 12
>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=67.16 E-value=6.2 Score=29.02 Aligned_cols=28 Identities=21% Similarity=0.322 Sum_probs=21.3
Q ss_pred eEEEecCCcCCcCcCcchHHHHHHHHHHHHhC
Q 032666 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQG 51 (136)
Q Consensus 20 LivGLGNPG~~Y~~TRHNvG~~~ld~La~~~~ 51 (136)
+|+|+|||-- .-==+|..++++|++++.
T Consensus 1 lViGiGN~l~----~DDg~G~~v~~~L~~~~~ 28 (145)
T TIGR00072 1 LVLGIGNILR----GDDGFGPRVAERLEERYE 28 (145)
T ss_pred CEEEECchhc----ccCcHHHHHHHHHHHhcC
Confidence 5899999931 223599999999998753
No 13
>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=64.83 E-value=6.9 Score=28.97 Aligned_cols=27 Identities=26% Similarity=0.309 Sum_probs=20.8
Q ss_pred eEEEecCCcCCcCcCcchHHHHHHHHHHHHh
Q 032666 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQ 50 (136)
Q Consensus 20 LivGLGNPG~~Y~~TRHNvG~~~ld~La~~~ 50 (136)
||+|+|||-. .-==+|+.++++|++.+
T Consensus 1 lViGiGN~l~----gDDgvG~~va~~l~~~~ 27 (150)
T cd06064 1 LVVGCGNILF----GDDGFGPAVIEELEKLE 27 (150)
T ss_pred CEEEECCccc----ccCcHHHHHHHHHHhcc
Confidence 5899999941 22349999999998764
No 14
>PRK10264 hydrogenase 1 maturation protease; Provisional
Probab=64.75 E-value=13 Score=29.28 Aligned_cols=31 Identities=16% Similarity=0.211 Sum_probs=23.1
Q ss_pred CceeEEEecCCcCCcCcCcchHHHHHHHHHHHHhC
Q 032666 17 RPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQG 51 (136)
Q Consensus 17 ~~~LivGLGNPG~~Y~~TRHNvG~~~ld~La~~~~ 51 (136)
.+.+|+|+|||= ..-==+|..++++|++.+.
T Consensus 4 ~rilVlGiGN~L----~gDDGvG~~va~~L~~~~~ 34 (195)
T PRK10264 4 QRVVVMGLGNLL----WADEGFGVRVAERLYAHYH 34 (195)
T ss_pred CCEEEEEeCccc----cccCcHHHHHHHHHHhhcC
Confidence 457999999992 1222499999999987654
No 15
>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=62.96 E-value=8.5 Score=27.95 Aligned_cols=27 Identities=26% Similarity=0.464 Sum_probs=20.8
Q ss_pred eEEEecCCcCCcCcCcchHHHHHHHHHHHHh
Q 032666 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQ 50 (136)
Q Consensus 20 LivGLGNPG~~Y~~TRHNvG~~~ld~La~~~ 50 (136)
+|+|+|||=- .-==+|..++++|+++.
T Consensus 1 lViGiGN~l~----~DDGvG~~v~~~L~~~~ 27 (139)
T cd00518 1 LVLGIGNPLR----GDDGFGPAVAERLEERY 27 (139)
T ss_pred CEEEECCccc----ccCcHHHHHHHHHHhcC
Confidence 5899999931 22349999999998864
No 16
>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=62.12 E-value=10 Score=32.88 Aligned_cols=29 Identities=28% Similarity=0.368 Sum_probs=18.7
Q ss_pred CCCceeEEEecCCcCCcCcCcchHHHHHHHHHH
Q 032666 15 VARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFA 47 (136)
Q Consensus 15 ~~~~~LivGLGNPG~~Y~~TRHNvG~~~ld~La 47 (136)
.....|||||||. .-|.-..|-.+++.+.
T Consensus 94 ~~~~iLVVGLGN~----~vTPDALGP~vv~~l~ 122 (354)
T PF03418_consen 94 KEASILVVGLGNW----NVTPDALGPRVVENLL 122 (354)
T ss_dssp TT--EEEEE-S-S----SSGGG-HHHHHHHT--
T ss_pred CCCeEEEEeCCCc----CCCccccchhhhhhhh
Confidence 3456899999996 5699999999999764
No 17
>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=60.76 E-value=10 Score=27.78 Aligned_cols=27 Identities=26% Similarity=0.417 Sum_probs=20.9
Q ss_pred eEEEecCCcCCcCcCcchHHHHHHHHHHHHh
Q 032666 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQ 50 (136)
Q Consensus 20 LivGLGNPG~~Y~~TRHNvG~~~ld~La~~~ 50 (136)
+|+|+|||=- .-==+|..++++|++++
T Consensus 1 lVlGvGN~l~----~DDGvG~~v~~~L~~~~ 27 (139)
T cd06066 1 LVIGYGNPLR----GDDGLGPAVAERIEEWL 27 (139)
T ss_pred CEEEeCCccc----cccchhHHHHHHHHhhC
Confidence 5899999931 22349999999998874
No 18
>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=58.38 E-value=11 Score=27.54 Aligned_cols=27 Identities=15% Similarity=0.315 Sum_probs=20.5
Q ss_pred eEEEecCCcCCcCcCcchHHHHHHHHHHHHh
Q 032666 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAESQ 50 (136)
Q Consensus 20 LivGLGNPG~~Y~~TRHNvG~~~ld~La~~~ 50 (136)
+|+|+|||-- .-==+|..++++|++..
T Consensus 1 ~VlGiGN~L~----~DDgvG~~v~~~L~~~~ 27 (136)
T cd06067 1 VLLGVGNELR----GDDGAGPLLAEKLEDLP 27 (136)
T ss_pred CEEEeCcccc----ccCcHHHHHHHHHHhcC
Confidence 4899999931 22359999999998753
No 19
>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=57.49 E-value=9.6 Score=28.02 Aligned_cols=26 Identities=23% Similarity=0.279 Sum_probs=19.8
Q ss_pred eEEEecCCcCCcCcCcchHHHHHHHHHHHH
Q 032666 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAES 49 (136)
Q Consensus 20 LivGLGNPG~~Y~~TRHNvG~~~ld~La~~ 49 (136)
||+|+|||-.. -==+|..++++|+++
T Consensus 1 lViGiGN~l~~----DDGvG~~v~~~L~~~ 26 (144)
T cd06068 1 LVAGVGNIFLG----DDGFGVEVARRLRPR 26 (144)
T ss_pred CEEEECccccc----cCcHHHHHHHHHhcc
Confidence 68999999421 223999999999875
No 20
>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=56.64 E-value=13 Score=27.40 Aligned_cols=27 Identities=22% Similarity=0.299 Sum_probs=20.4
Q ss_pred eeEEEecCCcCCcCcCcchHHHHHHHHHHHH
Q 032666 19 WLFVGLGNPGDKYKGTRHNVGFEMIDAFAES 49 (136)
Q Consensus 19 ~LivGLGNPG~~Y~~TRHNvG~~~ld~La~~ 49 (136)
.+|+|+|||-- .-==+|..++++|++.
T Consensus 1 ~lVlGiGN~L~----~DDG~G~~v~~~L~~~ 27 (146)
T cd06063 1 LTIIGCGNLNR----GDDGVGPILIRRLQAY 27 (146)
T ss_pred CEEEEECCccc----ccCcHHHHHHHHHhhc
Confidence 37999999931 1224999999999874
No 21
>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=56.47 E-value=12 Score=27.53 Aligned_cols=28 Identities=14% Similarity=0.164 Sum_probs=20.8
Q ss_pred eeEEEecCCcCCcCcCcchHHHHHHHHHHHHh
Q 032666 19 WLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQ 50 (136)
Q Consensus 19 ~LivGLGNPG~~Y~~TRHNvG~~~ld~La~~~ 50 (136)
.+|+|+|||--. -==+|..++++|.+.+
T Consensus 1 ~lVlGiGN~l~~----DDG~G~~v~~~L~~~~ 28 (146)
T TIGR00142 1 LVLLCVGNELMG----DDGAGPYLAEKCAAAP 28 (146)
T ss_pred CEEEEeCccccc----cCcHHHHHHHHHHhcc
Confidence 379999999422 2249999999998653
No 22
>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=56.20 E-value=12 Score=27.37 Aligned_cols=25 Identities=24% Similarity=0.400 Sum_probs=19.3
Q ss_pred eEEEecCCcCCcCcCcchHHHHHHHHHHH
Q 032666 20 LFVGLGNPGDKYKGTRHNVGFEMIDAFAE 48 (136)
Q Consensus 20 LivGLGNPG~~Y~~TRHNvG~~~ld~La~ 48 (136)
||+|+|||=- .-==+|..++++|++
T Consensus 1 lVlGiGN~l~----~DDg~G~~v~~~L~~ 25 (140)
T cd06070 1 LIIGVGNRLY----GDDGFGSCLAEALEQ 25 (140)
T ss_pred CEEEECchhc----ccCcHHHHHHHHHhh
Confidence 6899999931 222499999999976
No 23
>PRK12362 germination protease; Provisional
Probab=54.90 E-value=16 Score=31.30 Aligned_cols=102 Identities=18% Similarity=0.211 Sum_probs=58.4
Q ss_pred HHhhhccCCCCceeEEEecCCcCCcCcCcchHHHHHHHHHHHHhCCCCCcceeeeEEEEEEECC-eeEEEEeC----Cch
Q 032666 7 LRRGFCTAVARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGD-APVLLAKP----QTY 81 (136)
Q Consensus 7 ~~~~~~~~~~~~~LivGLGNPG~~Y~~TRHNvG~~~ld~La~~~~~~~~~~~~~~~~~~~~~~~-~~v~L~kP----~ty 81 (136)
++..+........|||||||. .-|--..|-.+++.|.-.... ...+++..-.+ .+|.-.-| +|=
T Consensus 89 L~~ll~~~~~~~iLVvGLGN~----~vTpDaLGP~Vv~~l~vTrhl-------~~~~~~~~~~~~~pV~AiaPGVmg~TG 157 (318)
T PRK12362 89 LKKLINLDKEMTVLVVGLGNW----NVTPDALGPKVVSKLMVTRHL-------KEYAPEEIDEGIRPVCAIAPGVLGITG 157 (318)
T ss_pred HHHHhCCCCCCcEEEEEcCCC----CcCccccchhhhhhhhhhhhh-------hhhcCchhcCCCCcceEecCCcccccc
Confidence 344442224467899999996 568999999999988643111 01111111112 34544445 455
Q ss_pred hhcchhcHHHHHHhcCCCCCcEEEEeccCC----CCCc-eEEEecCC
Q 032666 82 MNLSGESTGPLAAYYKLPLNRVLVFHDDMG----LPCG-VLRLRHNG 123 (136)
Q Consensus 82 MN~SG~~V~~~~~~~ki~~~~ilVvhDDld----l~~G-kvrlk~~G 123 (136)
||.+ +.++.+.++++ .+++|.-|-+- -.+| +|++...|
T Consensus 158 iet~-Eii~gIv~k~k---pd~IIAIDALaar~~~Rl~~tIQisdtG 200 (318)
T PRK12362 158 IETA-EIIKGVVEKIK---PDLVIAIDALAARSVERVNTTIQISDTG 200 (318)
T ss_pred hhHH-HHHHHHHHhcC---CCEEEEEeccccCCHHHccCeEEECCCC
Confidence 5543 34455554433 46788888776 2466 78877655
No 24
>PRK11544 hycI hydrogenase 3 maturation protease; Provisional
Probab=52.52 E-value=18 Score=27.08 Aligned_cols=27 Identities=15% Similarity=0.160 Sum_probs=20.6
Q ss_pred eeEEEecCCcCCcCcCcchHHHHHHHHHHHH
Q 032666 19 WLFVGLGNPGDKYKGTRHNVGFEMIDAFAES 49 (136)
Q Consensus 19 ~LivGLGNPG~~Y~~TRHNvG~~~ld~La~~ 49 (136)
.+|+|+|||-- .-==+|..++++|++.
T Consensus 3 ~lVlGiGN~L~----gDDGvG~~v~~~L~~~ 29 (156)
T PRK11544 3 DVVLTVGNSMM----GDDGAGPLLAEKLAAA 29 (156)
T ss_pred EEEEEeCcccc----ccCcHHHHHHHHHhcc
Confidence 58999999942 2224999999999764
No 25
>PRK02858 germination protease; Provisional
Probab=51.32 E-value=11 Score=32.80 Aligned_cols=28 Identities=29% Similarity=0.361 Sum_probs=23.0
Q ss_pred CCceeEEEecCCcCCcCcCcchHHHHHHHHHH
Q 032666 16 ARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFA 47 (136)
Q Consensus 16 ~~~~LivGLGNPG~~Y~~TRHNvG~~~ld~La 47 (136)
....|||||||- .-|.-..|-.+++.|.
T Consensus 110 ~~~vLVVGLGN~----~VTPDALGP~vv~~l~ 137 (369)
T PRK02858 110 EASCLIVGLGNW----NVTPDALGPLVVENVL 137 (369)
T ss_pred CCcEEEEeCCCc----CCCccccChheeccee
Confidence 356899999995 6688999999998664
No 26
>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=50.95 E-value=12 Score=32.65 Aligned_cols=80 Identities=18% Similarity=0.240 Sum_probs=44.5
Q ss_pred CCceeEEEecCCcCCcCcCcchHHHHHHHHHHH-HhCCCCCcceeeeEEEEEEECC-eeEEEEeCCchhhcch----hcH
Q 032666 16 ARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAE-SQGISMNTVHCKATFGQGFVGD-APVLLAKPQTYMNLSG----EST 89 (136)
Q Consensus 16 ~~~~LivGLGNPG~~Y~~TRHNvG~~~ld~La~-~~~~~~~~~~~~~~~~~~~~~~-~~v~L~kP~tyMN~SG----~~V 89 (136)
....|||||||- .-|.-..|-.+++.|.- ++-........ -++ .+|.-+-| --|=..| +.|
T Consensus 100 ~~~iLVVGLGN~----~VTPDALGP~vv~~l~VTRHL~~~~p~~~--------~~g~r~VsaiaP-GVmg~TGiET~EII 166 (358)
T TIGR01441 100 DMTCLVVGLGNW----NVTPDALGPKVVENLLVTRHLFKLIPESV--------DEGIRPVSAVAP-GVMGITGIETSDII 166 (358)
T ss_pred CCcEEEEeCCCc----CCCccccChheecceeeehhhhhhcchhh--------ccCCceeeEEcC-CccccccccHHHHH
Confidence 356899999995 56888999999987641 11111110000 012 34555555 3444444 455
Q ss_pred HHHHHhcCCCCCcEEEEeccCC
Q 032666 90 GPLAAYYKLPLNRVLVFHDDMG 111 (136)
Q Consensus 90 ~~~~~~~ki~~~~ilVvhDDld 111 (136)
+.+.+. +.| +++|.-|-|.
T Consensus 167 kgiVek--~kP-D~VIaIDALA 185 (358)
T TIGR01441 167 RGIIEQ--IKP-DFVIAIDALA 185 (358)
T ss_pred HHHHHh--hCC-CEEEEechhh
Confidence 555543 333 6777777653
No 27
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=48.63 E-value=12 Score=25.76 Aligned_cols=25 Identities=28% Similarity=0.497 Sum_probs=19.9
Q ss_pred cCcCc--chHHHHHHHHHHHHhCCCCC
Q 032666 31 YKGTR--HNVGFEMIDAFAESQGISMN 55 (136)
Q Consensus 31 Y~~TR--HNvG~~~ld~La~~~~~~~~ 55 (136)
|.-.. --+||..+|.+|.++|+...
T Consensus 45 Y~L~~~i~gi~F~~aD~iA~~~g~~~~ 71 (94)
T PF14490_consen 45 YRLIEDIDGIGFKTADKIALKLGIEPD 71 (94)
T ss_dssp TCCCB-SSSSBHHHHHHHHHTTT--TT
T ss_pred HHHHHHccCCCHHHHHHHHHHcCCCCC
Confidence 77777 78999999999999988754
No 28
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=46.80 E-value=15 Score=28.99 Aligned_cols=29 Identities=17% Similarity=0.158 Sum_probs=25.4
Q ss_pred chhcHHHHHHhcCCCCCcEEEEeccCCCC
Q 032666 85 SGESTGPLAAYYKLPLNRVLVFHDDMGLP 113 (136)
Q Consensus 85 SG~~V~~~~~~~ki~~~~ilVvhDDldl~ 113 (136)
++.++.++++.++++++++++|-|.|=.+
T Consensus 95 ~~~~fr~Al~~m~l~~~~vvmVGDqL~TD 123 (175)
T COG2179 95 FGRAFRRALKEMNLPPEEVVMVGDQLFTD 123 (175)
T ss_pred cHHHHHHHHHHcCCChhHEEEEcchhhhh
Confidence 67788899999999999999999988544
No 29
>COG2897 SseA Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]
Probab=46.42 E-value=21 Score=29.87 Aligned_cols=31 Identities=23% Similarity=0.091 Sum_probs=27.2
Q ss_pred chhhcchhcHHHHHHhcCCCCCcEEEEeccC
Q 032666 80 TYMNLSGESTGPLAAYYKLPLNRVLVFHDDM 110 (136)
Q Consensus 80 tyMN~SG~~V~~~~~~~ki~~~~ilVvhDDl 110 (136)
.=|=.+.+.+.++++..+|..++.||+|||-
T Consensus 69 ~~~lp~~e~fa~~~~~~GI~~d~tVVvYdd~ 99 (285)
T COG2897 69 PHMLPSPEQFAKLLGELGIRNDDTVVVYDDG 99 (285)
T ss_pred CCCCCCHHHHHHHHHHcCCCCCCEEEEECCC
Confidence 4666788889999999999999999999993
No 30
>KOG2882 consensus p-Nitrophenyl phosphatase [Inorganic ion transport and metabolism]
Probab=44.26 E-value=21 Score=30.45 Aligned_cols=40 Identities=25% Similarity=0.434 Sum_probs=32.9
Q ss_pred CCeeEEEEeCCchhhcchhcHHHHHHhcCCCCCcEEEEeccCCCCC
Q 032666 69 GDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPC 114 (136)
Q Consensus 69 ~~~~v~L~kP~tyMN~SG~~V~~~~~~~ki~~~~ilVvhDDldl~~ 114 (136)
..+++++=||.++|=. .+.+.|++.|++.+.|-|-||.+.
T Consensus 216 ~R~P~v~GKP~~~m~~------~l~~~~~i~psRt~mvGDRL~TDI 255 (306)
T KOG2882|consen 216 GRQPIVLGKPSTFMFE------YLLEKFNIDPSRTCMVGDRLDTDI 255 (306)
T ss_pred cCCCeecCCCCHHHHH------HHHHHcCCCcceEEEEcccchhhh
Confidence 3457999999999833 567889999999999999887653
No 31
>COG4841 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.89 E-value=21 Score=25.44 Aligned_cols=25 Identities=24% Similarity=0.442 Sum_probs=19.4
Q ss_pred eccCCCCCce-EE--EecCCCCCCCCcc
Q 032666 107 HDDMGLPCGV-LR--LRHNGGHGGHNGC 131 (136)
Q Consensus 107 hDDldl~~Gk-vr--lk~~Gs~~GHNGl 131 (136)
+||++|+=|. || +|.||.+.+|-|-
T Consensus 14 k~E~~l~~g~~vrffvRyGG~~~~~~GF 41 (95)
T COG4841 14 KEELDLEEGNKVRFFVRYGGCSSLQQGF 41 (95)
T ss_pred HHhcCCCCCCEEEEEEEEcCcccccCCc
Confidence 5889999885 55 4789988888774
No 32
>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=40.49 E-value=13 Score=24.66 Aligned_cols=24 Identities=21% Similarity=0.213 Sum_probs=20.8
Q ss_pred chhhcchhcHHHHHHhcCCCCCcE
Q 032666 80 TYMNLSGESTGPLAAYYKLPLNRV 103 (136)
Q Consensus 80 tyMN~SG~~V~~~~~~~ki~~~~i 103 (136)
-||..||....++++.+++.+.++
T Consensus 7 hflhE~g~~FveIAr~~~i~a~e~ 30 (63)
T PF11242_consen 7 HFLHESGLSFVEIARKIGITAKEV 30 (63)
T ss_pred hhHHHcCCcHHHHHHHhCCCHHHH
Confidence 489999999999999999987653
No 33
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=39.76 E-value=18 Score=30.47 Aligned_cols=30 Identities=17% Similarity=0.319 Sum_probs=24.0
Q ss_pred HHHHhcCCCCCcEEEEeccCCCCCceEEEe
Q 032666 91 PLAAYYKLPLNRVLVFHDDMGLPCGVLRLR 120 (136)
Q Consensus 91 ~~~~~~ki~~~~ilVvhDDldl~~Gkvrlk 120 (136)
.++...+..++..||++||+..+-|.-..|
T Consensus 129 ~l~~~Lr~~~~kFIlFcDDLSFe~gd~~yK 158 (287)
T COG2607 129 DLVELLRARPEKFILFCDDLSFEEGDDAYK 158 (287)
T ss_pred HHHHHHhcCCceEEEEecCCCCCCCchHHH
Confidence 345555667889999999999999987765
No 34
>COG5381 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=38.93 E-value=58 Score=25.53 Aligned_cols=22 Identities=23% Similarity=0.460 Sum_probs=18.0
Q ss_pred CcCcCcchHHHHHHHHHHHHhC
Q 032666 30 KYKGTRHNVGFEMIDAFAESQG 51 (136)
Q Consensus 30 ~Y~~TRHNvG~~~ld~La~~~~ 51 (136)
.|..-|||||+++-+.+.+...
T Consensus 56 dy~evrhsvgYl~NELiENAVK 77 (184)
T COG5381 56 DYDEVRHSVGYLANELIENAVK 77 (184)
T ss_pred cHHHHhhhHHHHHHHHHHhhhc
Confidence 4999999999998887766543
No 35
>PF02789 Peptidase_M17_N: Cytosol aminopeptidase family, N-terminal domain; InterPro: IPR008283 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 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 the MEROPS peptidase family M17 (leucyl aminopeptidase family, clan MF), the type example being leucyl aminopeptidase from Bos taurus (Bovine). Aminopeptidases are exopeptidases involved in the processing and regular turnover of intracellular proteins, although their precise role in cellular metabolism is unclear [, ]. Leucine aminopeptidases cleave leucine residues from the N-terminal of polypeptide chains, but substantial rates are evident for all amino acids []. The enzymes exist as homo-hexamers, comprising 2 trimers stacked on top of one another []. Each monomer binds 2 zinc ions and folds into 2 alpha/beta-type quasi-spherical globular domains, producing a comma-like shape []. The N-terminal 150 residues form a 5-stranded beta-sheet with 4 parallel and 1 anti-parallel strand sandwiched between 4 alpha-helices []. An alpha-helix extends into the C-terminal domain, which comprises a central 8-stranded saddle-shaped beta-sheet sandwiched between groups of helices, forming the monomer hydrophobic core []. A 3-stranded beta-sheet resides on the surface of the monomer, where it interacts with other members of the hexamer []. The two zinc ions and the active site are entirely located in the C-terminal catalytic domain [].; GO: 0004177 aminopeptidase activity, 0006508 proteolysis, 0005622 intracellular; PDB: 3PEI_A 1GYT_C 3JRU_A 3H8F_D 3H8G_F 3H8E_A 3KZW_L 1LAP_A 1LAN_A 1LCP_B ....
Probab=38.12 E-value=26 Score=24.25 Aligned_cols=33 Identities=24% Similarity=0.319 Sum_probs=19.4
Q ss_pred CCceeEEEecCCcCCcCcCcchHHHHHHHHHHH
Q 032666 16 ARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAE 48 (136)
Q Consensus 16 ~~~~LivGLGNPG~~Y~~TRHNvG~~~ld~La~ 48 (136)
..++++||||+....=..+--.++-.++..+.+
T Consensus 52 ~~~v~lvGlG~~~~~~~~~~r~a~~~~~~~l~~ 84 (126)
T PF02789_consen 52 AKRVLLVGLGKKEKLTAESLRKAGAAAARALKK 84 (126)
T ss_dssp CSEEEEEEEESCTGBCHHHHHHHHHHHHHHHHH
T ss_pred ccEEEEEECCCcCcCCHHHHHHHHHHHHHHHhh
Confidence 356899999999753222333344455555544
No 36
>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=36.35 E-value=28 Score=25.92 Aligned_cols=25 Identities=20% Similarity=0.387 Sum_probs=22.8
Q ss_pred hhcHHHHHHhcCCCCCcEEEEeccC
Q 032666 86 GESTGPLAAYYKLPLNRVLVFHDDM 110 (136)
Q Consensus 86 G~~V~~~~~~~ki~~~~ilVvhDDl 110 (136)
|.++..+++.+++++++++++=|+.
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 6788999999999999999999975
No 37
>COG4128 Zot Zonula occludens toxin [General function prediction only]
Probab=35.30 E-value=38 Score=29.46 Aligned_cols=41 Identities=15% Similarity=0.166 Sum_probs=34.7
Q ss_pred hcchhcHHHHHHhcCCCCCcEEEEeccCCCCCceEEEecCC
Q 032666 83 NLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNG 123 (136)
Q Consensus 83 N~SG~~V~~~~~~~ki~~~~ilVvhDDldl~~Gkvrlk~~G 123 (136)
|.-|-....+.+.|+-.+.+++|+.||++.+=+..+++.-+
T Consensus 36 NVrGl~ler~~~~~pd~~~~i~I~n~D~~~~d~~~~m~~~~ 76 (398)
T COG4128 36 NVRGLQLERITERYPDATGEIIIVNDDVLKADFFPFMGGEG 76 (398)
T ss_pred ecccccHHHHHHhccCCCCceEEEeccccCcccchhhccee
Confidence 78888888999999999999999999999988766655433
No 38
>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=33.77 E-value=1.9e+02 Score=25.23 Aligned_cols=68 Identities=9% Similarity=0.057 Sum_probs=46.2
Q ss_pred hHHHHHHHHHHHHhCCCCCcceeeeEEEEEEECCeeEEEEeC---CchhhcchhcHHHHHHhcCCCCCcEEEE
Q 032666 37 NVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKP---QTYMNLSGESTGPLAAYYKLPLNRVLVF 106 (136)
Q Consensus 37 NvG~~~ld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~kP---~tyMN~SG~~V~~~~~~~ki~~~~ilVv 106 (136)
.+|=+++-.|...... ...-....+++..++++++.++|+ .+=.=.=|++|..+.+.++-.++.+|-|
T Consensus 184 gaGPLVA~~l~~~~~~--~~~~~dtv~~e~~~egRrv~viKA~GPGstVGrpgeave~i~~~~~~k~~~IITV 254 (355)
T PF07431_consen 184 GAGPLVAGRLMENCSK--WEIAKDTVIAECEFEGRRVYVIKAEGPGSTVGRPGEAVEYIVEKLGGKVDLIITV 254 (355)
T ss_pred CcchHHHHHHHhcCcc--cccccccEEEEEEECCcEEEEEeccCCCccCCChHHHHHHHHHHhcCCccEEEEe
Confidence 4677777777765433 222334577888999999999995 4444555788999998886666554433
No 39
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=33.34 E-value=8.2 Score=23.87 Aligned_cols=27 Identities=15% Similarity=0.169 Sum_probs=17.6
Q ss_pred hcchhcHHHHHHhcCCCCCcEEEEecc
Q 032666 83 NLSGESTGPLAAYYKLPLNRVLVFHDD 109 (136)
Q Consensus 83 N~SG~~V~~~~~~~ki~~~~ilVvhDD 109 (136)
+.|-..+.++++++++++++++...+|
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 455677888999999999988877665
No 40
>PRK06437 hypothetical protein; Provisional
Probab=30.95 E-value=68 Score=20.71 Aligned_cols=29 Identities=7% Similarity=-0.011 Sum_probs=23.9
Q ss_pred chhcHHHHHHhcCCCCCcEEEEeccCCCC
Q 032666 85 SGESTGPLAAYYKLPLNRVLVFHDDMGLP 113 (136)
Q Consensus 85 SG~~V~~~~~~~ki~~~~ilVvhDDldl~ 113 (136)
.+.+++.+++.++++++.+.|.++.--+|
T Consensus 19 ~~~tv~dLL~~Lgi~~~~vaV~vNg~iv~ 47 (67)
T PRK06437 19 HELTVNDIIKDLGLDEEEYVVIVNGSPVL 47 (67)
T ss_pred CCCcHHHHHHHcCCCCccEEEEECCEECC
Confidence 34678999999999999999888876665
No 41
>PRK10513 sugar phosphate phosphatase; Provisional
Probab=29.70 E-value=33 Score=26.92 Aligned_cols=25 Identities=20% Similarity=0.268 Sum_probs=22.7
Q ss_pred hhcHHHHHHhcCCCCCcEEEEeccC
Q 032666 86 GESTGPLAAYYKLPLNRVLVFHDDM 110 (136)
Q Consensus 86 G~~V~~~~~~~ki~~~~ilVvhDDl 110 (136)
|.++..+++.+++++++++++=|..
T Consensus 198 g~al~~l~~~~gi~~~~v~afGD~~ 222 (270)
T PRK10513 198 GTGVKSLAEHLGIKPEEVMAIGDQE 222 (270)
T ss_pred HHHHHHHHHHhCCCHHHEEEECCch
Confidence 6889999999999999999999875
No 42
>PRK10976 putative hydrolase; Provisional
Probab=29.03 E-value=36 Score=26.67 Aligned_cols=26 Identities=23% Similarity=0.379 Sum_probs=23.1
Q ss_pred chhcHHHHHHhcCCCCCcEEEEeccC
Q 032666 85 SGESTGPLAAYYKLPLNRVLVFHDDM 110 (136)
Q Consensus 85 SG~~V~~~~~~~ki~~~~ilVvhDDl 110 (136)
-|.+++.+++.+++++++++++=|..
T Consensus 191 Kg~al~~l~~~lgi~~~~viafGD~~ 216 (266)
T PRK10976 191 KGHALEAVAKKLGYSLKDCIAFGDGM 216 (266)
T ss_pred hHHHHHHHHHHcCCCHHHeEEEcCCc
Confidence 37889999999999999999999864
No 43
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=28.02 E-value=62 Score=22.67 Aligned_cols=30 Identities=23% Similarity=0.241 Sum_probs=21.2
Q ss_pred hcchhcHHHHHHhcCCCCCcEEEEeccCCC
Q 032666 83 NLSGESTGPLAAYYKLPLNRVLVFHDDMGL 112 (136)
Q Consensus 83 N~SG~~V~~~~~~~ki~~~~ilVvhDDldl 112 (136)
.++......+.+..+++++++.|...|++-
T Consensus 76 ~l~~~i~~~l~~~lgi~~~rv~I~f~~~~~ 105 (116)
T PTZ00397 76 SIAAAITKILASHLKVKSERVYIEFKDCSA 105 (116)
T ss_pred HHHHHHHHHHHHHhCcCcccEEEEEEECCh
Confidence 333433344566689999999999998864
No 44
>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=28.00 E-value=59 Score=25.44 Aligned_cols=27 Identities=19% Similarity=0.173 Sum_probs=23.5
Q ss_pred chhcHHHHHHhcCCCCCcEEEEeccCC
Q 032666 85 SGESTGPLAAYYKLPLNRVLVFHDDMG 111 (136)
Q Consensus 85 SG~~V~~~~~~~ki~~~~ilVvhDDld 111 (136)
.|.++..+++.+++++++++++=|..+
T Consensus 168 K~~al~~l~~~~~i~~~~~i~~GD~~N 194 (249)
T TIGR01485 168 KGQALQYLLQKLAMEPSQTLVCGDSGN 194 (249)
T ss_pred hHHHHHHHHHHcCCCccCEEEEECChh
Confidence 467888999999999999999998754
No 45
>PF13242 Hydrolase_like: HAD-hyrolase-like; PDB: 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A 2HX1_D 2X4D_A 3HLT_C 3L1U_B ....
Probab=27.08 E-value=62 Score=20.64 Aligned_cols=24 Identities=8% Similarity=0.063 Sum_probs=19.6
Q ss_pred HHHHHHhcCCCCCcEEEEeccCCC
Q 032666 89 TGPLAAYYKLPLNRVLVFHDDMGL 112 (136)
Q Consensus 89 V~~~~~~~ki~~~~ilVvhDDldl 112 (136)
+..+++.++++++++++|=|.+..
T Consensus 10 ~~~a~~~~~~~~~~~~~VGD~~~~ 33 (75)
T PF13242_consen 10 LEQALKRLGVDPSRCVMVGDSLET 33 (75)
T ss_dssp HHHHHHHHTSGGGGEEEEESSTTT
T ss_pred HHHHHHHcCCCHHHEEEEcCCcHh
Confidence 456778889999999999999543
No 46
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=26.88 E-value=25 Score=26.58 Aligned_cols=28 Identities=25% Similarity=0.395 Sum_probs=19.4
Q ss_pred CCCceeEEEecCCcCCcCcCcchHHHHHHHHHHHHhCC
Q 032666 15 VARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGI 52 (136)
Q Consensus 15 ~~~~~LivGLGNPG~~Y~~TRHNvG~~~ld~La~~~~~ 52 (136)
..+-+++||+|.|..+ .++.+..+.++.
T Consensus 100 ~~pdiv~vglG~PkQE----------~~~~~~~~~l~~ 127 (172)
T PF03808_consen 100 SGPDIVFVGLGAPKQE----------RWIARHRQRLPA 127 (172)
T ss_pred cCCCEEEEECCCCHHH----------HHHHHHHHHCCC
Confidence 5567899999999865 345555555544
No 47
>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]
Probab=26.33 E-value=3e+02 Score=23.71 Aligned_cols=73 Identities=19% Similarity=0.164 Sum_probs=54.6
Q ss_pred CcCcchHHHHHHHHHHHHhCCCCCcceeeeEEEEEEECCeeEEEEeCCchhhcchhcHHHHHHhcCCCCCcEEEE
Q 032666 32 KGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVF 106 (136)
Q Consensus 32 ~~TRHNvG~~~ld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~kP~tyMN~SG~~V~~~~~~~ki~~~~ilVv 106 (136)
..|+|+.-...++.=.+..|+.+.+.+..-++.....++-++-.--|.|-||. +.+..++..|+|.-.++++=
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 DATKSEDQREILEKELEAVGIRLNKRKPNIYFKKKKTGGISFNTTVPLTHCDE--KLIYTILHEYKIHNAEVLFR 220 (364)
T ss_pred cCCcchhHHHHHHHHHHHhceeccCCCCCeEEEeeccCCeEEeeeeccccccH--HHHHHHHHHHeeccceEEEe
Confidence 34788888888887778889888766665566665666777777788887765 67788999999977666553
No 48
>PF09807 DUF2348: Uncharacterized conserved protein (DUF2348); InterPro: IPR018627 Members of this family of putative uncharacterised proteins have no known function.
Probab=25.87 E-value=98 Score=25.08 Aligned_cols=97 Identities=15% Similarity=0.233 Sum_probs=50.9
Q ss_pred hHhHHHHhhhccCCCCceeEEEecCCcCCcCcCcchHHHHHHHHHHHHhCCCCCcceeeeEEEEEE---------ECCee
Q 032666 2 LINRFLRRGFCTAVARPWLFVGLGNPGDKYKGTRHNVGFEMIDAFAESQGISMNTVHCKATFGQGF---------VGDAP 72 (136)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~LivGLGNPG~~Y~~TRHNvG~~~ld~La~~~~~~~~~~~~~~~~~~~~---------~~~~~ 72 (136)
++..|+.+.+. ...+.++|++-||=.-| +..++++|+.+...+.++.+.-.. +.+..
T Consensus 34 Llh~~L~~~Lk--~~~~V~fv~~~q~~~HY------------~~v~~KLG~NL~~~~~~gql~fiD~l~~~~~~l~~~~~ 99 (249)
T PF09807_consen 34 LLHHFLSQYLK--AGCKVCFVAFSQSFSHY------------NNVAQKLGVNLSAAKEKGQLVFIDGLKSSLDLLFDEDS 99 (249)
T ss_pred HHHHHHHHHhc--CCCcEEEEEccCCHHHH------------HHHHHhhEecchHhccCCcEEEeehhhhhhhhhhcccc
Confidence 45667777666 55678899999985444 345667777764433222211110 00000
Q ss_pred EEEEeCCchhhcchh-cHHHHHHh----cCC--CCCcEEEEeccCCC
Q 032666 73 VLLAKPQTYMNLSGE-STGPLAAY----YKL--PLNRVLVFHDDMGL 112 (136)
Q Consensus 73 v~L~kP~tyMN~SG~-~V~~~~~~----~ki--~~~~ilVvhDDldl 112 (136)
----.|..|+..++. .+.++.++ .+- ..+..+||-||++.
T Consensus 100 ~~~~~~~~~l~~~~~~~L~~L~~~I~~~l~~~~~~~~~~liIDdls~ 146 (249)
T PF09807_consen 100 SDEPNPLKFLREDNASSLRSLYEFIQEALSPADSNGSVVLIIDDLSV 146 (249)
T ss_pred ccCCccccccccCCcchHHHHHHHHHHHHhhccCCCCeEEEEeCHHH
Confidence 001124567776662 24444322 221 22458999999874
No 49
>cd01445 TST_Repeats Thiosulfate sulfurtransferases (TST) contain 2 copies of the Rhodanese Homology Domain. Only the second repeat contains the catalytically active Cys residue. The role of the 1st repeat is uncertain, but believed to be involved in protein interaction. This CD aligns the 1st and 2nd repeats.
Probab=25.66 E-value=84 Score=22.85 Aligned_cols=22 Identities=14% Similarity=0.187 Sum_probs=18.5
Q ss_pred cHHHHHHhcCCCCCcEEEEecc
Q 032666 88 STGPLAAYYKLPLNRVLVFHDD 109 (136)
Q Consensus 88 ~V~~~~~~~ki~~~~ilVvhDD 109 (136)
-+.++++.+++.++.-+|+||+
T Consensus 82 ~~~~~~~~~GI~~~~~vVvY~~ 103 (138)
T cd01445 82 EFAAMFEAKGIDLDKHLIATDG 103 (138)
T ss_pred HHHHHHHHcCCCCCCeEEEECC
Confidence 4566777889999999999996
No 50
>PRK08179 prfH peptide chain release factor-like protein; Reviewed
Probab=24.23 E-value=62 Score=25.82 Aligned_cols=28 Identities=21% Similarity=0.386 Sum_probs=22.3
Q ss_pred cEEEEeccCCCCCceEEEe--cCCCCCCCC
Q 032666 102 RVLVFHDDMGLPCGVLRLR--HNGGHGGHN 129 (136)
Q Consensus 102 ~ilVvhDDldl~~Gkvrlk--~~Gs~~GHN 129 (136)
.+.|+-.|++++...+++. +.+|++|+|
T Consensus 94 ~V~v~~~~~~i~~~dl~~~~~RssGpGGQ~ 123 (200)
T PRK08179 94 GIGRFSADEEEQSDEIRFETLRSSGPGGQH 123 (200)
T ss_pred EEEEeCCcCccCHHHeEEEEEEccCCcccc
Confidence 3566677889999999976 577899986
No 51
>PRK15126 thiamin pyrimidine pyrophosphate hydrolase; Provisional
Probab=24.23 E-value=41 Score=26.57 Aligned_cols=26 Identities=27% Similarity=0.409 Sum_probs=23.2
Q ss_pred chhcHHHHHHhcCCCCCcEEEEeccC
Q 032666 85 SGESTGPLAAYYKLPLNRVLVFHDDM 110 (136)
Q Consensus 85 SG~~V~~~~~~~ki~~~~ilVvhDDl 110 (136)
-|.+++.+++.+++++++++++=|..
T Consensus 189 Kg~al~~l~~~~gi~~~~v~afGD~~ 214 (272)
T PRK15126 189 KGAALAVLSQHLGLSLADCMAFGDAM 214 (272)
T ss_pred hHHHHHHHHHHhCCCHHHeEEecCCH
Confidence 57889999999999999999999864
No 52
>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=23.76 E-value=76 Score=24.05 Aligned_cols=26 Identities=27% Similarity=0.308 Sum_probs=22.9
Q ss_pred chhcHHHHHHhcCCCCCcEEEEeccC
Q 032666 85 SGESTGPLAAYYKLPLNRVLVFHDDM 110 (136)
Q Consensus 85 SG~~V~~~~~~~ki~~~~ilVvhDDl 110 (136)
-|.++..+++.+++++++++.+=|..
T Consensus 180 Kg~al~~l~~~lgi~~~~vi~~GD~~ 205 (221)
T TIGR02463 180 KGKAANWLKATYNQPDVKTLGLGDGP 205 (221)
T ss_pred HHHHHHHHHHHhCCCCCcEEEECCCH
Confidence 57788999999999999999998864
No 53
>PRK01158 phosphoglycolate phosphatase; Provisional
Probab=23.34 E-value=49 Score=25.13 Aligned_cols=26 Identities=19% Similarity=0.202 Sum_probs=23.4
Q ss_pred hhcHHHHHHhcCCCCCcEEEEeccCC
Q 032666 86 GESTGPLAAYYKLPLNRVLVFHDDMG 111 (136)
Q Consensus 86 G~~V~~~~~~~ki~~~~ilVvhDDld 111 (136)
|.++..+++.+++++++++++=|..+
T Consensus 159 g~al~~l~~~~~i~~~~~i~~GD~~N 184 (230)
T PRK01158 159 GTGLKKLAELMGIDPEEVAAIGDSEN 184 (230)
T ss_pred HHHHHHHHHHhCCCHHHEEEECCchh
Confidence 88999999999999999999998753
No 54
>TIGR02471 sucr_syn_bact_C sucrose phosphate synthase, sucrose phosphatase-like domain, bacterial. Sucrose phosphate synthase (SPS) and sucrose phosphate phosphatase (SPP) are the last two enzymes of sucrose biosynthesis. In cyanobacteria and plants, the C-terminal region of most or all versions of SPS has a domain homologous to the known SPP. This domain may serve a binding or regulatory rather than catalytic function. Sequences in this family are bacterial C-terminal regions found in all but two of the putative bacterial sucrose phosphate synthases described by TIGR02472.
Probab=23.05 E-value=56 Score=25.25 Aligned_cols=28 Identities=29% Similarity=0.341 Sum_probs=23.9
Q ss_pred cchhcHHHHHHhcCCCCCcEEEEeccCC
Q 032666 84 LSGESTGPLAAYYKLPLNRVLVFHDDMG 111 (136)
Q Consensus 84 ~SG~~V~~~~~~~ki~~~~ilVvhDDld 111 (136)
..|.+++.+++.+++++++++.+=|+.+
T Consensus 159 ~K~~al~~l~~~~g~~~~~~i~~GD~~n 186 (236)
T TIGR02471 159 SKGLALRYLSYRWGLPLEQILVAGDSGN 186 (236)
T ss_pred ChHHHHHHHHHHhCCCHHHEEEEcCCcc
Confidence 3578899999999999999999998754
No 55
>COG1186 PrfB Protein chain release factor B [Translation, ribosomal structure and biogenesis]
Probab=22.82 E-value=59 Score=26.82 Aligned_cols=24 Identities=25% Similarity=0.544 Sum_probs=20.8
Q ss_pred EeccCCCCCceEEEe--cCCCCCCCC
Q 032666 106 FHDDMGLPCGVLRLR--HNGGHGGHN 129 (136)
Q Consensus 106 vhDDldl~~Gkvrlk--~~Gs~~GHN 129 (136)
++.+++++...+++. +.+|+||+|
T Consensus 101 ~~i~i~I~~~dl~idt~RASGaGGQh 126 (239)
T COG1186 101 ISIEIEIPDDDLRIDTYRASGAGGQH 126 (239)
T ss_pred cccceecCccceEEEEEEcCCCCCCc
Confidence 788999999999997 577899987
No 56
>PRK05988 formate dehydrogenase subunit gamma; Validated
Probab=22.21 E-value=2.9e+02 Score=20.83 Aligned_cols=58 Identities=14% Similarity=0.094 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHhCCCCCcceeeeEEEEEEE------CCeeEEEEeCCchhhcchhcHHHHHHhc
Q 032666 39 GFEMIDAFAESQGISMNTVHCKATFGQGFV------GDAPVLLAKPQTYMNLSGESTGPLAAYY 96 (136)
Q Consensus 39 G~~~ld~La~~~~~~~~~~~~~~~~~~~~~------~~~~v~L~kP~tyMN~SG~~V~~~~~~~ 96 (136)
+..++++|.+.+++.......++.|.-... +..+++.+.-..|-|++-+.+.++.+.+
T Consensus 91 ~~~ll~~l~~~Lgi~~gett~Dg~ftL~~~~ClG~C~~aP~~~in~~~~~~lt~~~~~~il~~~ 154 (156)
T PRK05988 91 GDALAAHAKARLGIDFHQTTADGAVTLEPVYCLGLCACSPAAMLDGEVHGRLDPQRLDALLAEA 154 (156)
T ss_pred HHHHHHHHHHHhCCCCCCcCCCCeEEEEeeeecCccCCCCeEEECCEEeCCCCHHHHHHHHHHh
Confidence 567899999999987543333343332221 2246888888899999999888887654
No 57
>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=21.99 E-value=3.6e+02 Score=21.12 Aligned_cols=21 Identities=14% Similarity=0.207 Sum_probs=15.5
Q ss_pred hhhcchhcHHHHHHhcCCCCC
Q 032666 81 YMNLSGESTGPLAAYYKLPLN 101 (136)
Q Consensus 81 yMN~SG~~V~~~~~~~ki~~~ 101 (136)
-.+.+-+.|+++++.|++...
T Consensus 133 ~~~~~~~~v~~~l~~~~i~~~ 153 (233)
T cd01896 133 LTKLDEKTIKAILREYKIHNA 153 (233)
T ss_pred CCCCCHHHHHHHHHHhCeeeE
Confidence 334466889999999998654
No 58
>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=21.81 E-value=1.5e+02 Score=18.57 Aligned_cols=28 Identities=25% Similarity=0.205 Sum_probs=22.2
Q ss_pred hhcHHHHHHhcCCCCCcEEEEeccCCCC
Q 032666 86 GESTGPLAAYYKLPLNRVLVFHDDMGLP 113 (136)
Q Consensus 86 G~~V~~~~~~~ki~~~~ilVvhDDldl~ 113 (136)
+.++..+++.++++++.+.|.++.-=+|
T Consensus 13 ~~tv~~ll~~l~~~~~~v~v~vN~~iv~ 40 (64)
T TIGR01683 13 GLTLAALLESLGLDPRRVAVAVNGEIVP 40 (64)
T ss_pred CCcHHHHHHHcCCCCCeEEEEECCEEcC
Confidence 4578899999999988888887776554
No 59
>PRK07571 bidirectional hydrogenase complex protein HoxE; Reviewed
Probab=21.75 E-value=2.5e+02 Score=21.61 Aligned_cols=59 Identities=12% Similarity=0.103 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHhCCCCCcceeeeEEEEEEE------CCeeEEEEeCCchhhcchhcHHHHHHhcC
Q 032666 39 GFEMIDAFAESQGISMNTVHCKATFGQGFV------GDAPVLLAKPQTYMNLSGESTGPLAAYYK 97 (136)
Q Consensus 39 G~~~ld~La~~~~~~~~~~~~~~~~~~~~~------~~~~v~L~kP~tyMN~SG~~V~~~~~~~k 97 (136)
+-.++++|.+++++.......++.|+-... +..+++++.-..|-|++-+.+.++.+.|+
T Consensus 104 ~~~ll~~l~~~Lgi~~gett~DG~ftL~~~~ClG~C~~AP~~~Vn~~~~~~lt~e~v~~il~~~~ 168 (169)
T PRK07571 104 SAAILEDLENELGIKAGETTADGKLSLLTARCLGACGIAPAVVFDGKVAGKQTPESVLEKVQGWL 168 (169)
T ss_pred cHHHHHHHHHHhCCCCCCcCCCCeEEEEEecccCccCCCCeEEECCEEeCCCCHHHHHHHHHHHh
Confidence 457899999999987643333343332221 22468888888999999999999888774
No 60
>PF05116 S6PP: Sucrose-6F-phosphate phosphohydrolase; InterPro: IPR006380 This family of sequences represent sucrose phosphate phosphohydrolase (SPP) from plants and cyanobacteria []. SPP is a member of the Class IIB subfamily of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. SPP catalyzes the final step in the biosynthesis of sucrose, a critically important molecule for plants. 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.; PDB: 1TJ5_A 2B1Q_A 1TJ4_A 1S2O_A 1U2T_A 2D2V_A 1TJ3_A 1U2S_A 2B1R_A 3GYG_B ....
Probab=21.74 E-value=68 Score=25.55 Aligned_cols=27 Identities=26% Similarity=0.330 Sum_probs=22.0
Q ss_pred chhcHHHHHHhcCCCCCcEEEEeccCC
Q 032666 85 SGESTGPLAAYYKLPLNRVLVFHDDMG 111 (136)
Q Consensus 85 SG~~V~~~~~~~ki~~~~ilVvhDDld 111 (136)
.|.||+.+++.+++++++++++=|.-+
T Consensus 166 K~~Al~~L~~~~~~~~~~vl~aGDSgN 192 (247)
T PF05116_consen 166 KGAALRYLMERWGIPPEQVLVAGDSGN 192 (247)
T ss_dssp HHHHHHHHHHHHT--GGGEEEEESSGG
T ss_pred HHHHHHHHHHHhCCCHHHEEEEeCCCC
Confidence 688999999999999999999988643
No 61
>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=21.54 E-value=90 Score=24.92 Aligned_cols=27 Identities=22% Similarity=0.384 Sum_probs=21.2
Q ss_pred EEEEeccCCCCCceEEEe--cCCCCCCCC
Q 032666 103 VLVFHDDMGLPCGVLRLR--HNGGHGGHN 129 (136)
Q Consensus 103 ilVvhDDldl~~Gkvrlk--~~Gs~~GHN 129 (136)
+.|+-.|++++...+++. +++|++|+|
T Consensus 94 V~v~~~~~~i~~~dl~~~~~RssGpGGQ~ 122 (200)
T TIGR03072 94 VQRFSASEEATEDEIRFETLRSSGPGGQH 122 (200)
T ss_pred EEEecCccccChhheEEEEEECCCCCccc
Confidence 455557889999999986 577889987
No 62
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.
Probab=21.53 E-value=43 Score=25.86 Aligned_cols=16 Identities=38% Similarity=0.661 Sum_probs=13.3
Q ss_pred CCCceeEEEecCCcCC
Q 032666 15 VARPWLFVGLGNPGDK 30 (136)
Q Consensus 15 ~~~~~LivGLGNPG~~ 30 (136)
+.+-+++||+|.|..|
T Consensus 99 s~~dil~VglG~PkQE 114 (177)
T TIGR00696 99 SGAGIVFVGLGCPKQE 114 (177)
T ss_pred cCCCEEEEEcCCcHhH
Confidence 5567899999999765
No 63
>smart00852 MoCF_biosynth Probable molybdopterin binding domain. This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor. The domain is presumed to bind molybdopterin. The structure of this domain is known, and it forms an alpha/beta structure. In the known structure of Gephyrin this domain mediates trimerisation.
Probab=21.53 E-value=51 Score=23.51 Aligned_cols=35 Identities=14% Similarity=0.215 Sum_probs=27.7
Q ss_pred eCCchhhcchhcHHHHHHhcCCCCCcEEEEeccCC
Q 032666 77 KPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMG 111 (136)
Q Consensus 77 kP~tyMN~SG~~V~~~~~~~ki~~~~ilVvhDDld 111 (136)
.+.+.-|.+|..+.++++.++.......++-||.+
T Consensus 11 ~~~~~~d~~~~~l~~~l~~~G~~~~~~~~v~Dd~~ 45 (135)
T smart00852 11 SGGQIYDSNGPALAELLTELGIEVTRYVIVPDDKE 45 (135)
T ss_pred cCCCcccCcHHHHHHHHHHCCCeEEEEEEeCCCHH
Confidence 35455599999999999999988777878888855
No 64
>TIGR00013 taut 4-oxalocrotonate tautomerase family enzyme. 4-oxalocrotonate tautomerase is a homohexamer in which each monomer is very small, at about 62 amino acids. Pro-1 of the mature protein serves as a general base. The enzyme functions in meta-cleavage pathways of aromatic hydrocarbon catabolism. Because several Arg residues located near the active site in the crystal structure of Pseudomonas putida are not conserved among all members of this family, because the literature describes a general role in the isomerization of beta,gamma-unsaturated enones to their alpha,beta-isomers, and because of the presence of fairly distantly related paralogs in Campylobacter jejuni, the family is regarded as not necessarily uniform in function.
Probab=21.24 E-value=1.2e+02 Score=18.53 Aligned_cols=22 Identities=23% Similarity=0.308 Sum_probs=17.5
Q ss_pred HHHHhcCCCCCcEEEEeccCCC
Q 032666 91 PLAAYYKLPLNRVLVFHDDMGL 112 (136)
Q Consensus 91 ~~~~~~ki~~~~ilVvhDDldl 112 (136)
.+.+.++.+++++.|+-+|++-
T Consensus 27 ~l~~~lg~~~~~v~V~i~e~~~ 48 (63)
T TIGR00013 27 AMAETLGANLESIVVIIDEMPK 48 (63)
T ss_pred HHHHHhCCCcccEEEEEEEcCH
Confidence 3556778999999999988764
No 65
>KOG3731 consensus Sulfatases [Carbohydrate transport and metabolism]
Probab=21.23 E-value=69 Score=29.20 Aligned_cols=49 Identities=22% Similarity=0.152 Sum_probs=31.4
Q ss_pred EEeCCchhhcchhcHHHHHHhc--CCCCCcEEEEeccCCCCCceEEEecCC
Q 032666 75 LAKPQTYMNLSGESTGPLAAYY--KLPLNRVLVFHDDMGLPCGVLRLRHNG 123 (136)
Q Consensus 75 L~kP~tyMN~SG~~V~~~~~~~--ki~~~~ilVvhDDldl~~Gkvrlk~~G 123 (136)
..-+.|||=++.....-+.... ..+|..++|+.||.|.++|.+.+....
T Consensus 8 ~~~~it~~L~l~~~~~v~~~~~a~~~~PNvIlvLTDDqD~eLGsm~vm~kt 58 (541)
T KOG3731|consen 8 RGSMITLMLLLNLWKYVALSDGAGRLPPNVILVLTDDQDVELGSMAVMFKT 58 (541)
T ss_pred ccchHHHHHHHhhhHHhhhccccCCCCCCEEEEEccCcchhcccccccchH
Confidence 3445667766554332222211 245678999999999999998876543
No 66
>TIGR01482 SPP-subfamily Sucrose-phosphate phosphatase subfamily. catalyze the same reaction as SPP.
Probab=20.95 E-value=68 Score=24.17 Aligned_cols=27 Identities=19% Similarity=0.134 Sum_probs=23.1
Q ss_pred cchhcHHHHHHhcCCCCCcEEEEeccC
Q 032666 84 LSGESTGPLAAYYKLPLNRVLVFHDDM 110 (136)
Q Consensus 84 ~SG~~V~~~~~~~ki~~~~ilVvhDDl 110 (136)
..|.++..+++.+++++++++++=|..
T Consensus 149 ~K~~~i~~l~~~~~i~~~~~i~~GD~~ 175 (225)
T TIGR01482 149 NKGVAVKKLKEKLGIKPGETLVCGDSE 175 (225)
T ss_pred CHHHHHHHHHHHhCCCHHHEEEECCCH
Confidence 456789999999999999999998853
No 67
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=20.90 E-value=1.1e+02 Score=25.33 Aligned_cols=30 Identities=17% Similarity=0.241 Sum_probs=21.8
Q ss_pred HHHHHhcCCCCCcEEEEeccCCCCCceEEE
Q 032666 90 GPLAAYYKLPLNRVLVFHDDMGLPCGVLRL 119 (136)
Q Consensus 90 ~~~~~~~ki~~~~ilVvhDDldl~~Gkvrl 119 (136)
.++.+..+-.+...||+.|||..+-+.-..
T Consensus 95 ~~l~~~l~~~~~kFIlf~DDLsFe~~d~~y 124 (249)
T PF05673_consen 95 PELLDLLRDRPYKFILFCDDLSFEEGDTEY 124 (249)
T ss_pred HHHHHHHhcCCCCEEEEecCCCCCCCcHHH
Confidence 345555555668999999999988876543
No 68
>TIGR01452 PGP_euk phosphoglycolate/pyridoxal phosphate phosphatase family. This model is closely related to a family of bacterial sequences including the E. coli NagD and B. subtilus AraL genes which are characterized by the ability to hydrolyze para-nitrophenylphosphate (pNPPases or NPPases). The chlamydomonas PGPase does not catalyze this reaction and so presumably these two groups have different functions and substrate specificities. Many of the genes in this alignment have been annotated as pNPPases due to this association.
Probab=20.36 E-value=41 Score=27.02 Aligned_cols=38 Identities=24% Similarity=0.526 Sum_probs=26.6
Q ss_pred eEEEEeCCchhhcchhcHHHHHHhcCCCCCcEEEEeccC--CCCCc
Q 032666 72 PVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDM--GLPCG 115 (136)
Q Consensus 72 ~v~L~kP~tyMN~SG~~V~~~~~~~ki~~~~ilVvhDDl--dl~~G 115 (136)
.+.+-||...| +..+++.++++++++++|=|.+ |+..+
T Consensus 197 ~~~~gKP~p~~------~~~~~~~~~~~~~~~lmIGD~~~tDI~~A 236 (279)
T TIGR01452 197 PLVVGKPSPYM------FECITENFSIDPARTLMVGDRLETDILFG 236 (279)
T ss_pred eeccCCCCHHH------HHHHHHHhCCChhhEEEECCChHHHHHHH
Confidence 34455776554 3446677889999999999986 55443
No 69
>COG0056 AtpA F0F1-type ATP synthase, alpha subunit [Energy production and conversion]
Probab=20.34 E-value=66 Score=29.24 Aligned_cols=24 Identities=29% Similarity=0.492 Sum_probs=16.7
Q ss_pred chhcHHHHHHhcCCCCCcEEEEeccCC
Q 032666 85 SGESTGPLAAYYKLPLNRVLVFHDDMG 111 (136)
Q Consensus 85 SG~~V~~~~~~~ki~~~~ilVvhDDld 111 (136)
+|-++ +.+|.-.-++.|||+|||.
T Consensus 241 ~g~a~---aE~f~~~G~dvLIVyDDLs 264 (504)
T COG0056 241 AGCAM---AEYFRDNGKDVLIVYDDLS 264 (504)
T ss_pred hhhHH---HHHHHhcCCeEEEEecCch
Confidence 45444 3445556689999999985
No 70
>PF14681 UPRTase: Uracil phosphoribosyltransferase; PDB: 1V9S_B 1UPF_A 1UPU_D 1JLR_B 1BD4_A 1BD3_C 1JLS_D 1XTV_C 1XTU_H 3G6W_C ....
Probab=20.27 E-value=1.3e+02 Score=23.45 Aligned_cols=35 Identities=20% Similarity=0.308 Sum_probs=25.0
Q ss_pred CCeeEEEEeCCchhhcchhcHHHHHH---hcCCCCCcEEEE
Q 032666 69 GDAPVLLAKPQTYMNLSGESTGPLAA---YYKLPLNRVLVF 106 (136)
Q Consensus 69 ~~~~v~L~kP~tyMN~SG~~V~~~~~---~~ki~~~~ilVv 106 (136)
....|+|+-| |-.+|.++..+.+ .++.++++++++
T Consensus 120 ~~~~VillDp---mlaTG~s~~~ai~~L~~~G~~~~~I~~v 157 (207)
T PF14681_consen 120 ENRKVILLDP---MLATGGSAIAAIEILKEHGVPEENIIIV 157 (207)
T ss_dssp TTSEEEEEES---EESSSHHHHHHHHHHHHTTG-GGEEEEE
T ss_pred cCCEEEEEec---cccchhhHHHHHHHHHHcCCCcceEEEE
Confidence 4568999999 8889988876554 445677777665
No 71
>COG0561 Cof Predicted hydrolases of the HAD superfamily [General function prediction only]
Probab=20.03 E-value=66 Score=25.17 Aligned_cols=27 Identities=26% Similarity=0.386 Sum_probs=23.3
Q ss_pred chhcHHHHHHhcCCCCCcEEEEeccCC
Q 032666 85 SGESTGPLAAYYKLPLNRVLVFHDDMG 111 (136)
Q Consensus 85 SG~~V~~~~~~~ki~~~~ilVvhDDld 111 (136)
-|.++..+++.+++++++++.+-|..+
T Consensus 190 K~~al~~l~~~lgi~~~~v~afGD~~N 216 (264)
T COG0561 190 KGYALQRLAKLLGIKLEEVIAFGDSTN 216 (264)
T ss_pred hHHHHHHHHHHhCCCHHHeEEeCCccc
Confidence 467899999999999999999998753
No 72
>cd01786 STE50_RA Ubiquitin-like domain of STE50_RA. STE50_RA The fungal adaptor protein STE50 is an essential component of three MAPK-mediated signalling pathways, which control the mating response, invasive/filamentous growth and osmotolerance (HOG pathway), respectively. STE50 functions in cell signalling between the activated G protein and STE11. The domain architecture of STE50 includes an amino-terminal SAM (sterile alpha motif) domain in addition to the carboxy-terminal ubiquitin-like RA (RAS-associated) domain. While the SAM domain interacts with STE11, the RA domain interacts with CDC42 and RAS. Modulation of signal transduction by STE50 specifically affects the pheromone-response pathway in yeast.
Probab=20.02 E-value=1.1e+02 Score=21.97 Aligned_cols=28 Identities=7% Similarity=-0.130 Sum_probs=20.9
Q ss_pred hcHHHHHHhcCCCCC-----cEEEEeccCCCCC
Q 032666 87 ESTGPLAAYYKLPLN-----RVLVFHDDMGLPC 114 (136)
Q Consensus 87 ~~V~~~~~~~ki~~~-----~ilVvhDDldl~~ 114 (136)
+.+..+++.|+|+.+ .++|+|+|-+--+
T Consensus 39 kVL~~Alkry~I~~~dW~~Y~L~I~YgdqER~L 71 (98)
T cd01786 39 KILKNAMKRHNLNDQDWRQYVLVICYGDQERIL 71 (98)
T ss_pred HHHHHHHHHcCCChhhhhheEEEEEeCCeeeec
Confidence 455678899999875 4899999976543
Done!