Query 030459
Match_columns 177
No_of_seqs 159 out of 1015
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 14:02:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030459.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030459hhsearch_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 2E-62 4.4E-67 399.6 17.0 163 1-164 26-189 (190)
2 cd02406 CRS2 Chloroplast RNA s 100.0 1.7E-61 3.6E-66 396.2 18.1 164 1-164 26-189 (191)
3 TIGR00447 pth peptidyl-tRNA hy 100.0 8E-60 1.7E-64 385.6 18.8 162 1-163 25-188 (188)
4 PRK05426 peptidyl-tRNA hydrola 100.0 2.1E-58 4.6E-63 377.4 18.4 162 1-164 26-188 (189)
5 PF01195 Pept_tRNA_hydro: Pept 100.0 1.6E-58 3.4E-63 376.3 14.7 161 1-162 23-184 (184)
6 cd00462 PTH Peptidyl-tRNA hydr 100.0 2.8E-57 6E-62 365.8 16.8 149 1-150 23-171 (171)
7 KOG2255 Peptidyl-tRNA hydrolas 100.0 2.8E-41 6.1E-46 276.1 11.1 158 1-162 63-221 (224)
8 PRK09256 hypothetical protein; 56.1 5.4 0.00012 31.3 0.9 25 64-88 3-29 (138)
9 PF12989 DUF3873: Domain of un 54.8 11 0.00023 26.5 2.1 61 87-151 6-66 (69)
10 TIGR01651 CobT cobaltochelatas 53.5 25 0.00053 34.1 5.0 88 42-137 496-587 (600)
11 PF11775 CobT_C: Cobalamin bio 52.8 34 0.00074 29.1 5.2 70 41-113 115-188 (219)
12 PF06154 YagB_YeeU_YfjZ: YagB/ 49.2 33 0.00072 25.8 4.1 30 124-153 36-65 (103)
13 PF06466 PCAF_N: PCAF (P300/CB 46.6 26 0.00057 30.3 3.7 46 119-164 150-198 (252)
14 PRK03604 moaC bifunctional mol 37.4 1.1E+02 0.0024 27.2 6.2 111 37-148 169-305 (312)
15 PF13242 Hydrolase_like: HAD-h 37.1 23 0.0005 23.8 1.6 22 48-69 10-31 (75)
16 PF05673 DUF815: Protein of un 33.8 33 0.00072 29.6 2.4 38 49-95 95-132 (249)
17 COG2607 Predicted ATPase (AAA+ 32.7 27 0.00059 30.6 1.6 31 49-79 128-158 (287)
18 KOG2882 p-Nitrophenyl phosphat 32.3 33 0.00071 30.6 2.1 37 30-72 218-254 (306)
19 cd00736 bacteriophage_lambda_l 32.1 83 0.0018 25.2 4.2 43 121-163 80-122 (151)
20 PF06342 DUF1057: Alpha/beta h 31.9 2.5E+02 0.0053 25.0 7.4 67 66-137 26-94 (297)
21 PF11242 DUF2774: Protein of u 31.9 19 0.0004 24.9 0.4 24 39-62 7-30 (63)
22 PRK06437 hypothetical protein; 30.9 67 0.0014 21.7 3.1 29 44-72 19-47 (67)
23 PF08282 Hydrolase_3: haloacid 30.4 37 0.0008 26.6 2.0 25 45-69 188-212 (254)
24 PRK10870 transcriptional repre 30.3 49 0.0011 26.3 2.7 38 121-158 137-175 (176)
25 PF00472 RF-1: RF-1 domain; I 30.1 35 0.00076 25.5 1.7 22 67-88 5-28 (113)
26 COG4128 Zot Zonula occludens t 29.2 57 0.0012 29.6 3.1 43 41-83 35-77 (398)
27 COG2179 Predicted hydrolase of 29.2 38 0.00081 27.9 1.8 27 44-70 95-121 (175)
28 PF13443 HTH_26: Cro/C1-type H 28.1 9.6 0.00021 24.6 -1.5 27 42-68 37-63 (63)
29 cd00758 MoCF_BD MoCF_BD: molyb 28.0 62 0.0013 24.3 2.8 75 39-114 15-101 (133)
30 PF05017 TMP: TMP repeat; Int 27.6 30 0.00066 15.6 0.6 8 88-95 2-9 (11)
31 COG2897 SseA Rhodanese-related 26.6 65 0.0014 28.3 3.0 30 39-68 69-98 (285)
32 PRK10976 putative hydrolase; P 26.6 37 0.0008 28.0 1.4 25 45-69 192-216 (266)
33 PRK10513 sugar phosphate phosp 26.2 35 0.00076 28.1 1.2 25 45-69 198-222 (270)
34 TIGR00142 hycI hydrogenase mat 26.0 3E+02 0.0065 21.0 8.3 80 61-151 55-143 (146)
35 PRK08179 prfH peptide chain re 25.7 51 0.0011 27.5 2.1 38 62-107 95-134 (200)
36 PF12896 Apc4: Anaphase-promot 25.3 86 0.0019 25.2 3.3 44 118-161 90-133 (210)
37 PF15479 DUF4639: Domain of un 25.3 1.8E+02 0.0039 27.9 5.7 54 118-176 26-79 (576)
38 PF14681 UPRTase: Uracil phosp 24.7 96 0.0021 25.4 3.5 36 28-66 120-158 (207)
39 cd01614 EutN_CcmL Ethanolamine 24.3 2E+02 0.0044 20.6 4.7 44 27-84 19-62 (83)
40 TIGR01485 SPP_plant-cyano sucr 23.4 69 0.0015 26.3 2.5 27 43-69 167-193 (249)
41 COG1186 PrfB Protein chain rel 23.2 57 0.0012 28.1 1.9 24 65-88 101-126 (239)
42 PRK15126 thiamin pyrimidine py 23.1 43 0.00094 27.8 1.2 26 44-69 189-214 (272)
43 TIGR02463 MPGP_rel mannosyl-3- 23.1 66 0.0014 25.7 2.2 26 44-69 180-205 (221)
44 TIGR03072 release_prfH putativ 22.7 77 0.0017 26.5 2.6 28 62-89 94-123 (200)
45 COG4547 CobT Cobalamin biosynt 22.4 1.2E+02 0.0025 29.1 3.9 70 42-114 517-590 (620)
46 PRK09570 rpoH DNA-directed RNA 22.3 1.1E+02 0.0024 21.9 2.9 43 44-86 19-68 (79)
47 PRK13920 putative anti-sigmaE 22.1 1.2E+02 0.0025 24.7 3.5 22 120-141 2-23 (206)
48 COG4841 Uncharacterized protei 22.1 61 0.0013 24.0 1.6 24 67-90 15-41 (95)
49 KOG4798 Uncharacterized conser 21.9 2.4E+02 0.0051 24.2 5.4 55 120-176 59-116 (229)
50 cd06392 PBP1_iGluR_delta_1 N-t 21.9 93 0.002 28.3 3.1 32 32-68 116-147 (400)
51 cd04884 ACT_CBS C-terminal ACT 21.5 2E+02 0.0043 18.8 4.0 44 50-97 18-63 (72)
52 TIGR00685 T6PP trehalose-phosp 20.7 1.8E+02 0.0039 23.9 4.5 40 28-69 154-193 (244)
53 TIGR01683 thiS thiamine biosyn 20.5 1.6E+02 0.0034 19.3 3.3 29 44-72 12-40 (64)
54 COG1877 OtsB Trehalose-6-phosp 20.4 2.2E+02 0.0048 24.7 5.0 63 28-112 169-231 (266)
55 PF07352 Phage_Mu_Gam: Bacteri 20.3 48 0.0011 25.7 0.9 43 68-110 71-115 (149)
56 TIGR02471 sucr_syn_bact_C sucr 20.2 61 0.0013 26.3 1.5 27 43-69 159-185 (236)
57 PRK11544 hycI hydrogenase 3 ma 20.2 4.2E+02 0.0092 20.6 6.7 81 61-153 56-146 (156)
58 PTZ00397 macrophage migration 20.0 95 0.0021 22.8 2.4 21 51-71 85-105 (116)
No 1
>COG0193 Pth Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2e-62 Score=399.58 Aligned_cols=163 Identities=39% Similarity=0.723 Sum_probs=157.9
Q ss_pred CHHHHHHHcCCCC-cccccceeEEEEEECCeeEEEEecCcccccccccHHHHHHhcCCCCCcEEEEEecCCCCCceEEEe
Q 030459 1 MIDAFAESQGISM-NTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLR 79 (177)
Q Consensus 1 viD~la~~~~~~~-~~~k~~~~~~~~~~~~~~v~l~kP~TyMN~SG~~V~~~~~~~ki~~~~ilVihDdldl~~G~irlk 79 (177)
++|.||+++++++ ..+||.++++++.+.+++|+|+||+||||+||++|.++++||+|+|++++|||||||||+|++|+|
T Consensus 26 ~vD~La~~~~~~~~~~~kf~~~~~~~~i~g~kv~l~kP~TyMNlSG~~V~~~~~fy~i~~~~ilVvhDdLdl~~G~vrlk 105 (190)
T COG0193 26 VVDLLARRLNLSFKEEKKFNGLVAKGTIEGEKVILLKPTTYMNLSGKAVGALASFYKIKPEDILVVHDELDLPLGKVRLK 105 (190)
T ss_pred HHHHHHHHhCCCCccccccCceeEEEEeCCcEEEEecCccceeCcHHHHHHHHHHhCCCHHHEEEEeeccCCCCceEEEE
Confidence 5899999999999 457899999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCCCchhhHHHhhcCCCCcceEEEeecCCCCCCCccccccCcCCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Q 030459 80 HNGGHGGHNGLKSVMNNFRGNREFARLRIGIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESAR 159 (177)
Q Consensus 80 ~gGs~~GHNGlkSI~~~l~gt~~f~RlrIGIGrp~~~~~v~~yVL~~f~~~E~~~l~~~i~~a~~~~~~~~~~~~~~amn 159 (177)
.+||+|||||||||+++| ||++|+|||||||||+.+++|++|||++|+++|++.++++++.+++|++.++..++++|||
T Consensus 106 ~~Gg~gGHNGlKSi~~~l-Gt~~f~RlRiGIGrP~~~~~v~~~VL~~f~~~E~~~l~~~~~~a~~~~~~~~~~~~~~~mn 184 (190)
T COG0193 106 LGGGAGGHNGLKSIIAHL-GTNNFYRLRIGIGRPGNGEDVADYVLGKFSKEERELLDKAIDKAADALELLLEGDFEKAMN 184 (190)
T ss_pred cCCCCCCcccHHHHHHHh-CCCccceEEEEcCCCCCCCchhHhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 999999999999999999 7999999999999998888999999999999999999999999999999999999999999
Q ss_pred hhhhh
Q 030459 160 HFNTI 164 (177)
Q Consensus 160 ~~n~~ 164 (177)
+||+.
T Consensus 185 ~~~~~ 189 (190)
T COG0193 185 KLNAL 189 (190)
T ss_pred HHhcc
Confidence 99974
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=1.7e-61 Score=396.22 Aligned_cols=164 Identities=62% Similarity=1.056 Sum_probs=156.9
Q ss_pred CHHHHHHHcCCCCcccccceeEEEEEECCeeEEEEecCcccccccccHHHHHHhcCCCCCcEEEEEecCCCCCceEEEec
Q 030459 1 MIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRH 80 (177)
Q Consensus 1 viD~la~~~~~~~~~~k~~~~~~~~~~~~~~v~l~kP~TyMN~SG~~V~~~~~~~ki~~~~ilVihDdldl~~G~irlk~ 80 (177)
++|+||+++++++++.+++++++++.+.+++++|+||+||||+||++|+++++||+|++++++|||||||||+|++|+|.
T Consensus 26 vld~La~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMN~SG~aV~~~~~~yki~~~~ilVihDdldl~~G~irlk~ 105 (191)
T cd02406 26 MVDRIAEAEGITMNTIQFKSLLGIGSIGDVPVLLAKPQTYMNYSGESVGPLAAYYKVPLRHILVIYDDMSLPNGVLRLQP 105 (191)
T ss_pred HHHHHHHHcCCCccccccceEEEEEEECCeEEEEEeCCCchhcCHHHHHHHHHHhCCCHHHEEEEEECCCCCCCeEEEcC
Confidence 58999999999887678889999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCchhhHHHhhcCCCCcceEEEeecCCCCCCCccccccCcCCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHh
Q 030459 81 NGGHGGHNGLKSVMNNFRGNREFARLRIGIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESARH 160 (177)
Q Consensus 81 gGs~~GHNGlkSI~~~l~gt~~f~RlrIGIGrp~~~~~v~~yVL~~f~~~E~~~l~~~i~~a~~~~~~~~~~~~~~amn~ 160 (177)
+||+|||||||||+++|++|++|+|||||||||+.+.++++|||++|+++|++.++++++.|+++++.|+.+++++|||+
T Consensus 106 gGs~gGHNGlkSI~~~Lggt~~f~RlrIGIGrP~~~~~v~~yVL~~f~~~E~~~l~~~~~~a~~~~~~~~~~~~~~~~n~ 185 (191)
T cd02406 106 KGGHGRHNGLQSVIEHLDGSREFPRLSIGIGSPPGKMDPRAFLLQKFSSEEREQIDTALEQGVDAVRTLVLKGFNGSAER 185 (191)
T ss_pred CCCCCCcCCHHHHHHHhCCCCCeEEEEEEeCCCCCCCchhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHH
Confidence 99999999999999999557899999999999977678999999999999999999999999999999999999999999
Q ss_pred hhhh
Q 030459 161 FNTI 164 (177)
Q Consensus 161 ~n~~ 164 (177)
||+.
T Consensus 186 ~n~~ 189 (191)
T cd02406 186 FNLV 189 (191)
T ss_pred HhCC
Confidence 9964
No 3
>TIGR00447 pth peptidyl-tRNA hydrolase. The natural substrate for this enzyme may be peptidyl-tRNAs that drop off the ribosome during protein synthesis. Peptidyl-tRNA hydrolase is a bacterial protein; YHR189W from Saccharomyces cerevisiae appears to be orthologous and likely has the same function.
Probab=100.00 E-value=8e-60 Score=385.55 Aligned_cols=162 Identities=40% Similarity=0.718 Sum_probs=155.0
Q ss_pred CHHHHHHHcCCCCcc-cccceeEEEEEECCeeEEEEecCcccccccccHHHHHHhcCCCCCcEEEEEecCCCCCceEEEe
Q 030459 1 MIDAFAESQGISMNT-VHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLR 79 (177)
Q Consensus 1 viD~la~~~~~~~~~-~k~~~~~~~~~~~~~~v~l~kP~TyMN~SG~~V~~~~~~~ki~~~~ilVihDdldl~~G~irlk 79 (177)
+||+||+++++++.+ .++.++++++.+.+++++|+||+||||+||++|++++++|+|++++++|||||||+|+|++|+|
T Consensus 25 ~ld~La~~~~~~~~~~~~~~~~~~~~~~~~~~v~L~kP~TyMN~SG~~V~~~~~~~~i~~~~ilVihDdldl~~G~irlk 104 (188)
T TIGR00447 25 VLDLLASRLGLSLRTEKKFFGYTERGLLSGKKVILLKPLTYMNLSGEAVRALASFYRIKPAELLVVHDELDLPLGKVRLK 104 (188)
T ss_pred HHHHHHHHcCcCCcccccceEEEEEEEECCeEEEEEeCCcchhcCcHHHHHHHHHhCCChHHEEEEEecCCCCCceEEEe
Confidence 589999999998863 5688899999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCCCchhhHHHhhcCCCCcceEEEeecCCCCCCCccccccCcCCHHHHHHHHHHHHHHHHHHHHHHhcC-HHHHH
Q 030459 80 HNGGHGGHNGLKSVMNNFRGNREFARLRIGIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKG-LTESA 158 (177)
Q Consensus 80 ~gGs~~GHNGlkSI~~~l~gt~~f~RlrIGIGrp~~~~~v~~yVL~~f~~~E~~~l~~~i~~a~~~~~~~~~~~-~~~am 158 (177)
.+||+|||||||||+++| ||++|+|||||||||+.+.++++|||++|+++|++.++++++.++++++.|+.++ +++||
T Consensus 105 ~~G~~gGHNGlkSI~~~l-gt~~f~RlrIGIGrP~~~~~v~~yVL~~f~~~e~~~l~~~i~~~~~~~~~~~~~~~~~~~~ 183 (188)
T TIGR00447 105 MGGGAGGHNGLKSIISHL-GTNNFNRLRIGIGSPGGSNKVVEFVLSKFTKSELPLLEKALDKAVEALEMSFSEGAFLKAM 183 (188)
T ss_pred cCCCCCCcCCHHHHHHHh-CCCCcceEEEEeCCCCCCCchhhhccCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHH
Confidence 999999999999999999 7999999999999998777899999999999999999999999999999999998 99999
Q ss_pred Hhhhh
Q 030459 159 RHFNT 163 (177)
Q Consensus 159 n~~n~ 163 (177)
|+||+
T Consensus 184 n~~n~ 188 (188)
T TIGR00447 184 NRFNS 188 (188)
T ss_pred HHhhC
Confidence 99995
No 4
>PRK05426 peptidyl-tRNA hydrolase; Provisional
Probab=100.00 E-value=2.1e-58 Score=377.43 Aligned_cols=162 Identities=41% Similarity=0.760 Sum_probs=154.1
Q ss_pred CHHHHHHHcCCCCc-ccccceeEEEEEECCeeEEEEecCcccccccccHHHHHHhcCCCCCcEEEEEecCCCCCceEEEe
Q 030459 1 MIDAFAESQGISMN-TVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLR 79 (177)
Q Consensus 1 viD~la~~~~~~~~-~~k~~~~~~~~~~~~~~v~l~kP~TyMN~SG~~V~~~~~~~ki~~~~ilVihDdldl~~G~irlk 79 (177)
++|.||++++..+. ..++.++++++.+.+++++|+||+||||+||++|.+++++|+|++++++|||||+|+|+|++|+|
T Consensus 26 ~ld~la~~~~~~~~~~~k~~~~~~~~~~~~~~v~L~kP~TyMN~SG~~V~~~~~~~~i~~~~ilVihDdldl~~G~~r~k 105 (189)
T PRK05426 26 VVDELARRLGGSLKEKKKFKGLIAEGRINGEKVILLKPQTYMNLSGKAVAALANFYKIPPEDILVIHDDLDLPPGKIRLK 105 (189)
T ss_pred HHHHHHHHcCCCCcccccccEEEEEEEECCeEEEEEeCCcchhcCcHHHHHHHHHhCCCHHHEEEEEecCCCCCceEEEe
Confidence 58999999888765 35788999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCCCchhhHHHhhcCCCCcceEEEeecCCCCCCCccccccCcCCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Q 030459 80 HNGGHGGHNGLKSVMNNFRGNREFARLRIGIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESAR 159 (177)
Q Consensus 80 ~gGs~~GHNGlkSI~~~l~gt~~f~RlrIGIGrp~~~~~v~~yVL~~f~~~E~~~l~~~i~~a~~~~~~~~~~~~~~amn 159 (177)
.+||++||||||||+++| +|++|+|||||||||+ ..++++|||++|+++|++.++++++.|+++++.|++++++++||
T Consensus 106 ~gGs~~GHNGlkSI~~~l-gt~~f~RlriGIGrP~-~~~v~~yVL~~f~~~E~~~l~~~~~~a~~~v~~~~~~~~~~~~~ 183 (189)
T PRK05426 106 KGGGAGGHNGLKSIIAHL-GTQDFWRLRIGIGRPD-KKKVVDYVLGKFSKEEQELLDKAIDKAADAIELLLEGGFEKAMN 183 (189)
T ss_pred cCCCCCCcCCHHHHHHHh-CCCCeeEEEEEeCCCC-CCCcchhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHH
Confidence 999999999999999999 7999999999999997 56799999999999999999999999999999999999999999
Q ss_pred hhhhh
Q 030459 160 HFNTI 164 (177)
Q Consensus 160 ~~n~~ 164 (177)
+||+.
T Consensus 184 ~~n~~ 188 (189)
T PRK05426 184 KFNSK 188 (189)
T ss_pred HHhCC
Confidence 99964
No 5
>PF01195 Pept_tRNA_hydro: Peptidyl-tRNA hydrolase; InterPro: IPR001328 Peptidyl-tRNA hydrolase (3.1.1.29 from EC) (PTH) is a bacterial enzyme that cleaves peptidyl-tRNA or N-acyl-aminoacyl-tRNA to yield free peptides or N-acyl-amino acids and tRNA. The natural substrate for this enzyme may be peptidyl-tRNA which drop off the ribosome during protein synthesis [, ]. Bacterial PTH has been found to be evolutionary related to a yeast protein [].; GO: 0004045 aminoacyl-tRNA hydrolase activity; PDB: 3KJZ_A 3KK0_A 3P2J_A 3V2I_A 3TCN_A 3TD6_A 2Z2K_A 3TD2_A 2Z2J_B 2JRC_A ....
Probab=100.00 E-value=1.6e-58 Score=376.31 Aligned_cols=161 Identities=40% Similarity=0.779 Sum_probs=144.6
Q ss_pred CHHHHHHHcCCCCccc-ccceeEEEEEECCeeEEEEecCcccccccccHHHHHHhcCCCCCcEEEEEecCCCCCceEEEe
Q 030459 1 MIDAFAESQGISMNTV-HCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLR 79 (177)
Q Consensus 1 viD~la~~~~~~~~~~-k~~~~~~~~~~~~~~v~l~kP~TyMN~SG~~V~~~~~~~ki~~~~ilVihDdldl~~G~irlk 79 (177)
++|+||++++.+|... ++.+.++++.+.+++++|+||+||||+||.+|++++++|++++++++|||||+|+|+|++|+|
T Consensus 23 ~ld~la~~~~~~~~~~~~~~~~~~~~~~~~~~v~L~KP~TyMN~SG~~V~~~~~~~~i~~~~ilVihDdldl~~G~irlk 102 (184)
T PF01195_consen 23 VLDRLASRLGLSWKQKKKFKSLISEGSIKGEKVILLKPQTYMNLSGKAVKKILSFYKIPPENILVIHDDLDLPLGKIRLK 102 (184)
T ss_dssp HHHHHHHHTT---EEEGGGTEEEEEEEETTEEEEEEEESSTGGGHHHHHHHHHHHTT--GGGEEEEEEETTSSTTEEEEE
T ss_pred HHHHHHHHhCCCccccccceeEEEEEEEeeeeEEEEcCCCeEeCccHhHHHHHHHhCCCcceEEEEEeccCCCCCeEEEc
Confidence 4899999999998664 488999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCCCchhhHHHhhcCCCCcceEEEeecCCCCCCCccccccCcCCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Q 030459 80 HNGGHGGHNGLKSVMNNFRGNREFARLRIGIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESAR 159 (177)
Q Consensus 80 ~gGs~~GHNGlkSI~~~l~gt~~f~RlrIGIGrp~~~~~v~~yVL~~f~~~E~~~l~~~i~~a~~~~~~~~~~~~~~amn 159 (177)
.+||++||||||||+++| +|++|+|||||||||+.+.++++|||++|+++|++.++++++.|+++++.|+++++++|||
T Consensus 103 ~~Gs~~GHNGlkSI~~~L-gt~~f~RlrIGIGrp~~~~~v~~yVL~~f~~~E~~~l~~~~~~a~~~l~~~i~~~~~~~mn 181 (184)
T PF01195_consen 103 KGGSSGGHNGLKSIIQHL-GTEDFPRLRIGIGRPPSKEDVADYVLSKFSPEERELLDKVIPQAAEALEQIIEGGFEKAMN 181 (184)
T ss_dssp ESS--TT-HHHHHHHHHC-TSSGSEEEEEEE--TSTTSGHHHHHTSB-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCCCCCCCCHHHHHHHh-ccccceeEEEecCCCCCcchHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHH
Confidence 999999999999999999 7999999999999998777999999999999999999999999999999999999999999
Q ss_pred hhh
Q 030459 160 HFN 162 (177)
Q Consensus 160 ~~n 162 (177)
+||
T Consensus 182 ~~n 184 (184)
T PF01195_consen 182 KFN 184 (184)
T ss_dssp HHH
T ss_pred HhC
Confidence 998
No 6
>cd00462 PTH Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through abortion of translation and is essential for cell viability.This group also contains chloroplast RNA splicing 2 (CRS2), which is closely related nuclear-encoded protein required for the splicing of nine group II introns in chloroplasts.
Probab=100.00 E-value=2.8e-57 Score=365.77 Aligned_cols=149 Identities=48% Similarity=0.881 Sum_probs=142.9
Q ss_pred CHHHHHHHcCCCCcccccceeEEEEEECCeeEEEEecCcccccccccHHHHHHhcCCCCCcEEEEEecCCCCCceEEEec
Q 030459 1 MIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRH 80 (177)
Q Consensus 1 viD~la~~~~~~~~~~k~~~~~~~~~~~~~~v~l~kP~TyMN~SG~~V~~~~~~~ki~~~~ilVihDdldl~~G~irlk~ 80 (177)
+||+||+++++++.+.++.++++++.+.+++++|+||+||||+||.+|.+++++|+|++++++|||||||+|+|++|+|.
T Consensus 23 ~ld~La~~~~~~~~~~~~~~~~~~~~~~~~~v~L~kP~TyMN~SG~~V~~~~~~~~i~~~~ilVihDdldl~~G~vrlk~ 102 (171)
T cd00462 23 VLDALAERYGVSFKKKKKKGLVGEGRIGGEKVLLLKPQTYMNLSGEAVAALANFYKIPPEDILVIHDDLDLPLGKIRLKK 102 (171)
T ss_pred HHHHHHHHcCCCCCccccCEEEEEEEECCEEEEEEeCCcccccccHHHHHHHHhcCCChhHEEEEEecCCCCCceEEEeC
Confidence 58999999999987777789999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCchhhHHHhhcCCCCcceEEEeecCCCCCCCccccccCcCCHHHHHHHHHHHHHHHHHHHHHH
Q 030459 81 NGGHGGHNGLKSVMNNFRGNREFARLRIGIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLL 150 (177)
Q Consensus 81 gGs~~GHNGlkSI~~~l~gt~~f~RlrIGIGrp~~~~~v~~yVL~~f~~~E~~~l~~~i~~a~~~~~~~~ 150 (177)
+||+|||||||||+++| +|++|+|||||||||+.+.++++|||++|+++|++.++++++.++++++.|+
T Consensus 103 ~G~~gGHNGlkSI~~~l-gt~~f~RlriGIGrP~~~~~v~~yVL~~f~~~E~~~l~~~~~~~~~~~~~~~ 171 (171)
T cd00462 103 GGGSGGHNGLKSIIAHL-GTEDFPRLRIGIGRPPNKMDVADYVLSKFSKEERELLEEAIEKAADALEDIL 171 (171)
T ss_pred CCCCCCCCCHHHHHHHh-CCCCeeEEEEEeCCCCCCCChhhhhcCCCCHHHHHHHHHHHHHHHHHHHHhC
Confidence 99999999999999999 7999999999999998878999999999999999999999999999998763
No 7
>KOG2255 consensus Peptidyl-tRNA hydrolase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.8e-41 Score=276.12 Aligned_cols=158 Identities=51% Similarity=0.907 Sum_probs=138.1
Q ss_pred CHHHHHHHcCCCCcccccceeEEEEEECCeeEEEEecCcccccccccHHHHHHhcCCCCCcEEEEEecCCCCCceEEEec
Q 030459 1 MIDAFAESQGISMNTVHCKATFGQGFVGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRH 80 (177)
Q Consensus 1 viD~la~~~~~~~~~~k~~~~~~~~~~~~~~v~l~kP~TyMN~SG~~V~~~~~~~ki~~~~ilVihDdldl~~G~irlk~ 80 (177)
++|.||++.+++..+...++..+-+.+++.++++++|++|||.||++|.+++..|+++.++++||||||++|+|++|+|.
T Consensus 63 Ml~~larrlgv~~nt~s~~a~~~l~~v~d~~~~llrp~qymN~SgesV~kva~~y~i~~~~ivvIhDEl~l~~Gkl~Lrp 142 (224)
T KOG2255|consen 63 MLDMLARRLGVPMNTISSKALEGLGLVGDVPILLLRPQQYMNFSGESVGKVAALYKIPLRHIVVIHDELELPLGKLRLRP 142 (224)
T ss_pred HHHHHHHHhCCcccccCcccccceeeecceeeEeeCcHhhhccccchhhhhHHhhcchheeEEEEeccccCcCceEEecc
Confidence 47999999999876544567777788899999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCchhhHHHhhcCCCCcceEEEeecCCCCCCCccccccCcCCHHHHH-HHHHHHHHHHHHHHHHHhcCHHHHHH
Q 030459 81 NGGHGGHNGLKSVMNNFRGNREFARLRIGIGRPPGQMDPKAFLLQKFNAIARE-RIDTALQEGVEVLKLLLSKGLTESAR 159 (177)
Q Consensus 81 gGs~~GHNGlkSI~~~l~gt~~f~RlrIGIGrp~~~~~v~~yVL~~f~~~E~~-~l~~~i~~a~~~~~~~~~~~~~~amn 159 (177)
+||++||||+||++.++.+...|+||+||||||++.+|+.+|||++|++.|++ .|+..++. ++.++.++++.-.+
T Consensus 143 ~gs~rgHNGvrs~~~~l~g~~~fpRL~iGIGrppg~~d~~a~vLskfsp~e~ke~Let~l~~----~~~lil~~l~~~is 218 (224)
T KOG2255|consen 143 GGSHRGHNGVRSVFNCLNGRRSFPRLSIGIGRPPGNEDVKAFVLSKFSPAEQKELLETLLEH----VKTLILQGLQQSIS 218 (224)
T ss_pred CCCccccccHHHHHhhccCCcccceeeeecCCCCCchhhhHHHHHhcChhhhHHHHHHHHhh----hHHHHHHHHHHhcc
Confidence 99999999999999999766799999999999999999999999999999998 45544444 44444555555555
Q ss_pred hhh
Q 030459 160 HFN 162 (177)
Q Consensus 160 ~~n 162 (177)
.||
T Consensus 219 ~~~ 221 (224)
T KOG2255|consen 219 RFN 221 (224)
T ss_pred cCc
Confidence 665
No 8
>PRK09256 hypothetical protein; Provisional
Probab=56.13 E-value=5.4 Score=31.33 Aligned_cols=25 Identities=28% Similarity=0.485 Sum_probs=20.3
Q ss_pred EEEecCCCCCceEEEe--cCCCCCCCC
Q 030459 64 VFHDDMGLPCGVLRLR--HNGGHGGHN 88 (177)
Q Consensus 64 VihDdldl~~G~irlk--~gGs~~GHN 88 (177)
-|.+++++|...++++ .++|+||+|
T Consensus 3 ~~~~~~~i~~~~l~~~~~RSSGPGGQ~ 29 (138)
T PRK09256 3 RITRRLVIPENELEWRFIRASGPGGQN 29 (138)
T ss_pred ccCccCccCHHHeEEEEEEcCCCCccc
Confidence 3678888988887765 688999987
No 9
>PF12989 DUF3873: Domain of unknown function, B. Theta Gene description (DUF3873); InterPro: IPR024356 This entry represents a family of uncharacterised proteins found primarily in Bacteroides species. The Bacteroides thetaiotaomicron gene appears to be upregulated in the presence of host or other bacterial species compared to growth in pure culture [, ].
Probab=54.85 E-value=11 Score=26.52 Aligned_cols=61 Identities=20% Similarity=0.345 Sum_probs=40.3
Q ss_pred CCchhhHHHhhcCCCCcceEEEeecCCCCCCCccccccCcCCHHHHHHHHHHHHHHHHHHHHHHh
Q 030459 87 HNGLKSVMNNFRGNREFARLRIGIGRPPGQMDPKAFLLQKFNAIARERIDTALQEGVEVLKLLLS 151 (177)
Q Consensus 87 HNGlkSI~~~l~gt~~f~RlrIGIGrp~~~~~v~~yVL~~f~~~E~~~l~~~i~~a~~~~~~~~~ 151 (177)
+||+ ||-+.- |.++|-+.+.|+|+.. .....|=-...+.+=..-+...++.+-.+-+.|+.
T Consensus 6 ~nG~-S~c~~~-G~E~Y~~f~~~~~~k~--~~~~qYdYr~~~GeLFscV~~tLeEcRr~rd~WL~ 66 (69)
T PF12989_consen 6 KNGV-SICQTP-GEEKYEKFQLGIGRKG--VTKYQYDYRHTDGELFSCVAPTLEECRRLRDEWLS 66 (69)
T ss_pred cCCe-eecCCC-Cceeeeeeeecccccc--ceEEEEeeecCCccchhhhhccHHHHHHHHHHHHh
Confidence 4664 666665 6899999999998753 23333333444555455566677877777788875
No 10
>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=53.46 E-value=25 Score=34.08 Aligned_cols=88 Identities=19% Similarity=0.262 Sum_probs=52.4
Q ss_pred ccccccHHHHHHhcCCCCCc---EEEEEecCCCCCceEEEecCCCCCCCCchhhHHHhhcCCC-CcceEEEeecCCCCCC
Q 030459 42 NLSGESTGPLAAYYKLPLNR---VLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFRGNR-EFARLRIGIGRPPGQM 117 (177)
Q Consensus 42 N~SG~~V~~~~~~~ki~~~~---ilVihDdldl~~G~irlk~gGs~~GHNGlkSI~~~l~gt~-~f~RlrIGIGrp~~~~ 117 (177)
|..|.++..+...+--.++. +|||.|=- |...--+..+.+.-=++=||.+|..+ .+. .+-=+.||||+.
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--PVDDSTLSVNPGNYLERHLRAVIEEI-ETRSPVELLAIGIGHD---- 568 (600)
T ss_pred CCchHHHHHHHHHHhcCcccceEEEEEeCCC--cCCccccccCchhHHHHHHHHHHHHH-hccCCceEEEeecccc----
Confidence 88899999988766544443 67777743 22222222222333345599999999 554 567799999974
Q ss_pred CccccccCcCCHHHHHHHHH
Q 030459 118 DPKAFLLQKFNAIARERIDT 137 (177)
Q Consensus 118 ~v~~yVL~~f~~~E~~~l~~ 137 (177)
|..|--.-++-...+.|..
T Consensus 569 -v~r~Y~~~v~i~~~~eL~~ 587 (600)
T TIGR01651 569 -VTRYYRRAVTIVDAEELAG 587 (600)
T ss_pred -HHHHccccceecCHHHHHH
Confidence 4444433334444444443
No 11
>PF11775 CobT_C: Cobalamin biosynthesis protein CobT VWA domain
Probab=52.79 E-value=34 Score=29.05 Aligned_cols=70 Identities=23% Similarity=0.304 Sum_probs=41.1
Q ss_pred cccccccHHHHHHhcCCCCC--c-EEEEEecCCCCCceEEEecCCCCCCCCchhhHHHhhcCC-CCcceEEEeecCC
Q 030459 41 MNLSGESTGPLAAYYKLPLN--R-VLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFRGN-REFARLRIGIGRP 113 (177)
Q Consensus 41 MN~SG~~V~~~~~~~ki~~~--~-ilVihDdldl~~G~irlk~gGs~~GHNGlkSI~~~l~gt-~~f~RlrIGIGrp 113 (177)
=|..|+++..+.+.+.-.++ . ++||.|=- |...--+..++++.=++=||.+++.+ .+ .++-=+.||||..
T Consensus 115 eniDGeAl~~a~~rL~~r~e~rkiLiViSDG~--P~d~st~~~n~~~~L~~HLr~vi~~i-e~~~~Vel~aiGIg~D 188 (219)
T PF11775_consen 115 ENIDGEALRWAAERLLARPEQRKILIVISDGA--PADDSTLSANDGDYLDAHLRQVIAEI-ETRSDVELIAIGIGHD 188 (219)
T ss_pred cCCcHHHHHHHHHHHHcCCccceEEEEEeCCC--cCcccccccCChHHHHHHHHHHHHHH-hccCCcEEEEEEcCCC
Confidence 48999999988776543333 2 56666632 32222222222222234478888888 44 3566689999864
No 12
>PF06154 YagB_YeeU_YfjZ: YagB/YeeU/YfjZ family; InterPro: IPR009320 This family of proteins includes three proteins from Escherichia coli proteins YagB, YeeU and YfjZ. The function of these proteins is unknown. They are about 120 amino acids in length.; PDB: 2H28_A 2INW_B 2JN7_A 2EA9_A.
Probab=49.20 E-value=33 Score=25.79 Aligned_cols=30 Identities=23% Similarity=0.395 Sum_probs=23.3
Q ss_pred cCcCCHHHHHHHHHHHHHHHHHHHHHHhcC
Q 030459 124 LQKFNAIARERIDTALQEGVEVLKLLLSKG 153 (177)
Q Consensus 124 L~~f~~~E~~~l~~~i~~a~~~~~~~~~~~ 153 (177)
-+.||++|...|+++++..++-++..+..|
T Consensus 36 ~G~Fs~~~~~~Ld~aFP~~ikqlE~ml~sG 65 (103)
T PF06154_consen 36 TGTFSEEEAQHLDQAFPLFIKQLELMLTSG 65 (103)
T ss_dssp ES---HHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred EEEcCHHHHHHHHhHhHHHHHHHHHHHhcC
Confidence 389999999999999999999998887643
No 13
>PF06466 PCAF_N: PCAF (P300/CBP-associated factor) N-terminal domain; InterPro: IPR009464 This region is spliced out of Q92830 from SWISSPROT isoform 2. It is predicted to be of a mixed alpha/beta fold - though predominantly helical.; GO: 0004402 histone acetyltransferase activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=46.57 E-value=26 Score=30.32 Aligned_cols=46 Identities=13% Similarity=0.091 Sum_probs=32.2
Q ss_pred ccccccCcCC---HHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHhhhhh
Q 030459 119 PKAFLLQKFN---AIARERIDTALQEGVEVLKLLLSKGLTESARHFNTI 164 (177)
Q Consensus 119 v~~yVL~~f~---~~E~~~l~~~i~~a~~~~~~~~~~~~~~amn~~n~~ 164 (177)
|.+||+.+|+ +.|++.+-++-....-++..|--+..+.-.+.++..
T Consensus 150 V~nfv~~kf~~l~~~E~q~m~elakmFL~~lN~W~le~ps~~~~~~~~~ 198 (252)
T PF06466_consen 150 VTNFVLYKFSHLPQKEWQTMYELAKMFLHCLNHWKLEAPSQRRQRSNAE 198 (252)
T ss_pred HHHHHHHHccCCCcHHHHHHHHHHHHHHHHHhhccCCChHHHHhhcCcc
Confidence 5699998885 678888766666666677777666766666666543
No 14
>PRK03604 moaC bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional
Probab=37.39 E-value=1.1e+02 Score=27.16 Aligned_cols=111 Identities=13% Similarity=0.103 Sum_probs=72.0
Q ss_pred cCcccccccccHHHHHHhcCCCCCcEEEEEecCC--------C--CCceEEEecCC-CCCCCCchhhHHHhhcCCCCcce
Q 030459 37 PQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMG--------L--PCGVLRLRHNG-GHGGHNGLKSVMNNFRGNREFAR 105 (177)
Q Consensus 37 P~TyMN~SG~~V~~~~~~~ki~~~~ilVihDdld--------l--~~G~irlk~gG-s~~GHNGlkSI~~~l~gt~~f~R 105 (177)
+-..=|.+|..+..+++.++......-++-||.+ . .--.+-+-.|| |.+-..=....+..+ +..+|+.
T Consensus 169 ~G~i~Dsn~~~L~~~L~~~G~~v~~~~iVpDD~~~I~~al~~a~~~~~DlIITTGGtg~g~~D~tpeAl~~l-g~~~~~G 247 (312)
T PRK03604 169 AGTKEDRSGKLIVEGLEEAGFEVSHYTIIPDEPAEIAAAVAAWIAEGYALIITTGGTGLGPRDVTPEALAPL-LERRLPG 247 (312)
T ss_pred CCcEEEhHHHHHHHHHHHCCCEEEEEEEcCCCHHHHHHHHHHhhhCCCCEEEECCCCCCCCCccHHHHHHHh-cCccccc
Confidence 3445699999999999999988888888999987 2 22456677778 566677788889998 5777888
Q ss_pred EEEe-----ec-CCCC---C------CCccccccCcCCHHHHHHHHHHHHHHHHHHHH
Q 030459 106 LRIG-----IG-RPPG---Q------MDPKAFLLQKFNAIARERIDTALQEGVEVLKL 148 (177)
Q Consensus 106 lrIG-----IG-rp~~---~------~~v~~yVL~~f~~~E~~~l~~~i~~a~~~~~~ 148 (177)
++.. .+ +|.. + .+.-=|.|--.+..-...++.+++....+++.
T Consensus 248 vae~ir~~g~~~~Pga~lsr~~~G~~~~tlI~~LPG~P~aa~~~~~~llp~l~h~~~~ 305 (312)
T PRK03604 248 IAEALRSWGQGRTPTAMLSRLVAGMIGNSLVVALPGSPGGASDALAVLLPALFHAFAM 305 (312)
T ss_pred hHHHHHhcccCCCCCcccCcceEEEECCEEEEECCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 7754 33 2321 0 00112556555555555555555554444433
No 15
>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=37.06 E-value=23 Score=23.79 Aligned_cols=22 Identities=9% Similarity=0.101 Sum_probs=19.2
Q ss_pred HHHHHHhcCCCCCcEEEEEecC
Q 030459 48 TGPLAAYYKLPLNRVLVFHDDM 69 (177)
Q Consensus 48 V~~~~~~~ki~~~~ilVihDdl 69 (177)
+..+++.++++++++++|-|.+
T Consensus 10 ~~~a~~~~~~~~~~~~~VGD~~ 31 (75)
T PF13242_consen 10 LEQALKRLGVDPSRCVMVGDSL 31 (75)
T ss_dssp HHHHHHHHTSGGGGEEEEESST
T ss_pred HHHHHHHcCCCHHHEEEEcCCc
Confidence 5667888899999999999994
No 16
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=33.80 E-value=33 Score=29.60 Aligned_cols=38 Identities=24% Similarity=0.347 Sum_probs=26.3
Q ss_pred HHHHHhcCCCCCcEEEEEecCCCCCceEEEecCCCCCCCCchhhHHH
Q 030459 49 GPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMN 95 (177)
Q Consensus 49 ~~~~~~~ki~~~~ilVihDdldl~~G~irlk~gGs~~GHNGlkSI~~ 95 (177)
..+++...-.|..+||++|||..+-+ ....+.|||+++
T Consensus 95 ~~l~~~l~~~~~kFIlf~DDLsFe~~---------d~~yk~LKs~Le 132 (249)
T PF05673_consen 95 PELLDLLRDRPYKFILFCDDLSFEEG---------DTEYKALKSVLE 132 (249)
T ss_pred HHHHHHHhcCCCCEEEEecCCCCCCC---------cHHHHHHHHHhc
Confidence 44555544456899999999987766 445566777665
No 17
>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]
Probab=32.67 E-value=27 Score=30.64 Aligned_cols=31 Identities=16% Similarity=0.292 Sum_probs=25.3
Q ss_pred HHHHHhcCCCCCcEEEEEecCCCCCceEEEe
Q 030459 49 GPLAAYYKLPLNRVLVFHDDMGLPCGVLRLR 79 (177)
Q Consensus 49 ~~~~~~~ki~~~~ilVihDdldl~~G~irlk 79 (177)
..++...+..++.+||+|||+..+-|.-..|
T Consensus 128 p~l~~~Lr~~~~kFIlFcDDLSFe~gd~~yK 158 (287)
T COG2607 128 PDLVELLRARPEKFILFCDDLSFEEGDDAYK 158 (287)
T ss_pred HHHHHHHhcCCceEEEEecCCCCCCCchHHH
Confidence 4466667778899999999999999977665
No 18
>KOG2882 consensus p-Nitrophenyl phosphatase [Inorganic ion transport and metabolism]
Probab=32.34 E-value=33 Score=30.55 Aligned_cols=37 Identities=24% Similarity=0.449 Sum_probs=31.4
Q ss_pred eeEEEEecCcccccccccHHHHHHhcCCCCCcEEEEEecCCCC
Q 030459 30 APVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLP 72 (177)
Q Consensus 30 ~~v~l~kP~TyMN~SG~~V~~~~~~~ki~~~~ilVihDdldl~ 72 (177)
+.+++=||.++| ...+++.|+|.|++.+.|-|-||-.
T Consensus 218 ~P~v~GKP~~~m------~~~l~~~~~i~psRt~mvGDRL~TD 254 (306)
T KOG2882|consen 218 QPIVLGKPSTFM------FEYLLEKFNIDPSRTCMVGDRLDTD 254 (306)
T ss_pred CCeecCCCCHHH------HHHHHHHcCCCcceEEEEcccchhh
Confidence 579999999998 4457889999999999999977654
No 19
>cd00736 bacteriophage_lambda_lysozyme The lysozyme from bacteriophage lambda hydrolyses the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc), as do other lysozymes. But unlike other lysozymes, bacteriophage lambda does not produce a reducing end upon cleavage of the peptidoglycan but rather uses the 6-OH of the same MurNAc residue to produce a 1,6-anhydromuramic acid terminal residue and is therefore a lytic transglycosylase. An identical 1,6-anhydro bond is formed in bacterial peptidoglycans by the action of the lytic transglycosylases of E. coli. However, they differ structurally.
Probab=32.10 E-value=83 Score=25.16 Aligned_cols=43 Identities=12% Similarity=0.195 Sum_probs=31.6
Q ss_pred ccccCcCCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHhhhh
Q 030459 121 AFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESARHFNT 163 (177)
Q Consensus 121 ~yVL~~f~~~E~~~l~~~i~~a~~~~~~~~~~~~~~amn~~n~ 163 (177)
.+=|..|+|+.++.+.-.+-+-..++..+....++.||+++..
T Consensus 80 ~~gl~~F~P~~QD~~A~~Li~~~gal~~i~~G~~~~a~~~La~ 122 (151)
T cd00736 80 QYGLYDFSPESQDLVAYQLIRERGALPDILAGRIEQAIAKLSN 122 (151)
T ss_pred HcCCCCCCHHHHHHHHHHHHHHcCcHHHHHcCCHHHHHHHHHh
Confidence 3445899999999876544344447888888889999987763
No 20
>PF06342 DUF1057: Alpha/beta hydrolase of unknown function (DUF1057); InterPro: IPR010463 This entry consists of proteins of unknown function which have an alpha/beta hydrolase fold.
Probab=31.95 E-value=2.5e+02 Score=25.04 Aligned_cols=67 Identities=21% Similarity=0.303 Sum_probs=44.9
Q ss_pred EecCCCC--CceEEEecCCCCCCCCchhhHHHhhcCCCCcceEEEeecCCCCCCCccccccCcCCHHHHHHHHH
Q 030459 66 HDDMGLP--CGVLRLRHNGGHGGHNGLKSVMNNFRGNREFARLRIGIGRPPGQMDPKAFLLQKFNAIARERIDT 137 (177)
Q Consensus 66 hDdldl~--~G~irlk~gGs~~GHNGlkSI~~~l~gt~~f~RlrIGIGrp~~~~~v~~yVL~~f~~~E~~~l~~ 137 (177)
.|++.-. +|.+ +-.-||.|.||-.|=|...|. . .=+|+ |||--|..+ .+..|--..++.+|+...-+
T Consensus 26 ~D~~~~gs~~gTV-v~~hGsPGSH~DFkYi~~~l~-~-~~iR~-I~iN~PGf~-~t~~~~~~~~~n~er~~~~~ 94 (297)
T PF06342_consen 26 EDSLPSGSPLGTV-VAFHGSPGSHNDFKYIRPPLD-E-AGIRF-IGINYPGFG-FTPGYPDQQYTNEERQNFVN 94 (297)
T ss_pred EecCCCCCCceeE-EEecCCCCCccchhhhhhHHH-H-cCeEE-EEeCCCCCC-CCCCCcccccChHHHHHHHH
Confidence 3554332 4533 567899999999999999993 2 22333 678778653 45566667788888876543
No 21
>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=31.92 E-value=19 Score=24.88 Aligned_cols=24 Identities=21% Similarity=0.213 Sum_probs=20.6
Q ss_pred cccccccccHHHHHHhcCCCCCcE
Q 030459 39 TYMNLSGESTGPLAAYYKLPLNRV 62 (177)
Q Consensus 39 TyMN~SG~~V~~~~~~~ki~~~~i 62 (177)
-||..||.+..+|++.++|.+.+.
T Consensus 7 hflhE~g~~FveIAr~~~i~a~e~ 30 (63)
T PF11242_consen 7 HFLHESGLSFVEIARKIGITAKEV 30 (63)
T ss_pred hhHHHcCCcHHHHHHHhCCCHHHH
Confidence 378999999999999999987653
No 22
>PRK06437 hypothetical protein; Provisional
Probab=30.86 E-value=67 Score=21.68 Aligned_cols=29 Identities=7% Similarity=-0.011 Sum_probs=24.2
Q ss_pred ccccHHHHHHhcCCCCCcEEEEEecCCCC
Q 030459 44 SGESTGPLAAYYKLPLNRVLVFHDDMGLP 72 (177)
Q Consensus 44 SG~~V~~~~~~~ki~~~~ilVihDdldl~ 72 (177)
.|.+|+.+++.++++++.+.|+++.--++
T Consensus 19 ~~~tv~dLL~~Lgi~~~~vaV~vNg~iv~ 47 (67)
T PRK06437 19 HELTVNDIIKDLGLDEEEYVVIVNGSPVL 47 (67)
T ss_pred CCCcHHHHHHHcCCCCccEEEEECCEECC
Confidence 45679999999999999999988876555
No 23
>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=30.44 E-value=37 Score=26.63 Aligned_cols=25 Identities=20% Similarity=0.387 Sum_probs=22.7
Q ss_pred cccHHHHHHhcCCCCCcEEEEEecC
Q 030459 45 GESTGPLAAYYKLPLNRVLVFHDDM 69 (177)
Q Consensus 45 G~~V~~~~~~~ki~~~~ilVihDdl 69 (177)
|.+++.+++.+++++++++++-|+.
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 6778999999999999999999876
No 24
>PRK10870 transcriptional repressor MprA; Provisional
Probab=30.29 E-value=49 Score=26.35 Aligned_cols=38 Identities=11% Similarity=0.229 Sum_probs=25.3
Q ss_pred ccccCcCCHHHHHHHHHHHHHHHHHHHHHHhcC-HHHHH
Q 030459 121 AFLLQKFNAIARERIDTALQEGVEVLKLLLSKG-LTESA 158 (177)
Q Consensus 121 ~yVL~~f~~~E~~~l~~~i~~a~~~~~~~~~~~-~~~am 158 (177)
+-+++.|+++|++.+..++.+..+.++.+-++| +-+||
T Consensus 137 ~~~~~~ls~~e~~~l~~~L~kl~~~l~~~~~~~~~~~~~ 175 (176)
T PRK10870 137 HQLWSALSTTEKDQLEQITRKLLSRLDQMEQDGVVLEAM 175 (176)
T ss_pred HHHHhcCCHHHHHHHHHHHHHHHHHHHhhCCCchhhhhc
Confidence 456777788888777777777777776655543 44444
No 25
>PF00472 RF-1: RF-1 domain; InterPro: IPR000352 Peptide chain release factors (RFs) are required for the termination of protein biosynthesis []. At present two classes of RFs can be distinguished. Class I RFs bind to ribosomes that have encountered a stop codon at their decoding site and induce release of the nascent polypeptide. Class II RFs are GTP-binding proteins that interact with class I RFs and enhance class I RF activity. In prokaryotes there are two class I RFs that act in a codon specific manner []: RF-1 (gene prfA) mediates UAA and UAG-dependent termination while RF-2 (gene prfB) mediates UAA and UGA-dependent termination. RF-1 and RF-2 are structurally and evolutionary related proteins which have been shown to be part of a larger family [].; GO: 0003747 translation release factor activity, 0006415 translational termination; PDB: 2JY9_A 1ZBT_A 1GQE_A 3F1G_X 3F1E_X 1RQ0_C 4DH9_Y 2JVA_A 1J26_A 3D5A_X ....
Probab=30.09 E-value=35 Score=25.52 Aligned_cols=22 Identities=27% Similarity=0.634 Sum_probs=16.0
Q ss_pred ecCCCCCceEEEe--cCCCCCCCC
Q 030459 67 DDMGLPCGVLRLR--HNGGHGGHN 88 (177)
Q Consensus 67 Ddldl~~G~irlk--~gGs~~GHN 88 (177)
.++++|...+.+. +++|+||+|
T Consensus 5 ~~~~i~~~dl~~~~~RssGpGGQ~ 28 (113)
T PF00472_consen 5 KEIDIPEKDLEISFSRSSGPGGQN 28 (113)
T ss_dssp SSSCC-GGGEEEEEEESSSSSSCH
T ss_pred cccccCHHHeEEEEEecCCCCCCc
Confidence 4567777777765 688999987
No 26
>COG4128 Zot Zonula occludens toxin [General function prediction only]
Probab=29.19 E-value=57 Score=29.56 Aligned_cols=43 Identities=14% Similarity=0.157 Sum_probs=36.7
Q ss_pred cccccccHHHHHHhcCCCCCcEEEEEecCCCCCceEEEecCCC
Q 030459 41 MNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGG 83 (177)
Q Consensus 41 MN~SG~~V~~~~~~~ki~~~~ilVihDdldl~~G~irlk~gGs 83 (177)
-|.-|.-+.++.++|+-.+.++.|+-||++-+=|...++.-|+
T Consensus 35 TNVrGl~ler~~~~~pd~~~~i~I~n~D~~~~d~~~~m~~~~~ 77 (398)
T COG4128 35 TNVRGLQLERITERYPDATGEIIIVNDDVLKADFFPFMGGEGS 77 (398)
T ss_pred EecccccHHHHHHhccCCCCceEEEeccccCcccchhhcceee
Confidence 4888999999999999999999999999999888776665443
No 27
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=29.16 E-value=38 Score=27.87 Aligned_cols=27 Identities=19% Similarity=0.194 Sum_probs=24.4
Q ss_pred ccccHHHHHHhcCCCCCcEEEEEecCC
Q 030459 44 SGESTGPLAAYYKLPLNRVLVFHDDMG 70 (177)
Q Consensus 44 SG~~V~~~~~~~ki~~~~ilVihDdld 70 (177)
++.+.+++++.++++++++++|-|.|=
T Consensus 95 ~~~~fr~Al~~m~l~~~~vvmVGDqL~ 121 (175)
T COG2179 95 FGRAFRRALKEMNLPPEEVVMVGDQLF 121 (175)
T ss_pred cHHHHHHHHHHcCCChhHEEEEcchhh
Confidence 577889999999999999999999883
No 28
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=28.06 E-value=9.6 Score=24.65 Aligned_cols=27 Identities=15% Similarity=0.169 Sum_probs=17.8
Q ss_pred ccccccHHHHHHhcCCCCCcEEEEEec
Q 030459 42 NLSGESTGPLAAYYKLPLNRVLVFHDD 68 (177)
Q Consensus 42 N~SG~~V~~~~~~~ki~~~~ilVihDd 68 (177)
+.|-..+..++++++++|++++...+|
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 455677889999999999998876665
No 29
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=28.04 E-value=62 Score=24.34 Aligned_cols=75 Identities=19% Similarity=0.190 Sum_probs=56.0
Q ss_pred cccccccccHHHHHHhcCCCCCcEEEEEecCC---------CCCceEEEecCC-CCCCCCchhhHHHhhcCCCCcc--eE
Q 030459 39 TYMNLSGESTGPLAAYYKLPLNRVLVFHDDMG---------LPCGVLRLRHNG-GHGGHNGLKSVMNNFRGNREFA--RL 106 (177)
Q Consensus 39 TyMN~SG~~V~~~~~~~ki~~~~ilVihDdld---------l~~G~irlk~gG-s~~GHNGlkSI~~~l~gt~~f~--Rl 106 (177)
..-|.++..+..+++.++......-++.||.+ +.--.+-+-.|| |.+-+.=....++.+ +...|. ++
T Consensus 15 ~i~d~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~i~~~~~~~DlvittGG~g~g~~D~t~~ai~~~-g~~~~~g~~~ 93 (133)
T cd00758 15 QIEDTNGPALEALLEDLGCEVIYAGVVPDDADSIRAALIEASREADLVLTTGGTGVGRRDVTPEALAEL-GEREAHGKGV 93 (133)
T ss_pred ceEEchHHHHHHHHHHCCCEEEEeeecCCCHHHHHHHHHHHHhcCCEEEECCCCCCCCCcchHHHHHHh-cCEEeccCcc
Confidence 34488999999999999887777778888854 112456667777 556777778888888 567788 88
Q ss_pred EEeecCCC
Q 030459 107 RIGIGRPP 114 (177)
Q Consensus 107 rIGIGrp~ 114 (177)
.+-.|+|.
T Consensus 94 ~~~pg~~~ 101 (133)
T cd00758 94 ALAPGSRT 101 (133)
T ss_pred cccCCCce
Confidence 88888773
No 30
>PF05017 TMP: TMP repeat; InterPro: IPR007713 This short repeat consists of the motif WXXh where X can be any residue and h is a hydrophobic residue. The repeat is named TMP after its occurrence in the tape measure protein (TMP). Tape measure protein is a component of phage tail and probably forms a beta-helix. Truncated forms of TMP lead to shortened tail fibres []. This repeat is also found in non-phage proteins where it may play a structural role.
Probab=27.61 E-value=30 Score=15.64 Aligned_cols=8 Identities=50% Similarity=0.883 Sum_probs=5.9
Q ss_pred CchhhHHH
Q 030459 88 NGLKSVMN 95 (177)
Q Consensus 88 NGlkSI~~ 95 (177)
||||++..
T Consensus 2 n~Ik~~~s 9 (11)
T PF05017_consen 2 NGIKSFFS 9 (11)
T ss_pred chHHHHhh
Confidence 78888764
No 31
>COG2897 SseA Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]
Probab=26.65 E-value=65 Score=28.26 Aligned_cols=30 Identities=23% Similarity=0.133 Sum_probs=26.6
Q ss_pred cccccccccHHHHHHhcCCCCCcEEEEEec
Q 030459 39 TYMNLSGESTGPLAAYYKLPLNRVLVFHDD 68 (177)
Q Consensus 39 TyMN~SG~~V~~~~~~~ki~~~~ilVihDd 68 (177)
.=|=.+.+.+.+++...+|..++.+|+|||
T Consensus 69 ~~~lp~~e~fa~~~~~~GI~~d~tVVvYdd 98 (285)
T COG2897 69 PHMLPSPEQFAKLLGELGIRNDDTVVVYDD 98 (285)
T ss_pred CCCCCCHHHHHHHHHHcCCCCCCEEEEECC
Confidence 456677788899999999999999999999
No 32
>PRK10976 putative hydrolase; Provisional
Probab=26.56 E-value=37 Score=27.99 Aligned_cols=25 Identities=24% Similarity=0.393 Sum_probs=22.5
Q ss_pred cccHHHHHHhcCCCCCcEEEEEecC
Q 030459 45 GESTGPLAAYYKLPLNRVLVFHDDM 69 (177)
Q Consensus 45 G~~V~~~~~~~ki~~~~ilVihDdl 69 (177)
|.+++.+++.++|++++++++-|..
T Consensus 192 g~al~~l~~~lgi~~~~viafGD~~ 216 (266)
T PRK10976 192 GHALEAVAKKLGYSLKDCIAFGDGM 216 (266)
T ss_pred HHHHHHHHHHcCCCHHHeEEEcCCc
Confidence 7788999999999999999998864
No 33
>PRK10513 sugar phosphate phosphatase; Provisional
Probab=26.25 E-value=35 Score=28.12 Aligned_cols=25 Identities=20% Similarity=0.268 Sum_probs=22.4
Q ss_pred cccHHHHHHhcCCCCCcEEEEEecC
Q 030459 45 GESTGPLAAYYKLPLNRVLVFHDDM 69 (177)
Q Consensus 45 G~~V~~~~~~~ki~~~~ilVihDdl 69 (177)
|.+++.+++.++|++++++++-|..
T Consensus 198 g~al~~l~~~~gi~~~~v~afGD~~ 222 (270)
T PRK10513 198 GTGVKSLAEHLGIKPEEVMAIGDQE 222 (270)
T ss_pred HHHHHHHHHHhCCCHHHEEEECCch
Confidence 6778999999999999999999865
No 34
>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=26.00 E-value=3e+02 Score=20.99 Aligned_cols=80 Identities=14% Similarity=0.153 Sum_probs=43.9
Q ss_pred cEEEEEecC--CCCCceEEEecC-----C-CCCCCCchhhHHHhhcCCCCcceEEE-eecCCCCCCCccccccCcCCHHH
Q 030459 61 RVLVFHDDM--GLPCGVLRLRHN-----G-GHGGHNGLKSVMNNFRGNREFARLRI-GIGRPPGQMDPKAFLLQKFNAIA 131 (177)
Q Consensus 61 ~ilVihDdl--dl~~G~irlk~g-----G-s~~GHNGlkSI~~~l~gt~~f~RlrI-GIGrp~~~~~v~~yVL~~f~~~E 131 (177)
+.++|-|-+ +.++|.++.-.. . .+....|+..+++.+. ..-..++.+ ||- | . ++ +|- ..+|++=
T Consensus 55 d~viivDA~~~g~~PG~v~~~~~~~~~~~~~s~H~~~l~~ll~~~~-~~~~~~~~ligi~-~-~--~~-~~g-~~LS~~v 127 (146)
T TIGR00142 55 THILIVDATDMGLNPGEVRIIDDDIIEMYSMSTHNMPLSYLVDYLK-EDINGEIIFLGIQ-P-D--IV-GFY-YPMSQPV 127 (146)
T ss_pred CEEEEEECcccCCCCCeEEEEChhhccccccCcCcCCHHHHHHHHH-hcCCCeEEEEEEe-e-e--ee-ecC-CCCCHHH
Confidence 556666765 569999887432 1 2334459999988873 221245554 553 3 2 23 333 4666655
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 030459 132 RERIDTALQEGVEVLKLLLS 151 (177)
Q Consensus 132 ~~~l~~~i~~a~~~~~~~~~ 151 (177)
++.+ +.+++.+..+++
T Consensus 128 ~~a~----~~~~~~i~~~i~ 143 (146)
T TIGR00142 128 KDAV----ETLYQRLIGWEG 143 (146)
T ss_pred HHHH----HHHHHHHHHHHh
Confidence 5554 444455544443
No 35
>PRK08179 prfH peptide chain release factor-like protein; Reviewed
Probab=25.67 E-value=51 Score=27.49 Aligned_cols=38 Identities=18% Similarity=0.271 Sum_probs=26.7
Q ss_pred EEEEEecCCCCCceEEEe--cCCCCCCCCchhhHHHhhcCCCCcceEE
Q 030459 62 VLVFHDDMGLPCGVLRLR--HNGGHGGHNGLKSVMNNFRGNREFARLR 107 (177)
Q Consensus 62 ilVihDdldl~~G~irlk--~gGs~~GHNGlkSI~~~l~gt~~f~Rlr 107 (177)
+.|+-.+++++...+++. +++|+||||= +.|+.=.||+
T Consensus 95 V~v~~~~~~i~~~dl~~~~~RssGpGGQ~V--------Nkt~saVrl~ 134 (200)
T PRK08179 95 IGRFSADEEEQSDEIRFETLRSSGPGGQHV--------NKTDSAVRAT 134 (200)
T ss_pred EEEeCCcCccCHHHeEEEEEEccCCccccc--------ccccceEEEE
Confidence 455667888999999975 5889999953 3344456665
No 36
>PF12896 Apc4: Anaphase-promoting complex, cyclosome, subunit 4; InterPro: IPR024790 Apc4 is one of the larger of the subunits of the anaphase-promoting complex (APC) or cyclosome. The anaphase-promoting complex is a multiprotein subunit E3 ubiquitin ligase complex that controls segregation of chromosomes and exit from mitosis in eukaryotes [, ]. Results in Caenorhabditis elegans show that the primary essential role of the spindle assembly checkpoint is not in the chromosome segregation process itself but rather in delaying anaphase onset until all chromosomes are properly attached to the spindle. The APC is likely to be required for all metaphase-to-anaphase transitions in a multicellular organism []. This entry represents the long domain downstream of the WD40 repeat/s that are present on the Apc4 subunits.
Probab=25.33 E-value=86 Score=25.18 Aligned_cols=44 Identities=18% Similarity=0.295 Sum_probs=38.2
Q ss_pred CccccccCcCCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHhh
Q 030459 118 DPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESARHF 161 (177)
Q Consensus 118 ~v~~yVL~~f~~~E~~~l~~~i~~a~~~~~~~~~~~~~~amn~~ 161 (177)
.+.+|....+++.-...+++.++.+.+.+..++.+.+..|+.++
T Consensus 90 ~l~~fL~~~l~erglKr~~k~~~~~y~~i~~l~~~~l~pa~erl 133 (210)
T PF12896_consen 90 ALKQFLVNQLGERGLKRWEKAVDSAYSSIRKLLFEHLIPALERL 133 (210)
T ss_pred HHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57899999999999999999999999999998887777777654
No 37
>PF15479 DUF4639: Domain of unknown function (DUF4639)
Probab=25.30 E-value=1.8e+02 Score=27.90 Aligned_cols=54 Identities=11% Similarity=0.140 Sum_probs=33.1
Q ss_pred CccccccCcCCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHhhhhhhHHHHhhhhcCC
Q 030459 118 DPKAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESARHFNTIQKYKHIRLQNMP 176 (177)
Q Consensus 118 ~v~~yVL~~f~~~E~~~l~~~i~~a~~~~~~~~~~~~~~amn~~n~~~~~~~~~~~~~~ 176 (177)
...|-|=++|++.|+..|-+ .+.+.+.|-.++++=++.+|+... +.|+.+|.-|
T Consensus 26 p~vDIVPGR~~E~eW~~L~~-~EegEd~v~DIv~dil~~vm~~~f----~~Yl~~Q~iP 79 (576)
T PF15479_consen 26 PQVDIVPGRLTEAEWNALME-LEEGEDFVGDIVEDILDRVMEIIF----KRYLTKQCIP 79 (576)
T ss_pred CcceecCCccCHHHHHHHHh-hhcchhHHHHHHHHHHHHHHHHHH----HHHHHhcccc
Confidence 34699999999999987643 244444444444444455565543 4566666544
No 38
>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=24.70 E-value=96 Score=25.38 Aligned_cols=36 Identities=19% Similarity=0.298 Sum_probs=27.0
Q ss_pred CCeeEEEEecCcccccccccHHHHHH---hcCCCCCcEEEEE
Q 030459 28 GDAPVLLAKPQTYMNLSGESTGPLAA---YYKLPLNRVLVFH 66 (177)
Q Consensus 28 ~~~~v~l~kP~TyMN~SG~~V~~~~~---~~ki~~~~ilVih 66 (177)
.+..|+|+-| |--+|.++..+++ .+++++++|++++
T Consensus 120 ~~~~VillDp---mlaTG~s~~~ai~~L~~~G~~~~~I~~v~ 158 (207)
T PF14681_consen 120 ENRKVILLDP---MLATGGSAIAAIEILKEHGVPEENIIIVS 158 (207)
T ss_dssp TTSEEEEEES---EESSSHHHHHHHHHHHHTTG-GGEEEEEE
T ss_pred cCCEEEEEec---cccchhhHHHHHHHHHHcCCCcceEEEEE
Confidence 4578999999 7888998866554 5677888988875
No 39
>cd01614 EutN_CcmL Ethanolamine utilisation protein and carboxysome structural protein domain family. Beside the Escherichia coli ethanolamine utilization protein EutN and the Synechocystis sp. carboxysome (beta-type) structural protein CcmL, this family also includes alpha-type carboxysome structural proteins CsoS4A and CsoS4B (previously known as OrfA and OrfB), propanediol utilizationprotein PduN, and some hypothetical homologous of various bacterial microcompartments. The carboxysome, a polyhedral organelle, participates in carbon fixation by sequestering enzymes. It is the prototypical bacterial microcompartment. Its enzymatic components, ribulose bisphosphate carboxylase/oxygenase(RuBisCO) and carbonic anhydrase (CA), are surrounded by a polyhedral protein shell. Similarly, the ethanolamine utilization (eut) microcompartment, and the 1,2-propanediol utilization (pdu) microcompartment encapsulate the enzymes necessary for the process of cobalamin-dependent ethanolamine degradation,
Probab=24.29 E-value=2e+02 Score=20.59 Aligned_cols=44 Identities=25% Similarity=0.375 Sum_probs=35.2
Q ss_pred ECCeeEEEEecCcccccccccHHHHHHhcCCCCCcEEEEEecCCCCCceEEEecCCCC
Q 030459 27 VGDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGH 84 (177)
Q Consensus 27 ~~~~~v~l~kP~TyMN~SG~~V~~~~~~~ki~~~~ilVihDdldl~~G~irlk~gGs~ 84 (177)
+.+.++++++|. +..|. +..+.+|..|.+.=-.|..-+-..||+
T Consensus 19 L~G~kLliVq~~---~~~~~-----------~~g~~~VA~D~vGAG~Ge~Vlv~~Gs~ 62 (83)
T cd01614 19 LAGKKLLVVQPL---DGEGK-----------PKGEPLVAVDPVGAGVGEWVLVATGSA 62 (83)
T ss_pred CCCcEEEEEEEC---ccCCC-----------cCCCEEEEEECCCCCCCCEEEEeCChH
Confidence 457899999996 33333 556889999999999999999887764
No 40
>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=23.36 E-value=69 Score=26.31 Aligned_cols=27 Identities=19% Similarity=0.114 Sum_probs=23.6
Q ss_pred cccccHHHHHHhcCCCCCcEEEEEecC
Q 030459 43 LSGESTGPLAAYYKLPLNRVLVFHDDM 69 (177)
Q Consensus 43 ~SG~~V~~~~~~~ki~~~~ilVihDdl 69 (177)
.-|.++..+++.+++++++++++-|..
T Consensus 167 ~K~~al~~l~~~~~i~~~~~i~~GD~~ 193 (249)
T TIGR01485 167 GKGQALQYLLQKLAMEPSQTLVCGDSG 193 (249)
T ss_pred ChHHHHHHHHHHcCCCccCEEEEECCh
Confidence 357789999999999999999999875
No 41
>COG1186 PrfB Protein chain release factor B [Translation, ribosomal structure and biogenesis]
Probab=23.21 E-value=57 Score=28.09 Aligned_cols=24 Identities=25% Similarity=0.544 Sum_probs=20.7
Q ss_pred EEecCCCCCceEEEe--cCCCCCCCC
Q 030459 65 FHDDMGLPCGVLRLR--HNGGHGGHN 88 (177)
Q Consensus 65 ihDdldl~~G~irlk--~gGs~~GHN 88 (177)
++.+++++.+.+++. +.+|+||+|
T Consensus 101 ~~i~i~I~~~dl~idt~RASGaGGQh 126 (239)
T COG1186 101 ISIEIEIPDDDLRIDTYRASGAGGQH 126 (239)
T ss_pred cccceecCccceEEEEEEcCCCCCCc
Confidence 778999999999997 467899987
No 42
>PRK15126 thiamin pyrimidine pyrophosphate hydrolase; Provisional
Probab=23.14 E-value=43 Score=27.77 Aligned_cols=26 Identities=27% Similarity=0.409 Sum_probs=23.0
Q ss_pred ccccHHHHHHhcCCCCCcEEEEEecC
Q 030459 44 SGESTGPLAAYYKLPLNRVLVFHDDM 69 (177)
Q Consensus 44 SG~~V~~~~~~~ki~~~~ilVihDdl 69 (177)
-|.+++.+++.++|++++++++-|..
T Consensus 189 Kg~al~~l~~~~gi~~~~v~afGD~~ 214 (272)
T PRK15126 189 KGAALAVLSQHLGLSLADCMAFGDAM 214 (272)
T ss_pred hHHHHHHHHHHhCCCHHHeEEecCCH
Confidence 47789999999999999999998864
No 43
>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=23.10 E-value=66 Score=25.67 Aligned_cols=26 Identities=27% Similarity=0.308 Sum_probs=22.8
Q ss_pred ccccHHHHHHhcCCCCCcEEEEEecC
Q 030459 44 SGESTGPLAAYYKLPLNRVLVFHDDM 69 (177)
Q Consensus 44 SG~~V~~~~~~~ki~~~~ilVihDdl 69 (177)
-|.++..+++.+++++++++.|-|..
T Consensus 180 Kg~al~~l~~~lgi~~~~vi~~GD~~ 205 (221)
T TIGR02463 180 KGKAANWLKATYNQPDVKTLGLGDGP 205 (221)
T ss_pred HHHHHHHHHHHhCCCCCcEEEECCCH
Confidence 57788999999999999999998853
No 44
>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=22.71 E-value=77 Score=26.45 Aligned_cols=28 Identities=21% Similarity=0.331 Sum_probs=20.7
Q ss_pred EEEEEecCCCCCceEEEe--cCCCCCCCCc
Q 030459 62 VLVFHDDMGLPCGVLRLR--HNGGHGGHNG 89 (177)
Q Consensus 62 ilVihDdldl~~G~irlk--~gGs~~GHNG 89 (177)
+.|+-.+++++...+++. +++|+||+|=
T Consensus 94 V~v~~~~~~i~~~dl~~~~~RssGpGGQ~v 123 (200)
T TIGR03072 94 VQRFSASEEATEDEIRFETLRSSGPGGQHV 123 (200)
T ss_pred EEEecCccccChhheEEEEEECCCCCcccc
Confidence 344556788999999885 5778999653
No 45
>COG4547 CobT Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]
Probab=22.44 E-value=1.2e+02 Score=29.11 Aligned_cols=70 Identities=20% Similarity=0.195 Sum_probs=47.7
Q ss_pred ccccccHHHHHHhcCCCCCc---EEEEEecCCCCCceEEEecCCCCCCCCchhhHHHhhcCC-CCcceEEEeecCCC
Q 030459 42 NLSGESTGPLAAYYKLPLNR---VLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFRGN-REFARLRIGIGRPP 114 (177)
Q Consensus 42 N~SG~~V~~~~~~~ki~~~~---ilVihDdldl~~G~irlk~gGs~~GHNGlkSI~~~l~gt-~~f~RlrIGIGrp~ 114 (177)
|..|+++.++...+=-.|++ ++||.|--- .-.--+..+-|++=|.=||-+|..+ .| ...=-+.||||+..
T Consensus 517 NiDGEal~wah~rl~gRpEqrkIlmmiSDGAP--vddstlsvnpGnylerHLRaVieeI-EtrSpveLlAIGighDv 590 (620)
T COG4547 517 NIDGEALMWAHQRLIGRPEQRKILMMISDGAP--VDDSTLSVNPGNYLERHLRAVIEEI-ETRSPVELLAIGIGHDV 590 (620)
T ss_pred cCChHHHHHHHHHHhcChhhceEEEEecCCCc--ccccccccCCchHHHHHHHHHHHHH-hcCCchhheeeeccccc
Confidence 89999998887765444543 677777542 2222333344566777899999999 55 45666999999853
No 46
>PRK09570 rpoH DNA-directed RNA polymerase subunit H; Reviewed
Probab=22.29 E-value=1.1e+02 Score=21.94 Aligned_cols=43 Identities=19% Similarity=0.302 Sum_probs=29.1
Q ss_pred ccccHHHHHHhcCCCCCcE--EEEEe----cCCCCCce-EEEecCCCCCC
Q 030459 44 SGESTGPLAAYYKLPLNRV--LVFHD----DMGLPCGV-LRLRHNGGHGG 86 (177)
Q Consensus 44 SG~~V~~~~~~~ki~~~~i--lVihD----dldl~~G~-irlk~gGs~~G 86 (177)
|-+....+++.|++.++++ |...| .+++..|. +||.+.+.+.|
T Consensus 19 s~eE~~~lL~~y~i~~~qLP~I~~~DPv~r~~g~k~GdVvkI~R~S~taG 68 (79)
T PRK09570 19 SEEEAKKLLKEYGIKPEQLPKIKASDPVVKAIGAKPGDVIKIVRKSPTAG 68 (79)
T ss_pred CHHHHHHHHHHcCCCHHHCCceeccChhhhhcCCCCCCEEEEEECCCCCC
Confidence 5566788999999988776 33334 36788886 46666555444
No 47
>PRK13920 putative anti-sigmaE protein; Provisional
Probab=22.13 E-value=1.2e+02 Score=24.73 Aligned_cols=22 Identities=23% Similarity=0.442 Sum_probs=19.0
Q ss_pred cccccCcCCHHHHHHHHHHHHH
Q 030459 120 KAFLLQKFNAIARERIDTALQE 141 (177)
Q Consensus 120 ~~yVL~~f~~~E~~~l~~~i~~ 141 (177)
..||++..+++|++.++..+..
T Consensus 2 ~~YvlG~Ls~eE~~~ve~~L~~ 23 (206)
T PRK13920 2 PLYALGALSPEERARVEAALEA 23 (206)
T ss_pred chhhcCCCCHHHHHHHHHHHHH
Confidence 4799999999999999887654
No 48
>COG4841 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.12 E-value=61 Score=24.00 Aligned_cols=24 Identities=25% Similarity=0.491 Sum_probs=19.1
Q ss_pred ecCCCCCce-EE--EecCCCCCCCCch
Q 030459 67 DDMGLPCGV-LR--LRHNGGHGGHNGL 90 (177)
Q Consensus 67 Ddldl~~G~-ir--lk~gGs~~GHNGl 90 (177)
||+||+-|. || .|.||.+.+|.|-
T Consensus 15 ~E~~l~~g~~vrffvRyGG~~~~~~GF 41 (95)
T COG4841 15 EELDLEEGNKVRFFVRYGGCSSLQQGF 41 (95)
T ss_pred HhcCCCCCCEEEEEEEEcCcccccCCc
Confidence 899999985 55 4889988888774
No 49
>KOG4798 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.95 E-value=2.4e+02 Score=24.21 Aligned_cols=55 Identities=9% Similarity=0.080 Sum_probs=40.2
Q ss_pred cccccCcCCHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHhh---hhhhHHHHhhhhcCC
Q 030459 120 KAFLLQKFNAIARERIDTALQEGVEVLKLLLSKGLTESARHF---NTIQKYKHIRLQNMP 176 (177)
Q Consensus 120 ~~yVL~~f~~~E~~~l~~~i~~a~~~~~~~~~~~~~~amn~~---n~~~~~~~~~~~~~~ 176 (177)
.+||.+.-+.-|+++.. +..+++++..|+++-++-++..+ -....+-+..+||-|
T Consensus 59 ~kyvee~~~~L~~~i~a--iR~yce~~~~~c~~~~d~v~~~~~ktvkfg~~~~~yL~n~p 116 (229)
T KOG4798|consen 59 SKYVEEQPSQLQESIAA--IRHYCECYTAWCAEVFDVVKGTIPKTVKFGTKSYLYLQNEP 116 (229)
T ss_pred cccCcccccHHHHHHHH--HHHHHHHHHHHHHHHHHHhccchHHHHHHhhhhhHHhhcCC
Confidence 48998888877766654 88999999999998777776543 334556667777765
No 50
>cd06392 PBP1_iGluR_delta_1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 may be closer related to non-NMDA receptors. In contrast to GluRdelta2, GluRdel
Probab=21.87 E-value=93 Score=28.26 Aligned_cols=32 Identities=25% Similarity=0.347 Sum_probs=25.2
Q ss_pred EEEEecCcccccccccHHHHHHhcCCCCCcEEEEEec
Q 030459 32 VLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDD 68 (177)
Q Consensus 32 v~l~kP~TyMN~SG~~V~~~~~~~ki~~~~ilVihDd 68 (177)
.++++|..+.|. ++..+..+|++ .++++||||
T Consensus 116 ~~~lrp~~~~~~---Ai~dlV~~~~W--~~v~~iYD~ 147 (400)
T cd06392 116 TLAARPPVRLND---VMLKLVTELRW--QKFIVFYDS 147 (400)
T ss_pred eEEecCchHHHH---HHHHHHHhCCC--cEEEEEEEC
Confidence 578889543443 99999999987 699999974
No 51
>cd04884 ACT_CBS C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria. This CD includes the C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria. This protein has two N-terminal tandem CBS domains and a single C-terminal ACT domain. The CBS domain is found in a wide range of proteins, often in tandem arrangements and together with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.49 E-value=2e+02 Score=18.80 Aligned_cols=44 Identities=5% Similarity=-0.056 Sum_probs=32.0
Q ss_pred HHHHhcCCCCCcEEEEEecC--CCCCceEEEecCCCCCCCCchhhHHHhh
Q 030459 50 PLAAYYKLPLNRVLVFHDDM--GLPCGVLRLRHNGGHGGHNGLKSVMNNF 97 (177)
Q Consensus 50 ~~~~~~ki~~~~ilVihDdl--dl~~G~irlk~gGs~~GHNGlkSI~~~l 97 (177)
.++...++....+. |++- +.+.+.+.++..+-..+| +..|.+.|
T Consensus 18 ~~i~~~g~nI~~i~--~~~~~~~~~~~~~~v~v~~e~~~~--~~~i~~~L 63 (72)
T cd04884 18 DTLREFNARIISIL--TAFEDAPDGMRRVFIRVTPMDRSK--ENELIEEL 63 (72)
T ss_pred HHHHHCCCeEEEEE--eccccCCCCccEEEEEEEEecchH--HHHHHHHH
Confidence 45556676444443 4444 788999999987777788 99999999
No 52
>TIGR00685 T6PP trehalose-phosphatase. At least 18 distinct sequences from Arabidopsis have been identified, roughly half of these are of the fungal type, with a fused synthase and half are like the bacterial members having only the phosphatase domain. It has been suggested that trehalose is being used in Arabidopsis as a regulatory molecule in development and possibly other processes.
Probab=20.70 E-value=1.8e+02 Score=23.90 Aligned_cols=40 Identities=20% Similarity=0.073 Sum_probs=32.7
Q ss_pred CCeeEEEEecCcccccccccHHHHHHhcCCCCCcEEEEEecC
Q 030459 28 GDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDM 69 (177)
Q Consensus 28 ~~~~v~l~kP~TyMN~SG~~V~~~~~~~ki~~~~ilVihDdl 69 (177)
.+..++-++|... .-|.++..+++.+++.+++++.|-||.
T Consensus 154 ~g~~~~e~~p~~~--~Kg~a~~~~~~~~~~~~~~~i~iGD~~ 193 (244)
T TIGR00685 154 DGKAVVELKPRFV--NKGEIVKRLLWHQPGSGISPVYLGDDI 193 (244)
T ss_pred ECCeEEEEeeCCC--CHHHHHHHHHHhcccCCCceEEEcCCC
Confidence 4567788888742 568999999999999889999998875
No 53
>TIGR01683 thiS thiamine biosynthesis protein ThiS. This model represents ThiS, a small thiamine-biosynthesis protein related to MoaD, a molybdenum cofactor biosynthesis protein. Both proteins are involved in sulfur transfer. ThiS has a conserved Gly-Gly C-terminus that is modified, in reactions requiring ThiI, ThiF, IscS, and a sulfur atom from Cys, into the thiocarboxylate that provides the sulfur for thiazole biosynthesis.
Probab=20.49 E-value=1.6e+02 Score=19.31 Aligned_cols=29 Identities=24% Similarity=0.204 Sum_probs=23.1
Q ss_pred ccccHHHHHHhcCCCCCcEEEEEecCCCC
Q 030459 44 SGESTGPLAAYYKLPLNRVLVFHDDMGLP 72 (177)
Q Consensus 44 SG~~V~~~~~~~ki~~~~ilVihDdldl~ 72 (177)
+|.+|..+++.++++++.+.|.++.--++
T Consensus 12 ~~~tv~~ll~~l~~~~~~v~v~vN~~iv~ 40 (64)
T TIGR01683 12 DGLTLAALLESLGLDPRRVAVAVNGEIVP 40 (64)
T ss_pred CCCcHHHHHHHcCCCCCeEEEEECCEEcC
Confidence 35679999999999998888888776554
No 54
>COG1877 OtsB Trehalose-6-phosphatase [Carbohydrate transport and metabolism]
Probab=20.38 E-value=2.2e+02 Score=24.67 Aligned_cols=63 Identities=11% Similarity=0.153 Sum_probs=46.0
Q ss_pred CCeeEEEEecCcccccccccHHHHHHhcCCCCCcEEEEEecCCCCCceEEEecCCCCCCCCchhhHHHhhcCCCCcceEE
Q 030459 28 GDAPVLLAKPQTYMNLSGESTGPLAAYYKLPLNRVLVFHDDMGLPCGVLRLRHNGGHGGHNGLKSVMNNFRGNREFARLR 107 (177)
Q Consensus 28 ~~~~v~l~kP~TyMN~SG~~V~~~~~~~ki~~~~ilVihDdldl~~G~irlk~gGs~~GHNGlkSI~~~l~gt~~f~Rlr 107 (177)
.|+.++-++| +.-| .|.+++.+++...-...-.+..-||..=+ +...++ ...+-+.++
T Consensus 169 ~gk~vVEvrp-~~~~-KG~a~~~i~~~~~~~~~~~~~aGDD~TDE-------------------~~F~~v-~~~~~~~v~ 226 (266)
T COG1877 169 PGKMVVELRP-PGVS-KGAAIKYIMDELPFDGRFPIFAGDDLTDE-------------------DAFAAV-NKLDSITVK 226 (266)
T ss_pred eCceEEEEee-CCcc-hHHHHHHHHhcCCCCCCcceecCCCCccH-------------------HHHHhh-ccCCCceEE
Confidence 4678999999 7788 99999988776443322367777888665 557777 345578888
Q ss_pred EeecC
Q 030459 108 IGIGR 112 (177)
Q Consensus 108 IGIGr 112 (177)
+|.|.
T Consensus 227 v~~~~ 231 (266)
T COG1877 227 VGVGS 231 (266)
T ss_pred ecCCc
Confidence 88884
No 55
>PF07352 Phage_Mu_Gam: Bacteriophage Mu Gam like protein; InterPro: IPR009951 The Gam protein, originally characterised in Bacteriophage Mu, protects linear double stranded DNA from exonuclease degradation in vitro and in vivo []. This protein is also found in many bacterial species as part of a suspected prophage. Further studies have shown that Gam is a functional counterpart of the eukaryotic Ku protein, which has key roles in DNA repair and in certain transposition events. Gam displays DNA binding characteristics remarkably similar to those of human Ku []. In addition, Gam can interfere with Ty1 retrotransposition in Saccharomyces cerevisiae (Baker's yeast). These data reveal structural and functional parallels between bacteriophage Gam and eukaryotic Ku and suggest that their functions have been evolutionarily conserved [].; GO: 0003690 double-stranded DNA binding, 0042262 DNA protection; PDB: 2P2U_B.
Probab=20.33 E-value=48 Score=25.75 Aligned_cols=43 Identities=19% Similarity=0.324 Sum_probs=15.7
Q ss_pred cCCCCCceEEEecCCCCCCCCchhhHHHhhcC--CCCcceEEEee
Q 030459 68 DMGLPCGVLRLRHNGGHGGHNGLKSVMNNFRG--NREFARLRIGI 110 (177)
Q Consensus 68 dldl~~G~irlk~gGs~~GHNGlkSI~~~l~g--t~~f~RlrIGI 110 (177)
-+++|+|+|.+|.+-..--..+...+++.|.. -.+|+|++--|
T Consensus 71 s~~l~~G~v~~R~~~~~~~~~~~~~vl~~Lk~~gl~~~Ir~keev 115 (149)
T PF07352_consen 71 SLKLPFGTVGFRKSTPKVKVRDEEKVLEWLKENGLKEFIRTKEEV 115 (149)
T ss_dssp -EE-SS-EE-----------T-HHHHHHHHHHCT-GCC-------
T ss_pred EEEcCCeeEEEEecCCcccCCCHHHHHHHHHHcCchhhEEeeeec
Confidence 36799999999987754444599999999842 24676655433
No 56
>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=20.23 E-value=61 Score=26.31 Aligned_cols=27 Identities=30% Similarity=0.348 Sum_probs=23.6
Q ss_pred cccccHHHHHHhcCCCCCcEEEEEecC
Q 030459 43 LSGESTGPLAAYYKLPLNRVLVFHDDM 69 (177)
Q Consensus 43 ~SG~~V~~~~~~~ki~~~~ilVihDdl 69 (177)
.-|.+++.+++.+++++++++++-|+.
T Consensus 159 ~K~~al~~l~~~~g~~~~~~i~~GD~~ 185 (236)
T TIGR02471 159 SKGLALRYLSYRWGLPLEQILVAGDSG 185 (236)
T ss_pred ChHHHHHHHHHHhCCCHHHEEEEcCCc
Confidence 457788999999999999999999884
No 57
>PRK11544 hycI hydrogenase 3 maturation protease; Provisional
Probab=20.16 E-value=4.2e+02 Score=20.55 Aligned_cols=81 Identities=19% Similarity=0.254 Sum_probs=45.5
Q ss_pred cEEEEEec--CCCCCceEEEecC-------CCCCCCCchhhHHHhhcCCCCcceEEE-eecCCCCCCCccccccCcCCHH
Q 030459 61 RVLVFHDD--MGLPCGVLRLRHN-------GGHGGHNGLKSVMNNFRGNREFARLRI-GIGRPPGQMDPKAFLLQKFNAI 130 (177)
Q Consensus 61 ~ilVihDd--ldl~~G~irlk~g-------Gs~~GHNGlkSI~~~l~gt~~f~RlrI-GIGrp~~~~~v~~yVL~~f~~~ 130 (177)
+.+||-|= .+.++|.++.-.. +.+...-||..++..+.+ ..+++.+ ||- | . ++ +| =..+|++
T Consensus 56 d~vIiVDA~~~g~~PG~v~~~~~~~~~~~~~~s~H~~~l~~~l~~l~~--~~p~v~iigI~-~-~--~~-~~-g~~LS~~ 127 (156)
T PRK11544 56 ERLLIVDATDMGLNPGEIRIIDPDDIAEMFMMTTHNMPLNYLIDQLKE--DVPEVIFLGIQ-P-D--IV-GF-YYPMTQP 127 (156)
T ss_pred CEEEEEECCccCcCCCEEEEEchhhcccccCCCCCcCCHHHHHHHHhc--CCCcEEEEEEE-e-e--ec-cC-CCCCCHH
Confidence 55666674 5679999987321 123444489999988842 3345544 552 3 2 22 22 2355654
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcC
Q 030459 131 ARERIDTALQEGVEVLKLLLSKG 153 (177)
Q Consensus 131 E~~~l~~~i~~a~~~~~~~~~~~ 153 (177)
=+ +.++.+++.++.|..++
T Consensus 128 v~----~av~~~~~~l~~~~~~~ 146 (156)
T PRK11544 128 VK----DAVETVYQRLEGWEGNG 146 (156)
T ss_pred HH----HHHHHHHHHHHHhhccC
Confidence 44 44566677777776543
No 58
>PTZ00397 macrophage migration inhibition factor-like protein; Provisional
Probab=20.04 E-value=95 Score=22.77 Aligned_cols=21 Identities=29% Similarity=0.306 Sum_probs=17.3
Q ss_pred HHHhcCCCCCcEEEEEecCCC
Q 030459 51 LAAYYKLPLNRVLVFHDDMGL 71 (177)
Q Consensus 51 ~~~~~ki~~~~ilVihDdldl 71 (177)
+.+..+++++++.|...|++-
T Consensus 85 l~~~lgi~~~rv~I~f~~~~~ 105 (116)
T PTZ00397 85 LASHLKVKSERVYIEFKDCSA 105 (116)
T ss_pred HHHHhCcCcccEEEEEEECCh
Confidence 445689999999999998853
Done!