Query 028597
Match_columns 207
No_of_seqs 154 out of 1191
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 14:01:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028597.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028597hhsearch_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 1.2E-69 2.5E-74 458.6 15.5 159 48-207 1-160 (190)
2 cd02406 CRS2 Chloroplast RNA s 100.0 4.1E-69 8.8E-74 456.5 16.9 159 49-207 2-160 (191)
3 cd00462 PTH Peptidyl-tRNA hydr 100.0 2.7E-68 5.9E-73 444.4 16.6 156 51-207 1-156 (171)
4 TIGR00447 pth peptidyl-tRNA hy 100.0 1.6E-67 3.5E-72 445.4 17.4 158 49-207 1-159 (188)
5 PRK05426 peptidyl-tRNA hydrola 100.0 3.1E-66 6.8E-71 437.7 17.3 158 48-207 1-159 (189)
6 PF01195 Pept_tRNA_hydro: Pept 100.0 9.3E-65 2E-69 426.0 13.4 156 51-207 1-157 (184)
7 KOG2255 Peptidyl-tRNA hydrolas 100.0 3E-54 6.6E-59 366.6 14.8 157 49-205 39-195 (224)
8 cd06070 H2MP_like-2 Putative [ 82.9 12 0.00026 29.8 8.6 84 51-169 1-96 (140)
9 PRK10466 hybD hydrogenase 2 ma 72.5 5.3 0.00012 32.8 3.9 31 48-82 1-31 (164)
10 cd06062 H2MP_MemB-H2up Endopep 65.6 8.7 0.00019 30.7 3.7 90 50-169 1-101 (146)
11 COG0680 HyaD Ni,Fe-hydrogenase 60.4 10 0.00022 31.6 3.3 108 48-186 2-122 (160)
12 PRK11544 hycI hydrogenase 3 ma 58.2 12 0.00026 30.6 3.3 92 49-170 2-102 (156)
13 TIGR00072 hydrog_prot hydrogen 57.0 11 0.00023 30.2 2.7 89 51-169 1-100 (145)
14 cd06064 H2MP_F420-Reduc Endope 56.8 10 0.00022 30.5 2.7 92 51-170 1-105 (150)
15 TIGR00130 frhD coenzyme F420-r 54.6 16 0.00035 29.5 3.5 95 49-170 4-108 (153)
16 PRK10264 hydrogenase 1 maturat 53.5 22 0.00049 30.3 4.3 31 48-82 4-34 (195)
17 TIGR00142 hycI hydrogenase mat 47.8 20 0.00043 28.7 3.0 92 50-170 1-100 (146)
18 PF03418 Peptidase_A25: Germin 46.9 16 0.00034 34.5 2.5 25 49-77 97-121 (354)
19 PF11775 CobT_C: Cobalamin bio 46.6 24 0.00051 31.3 3.4 71 113-185 115-188 (219)
20 cd06063 H2MP_Cyano-H2up This g 46.2 23 0.00049 28.4 3.1 27 50-80 1-27 (146)
21 cd00518 H2MP Hydrogenase speci 46.1 21 0.00045 28.2 2.8 88 51-169 1-98 (139)
22 cd06067 H2MP_MemB-H2evol Endop 45.6 20 0.00043 28.4 2.6 90 51-170 1-98 (136)
23 cd06068 H2MP_like-1 Putative [ 45.6 18 0.00039 28.8 2.4 26 51-80 1-26 (144)
24 cd06066 H2MP_NAD-link-bidir En 43.5 24 0.00053 28.0 2.9 27 51-81 1-27 (139)
25 PF11575 FhuF_C: FhuF 2Fe-2S C 34.0 22 0.00048 20.4 0.9 16 1-16 6-21 (22)
26 PRK12362 germination protease; 34.0 30 0.00066 32.2 2.3 92 48-154 99-200 (318)
27 TIGR01651 CobT cobaltochelatas 33.2 47 0.001 33.5 3.6 69 114-185 496-568 (600)
28 TIGR01441 GPR GPR endopeptidas 30.1 23 0.00051 33.5 0.9 26 49-78 102-127 (358)
29 PF08282 Hydrolase_3: haloacid 29.4 49 0.0011 26.7 2.6 26 117-142 188-213 (254)
30 PRK02858 germination protease; 28.8 25 0.00055 33.3 0.9 26 49-78 112-137 (369)
31 COG4547 CobT Cobalamin biosynt 27.7 60 0.0013 32.3 3.2 72 113-186 516-590 (620)
32 PRK09256 hypothetical protein; 26.2 30 0.00065 28.3 0.8 25 136-160 3-29 (138)
33 cd01896 DRG The developmentall 25.9 3.1E+02 0.0067 23.4 7.0 62 71-134 94-155 (233)
34 PF07431 DUF1512: Protein of u 25.8 3E+02 0.0064 26.2 7.3 68 68-137 184-254 (355)
35 COG2179 Predicted hydrolase of 25.8 52 0.0011 28.2 2.2 29 116-144 95-123 (175)
36 COG2897 SseA Rhodanese-related 24.3 77 0.0017 28.9 3.1 31 111-141 69-99 (285)
37 COG4841 Uncharacterized protei 23.9 49 0.0011 25.7 1.5 23 139-161 15-40 (95)
38 PF13443 HTH_26: Cro/C1-type H 23.5 18 0.0004 24.2 -0.8 27 114-140 37-63 (63)
39 PRK10513 sugar phosphate phosp 22.7 54 0.0012 27.9 1.7 26 117-142 198-223 (270)
40 COG2607 Predicted ATPase (AAA+ 22.6 55 0.0012 30.1 1.8 31 121-151 128-158 (287)
41 KOG1486 GTP-binding protein DR 22.3 3.6E+02 0.0078 25.3 7.0 72 63-136 148-219 (364)
42 PRK10976 putative hydrolase; P 22.1 59 0.0013 27.6 1.9 26 117-142 192-217 (266)
43 PRK15074 inosine/guanosine kin 21.9 69 0.0015 30.7 2.4 15 47-61 31-45 (434)
44 KOG2882 p-Nitrophenyl phosphat 21.5 80 0.0017 29.4 2.6 40 100-145 216-255 (306)
45 KOG0076 GTP-binding ADP-ribosy 21.1 1.1E+02 0.0024 26.7 3.3 87 43-142 14-104 (197)
46 PF11242 DUF2774: Protein of u 21.0 48 0.001 24.0 0.9 24 111-134 7-30 (63)
47 PRK06437 hypothetical protein; 21.0 1.3E+02 0.0027 21.2 3.1 29 116-144 19-47 (67)
48 PRK14690 molybdopterin biosynt 20.4 1.4E+02 0.003 28.5 4.1 77 109-186 214-300 (419)
49 PF06880 DUF1262: Protein of u 20.4 49 0.0011 26.2 0.9 15 16-30 32-46 (104)
No 1
>COG0193 Pth Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.2e-69 Score=458.63 Aligned_cols=159 Identities=47% Similarity=0.760 Sum_probs=152.2
Q ss_pred cCeEEEEecCCCCCCCCCcchHHHHHHHHHHHHcCCCc-cccccceEEEEEEECCeeEEEEeCCchhhccchhHHHHHHH
Q 028597 48 TPWLIVGLGNPGIKYHGTRHNVGFEMIDHIAQAQRIAM-NTIQSKALIGIGSIGEVPILLAKPQAYMNFSGESVGPLAAH 126 (207)
Q Consensus 48 ~~~LIVGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~-~~~~~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~ 126 (207)
+++|||||||||++|+.||||||||++|.||+++++++ +.+++.+.+++..+.+++++|+||+||||+||++|.++++|
T Consensus 1 ~~kLIVGLGNPG~~Y~~TRHNvGf~~vD~La~~~~~~~~~~~kf~~~~~~~~i~g~kv~l~kP~TyMNlSG~~V~~~~~f 80 (190)
T COG0193 1 MMKLIVGLGNPGKKYAKTRHNVGFMVVDLLARRLNLSFKEEKKFNGLVAKGTIEGEKVILLKPTTYMNLSGKAVGALASF 80 (190)
T ss_pred CcEEEEECCCCchhhcccchhHHHHHHHHHHHHhCCCCccccccCceeEEEEeCCcEEEEecCccceeCcHHHHHHHHHH
Confidence 36899999999999999999999999999999999998 45678899999999999999999999999999999999999
Q ss_pred cCCCCCcEEEEeecCCCCCceEEEccCCCCCCCCchHHHHHhccCCCCccEEEEccCCCCCcccccccccCCCChHHHhc
Q 028597 127 YQVPLRHILVIYDEMSLMNGVLRLQPKGGHGHHNGLKSVMNHLDGCREFPRLCIGIGNPPGKMDMKAYLLQKFSPIEREQ 206 (207)
Q Consensus 127 ~ki~~~~ilVihDDLdlp~G~vrlk~gGs~~GHNGLKSI~~~Lggt~~f~RlrIGIGrP~~~~~v~~yVLs~Fs~~E~~~ 206 (207)
|++.+++++|||||||+|+|++|||.+||++||||||||+++| ||++|+|||||||||..+++|++|||++|+++|++.
T Consensus 81 y~i~~~~ilVvhDdLdl~~G~vrlk~~Gg~gGHNGlKSi~~~l-Gt~~f~RlRiGIGrP~~~~~v~~~VL~~f~~~E~~~ 159 (190)
T COG0193 81 YKIKPEDILVVHDELDLPLGKVRLKLGGGAGGHNGLKSIIAHL-GTNNFYRLRIGIGRPGNGEDVADYVLGKFSKEEREL 159 (190)
T ss_pred hCCCHHHEEEEeeccCCCCceEEEEcCCCCCCcccHHHHHHHh-CCCccceEEEEcCCCCCCCchhHhhcCCCCHHHHHH
Confidence 9999999999999999999999999999999999999999999 599999999999999988899999999999999876
Q ss_pred C
Q 028597 207 V 207 (207)
Q Consensus 207 l 207 (207)
|
T Consensus 160 l 160 (190)
T COG0193 160 L 160 (190)
T ss_pred H
Confidence 4
No 2
>cd02406 CRS2 Chloroplast RNA splicing 2 (CRS2) is a nuclear-encoded protein required for the splicing of group II introns in the chloroplast. CRS2 forms stable complexes with two CRS2-associated factors, CAF1 and CAF2, which are required for the splicing of distinct subsets of CRS2-dependent introns. CRS2 is closely related to bacterial peptidyl-tRNA hydrolases (PTH).
Probab=100.00 E-value=4.1e-69 Score=456.48 Aligned_cols=159 Identities=79% Similarity=1.318 Sum_probs=151.0
Q ss_pred CeEEEEecCCCCCCCCCcchHHHHHHHHHHHHcCCCccccccceEEEEEEECCeeEEEEeCCchhhccchhHHHHHHHcC
Q 028597 49 PWLIVGLGNPGIKYHGTRHNVGFEMIDHIAQAQRIAMNTIQSKALIGIGSIGEVPILLAKPQAYMNFSGESVGPLAAHYQ 128 (207)
Q Consensus 49 ~~LIVGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~k 128 (207)
|+|||||||||++|++|||||||+++|+||+++++++++.++.+.+++..+++++++|+||+||||+||++|+++++||+
T Consensus 2 ~~LIvGLGNPG~~Y~~TRHNiGf~vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMN~SG~aV~~~~~~yk 81 (191)
T cd02406 2 PWLIAGLGNPGNKYKGTRHNVGFEMVDRIAEAEGITMNTIQFKSLLGIGSIGDVPVLLAKPQTYMNYSGESVGPLAAYYK 81 (191)
T ss_pred cEEEEEcCCCchhhCcCchhHHHHHHHHHHHHcCCCccccccceEEEEEEECCeEEEEEeCCCchhcCHHHHHHHHHHhC
Confidence 58999999999999999999999999999999998876667788889889999999999999999999999999999999
Q ss_pred CCCCcEEEEeecCCCCCceEEEccCCCCCCCCchHHHHHhccCCCCccEEEEccCCCCCcccccccccCCCChHHHhcC
Q 028597 129 VPLRHILVIYDEMSLMNGVLRLQPKGGHGHHNGLKSVMNHLDGCREFPRLCIGIGNPPGKMDMKAYLLQKFSPIEREQV 207 (207)
Q Consensus 129 i~~~~ilVihDDLdlp~G~vrlk~gGs~~GHNGLKSI~~~Lggt~~f~RlrIGIGrP~~~~~v~~yVLs~Fs~~E~~~l 207 (207)
++++++||||||||||+|++|+|.+||++||||||||+++|++|++|+|||||||||+.+.++++|||++|+++|++.|
T Consensus 82 i~~~~ilVihDdldl~~G~irlk~gGs~gGHNGlkSI~~~Lggt~~f~RlrIGIGrP~~~~~v~~yVL~~f~~~E~~~l 160 (191)
T cd02406 82 VPLRHILVIYDDMSLPNGVLRLQPKGGHGRHNGLQSVIEHLDGSREFPRLSIGIGSPPGKMDPRAFLLQKFSSEEREQI 160 (191)
T ss_pred CCHHHEEEEEECCCCCCCeEEEcCCCCCCCcCCHHHHHHHhCCCCCeEEEEEEeCCCCCCCchhhhhcCCCCHHHHHHH
Confidence 9999999999999999999999999999999999999999965789999999999998767899999999999998754
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=2.7e-68 Score=444.41 Aligned_cols=156 Identities=54% Similarity=0.922 Sum_probs=149.5
Q ss_pred EEEEecCCCCCCCCCcchHHHHHHHHHHHHcCCCccccccceEEEEEEECCeeEEEEeCCchhhccchhHHHHHHHcCCC
Q 028597 51 LIVGLGNPGIKYHGTRHNVGFEMIDHIAQAQRIAMNTIQSKALIGIGSIGEVPILLAKPQAYMNFSGESVGPLAAHYQVP 130 (207)
Q Consensus 51 LIVGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki~ 130 (207)
|||||||||++|++|||||||+++|+||++++.++++.++.+.++...+.+++++|+||+||||+||++|++++++|+++
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 69999999999999999999999999999999988776778999999999999999999999999999999999999999
Q ss_pred CCcEEEEeecCCCCCceEEEccCCCCCCCCchHHHHHhccCCCCccEEEEccCCCCCcccccccccCCCChHHHhcC
Q 028597 131 LRHILVIYDEMSLMNGVLRLQPKGGHGHHNGLKSVMNHLDGCREFPRLCIGIGNPPGKMDMKAYLLQKFSPIEREQV 207 (207)
Q Consensus 131 ~~~ilVihDDLdlp~G~vrlk~gGs~~GHNGLKSI~~~Lggt~~f~RlrIGIGrP~~~~~v~~yVLs~Fs~~E~~~l 207 (207)
++++||||||||+|+|++|+|.+||++||||||||+++| ||++|+|||||||||+.+.++++|||++|+++|++.|
T Consensus 81 ~~~ilVihDdldl~~G~vrlk~~G~~gGHNGlkSI~~~l-gt~~f~RlriGIGrP~~~~~v~~yVL~~f~~~E~~~l 156 (171)
T cd00462 81 PEDILVIHDDLDLPLGKIRLKKGGGSGGHNGLKSIIAHL-GTEDFPRLRIGIGRPPNKMDVADYVLSKFSKEERELL 156 (171)
T ss_pred hhHEEEEEecCCCCCceEEEeCCCCCCCCCCHHHHHHHh-CCCCeeEEEEEeCCCCCCCChhhhhcCCCCHHHHHHH
Confidence 999999999999999999999999999999999999999 5899999999999998778999999999999999764
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=1.6e-67 Score=445.39 Aligned_cols=158 Identities=43% Similarity=0.703 Sum_probs=149.2
Q ss_pred CeEEEEecCCCCCCCCCcchHHHHHHHHHHHHcCCCccc-cccceEEEEEEECCeeEEEEeCCchhhccchhHHHHHHHc
Q 028597 49 PWLIVGLGNPGIKYHGTRHNVGFEMIDHIAQAQRIAMNT-IQSKALIGIGSIGEVPILLAKPQAYMNFSGESVGPLAAHY 127 (207)
Q Consensus 49 ~~LIVGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~-~~~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ 127 (207)
|+|||||||||++|+.|||||||+++|+||++++.++.+ .++.+.++...+++++++|+||+||||+||++|++++++|
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 589999999999999999999999999999999988763 4567888888899999999999999999999999999999
Q ss_pred CCCCCcEEEEeecCCCCCceEEEccCCCCCCCCchHHHHHhccCCCCccEEEEccCCCCCcccccccccCCCChHHHhcC
Q 028597 128 QVPLRHILVIYDEMSLMNGVLRLQPKGGHGHHNGLKSVMNHLDGCREFPRLCIGIGNPPGKMDMKAYLLQKFSPIEREQV 207 (207)
Q Consensus 128 ki~~~~ilVihDDLdlp~G~vrlk~gGs~~GHNGLKSI~~~Lggt~~f~RlrIGIGrP~~~~~v~~yVLs~Fs~~E~~~l 207 (207)
+++++++||||||||+|+|++|+|.+||++||||||||+++| ||++|+|||||||||+.+.++++|||++|+++|++.|
T Consensus 81 ~i~~~~ilVihDdldl~~G~irlk~~G~~gGHNGlkSI~~~l-gt~~f~RlrIGIGrP~~~~~v~~yVL~~f~~~e~~~l 159 (188)
T TIGR00447 81 RIKPAELLVVHDELDLPLGKVRLKMGGGAGGHNGLKSIISHL-GTNNFNRLRIGIGSPGGSNKVVEFVLSKFTKSELPLL 159 (188)
T ss_pred CCChHHEEEEEecCCCCCceEEEecCCCCCCcCCHHHHHHHh-CCCCcceEEEEeCCCCCCCchhhhccCCCCHHHHHHH
Confidence 999999999999999999999999999999999999999999 5899999999999998777899999999999998764
No 5
>PRK05426 peptidyl-tRNA hydrolase; Provisional
Probab=100.00 E-value=3.1e-66 Score=437.75 Aligned_cols=158 Identities=47% Similarity=0.769 Sum_probs=148.1
Q ss_pred cCeEEEEecCCCCCCCCCcchHHHHHHHHHHHHcCCCcc-ccccceEEEEEEECCeeEEEEeCCchhhccchhHHHHHHH
Q 028597 48 TPWLIVGLGNPGIKYHGTRHNVGFEMIDHIAQAQRIAMN-TIQSKALIGIGSIGEVPILLAKPQAYMNFSGESVGPLAAH 126 (207)
Q Consensus 48 ~~~LIVGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~-~~~~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~ 126 (207)
+++|||||||||++|++|||||||+++|.||++++..+. ..++.+.++...+++++++|+||+||||+||++|++++++
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 368999999999999999999999999999999987664 3467789999999889999999999999999999999999
Q ss_pred cCCCCCcEEEEeecCCCCCceEEEccCCCCCCCCchHHHHHhccCCCCccEEEEccCCCCCcccccccccCCCChHHHhc
Q 028597 127 YQVPLRHILVIYDEMSLMNGVLRLQPKGGHGHHNGLKSVMNHLDGCREFPRLCIGIGNPPGKMDMKAYLLQKFSPIEREQ 206 (207)
Q Consensus 127 ~ki~~~~ilVihDDLdlp~G~vrlk~gGs~~GHNGLKSI~~~Lggt~~f~RlrIGIGrP~~~~~v~~yVLs~Fs~~E~~~ 206 (207)
|++++++++|||||||+|+|++|+|.+||++||||||||+++| ||++|+|||||||||+ ..++++|||++|+++|++.
T Consensus 81 ~~i~~~~ilVihDdldl~~G~~r~k~gGs~~GHNGlkSI~~~l-gt~~f~RlriGIGrP~-~~~v~~yVL~~f~~~E~~~ 158 (189)
T PRK05426 81 YKIPPEDILVIHDDLDLPPGKIRLKKGGGAGGHNGLKSIIAHL-GTQDFWRLRIGIGRPD-KKKVVDYVLGKFSKEEQEL 158 (189)
T ss_pred hCCCHHHEEEEEecCCCCCceEEEecCCCCCCcCCHHHHHHHh-CCCCeeEEEEEeCCCC-CCCcchhhcCCCCHHHHHH
Confidence 9999999999999999999999999999999999999999999 5889999999999997 5679999999999999986
Q ss_pred C
Q 028597 207 V 207 (207)
Q Consensus 207 l 207 (207)
|
T Consensus 159 l 159 (189)
T PRK05426 159 L 159 (189)
T ss_pred H
Confidence 4
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=9.3e-65 Score=426.01 Aligned_cols=156 Identities=51% Similarity=0.863 Sum_probs=135.3
Q ss_pred EEEEecCCCCCCCCCcchHHHHHHHHHHHHcCCCccccc-cceEEEEEEECCeeEEEEeCCchhhccchhHHHHHHHcCC
Q 028597 51 LIVGLGNPGIKYHGTRHNVGFEMIDHIAQAQRIAMNTIQ-SKALIGIGSIGEVPILLAKPQAYMNFSGESVGPLAAHYQV 129 (207)
Q Consensus 51 LIVGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~~-~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki 129 (207)
|||||||||++|++|||||||+++|+||++++.++...+ +.+.++...+.+++++|+||+||||+||.+|++++++|++
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 799999999999999999999999999999998886654 7788888889999999999999999999999999999999
Q ss_pred CCCcEEEEeecCCCCCceEEEccCCCCCCCCchHHHHHhccCCCCccEEEEccCCCCCcccccccccCCCChHHHhcC
Q 028597 130 PLRHILVIYDEMSLMNGVLRLQPKGGHGHHNGLKSVMNHLDGCREFPRLCIGIGNPPGKMDMKAYLLQKFSPIEREQV 207 (207)
Q Consensus 130 ~~~~ilVihDDLdlp~G~vrlk~gGs~~GHNGLKSI~~~Lggt~~f~RlrIGIGrP~~~~~v~~yVLs~Fs~~E~~~l 207 (207)
++++++|||||+|+|+|++|+|.+||++||||||||+++| +|++|+|||||||||+++.++++|||++|+++|++.|
T Consensus 81 ~~~~ilVihDdldl~~G~irlk~~Gs~~GHNGlkSI~~~L-gt~~f~RlrIGIGrp~~~~~v~~yVL~~f~~~E~~~l 157 (184)
T PF01195_consen 81 PPENILVIHDDLDLPLGKIRLKKGGSSGGHNGLKSIIQHL-GTEDFPRLRIGIGRPPSKEDVADYVLSKFSPEERELL 157 (184)
T ss_dssp -GGGEEEEEEETTSSTTEEEEEESS--TT-HHHHHHHHHC-TSSGSEEEEEEE--TSTTSGHHHHHTSB-HHHHHHHH
T ss_pred CcceEEEEEeccCCCCCeEEEccCCCCCCCCCHHHHHHHh-ccccceeEEEecCCCCCcchHHHHHhcCCCHHHHHHH
Confidence 9999999999999999999999999999999999999999 5899999999999999778999999999999999864
No 7
>KOG2255 consensus Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3e-54 Score=366.64 Aligned_cols=157 Identities=65% Similarity=1.114 Sum_probs=150.6
Q ss_pred CeEEEEecCCCCCCCCCcchHHHHHHHHHHHHcCCCccccccceEEEEEEECCeeEEEEeCCchhhccchhHHHHHHHcC
Q 028597 49 PWLIVGLGNPGIKYHGTRHNVGFEMIDHIAQAQRIAMNTIQSKALIGIGSIGEVPILLAKPQAYMNFSGESVGPLAAHYQ 128 (207)
Q Consensus 49 ~~LIVGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~k 128 (207)
+|+|+||||||++|.+|||||||.++|.||++++++..+.+.++..+.+.+++..+++++|++|||.||++|.+++..|+
T Consensus 39 ~wli~GLGNPg~~y~gTRHnvG~~Ml~~larrlgv~~nt~s~~a~~~l~~v~d~~~~llrp~qymN~SgesV~kva~~y~ 118 (224)
T KOG2255|consen 39 PWLIVGLGNPGSKYVGTRHNVGFEMLDMLARRLGVPMNTISSKALEGLGLVGDVPILLLRPQQYMNFSGESVGKVAALYK 118 (224)
T ss_pred ceEEEecCCCcccccccchhhHHHHHHHHHHHhCCcccccCcccccceeeecceeeEeeCcHhhhccccchhhhhHHhhc
Confidence 69999999999999999999999999999999999877766667777788999999999999999999999999999999
Q ss_pred CCCCcEEEEeecCCCCCceEEEccCCCCCCCCchHHHHHhccCCCCccEEEEccCCCCCcccccccccCCCChHHHh
Q 028597 129 VPLRHILVIYDEMSLMNGVLRLQPKGGHGHHNGLKSVMNHLDGCREFPRLCIGIGNPPGKMDMKAYLLQKFSPIERE 205 (207)
Q Consensus 129 i~~~~ilVihDDLdlp~G~vrlk~gGs~~GHNGLKSI~~~Lggt~~f~RlrIGIGrP~~~~~v~~yVLs~Fs~~E~~ 205 (207)
++.++++||||||++|+|++++|++||++||||+||++.++++...|+||+||||||++++|+.+|||++|++.|++
T Consensus 119 i~~~~ivvIhDEl~l~~Gkl~Lrp~gs~rgHNGvrs~~~~l~g~~~fpRL~iGIGrppg~~d~~a~vLskfsp~e~k 195 (224)
T KOG2255|consen 119 IPLRHIVVIHDELELPLGKLRLRPGGSHRGHNGVRSVFNCLNGRRSFPRLSIGIGRPPGNEDVKAFVLSKFSPAEQK 195 (224)
T ss_pred chheeEEEEeccccCcCceEEeccCCCccccccHHHHHhhccCCcccceeeeecCCCCCchhhhHHHHHhcChhhhH
Confidence 99999999999999999999999999999999999999999887899999999999999999999999999999987
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=82.95 E-value=12 Score=29.82 Aligned_cols=84 Identities=21% Similarity=0.256 Sum_probs=50.1
Q ss_pred EEEEecCCCCCCCCCcchHHHHHHHHHHHHcCCCccccccceEEEEEEECCeeEEEEeCCchhhccchhHHHHHHHcCCC
Q 028597 51 LIVGLGNPGIKYHGTRHNVGFEMIDHIAQAQRIAMNTIQSKALIGIGSIGEVPILLAKPQAYMNFSGESVGPLAAHYQVP 130 (207)
Q Consensus 51 LIVGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki~ 130 (207)
||+|+|||=. .-==+|+.++++|++ .++ -++. .|.....++.++.
T Consensus 1 lVlGiGN~l~----~DDg~G~~v~~~L~~-~~v---------------------~vi~-------~g~~~~~ll~~i~-- 45 (140)
T cd06070 1 LIIGVGNRLY----GDDGFGSCLAEALEQ-CGA---------------------PVFD-------GGLDGFGLLSHLE-- 45 (140)
T ss_pred CEEEECchhc----ccCcHHHHHHHHHhh-CCC---------------------EEEE-------CCCcHHHHHHHHc--
Confidence 5899999864 333599999999976 111 1111 1222223344432
Q ss_pred CCcEEEEeecCC--CCCceEEEccC---------CCCCCCC-chHHHHHhc
Q 028597 131 LRHILVIYDEMS--LMNGVLRLQPK---------GGHGHHN-GLKSVMNHL 169 (207)
Q Consensus 131 ~~~ilVihDDLd--lp~G~vrlk~g---------Gs~~GHN-GLKSI~~~L 169 (207)
..+.+||.|=++ .++|.++++.. .+...|+ |+.++...+
T Consensus 46 ~~d~viiVDA~~~~~~pG~~~~~~~~~~~~~~~~~~~s~H~~~l~~~l~~~ 96 (140)
T cd06070 46 NYDIVIFIDVAVIDEDVGVFKITPEPASVAEQISFETDAHRLGPAHLLLLL 96 (140)
T ss_pred CCCEEEEEEeecCCCCCeEEEEecCchhccccccCCCCCCcCCHHHHHHHH
Confidence 345566667644 58898887542 2224566 999987665
No 9
>PRK10466 hybD hydrogenase 2 maturation endopeptidase; Provisional
Probab=72.49 E-value=5.3 Score=32.77 Aligned_cols=31 Identities=23% Similarity=0.442 Sum_probs=24.2
Q ss_pred cCeEEEEecCCCCCCCCCcchHHHHHHHHHHHHcC
Q 028597 48 TPWLIVGLGNPGIKYHGTRHNVGFEMIDHIAQAQR 82 (207)
Q Consensus 48 ~~~LIVGLGNPG~~Y~~TRHNvGf~vld~La~~~~ 82 (207)
|+.+|+|+|||=. +-==+|..++++|.+.+.
T Consensus 1 m~ilVlGiGN~l~----gDDGvG~~va~~L~~~~~ 31 (164)
T PRK10466 1 MRILVLGVGNILL----TDEAIGVRIVEALEQRYI 31 (164)
T ss_pred CceEEEEECchhh----ccCcHHHHHHHHHHHhcC
Confidence 3579999999864 334599999999987654
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=65.63 E-value=8.7 Score=30.73 Aligned_cols=90 Identities=19% Similarity=0.245 Sum_probs=52.0
Q ss_pred eEEEEecCCCCCCCCCcchHHHHHHHHHHHHcCCCccccccceEEEEEEECCeeEEEEeCCchhhccchhHHHHHHHcCC
Q 028597 50 WLIVGLGNPGIKYHGTRHNVGFEMIDHIAQAQRIAMNTIQSKALIGIGSIGEVPILLAKPQAYMNFSGESVGPLAAHYQV 129 (207)
Q Consensus 50 ~LIVGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki 129 (207)
.+|+|+|||-.. -==+|+.++++|+++++.... +.++ + .|.....++..+.
T Consensus 1 ilV~GiGN~l~g----DDG~G~~va~~L~~~~~~~~~-----------------v~vi------~-~~~~~~~l~~~l~- 51 (146)
T cd06062 1 ILVLGIGNILLA----DEGIGVHAVERLEENYSFPEN-----------------VELI------D-GGTLGLELLPYIE- 51 (146)
T ss_pred CEEEEECccccc----cCcHHHHHHHHHHHhcCCCCC-----------------eEEE------E-CCCCHHHHHHHHh-
Confidence 379999999642 335999999999887542110 1111 1 1111122333322
Q ss_pred CCCcEEEEeecC--CCCCceEEEcc-C--------CCCCCCCchHHHHHhc
Q 028597 130 PLRHILVIYDEM--SLMNGVLRLQP-K--------GGHGHHNGLKSVMNHL 169 (207)
Q Consensus 130 ~~~~ilVihDDL--dlp~G~vrlk~-g--------Gs~~GHNGLKSI~~~L 169 (207)
..+.+|+.|=+ +.++|+++.-. . ..+..+-++..+.+.+
T Consensus 52 -~~d~viiVDA~~~g~~pG~i~~~~~~~~~~~~~~~~s~H~~~l~~~l~~~ 101 (146)
T cd06062 52 -EADRLIIVDAVDAGGPPGTVYRFEGEDVPAFLSAKLSAHQVGLLEVLALA 101 (146)
T ss_pred -cCCEEEEEEcccCCCCCCeEEEEechhccccccCCcCcccCCHHHHHHHH
Confidence 23677777764 67999987632 1 1244556788887664
No 11
>COG0680 HyaD Ni,Fe-hydrogenase maturation factor [Energy production and conversion]
Probab=60.35 E-value=10 Score=31.56 Aligned_cols=108 Identities=19% Similarity=0.256 Sum_probs=63.9
Q ss_pred cCeEEEEecCCCCCCCCCcchHHHHHHHHHHHHcCCCccccccceEEEEEEECCeeEEEEeC-CchhhccchhHHHHHHH
Q 028597 48 TPWLIVGLGNPGIKYHGTRHNVGFEMIDHIAQAQRIAMNTIQSKALIGIGSIGEVPILLAKP-QAYMNFSGESVGPLAAH 126 (207)
Q Consensus 48 ~~~LIVGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP-~TyMNlSG~aV~~~~~~ 126 (207)
++++|+|+|||=. .-=-+|-.+++.|++++.-.. ++-++.= +--+|+.+.
T Consensus 2 ~~ilIlG~GN~L~----~DDG~Gv~vae~L~~~~~~~~-----------------~v~vid~Gt~~~~l~~~-------- 52 (160)
T COG0680 2 MRILILGVGNILM----GDDGFGVRVAEKLKKRYKPPE-----------------NVEVIDGGTAGPNLLGL-------- 52 (160)
T ss_pred CeEEEEeeCCccc----ccCcccHHHHHHHHHhcCCCC-----------------CeEEEEcCCCcHHHHHH--------
Confidence 4689999999865 344689999999998754211 1111111 112222221
Q ss_pred cCCCCCcEEEEeecCCC--CCceEEEcc-----CC-CCC---CCC-chHHHHHhccCCCCccEEEEccCCCC
Q 028597 127 YQVPLRHILVIYDEMSL--MNGVLRLQP-----KG-GHG---HHN-GLKSVMNHLDGCREFPRLCIGIGNPP 186 (207)
Q Consensus 127 ~ki~~~~ilVihDDLdl--p~G~vrlk~-----gG-s~~---GHN-GLKSI~~~Lggt~~f~RlrIGIGrP~ 186 (207)
+...+-+||.|=++. .+|.+++-. .+ .+. .|+ ++..+++.+.-..++...-+|+.-++
T Consensus 53 --l~~~d~vIIVDav~~g~epG~v~~i~~e~i~~~~~~~~~s~H~~~~~~~L~~~~~~~~~~~~~~~~~v~~ 122 (160)
T COG0680 53 --LAGYDPVIIVDAVLFGLEPGEVRIIDPEEIPAYSSASKDSAHELPLSELLALLKELGGLPVLILGVQVPI 122 (160)
T ss_pred --hcCCCcEEEEEeeecCCCCceEEEechhhcccccccCCCccccCCHHHHHHHHHHhcCCceEEEEEeece
Confidence 223344777786555 499998632 22 332 465 68888887743344567778887554
No 12
>PRK11544 hycI hydrogenase 3 maturation protease; Provisional
Probab=58.17 E-value=12 Score=30.58 Aligned_cols=92 Identities=18% Similarity=0.230 Sum_probs=50.9
Q ss_pred CeEEEEecCCCCCCCCCcchHHHHHHHHHHHHcCCCccccccceEEEEEEECCeeEEEEeCCchhhccchhHHHHHHHcC
Q 028597 49 PWLIVGLGNPGIKYHGTRHNVGFEMIDHIAQAQRIAMNTIQSKALIGIGSIGEVPILLAKPQAYMNFSGESVGPLAAHYQ 128 (207)
Q Consensus 49 ~~LIVGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~k 128 (207)
..+|+|+|||-.. -==+|..++++|++... . . +.++.=.| .|.-+..+++.+
T Consensus 2 ~~lVlGiGN~L~g----DDGvG~~v~~~L~~~~~---~-----~-----------v~vid~gt----~~~~~~~~i~~~- 53 (156)
T PRK11544 2 TDVVLTVGNSMMG----DDGAGPLLAEKLAAAPK---G-----G-----------WVVIDGGS----APENDIVAIREL- 53 (156)
T ss_pred cEEEEEeCccccc----cCcHHHHHHHHHhccCC---C-----C-----------eEEEECCC----CHHHHHHHHHhc-
Confidence 4699999998753 33599999999976421 0 0 11111111 122111222211
Q ss_pred CCCCcEEEEeec--CCCCCceEEEccCC------CCCCCC-chHHHHHhcc
Q 028597 129 VPLRHILVIYDE--MSLMNGVLRLQPKG------GHGHHN-GLKSVMNHLD 170 (207)
Q Consensus 129 i~~~~ilVihDD--Ldlp~G~vrlk~gG------s~~GHN-GLKSI~~~Lg 170 (207)
.+ +.+||.|= .+.++|.++.-... +...|. ||..+...+.
T Consensus 54 -~~-d~vIiVDA~~~g~~PG~v~~~~~~~~~~~~~~s~H~~~l~~~l~~l~ 102 (156)
T PRK11544 54 -RP-ERLLIVDATDMGLNPGEIRIIDPDDIAEMFMMTTHNMPLNYLIDQLK 102 (156)
T ss_pred -CC-CEEEEEECCccCcCCCEEEEEchhhcccccCCCCCcCCHHHHHHHHh
Confidence 22 55666674 46689998873111 223444 8999988884
No 13
>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=57.02 E-value=11 Score=30.17 Aligned_cols=89 Identities=19% Similarity=0.259 Sum_probs=50.5
Q ss_pred EEEEecCCCCCCCCCcchHHHHHHHHHHHHcCCCccccccceEEEEEEECCeeEEEEeCCchhhccchhHHHHHHHcCCC
Q 028597 51 LIVGLGNPGIKYHGTRHNVGFEMIDHIAQAQRIAMNTIQSKALIGIGSIGEVPILLAKPQAYMNFSGESVGPLAAHYQVP 130 (207)
Q Consensus 51 LIVGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki~ 130 (207)
||+|+|||-. .-==+|..++++|++++.... .+-++.= |.....++..+.
T Consensus 1 lViGiGN~l~----~DDg~G~~v~~~L~~~~~~~~-----------------~v~~id~-------g~~~~~l~~~l~-- 50 (145)
T TIGR00072 1 LVLGIGNILR----GDDGFGPRVAERLEERYEFPP-----------------GVEVLDG-------GTLGLELLDAIE-- 50 (145)
T ss_pred CEEEECchhc----ccCcHHHHHHHHHHHhcCCCC-----------------CeEEEEC-------CCCHHHHHHHHh--
Confidence 5899999864 233599999999998753210 0111100 111112334332
Q ss_pred CCcEEEEeecC--CCCCceEEEcc--------CCCC-CCCCchHHHHHhc
Q 028597 131 LRHILVIYDEM--SLMNGVLRLQP--------KGGH-GHHNGLKSVMNHL 169 (207)
Q Consensus 131 ~~~ilVihDDL--dlp~G~vrlk~--------gGs~-~GHNGLKSI~~~L 169 (207)
..+.+||.|=. +.++|+++.-. ..+. ..+-|+..+...+
T Consensus 51 ~~d~viiVDA~~~g~~pG~v~~~~~~~~~~~~~~~~s~H~~~l~~~l~~~ 100 (145)
T TIGR00072 51 GADRVIVVDAVDSGAEPGTVRRLPGEDLPAFLGGKLSTHQLGLSEVLALL 100 (145)
T ss_pred CCCEEEEEEccCCCcCCceEEEEchhhccccccCCCCcCcCCHHHHHHHH
Confidence 23566666765 55899988621 1132 3344888888766
No 14
>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=56.75 E-value=10 Score=30.47 Aligned_cols=92 Identities=18% Similarity=0.250 Sum_probs=53.6
Q ss_pred EEEEecCCCCCCCCCcchHHHHHHHHHHHHcCCCccccccceEEEEEEECCeeEEEEeCCchhhccchhHHHH-HHHcC-
Q 028597 51 LIVGLGNPGIKYHGTRHNVGFEMIDHIAQAQRIAMNTIQSKALIGIGSIGEVPILLAKPQAYMNFSGESVGPL-AAHYQ- 128 (207)
Q Consensus 51 LIVGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~-~~~~k- 128 (207)
||+|+|||-. .-==+|+.++++|++++...- .+.++. .|...-.+ ..+..
T Consensus 1 lViGiGN~l~----gDDgvG~~va~~l~~~~~~~~-----------------~v~vid-------~g~~~~~~~~~~~~~ 52 (150)
T cd06064 1 LVVGCGNILF----GDDGFGPAVIEELEKLELLPD-----------------NVQVID-------AGTGAPHLLFTLLDE 52 (150)
T ss_pred CEEEECCccc----ccCcHHHHHHHHHHhccCCCC-----------------CEEEEE-------CCCcHHHHHHHHHhc
Confidence 5899999875 334599999999987642100 011221 22211111 11111
Q ss_pred CCCCcEEEEeecC--CCCCceEEEccC------C---CCCCCCchHHHHHhcc
Q 028597 129 VPLRHILVIYDEM--SLMNGVLRLQPK------G---GHGHHNGLKSVMNHLD 170 (207)
Q Consensus 129 i~~~~ilVihDDL--dlp~G~vrlk~g------G---s~~GHNGLKSI~~~Lg 170 (207)
....+.+||.|=+ +.++|.++.... . .+..+-|+..+++.+.
T Consensus 53 ~~~~d~viivDA~~~g~~pG~v~~~~~~~~~~~~~~~~s~H~~~l~~~l~~~~ 105 (150)
T cd06064 53 ESKPKKIIIVDAIDFGLEPGTLKKISVDELPPGKYYDFDAHSWPLADPLHELK 105 (150)
T ss_pred cCCCCEEEEEEecCCCCCCCeEEEEehhhcccccCCCcCCCcCCHHHHHHHHH
Confidence 1224677777874 778999877321 1 2456689999998773
No 15
>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=54.55 E-value=16 Score=29.51 Aligned_cols=95 Identities=16% Similarity=0.157 Sum_probs=53.4
Q ss_pred CeEEEEecCCCCCCCCCcchHHHHHHHHHHHH-cCCCccccccceEEEEEEECCeeEEEEeCCchhhccchhHHHHHHHc
Q 028597 49 PWLIVGLGNPGIKYHGTRHNVGFEMIDHIAQA-QRIAMNTIQSKALIGIGSIGEVPILLAKPQAYMNFSGESVGPLAAHY 127 (207)
Q Consensus 49 ~~LIVGLGNPG~~Y~~TRHNvGf~vld~La~~-~~~~~~~~~~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ 127 (207)
+.+|+|+|||-. .-==+|..++++|++. +..+. .+.+ ++........+....
T Consensus 4 ~ilVlGiGN~l~----gDDGvG~~v~~~L~~~~~~~~~-----------------~v~v------id~gt~~~~~l~~~~ 56 (153)
T TIGR00130 4 EILVVGCGNILF----GDDGFGPAVIEYLKENGVEKPD-----------------NVCL------IDAGTGAPHFVFTLI 56 (153)
T ss_pred eEEEEEeCcccc----ccCcHhHHHHHHHHHhCCCCCC-----------------CeEE------EECCCcHHHHHHHHh
Confidence 469999999864 2345999999999863 22110 0111 111111111111111
Q ss_pred CCCCCcEEEEeec--CCCCCceEEEcc------CCC-CCCCCchHHHHHhcc
Q 028597 128 QVPLRHILVIYDE--MSLMNGVLRLQP------KGG-HGHHNGLKSVMNHLD 170 (207)
Q Consensus 128 ki~~~~ilVihDD--Ldlp~G~vrlk~------gGs-~~GHNGLKSI~~~Lg 170 (207)
.+...+.+||-|= .+.++|.++.-. ..+ +..+-|+..+.+.+.
T Consensus 57 ~~~~~d~vIivDA~~~~~~PG~v~~~~~~~~~~~~~~s~H~~~l~~~l~~l~ 108 (153)
T TIGR00130 57 PQSKWKKIIVVDIADFGAEPGTLRVLNVDELPNGRYMDAHGWSLAYPLHDLE 108 (153)
T ss_pred hhcCCCEEEEEEccCCCcCCCEEEEEchHHcCCCCCCCCccCCHHHHHHHhc
Confidence 2233466777775 578999988732 112 344459999998774
No 16
>PRK10264 hydrogenase 1 maturation protease; Provisional
Probab=53.50 E-value=22 Score=30.35 Aligned_cols=31 Identities=16% Similarity=0.285 Sum_probs=24.0
Q ss_pred cCeEEEEecCCCCCCCCCcchHHHHHHHHHHHHcC
Q 028597 48 TPWLIVGLGNPGIKYHGTRHNVGFEMIDHIAQAQR 82 (207)
Q Consensus 48 ~~~LIVGLGNPG~~Y~~TRHNvGf~vld~La~~~~ 82 (207)
++.+|+|+|||=. .-==+|..++++|++++.
T Consensus 4 ~rilVlGiGN~L~----gDDGvG~~va~~L~~~~~ 34 (195)
T PRK10264 4 QRVVVMGLGNLLW----ADEGFGVRVAERLYAHYH 34 (195)
T ss_pred CCEEEEEeCcccc----ccCcHHHHHHHHHHhhcC
Confidence 4579999999753 233599999999988754
No 17
>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=47.84 E-value=20 Score=28.72 Aligned_cols=92 Identities=16% Similarity=0.204 Sum_probs=51.8
Q ss_pred eEEEEecCCCCCCCCCcchHHHHHHHHHHHHcCCCccccccceEEEEEEECCeeEEEEeCCchhhccchhHHHHHHHcCC
Q 028597 50 WLIVGLGNPGIKYHGTRHNVGFEMIDHIAQAQRIAMNTIQSKALIGIGSIGEVPILLAKPQAYMNFSGESVGPLAAHYQV 129 (207)
Q Consensus 50 ~LIVGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki 129 (207)
.+|+|+|||-.. -==+|..++++|.+.+... .+.++.-.| .|.-+..+++.++
T Consensus 1 ~lVlGiGN~l~~----DDG~G~~v~~~L~~~~~~~------------------~v~v~d~gt----~~~~~~~~~~~~~- 53 (146)
T TIGR00142 1 LVLLCVGNELMG----DDGAGPYLAEKCAAAPKEE------------------NWVVINAGT----VPENFTVAIRELR- 53 (146)
T ss_pred CEEEEeCccccc----cCcHHHHHHHHHHhccCCC------------------CEEEEECCC----ChHHHHHHHHhcC-
Confidence 479999998753 3359999999998653210 011221111 1221112233221
Q ss_pred CCCcEEEEeecC--CCCCceEEEccC-----CCCCCCC-chHHHHHhcc
Q 028597 130 PLRHILVIYDEM--SLMNGVLRLQPK-----GGHGHHN-GLKSVMNHLD 170 (207)
Q Consensus 130 ~~~~ilVihDDL--dlp~G~vrlk~g-----Gs~~GHN-GLKSI~~~Lg 170 (207)
.+.+||.|-. +.++|.++.-.. .+..-|+ |+..+.+.+.
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 2566666764 569999887331 1223454 9999988773
No 18
>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=46.95 E-value=16 Score=34.53 Aligned_cols=25 Identities=32% Similarity=0.623 Sum_probs=17.7
Q ss_pred CeEEEEecCCCCCCCCCcchHHHHHHHHH
Q 028597 49 PWLIVGLGNPGIKYHGTRHNVGFEMIDHI 77 (207)
Q Consensus 49 ~~LIVGLGNPG~~Y~~TRHNvGf~vld~L 77 (207)
..|||||||.-- |.-..|-.++|.|
T Consensus 97 ~iLVVGLGN~~v----TPDALGP~vv~~l 121 (354)
T PF03418_consen 97 SILVVGLGNWNV----TPDALGPRVVENL 121 (354)
T ss_dssp -EEEEE-S-SSS----GGG-HHHHHHHT-
T ss_pred eEEEEeCCCcCC----Cccccchhhhhhh
Confidence 479999999654 9999999999965
No 19
>PF11775 CobT_C: Cobalamin biosynthesis protein CobT VWA domain
Probab=46.56 E-value=24 Score=31.26 Aligned_cols=71 Identities=21% Similarity=0.284 Sum_probs=43.9
Q ss_pred hhccchhHHHHHHHcCCCCC--c-EEEEeecCCCCCceEEEccCCCCCCCCchHHHHHhccCCCCccEEEEccCCC
Q 028597 113 MNFSGESVGPLAAHYQVPLR--H-ILVIYDEMSLMNGVLRLQPKGGHGHHNGLKSVMNHLDGCREFPRLCIGIGNP 185 (207)
Q Consensus 113 MNlSG~aV~~~~~~~ki~~~--~-ilVihDDLdlp~G~vrlk~gGs~~GHNGLKSI~~~Lggt~~f~RlrIGIGrP 185 (207)
=|..|+|+..+.+.+.-.++ + ++||.|=- |...-.+....+.-=++=||.+++......+.-=+.||||..
T Consensus 115 eniDGeAl~~a~~rL~~r~e~rkiLiViSDG~--P~d~st~~~n~~~~L~~HLr~vi~~ie~~~~Vel~aiGIg~D 188 (219)
T PF11775_consen 115 ENIDGEALRWAAERLLARPEQRKILIVISDGA--PADDSTLSANDGDYLDAHLRQVIAEIETRSDVELIAIGIGHD 188 (219)
T ss_pred cCCcHHHHHHHHHHHHcCCccceEEEEEeCCC--cCcccccccCChHHHHHHHHHHHHHHhccCCcEEEEEEcCCC
Confidence 38999999887776544444 3 56677743 444333333333333345788888884334566699999963
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=46.20 E-value=23 Score=28.36 Aligned_cols=27 Identities=26% Similarity=0.329 Sum_probs=21.4
Q ss_pred eEEEEecCCCCCCCCCcchHHHHHHHHHHHH
Q 028597 50 WLIVGLGNPGIKYHGTRHNVGFEMIDHIAQA 80 (207)
Q Consensus 50 ~LIVGLGNPG~~Y~~TRHNvGf~vld~La~~ 80 (207)
.+|+|+|||-.. -==+|..++++|++.
T Consensus 1 ~lVlGiGN~L~~----DDG~G~~v~~~L~~~ 27 (146)
T cd06063 1 LTIIGCGNLNRG----DDGVGPILIRRLQAY 27 (146)
T ss_pred CEEEEECCcccc----cCcHHHHHHHHHhhc
Confidence 379999998742 335999999999874
No 21
>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=46.14 E-value=21 Score=28.15 Aligned_cols=88 Identities=18% Similarity=0.190 Sum_probs=51.2
Q ss_pred EEEEecCCCCCCCCCcchHHHHHHHHHHHHcCCCccccccceEEEEEEECCeeEEEEeCCchhhccchhHHHHHHHcCCC
Q 028597 51 LIVGLGNPGIKYHGTRHNVGFEMIDHIAQAQRIAMNTIQSKALIGIGSIGEVPILLAKPQAYMNFSGESVGPLAAHYQVP 130 (207)
Q Consensus 51 LIVGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki~ 130 (207)
+|+|+|||=. .-==+|..++++|+++... ..+-++. . |...-.++..+.
T Consensus 1 lViGiGN~l~----~DDGvG~~v~~~L~~~~~~------------------~~v~~id------~-gt~~~~l~~~l~-- 49 (139)
T cd00518 1 LVLGIGNPLR----GDDGFGPAVAERLEERYLP------------------PGVEVID------G-GTLGLELLDLLE-- 49 (139)
T ss_pred CEEEECCccc----ccCcHHHHHHHHHHhcCCC------------------CCeEEEE------C-CCCHHHHHHHHh--
Confidence 5899999864 3345999999999886420 0111111 1 111122333322
Q ss_pred CCcEEEEeecCC--CCCceEEEcc------CCC-CCCCC-chHHHHHhc
Q 028597 131 LRHILVIYDEMS--LMNGVLRLQP------KGG-HGHHN-GLKSVMNHL 169 (207)
Q Consensus 131 ~~~ilVihDDLd--lp~G~vrlk~------gGs-~~GHN-GLKSI~~~L 169 (207)
..+.+||.|=.+ .++|+++.-. ... ...|. |+..+.+.+
T Consensus 50 ~~d~viiVDA~~~~~~pG~i~~~~~~~~~~~~~~~s~H~~~l~~~l~~~ 98 (139)
T cd00518 50 GADRVIIVDAVDSGGEPGTVRRLEPEELPAYLSALSTHQLGLAELLALL 98 (139)
T ss_pred cCCeEEEEECccCCCCCCeEEEEchhhcccccCCCCCccCCHHHHHHHH
Confidence 246677777764 5999988722 111 13455 999999887
No 22
>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=45.64 E-value=20 Score=28.39 Aligned_cols=90 Identities=17% Similarity=0.217 Sum_probs=50.1
Q ss_pred EEEEecCCCCCCCCCcchHHHHHHHHHHHHcCCCccccccceEEEEEEECCeeEEEEeCCchhhccchhHHHHHHHcCCC
Q 028597 51 LIVGLGNPGIKYHGTRHNVGFEMIDHIAQAQRIAMNTIQSKALIGIGSIGEVPILLAKPQAYMNFSGESVGPLAAHYQVP 130 (207)
Q Consensus 51 LIVGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki~ 130 (207)
+|+|+|||-. .-==+|..++++|+++.. . .+-++.-.| .|..+ +......
T Consensus 1 ~VlGiGN~L~----~DDgvG~~v~~~L~~~~~---~----------------~v~vid~gt----~~~~~---~~~l~~~ 50 (136)
T cd06067 1 VLLGVGNELR----GDDGAGPLLAEKLEDLPN---P----------------NWLVIDGGT----VPENF---TGKIREE 50 (136)
T ss_pred CEEEeCcccc----ccCcHHHHHHHHHHhcCC---C----------------CEEEEECCC----CHHHH---HHHHHhc
Confidence 5899999865 334599999999987531 0 011111111 12221 2221111
Q ss_pred CCcEEEEeecC--CCCCceEEEccC----C--CCCCCCchHHHHHhcc
Q 028597 131 LRHILVIYDEM--SLMNGVLRLQPK----G--GHGHHNGLKSVMNHLD 170 (207)
Q Consensus 131 ~~~ilVihDDL--dlp~G~vrlk~g----G--s~~GHNGLKSI~~~Lg 170 (207)
..+.+||.|=. +.++|+++.-.. . .+..+-|+..+.+.+.
T Consensus 51 ~~d~vIiVDAv~~g~~PG~v~~~~~~~~~~~~~s~H~~~l~~~L~~~~ 98 (136)
T cd06067 51 KPDLIVIVDAADMGLEPGEIRIIDPEEIAEYFFSTHTLPLSILIDYLR 98 (136)
T ss_pred CCCEEEEEECCccCcCCCEEEEEchhhcccccCCCCcCCHHHHHHHHH
Confidence 23566666765 459999887321 1 2334459988888763
No 23
>cd06068 H2MP_like-1 Putative [NiFe] hydrogenase-specific C-terminal protease. Sequence comparison shows similarity to hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing and assembly with other subunits. Hydrogenase maturation endopeptidases are responsible for the proteolytic processing, liberating a short C-terminal peptide by cleaving after a His or an Arg residue, e.g., HycI (E. coli) is involved in processing of HypE (the large subunit of hydrogenases 3). This cleavage is nickel dependent.
Probab=45.61 E-value=18 Score=28.84 Aligned_cols=26 Identities=23% Similarity=0.428 Sum_probs=20.9
Q ss_pred EEEEecCCCCCCCCCcchHHHHHHHHHHHH
Q 028597 51 LIVGLGNPGIKYHGTRHNVGFEMIDHIAQA 80 (207)
Q Consensus 51 LIVGLGNPG~~Y~~TRHNvGf~vld~La~~ 80 (207)
||+|+|||-.. -==+|..++++|+++
T Consensus 1 lViGiGN~l~~----DDGvG~~v~~~L~~~ 26 (144)
T cd06068 1 LVAGVGNIFLG----DDGFGVEVARRLRPR 26 (144)
T ss_pred CEEEECccccc----cCcHHHHHHHHHhcc
Confidence 68999998753 334999999999865
No 24
>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=43.52 E-value=24 Score=27.96 Aligned_cols=27 Identities=26% Similarity=0.453 Sum_probs=21.6
Q ss_pred EEEEecCCCCCCCCCcchHHHHHHHHHHHHc
Q 028597 51 LIVGLGNPGIKYHGTRHNVGFEMIDHIAQAQ 81 (207)
Q Consensus 51 LIVGLGNPG~~Y~~TRHNvGf~vld~La~~~ 81 (207)
||+|+|||=. .-==+|..++++|++++
T Consensus 1 lVlGvGN~l~----~DDGvG~~v~~~L~~~~ 27 (139)
T cd06066 1 LVIGYGNPLR----GDDGLGPAVAERIEEWL 27 (139)
T ss_pred CEEEeCCccc----cccchhHHHHHHHHhhC
Confidence 5899999864 33459999999998874
No 25
>PF11575 FhuF_C: FhuF 2Fe-2S C-terminal domain; InterPro: IPR024726 Ferric iron reductase (FhuF) is involved in the reduction of ferric iron in cytoplasmic ferrioxamine B []. This entry represents the C-terminal domain that contains 4 conserved cysteine residues found to be part of a 2Fe-2S cluster [].; GO: 0051537 2 iron, 2 sulfur cluster binding
Probab=34.04 E-value=22 Score=20.45 Aligned_cols=16 Identities=31% Similarity=0.744 Sum_probs=12.2
Q ss_pred CccccCCCcccccCCC
Q 028597 1 MLYALSAPKTCISCPR 16 (207)
Q Consensus 1 ~~~~~~~~~~~~~~~~ 16 (207)
|.|-+.....|.+||+
T Consensus 6 l~y~~~~~~~C~~CP~ 21 (22)
T PF11575_consen 6 LYYRLPGGGYCGTCPL 21 (22)
T ss_pred eeEEcCCCCccCCCCC
Confidence 3466767788999996
No 26
>PRK12362 germination protease; Provisional
Probab=33.99 E-value=30 Score=32.21 Aligned_cols=92 Identities=15% Similarity=0.266 Sum_probs=53.9
Q ss_pred cCeEEEEecCCCCCCCCCcchHHHHHHHHHHHH-cCCCccccccceEEEEEEECCeeEEEEeC----CchhhccchhHHH
Q 028597 48 TPWLIVGLGNPGIKYHGTRHNVGFEMIDHIAQA-QRIAMNTIQSKALIGIGSIGEVPILLAKP----QAYMNFSGESVGP 122 (207)
Q Consensus 48 ~~~LIVGLGNPG~~Y~~TRHNvGf~vld~La~~-~~~~~~~~~~~~~~~~~~~~~~~v~L~KP----~TyMNlSG~aV~~ 122 (207)
...|||||||.-. |--..|-+|++.|.-. +-........ .-.-..|.-+-| +|=||.+ +.++.
T Consensus 99 ~~iLVvGLGN~~v----TpDaLGP~Vv~~l~vTrhl~~~~~~~~-------~~~~~pV~AiaPGVmg~TGiet~-Eii~g 166 (318)
T PRK12362 99 MTVLVVGLGNWNV----TPDALGPKVVSKLMVTRHLKEYAPEEI-------DEGIRPVCAIAPGVLGITGIETA-EIIKG 166 (318)
T ss_pred CcEEEEEcCCCCc----CccccchhhhhhhhhhhhhhhhcCchh-------cCCCCcceEecCCcccccchhHH-HHHHH
Confidence 3589999999654 9999999999988643 1111110000 001123333334 4555543 44556
Q ss_pred HHHHcCCCCCcEEEEeecCC----CCCc-eEEEccCC
Q 028597 123 LAAHYQVPLRHILVIYDEMS----LMNG-VLRLQPKG 154 (207)
Q Consensus 123 ~~~~~ki~~~~ilVihDDLd----lp~G-~vrlk~gG 154 (207)
+.++++ -++||.-|-|- --+| .|+|.-.|
T Consensus 167 Iv~k~k---pd~IIAIDALaar~~~Rl~~tIQisdtG 200 (318)
T PRK12362 167 VVEKIK---PDLVIAIDALAARSVERVNTTIQISDTG 200 (318)
T ss_pred HHHhcC---CCEEEEEeccccCCHHHccCeEEECCCC
Confidence 666554 26777778775 2367 88887666
No 27
>TIGR01651 CobT cobaltochelatase, CobT subunit. This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobT gene product, which is a cobalt chelatase subunit, with a MW ~70 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobS (TIGR01650) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobT gene product, the P. denitrificans gene symbol is not used in the name of this model.
Probab=33.16 E-value=47 Score=33.48 Aligned_cols=69 Identities=22% Similarity=0.283 Sum_probs=45.5
Q ss_pred hccchhHHHHHHHcCCCCCc---EEEEeecCCCCCceEEEccCCCCCCCCchHHHHHhccCCC-CccEEEEccCCC
Q 028597 114 NFSGESVGPLAAHYQVPLRH---ILVIYDEMSLMNGVLRLQPKGGHGHHNGLKSVMNHLDGCR-EFPRLCIGIGNP 185 (207)
Q Consensus 114 NlSG~aV~~~~~~~ki~~~~---ilVihDDLdlp~G~vrlk~gGs~~GHNGLKSI~~~Lggt~-~f~RlrIGIGrP 185 (207)
|..|++|..+...+--.++. ++||.|=- |...-.+....+.-=++=||.+|+... +. ..-=+.||||..
T Consensus 496 N~DGeAl~wa~~rL~~R~e~rKiL~ViSDG~--P~D~~TlsvN~~~~l~~hLr~vi~~~e-~~~~vel~aigIg~D 568 (600)
T TIGR01651 496 NIDGEALMWAHQRLIARPEQRRILMMISDGA--PVDDSTLSVNPGNYLERHLRAVIEEIE-TRSPVELLAIGIGHD 568 (600)
T ss_pred CCchHHHHHHHHHHhcCcccceEEEEEeCCC--cCCccccccCchhHHHHHHHHHHHHHh-ccCCceEEEeecccc
Confidence 88899998888776555553 67788854 333333333333333555999999984 43 566699999974
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=30.07 E-value=23 Score=33.46 Aligned_cols=26 Identities=31% Similarity=0.519 Sum_probs=21.9
Q ss_pred CeEEEEecCCCCCCCCCcchHHHHHHHHHH
Q 028597 49 PWLIVGLGNPGIKYHGTRHNVGFEMIDHIA 78 (207)
Q Consensus 49 ~~LIVGLGNPG~~Y~~TRHNvGf~vld~La 78 (207)
..|||||||-. -|.-..|-++++.|.
T Consensus 102 ~iLVVGLGN~~----VTPDALGP~vv~~l~ 127 (358)
T TIGR01441 102 TCLVVGLGNWN----VTPDALGPKVVENLL 127 (358)
T ss_pred cEEEEeCCCcC----CCccccChheeccee
Confidence 58999999954 499999999999764
No 29
>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=29.41 E-value=49 Score=26.65 Aligned_cols=26 Identities=15% Similarity=0.208 Sum_probs=23.3
Q ss_pred chhHHHHHHHcCCCCCcEEEEeecCC
Q 028597 117 GESVGPLAAHYQVPLRHILVIYDEMS 142 (207)
Q Consensus 117 G~aV~~~~~~~ki~~~~ilVihDDLd 142 (207)
|.+++.+++.+++++++++++=|+.+
T Consensus 188 ~~ai~~l~~~~~i~~~~~~~~GD~~N 213 (254)
T PF08282_consen 188 GSAIKYLLEYLGISPEDIIAFGDSEN 213 (254)
T ss_dssp HHHHHHHHHHHTTSGGGEEEEESSGG
T ss_pred HHHHHHHhhhcccccceeEEeecccc
Confidence 66889999999999999999999764
No 30
>PRK02858 germination protease; Provisional
Probab=28.77 E-value=25 Score=33.34 Aligned_cols=26 Identities=35% Similarity=0.487 Sum_probs=21.7
Q ss_pred CeEEEEecCCCCCCCCCcchHHHHHHHHHH
Q 028597 49 PWLIVGLGNPGIKYHGTRHNVGFEMIDHIA 78 (207)
Q Consensus 49 ~~LIVGLGNPG~~Y~~TRHNvGf~vld~La 78 (207)
..|||||||-. -|.-..|-.+++.|.
T Consensus 112 ~vLVVGLGN~~----VTPDALGP~vv~~l~ 137 (369)
T PRK02858 112 SCLIVGLGNWN----VTPDALGPLVVENVL 137 (369)
T ss_pred cEEEEeCCCcC----CCccccChheeccee
Confidence 48999999954 499999999999654
No 31
>COG4547 CobT Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]
Probab=27.70 E-value=60 Score=32.30 Aligned_cols=72 Identities=19% Similarity=0.203 Sum_probs=50.3
Q ss_pred hhccchhHHHHHHHcCCCCCc---EEEEeecCCCCCceEEEccCCCCCCCCchHHHHHhccCCCCccEEEEccCCCC
Q 028597 113 MNFSGESVGPLAAHYQVPLRH---ILVIYDEMSLMNGVLRLQPKGGHGHHNGLKSVMNHLDGCREFPRLCIGIGNPP 186 (207)
Q Consensus 113 MNlSG~aV~~~~~~~ki~~~~---ilVihDDLdlp~G~vrlk~gGs~~GHNGLKSI~~~Lggt~~f~RlrIGIGrP~ 186 (207)
=|..|++|..+...+--.+|+ +++|.|-. |.-.-.|...-|+.=|.=||-+|..+-+....--+.||||+..
T Consensus 516 eNiDGEal~wah~rl~gRpEqrkIlmmiSDGA--PvddstlsvnpGnylerHLRaVieeIEtrSpveLlAIGighDv 590 (620)
T COG4547 516 ENIDGEALMWAHQRLIGRPEQRKILMMISDGA--PVDDSTLSVNPGNYLERHLRAVIEEIETRSPVELLAIGIGHDV 590 (620)
T ss_pred ccCChHHHHHHHHHHhcChhhceEEEEecCCC--cccccccccCCchHHHHHHHHHHHHHhcCCchhheeeeccccc
Confidence 399999998877766555553 67788865 4444444444555567778999998854456667999999844
No 32
>PRK09256 hypothetical protein; Provisional
Probab=26.17 E-value=30 Score=28.27 Aligned_cols=25 Identities=20% Similarity=0.292 Sum_probs=20.2
Q ss_pred EEeecCCCCCceEEEc--cCCCCCCCC
Q 028597 136 VIYDEMSLMNGVLRLQ--PKGGHGHHN 160 (207)
Q Consensus 136 VihDDLdlp~G~vrlk--~gGs~~GHN 160 (207)
-|.+++++|...++++ +++|+||.|
T Consensus 3 ~~~~~~~i~~~~l~~~~~RSSGPGGQ~ 29 (138)
T PRK09256 3 RITRRLVIPENELEWRFIRASGPGGQN 29 (138)
T ss_pred ccCccCccCHHHeEEEEEEcCCCCccc
Confidence 3678888888877764 688999998
No 33
>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=25.87 E-value=3.1e+02 Score=23.43 Aligned_cols=62 Identities=11% Similarity=0.205 Sum_probs=34.6
Q ss_pred HHHHHHHHHHcCCCccccccceEEEEEEECCeeEEEEeCCchhhccchhHHHHHHHcCCCCCcE
Q 028597 71 FEMIDHIAQAQRIAMNTIQSKALIGIGSIGEVPILLAKPQAYMNFSGESVGPLAAHYQVPLRHI 134 (207)
Q Consensus 71 f~vld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki~~~~i 134 (207)
...+....+..|+.+.+....-.+.....++ +-+.......+.+-+.|+++++.|+|.-..+
T Consensus 94 ~~~~~~~l~~~gi~l~~~~~~v~~~~~~~gg--i~~~~~~~~~~~~~~~v~~~l~~~~i~~~~v 155 (233)
T cd01896 94 REILERELEGVGIRLNKRPPNITIKKKKKGG--INITSTVPLTKLDEKTIKAILREYKIHNADV 155 (233)
T ss_pred HHHHHHHHHHcCceecCCCCeEEEEEEecCC--EEEeccCCCCCCCHHHHHHHHHHhCeeeEEE
Confidence 3445566667787654433222233333344 3333333344557789999999999865444
No 34
>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=25.82 E-value=3e+02 Score=26.21 Aligned_cols=68 Identities=12% Similarity=0.121 Sum_probs=47.4
Q ss_pred hHHHHHHHHHHHHcCCCccccccceEEEEEEECCeeEEEEeC---CchhhccchhHHHHHHHcCCCCCcEEEE
Q 028597 68 NVGFEMIDHIAQAQRIAMNTIQSKALIGIGSIGEVPILLAKP---QAYMNFSGESVGPLAAHYQVPLRHILVI 137 (207)
Q Consensus 68 NvGf~vld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP---~TyMNlSG~aV~~~~~~~ki~~~~ilVi 137 (207)
.+|=+|+-.|...... +..-+...+++..+++.+++++|+ -.=.=.=|++|..+.+.++-.++.||-|
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 4677777777765443 222345677888999999999995 4455556788999999886666655543
No 35
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=25.78 E-value=52 Score=28.24 Aligned_cols=29 Identities=10% Similarity=0.200 Sum_probs=25.6
Q ss_pred cchhHHHHHHHcCCCCCcEEEEeecCCCC
Q 028597 116 SGESVGPLAAHYQVPLRHILVIYDEMSLM 144 (207)
Q Consensus 116 SG~aV~~~~~~~ki~~~~ilVihDDLdlp 144 (207)
++.+..++++.++++++++++|-|.|=.+
T Consensus 95 ~~~~fr~Al~~m~l~~~~vvmVGDqL~TD 123 (175)
T COG2179 95 FGRAFRRALKEMNLPPEEVVMVGDQLFTD 123 (175)
T ss_pred cHHHHHHHHHHcCCChhHEEEEcchhhhh
Confidence 67889999999999999999999998443
No 36
>COG2897 SseA Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]
Probab=24.35 E-value=77 Score=28.90 Aligned_cols=31 Identities=23% Similarity=0.232 Sum_probs=27.5
Q ss_pred chhhccchhHHHHHHHcCCCCCcEEEEeecC
Q 028597 111 AYMNFSGESVGPLAAHYQVPLRHILVIYDEM 141 (207)
Q Consensus 111 TyMNlSG~aV~~~~~~~ki~~~~ilVihDDL 141 (207)
.=|=.+.+.+.+++..++|..++.||+|||-
T Consensus 69 ~~~lp~~e~fa~~~~~~GI~~d~tVVvYdd~ 99 (285)
T COG2897 69 PHMLPSPEQFAKLLGELGIRNDDTVVVYDDG 99 (285)
T ss_pred CCCCCCHHHHHHHHHHcCCCCCCEEEEECCC
Confidence 5666788899999999999999999999993
No 37
>COG4841 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.95 E-value=49 Score=25.69 Aligned_cols=23 Identities=26% Similarity=0.495 Sum_probs=18.4
Q ss_pred ecCCCCCce-EEE--ccCCCCCCCCc
Q 028597 139 DEMSLMNGV-LRL--QPKGGHGHHNG 161 (207)
Q Consensus 139 DDLdlp~G~-vrl--k~gGs~~GHNG 161 (207)
||++|+=|. ||+ |.||.+.+|-|
T Consensus 15 ~E~~l~~g~~vrffvRyGG~~~~~~G 40 (95)
T COG4841 15 EELDLEEGNKVRFFVRYGGCSSLQQG 40 (95)
T ss_pred HhcCCCCCCEEEEEEEEcCcccccCC
Confidence 999999884 665 78998877776
No 38
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=23.46 E-value=18 Score=24.16 Aligned_cols=27 Identities=11% Similarity=0.095 Sum_probs=18.0
Q ss_pred hccchhHHHHHHHcCCCCCcEEEEeec
Q 028597 114 NFSGESVGPLAAHYQVPLRHILVIYDE 140 (207)
Q Consensus 114 NlSG~aV~~~~~~~ki~~~~ilVihDD 140 (207)
+.|-..+.++++++++++++++...+|
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 456678889999999999998877665
No 39
>PRK10513 sugar phosphate phosphatase; Provisional
Probab=22.73 E-value=54 Score=27.86 Aligned_cols=26 Identities=27% Similarity=0.428 Sum_probs=23.5
Q ss_pred chhHHHHHHHcCCCCCcEEEEeecCC
Q 028597 117 GESVGPLAAHYQVPLRHILVIYDEMS 142 (207)
Q Consensus 117 G~aV~~~~~~~ki~~~~ilVihDDLd 142 (207)
|.+++.+++.+++++++++++=|..+
T Consensus 198 g~al~~l~~~~gi~~~~v~afGD~~N 223 (270)
T PRK10513 198 GTGVKSLAEHLGIKPEEVMAIGDQEN 223 (270)
T ss_pred HHHHHHHHHHhCCCHHHEEEECCchh
Confidence 78899999999999999999999764
No 40
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=22.64 E-value=55 Score=30.07 Aligned_cols=31 Identities=13% Similarity=0.209 Sum_probs=24.8
Q ss_pred HHHHHHcCCCCCcEEEEeecCCCCCceEEEc
Q 028597 121 GPLAAHYQVPLRHILVIYDEMSLMNGVLRLQ 151 (207)
Q Consensus 121 ~~~~~~~ki~~~~ilVihDDLdlp~G~vrlk 151 (207)
..++...+..++.+||++|||..+-|.-..|
T Consensus 128 p~l~~~Lr~~~~kFIlFcDDLSFe~gd~~yK 158 (287)
T COG2607 128 PDLVELLRARPEKFILFCDDLSFEEGDDAYK 158 (287)
T ss_pred HHHHHHHhcCCceEEEEecCCCCCCCchHHH
Confidence 4566666778899999999999998876554
No 41
>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]
Probab=22.29 E-value=3.6e+02 Score=25.25 Aligned_cols=72 Identities=13% Similarity=0.173 Sum_probs=54.8
Q ss_pred CCCcchHHHHHHHHHHHHcCCCccccccceEEEEEEECCeeEEEEeCCchhhccchhHHHHHHHcCCCCCcEEE
Q 028597 63 HGTRHNVGFEMIDHIAQAQRIAMNTIQSKALIGIGSIGEVPILLAKPQAYMNFSGESVGPLAAHYQVPLRHILV 136 (207)
Q Consensus 63 ~~TRHNvGf~vld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki~~~~ilV 136 (207)
..|+|+.--..++.=.+..|+.+.+.+..-++..-..++-++-.--|.|-||. +.+..++..|+|.-.++++
T Consensus 148 Datk~e~qr~~le~ELe~vGiRLNk~~Pniy~k~kk~gGi~f~~T~~lT~~~e--k~i~~ILheykI~Naevl~ 219 (364)
T KOG1486|consen 148 DATKSEDQREILEKELEAVGIRLNKRKPNIYFKKKKTGGISFNTTVPLTHCDE--KLIYTILHEYKIHNAEVLF 219 (364)
T ss_pred cCCcchhHHHHHHHHHHHhceeccCCCCCeEEEeeccCCeEEeeeeccccccH--HHHHHHHHHHeeccceEEE
Confidence 45888888888988888889988876666666655667777777778887764 6788999999987655544
No 42
>PRK10976 putative hydrolase; Provisional
Probab=22.14 E-value=59 Score=27.61 Aligned_cols=26 Identities=19% Similarity=0.349 Sum_probs=23.7
Q ss_pred chhHHHHHHHcCCCCCcEEEEeecCC
Q 028597 117 GESVGPLAAHYQVPLRHILVIYDEMS 142 (207)
Q Consensus 117 G~aV~~~~~~~ki~~~~ilVihDDLd 142 (207)
|.+++.+++++++++++++++=|..+
T Consensus 192 g~al~~l~~~lgi~~~~viafGD~~N 217 (266)
T PRK10976 192 GHALEAVAKKLGYSLKDCIAFGDGMN 217 (266)
T ss_pred HHHHHHHHHHcCCCHHHeEEEcCCcc
Confidence 78899999999999999999999764
No 43
>PRK15074 inosine/guanosine kinase; Provisional
Probab=21.90 E-value=69 Score=30.67 Aligned_cols=15 Identities=20% Similarity=0.271 Sum_probs=11.3
Q ss_pred CcCeEEEEecCCCCC
Q 028597 47 YTPWLIVGLGNPGIK 61 (207)
Q Consensus 47 ~~~~LIVGLGNPG~~ 61 (207)
-.++-|+|||||=--
T Consensus 31 ~~~~~v~g~GNaLvD 45 (434)
T PRK15074 31 TSRTYIVGIDQTLVD 45 (434)
T ss_pred CCCCcEEEeCCceee
Confidence 336889999998643
No 44
>KOG2882 consensus p-Nitrophenyl phosphatase [Inorganic ion transport and metabolism]
Probab=21.47 E-value=80 Score=29.37 Aligned_cols=40 Identities=23% Similarity=0.393 Sum_probs=32.9
Q ss_pred CCeeEEEEeCCchhhccchhHHHHHHHcCCCCCcEEEEeecCCCCC
Q 028597 100 GEVPILLAKPQAYMNFSGESVGPLAAHYQVPLRHILVIYDEMSLMN 145 (207)
Q Consensus 100 ~~~~v~L~KP~TyMNlSG~aV~~~~~~~ki~~~~ilVihDDLdlp~ 145 (207)
+.+.+++=||.++|= ..+.+.|++.+++.+.|-|-||.+.
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 445689999999983 3468899999999999999887654
No 45
>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.07 E-value=1.1e+02 Score=26.69 Aligned_cols=87 Identities=21% Similarity=0.399 Sum_probs=52.7
Q ss_pred ccccCcCeEEEEecCCCCCCCCCcchHHHHHHHHHHHHcCCCccc---cccceEEEEEEECCeeEEEEeCCchhhccchh
Q 028597 43 FKVEYTPWLIVGLGNPGIKYHGTRHNVGFEMIDHIAQAQRIAMNT---IQSKALIGIGSIGEVPILLAKPQAYMNFSGES 119 (207)
Q Consensus 43 ~~~~~~~~LIVGLGNPG~~Y~~TRHNvGf~vld~La~~~~~~~~~---~~~~~~~~~~~~~~~~v~L~KP~TyMNlSG~a 119 (207)
.|.+|. .||.||-|-|+. .+|+++.+.+...+.- .+....++. .++...+- -.|..|-.+-|+-
T Consensus 14 ~Ke~y~-vlIlgldnAGKt----------tfLe~~Kt~~~~~~~~l~~~ki~~tvgL-nig~i~v~-~~~l~fwdlgGQe 80 (197)
T KOG0076|consen 14 KKEDYS-VLILGLDNAGKT----------TFLEALKTDFSKAYGGLNPSKITPTVGL-NIGTIEVC-NAPLSFWDLGGQE 80 (197)
T ss_pred hhhhhh-heeeccccCCch----------hHHHHHHHHHHhhhcCCCHHHeecccce-eecceeec-cceeEEEEcCChH
Confidence 355554 799999999974 4788888877633221 122222221 22222232 4578889999984
Q ss_pred -HHHHHHHcCCCCCcEEEEeecCC
Q 028597 120 -VGPLAAHYQVPLRHILVIYDEMS 142 (207)
Q Consensus 120 -V~~~~~~~ki~~~~ilVihDDLd 142 (207)
++.+++.|--..--|+-+.|-.|
T Consensus 81 ~lrSlw~~yY~~~H~ii~viDa~~ 104 (197)
T KOG0076|consen 81 SLRSLWKKYYWLAHGIIYVIDATD 104 (197)
T ss_pred HHHHHHHHHHHHhceeEEeecCCC
Confidence 68888866544445666777766
No 46
>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=21.00 E-value=48 Score=24.04 Aligned_cols=24 Identities=17% Similarity=0.288 Sum_probs=21.0
Q ss_pred chhhccchhHHHHHHHcCCCCCcE
Q 028597 111 AYMNFSGESVGPLAAHYQVPLRHI 134 (207)
Q Consensus 111 TyMNlSG~aV~~~~~~~ki~~~~i 134 (207)
-||..||.+..++++.+++.+.++
T Consensus 7 hflhE~g~~FveIAr~~~i~a~e~ 30 (63)
T PF11242_consen 7 HFLHESGLSFVEIARKIGITAKEV 30 (63)
T ss_pred hhHHHcCCcHHHHHHHhCCCHHHH
Confidence 489999999999999999988754
No 47
>PRK06437 hypothetical protein; Provisional
Probab=20.97 E-value=1.3e+02 Score=21.22 Aligned_cols=29 Identities=10% Similarity=0.155 Sum_probs=24.0
Q ss_pred cchhHHHHHHHcCCCCCcEEEEeecCCCC
Q 028597 116 SGESVGPLAAHYQVPLRHILVIYDEMSLM 144 (207)
Q Consensus 116 SG~aV~~~~~~~ki~~~~ilVihDDLdlp 144 (207)
.|.+|+.+++.++++++.+.|.++.--++
T Consensus 19 ~~~tv~dLL~~Lgi~~~~vaV~vNg~iv~ 47 (67)
T PRK06437 19 HELTVNDIIKDLGLDEEEYVVIVNGSPVL 47 (67)
T ss_pred CCCcHHHHHHHcCCCCccEEEEECCEECC
Confidence 44679999999999999999988876665
No 48
>PRK14690 molybdopterin biosynthesis protein MoeA; Provisional
Probab=20.41 E-value=1.4e+02 Score=28.46 Aligned_cols=77 Identities=10% Similarity=0.104 Sum_probs=56.3
Q ss_pred CCchhhccchhHHHHHHHcCCCCCcEEEEeecCC---------CCCceEEEccCCCCCC-CCchHHHHHhccCCCCccEE
Q 028597 109 PQAYMNFSGESVGPLAAHYQVPLRHILVIYDEMS---------LMNGVLRLQPKGGHGH-HNGLKSVMNHLDGCREFPRL 178 (207)
Q Consensus 109 P~TyMNlSG~aV~~~~~~~ki~~~~ilVihDDLd---------lp~G~vrlk~gGs~~G-HNGLKSI~~~Lggt~~f~Rl 178 (207)
+-.--|.++..+..+++.++.......++-||.+ +.-..+-|-.||.+-| .-=++.+++.+| ...|+++
T Consensus 214 ~g~i~dsN~~~L~a~l~~~G~~v~~~~~v~Dd~~~i~~~l~~a~~~~DlIItTGG~S~G~~D~v~~~l~~~G-~~~~~~v 292 (419)
T PRK14690 214 VGQIYDANRPMLLALARRWGHAPVDLGRVGDDRAALAARLDRAAAEADVILTSGGASAGDEDHVSALLREAG-AMQSWRI 292 (419)
T ss_pred CCeEEeCHHHHHHHHHHHCCCEEEEEeeeCCCHHHHHHHHHHhCccCCEEEEcCCccCCCcchHHHHHHhcC-CEEEcce
Confidence 3334488899999999999998888888999887 1223455666775444 455688889995 5678888
Q ss_pred EEccCCCC
Q 028597 179 CIGIGNPP 186 (207)
Q Consensus 179 rIGIGrP~ 186 (207)
.|==|+|-
T Consensus 293 ~mkPGkp~ 300 (419)
T PRK14690 293 ALKPGRPL 300 (419)
T ss_pred eecCCCce
Confidence 88777773
No 49
>PF06880 DUF1262: Protein of unknown function (DUF1262); InterPro: IPR010683 This family represents a conserved region within a number of proteins of unknown function that seem to be specific to Arabidopsis thaliana. Note that some family members contain more than one copy of this region.
Probab=20.36 E-value=49 Score=26.17 Aligned_cols=15 Identities=47% Similarity=1.023 Sum_probs=12.1
Q ss_pred CCCCCCCCcccccee
Q 028597 16 RGPPFPQKRQVSTRL 30 (207)
Q Consensus 16 ~~~~~~~~~~~~~~~ 30 (207)
++-||||.|.+..+.
T Consensus 32 ~~LPFPQN~~Ltv~~ 46 (104)
T PF06880_consen 32 RGLPFPQNKNLTVRY 46 (104)
T ss_pred ccCCCCCCCEEEEEE
Confidence 688999999876654
Done!