Query psy12962
Match_columns 75
No_of_seqs 111 out of 1008
Neff 6.7
Searched_HMMs 46136
Date Fri Aug 16 15:34:27 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12962.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12962hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06562 GH20_HexA_HexB-like Be 99.9 3.6E-22 7.9E-27 143.4 7.1 74 1-75 92-165 (348)
2 cd06570 GH20_chitobiase-like_1 99.9 1.1E-21 2.5E-26 139.7 6.9 73 1-75 90-163 (311)
3 cd06563 GH20_chitobiase-like T 99.8 3.1E-21 6.7E-26 138.8 7.6 74 1-75 108-181 (357)
4 KOG2499|consensus 99.8 2E-21 4.4E-26 144.8 3.5 71 1-75 272-342 (542)
5 cd02742 GH20_hexosaminidase Be 99.8 1.6E-20 3.4E-25 132.6 6.4 68 1-72 94-161 (303)
6 cd06568 GH20_SpHex_like A subg 99.8 9.3E-20 2E-24 130.5 7.2 72 1-73 97-168 (329)
7 cd06564 GH20_DspB_LnbB-like Gl 99.8 1.4E-19 3.1E-24 128.7 5.9 65 1-72 104-170 (326)
8 cd06569 GH20_Sm-chitobiase-lik 99.8 8E-19 1.7E-23 129.9 6.8 75 1-75 119-215 (445)
9 PF00728 Glyco_hydro_20: Glyco 99.8 7.6E-20 1.6E-24 129.2 0.8 75 1-75 95-172 (351)
10 cd06565 GH20_GcnA-like Glycosy 99.6 8.9E-16 1.9E-20 108.6 7.0 63 1-72 82-144 (301)
11 COG3525 Chb N-acetyl-beta-hexo 99.5 1.4E-14 3.1E-19 111.4 5.6 75 1-75 368-442 (732)
12 PF02638 DUF187: Glycosyl hydr 82.2 2.5 5.5E-05 30.2 4.0 26 34-59 129-154 (311)
13 PF07931 CPT: Chloramphenicol 78.1 1.7 3.6E-05 28.9 1.8 22 49-70 16-37 (174)
14 PF13200 DUF4015: Putative gly 77.1 4.1 8.9E-05 29.7 3.7 24 34-57 113-136 (316)
15 KOG0673|consensus 77.0 3.3 7.3E-05 29.6 3.2 32 38-69 204-235 (293)
16 PRK13821 thyA thymidylate synt 75.6 2.1 4.5E-05 31.4 1.9 31 38-68 223-253 (323)
17 COG1336 CRISPR system related 71.0 4.3 9.3E-05 29.5 2.6 24 48-71 262-285 (298)
18 TIGR03284 thym_sym thymidylate 70.5 3.4 7.3E-05 30.0 1.9 31 38-68 207-237 (296)
19 PRK01827 thyA thymidylate synt 62.1 5.9 0.00013 28.2 1.8 31 38-68 175-205 (264)
20 COG0207 ThyA Thymidylate synth 61.5 7.5 0.00016 27.9 2.3 31 38-68 179-209 (268)
21 PTZ00164 bifunctional dihydrof 59.2 8.1 0.00018 29.9 2.3 31 38-68 425-455 (514)
22 PRK14582 pgaB outer membrane N 50.7 30 0.00065 27.8 4.2 27 33-59 432-458 (671)
23 PF06992 Phage_lambda_P: Repli 47.5 37 0.00079 23.9 3.8 22 39-60 32-53 (233)
24 PF14871 GHL6: Hypothetical gl 46.2 74 0.0016 20.0 5.1 51 8-59 72-124 (132)
25 cd02067 B12-binding B12 bindin 45.4 37 0.00081 20.2 3.3 33 36-68 56-89 (119)
26 PF02845 CUE: CUE domain; Int 43.3 25 0.00053 17.6 1.9 13 48-60 2-14 (42)
27 PF00390 malic: Malic enzyme, 42.0 45 0.00098 22.6 3.5 29 37-65 137-166 (182)
28 PF00031 Cystatin: Cystatin do 41.8 66 0.0014 18.2 4.1 29 34-62 4-32 (94)
29 PRK02733 photosystem I reactio 40.6 30 0.00065 18.1 2.0 21 44-64 19-39 (42)
30 CHL00105 psaJ photosystem I su 40.3 33 0.00072 18.0 2.1 21 44-64 19-39 (42)
31 cd00351 TS_Pyrimidine_HMase Th 39.9 19 0.00041 24.5 1.5 31 38-68 173-203 (215)
32 COG4749 Uncharacterized protei 38.9 38 0.00083 23.0 2.7 22 34-55 24-45 (196)
33 smart00546 CUE Domain that may 36.9 35 0.00075 17.0 1.9 13 48-60 3-15 (43)
34 TIGR03283 thy_syn_methano thym 36.1 29 0.00063 23.5 1.9 31 38-68 158-188 (199)
35 COG2199 c-di-GMP synthetase (d 35.1 56 0.0012 20.4 3.0 24 48-71 75-104 (181)
36 PTZ00196 60S ribosomal protein 34.1 29 0.00063 21.4 1.5 18 42-59 33-50 (98)
37 TIGR02580 cas_RAMP_Cmr4 CRISPR 34.0 46 0.001 23.7 2.7 23 50-72 252-275 (280)
38 cd00405 PRAI Phosphoribosylant 33.7 52 0.0011 21.6 2.8 17 53-69 67-83 (203)
39 COG1088 RfbB dTDP-D-glucose 4, 32.9 37 0.00081 25.2 2.1 23 51-73 109-132 (340)
40 PF00059 Lectin_C: Lectin C-ty 32.9 59 0.0013 17.8 2.6 28 35-68 19-46 (105)
41 PF08511 COQ9: COQ9; InterPro 32.8 39 0.00084 19.7 1.8 21 37-57 54-74 (79)
42 PRK02289 4-oxalocrotonate taut 31.8 64 0.0014 17.2 2.5 37 39-75 13-51 (60)
43 PF09418 DUF2009: Protein of u 31.2 79 0.0017 24.5 3.6 33 40-72 312-348 (458)
44 cd07556 Nucleotidyl_cyc_III Cl 30.3 88 0.0019 17.8 3.2 25 46-70 27-54 (133)
45 PF02262 Cbl_N: CBL proto-onco 30.1 42 0.00091 21.7 1.8 17 46-62 111-128 (130)
46 PRK00956 thyA thymidylate synt 29.8 42 0.00091 22.8 1.9 31 38-68 161-191 (208)
47 PF14883 GHL13: Hypothetical g 28.7 73 0.0016 23.2 3.0 32 33-64 110-143 (294)
48 PF01158 Ribosomal_L36e: Ribos 28.1 46 0.00099 20.4 1.6 17 43-59 34-50 (98)
49 cd00227 CPT Chloramphenicol (C 27.5 54 0.0012 20.8 2.0 22 49-70 17-38 (175)
50 COG0825 AccA Acetyl-CoA carbox 27.5 73 0.0016 23.5 2.8 26 36-61 64-89 (317)
51 PF02065 Melibiase: Melibiase; 27.3 1E+02 0.0022 23.1 3.6 29 35-63 159-187 (394)
52 PF15133 DUF4569: Domain of un 26.9 27 0.00059 25.6 0.5 11 62-72 132-142 (306)
53 COG3618 Predicted metal-depend 26.7 97 0.0021 22.4 3.3 33 36-68 203-236 (279)
54 KOG3452|consensus 26.0 52 0.0011 20.4 1.6 18 42-59 35-52 (102)
55 cd06593 GH31_xylosidase_YicI Y 25.6 97 0.0021 21.7 3.2 23 34-56 125-147 (308)
56 cd07395 MPP_CSTP1 Homo sapiens 25.4 1.3E+02 0.0027 20.3 3.6 33 40-72 29-62 (262)
57 cd06808 PLPDE_III Type III Pyr 24.8 1.4E+02 0.0031 19.0 3.6 24 45-68 166-190 (211)
58 COG2924 Uncharacterized protei 24.7 1.3E+02 0.0028 18.1 3.1 32 34-67 53-84 (90)
59 PF06198 DUF999: Protein of un 24.6 93 0.002 19.9 2.6 26 35-60 47-72 (143)
60 COG5470 Uncharacterized conser 23.9 1.6E+02 0.0034 18.1 3.4 35 34-68 8-42 (96)
61 COG5051 RPL36A Ribosomal prote 23.7 51 0.0011 20.1 1.2 22 34-59 31-52 (97)
62 cd06592 GH31_glucosidase_KIAA1 23.2 99 0.0021 21.8 2.8 22 34-55 130-151 (303)
63 TIGR02848 spore_III_AC stage I 23.2 98 0.0021 17.6 2.3 17 43-59 47-63 (64)
64 PRK04217 hypothetical protein; 23.1 1.1E+02 0.0024 18.9 2.7 39 35-73 67-108 (110)
65 PF03956 DUF340: Membrane prot 22.1 82 0.0018 21.2 2.1 19 40-58 111-129 (191)
66 PRK09894 diguanylate cyclase; 22.1 1E+02 0.0023 20.7 2.7 26 45-70 179-210 (296)
67 COG4496 Uncharacterized protei 22.0 88 0.0019 19.2 2.1 18 39-56 23-42 (100)
68 PF08477 Miro: Miro-like prote 21.8 1.2E+02 0.0025 17.4 2.6 24 35-58 80-103 (119)
69 TIGR02396 diverge_rpsU rpsU-di 20.4 1.2E+02 0.0026 20.1 2.7 21 37-57 157-177 (184)
70 PF06162 DUF976: Caenorhabditi 20.3 1.3E+02 0.0029 20.1 2.8 33 38-70 61-93 (166)
71 cd02071 MM_CoA_mut_B12_BD meth 20.2 2.1E+02 0.0046 17.2 3.8 33 36-68 56-89 (122)
No 1
>cd06562 GH20_HexA_HexB-like Beta-N-acetylhexosaminidases catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides. The hexA and hexB genes encode the alpha- and beta-subunits of the two major beta-N-acetylhexosaminidase isoenzymes, N-acetyl-beta-D-hexosaminidase A (HexA) and beta-N-acetylhexosaminidase B (HexB). Both the alpha and the beta catalytic subunits have a TIM-barrel fold and belong to the glycosyl hydrolase family 20 (GH20). The HexA enzyme is a heterodimer containing one alpha and one beta subunit while the HexB enzyme is a homodimer containing two beta-subunits. Hexosaminidase mutations cause an inability to properly hydrolyze certain sphingolipids which accumulate in lysosomes within the brain, resulting in the lipid storage disorders Tay-Sachs and Sandhoff. Mutations in the alpha subunit cause in a deficiency in the HexA enzyme and result in
Probab=99.87 E-value=3.6e-22 Score=143.43 Aligned_cols=74 Identities=39% Similarity=0.798 Sum_probs=61.9
Q ss_pred CchhHHHHHHhCCCCcccccccCCCCCCCcccccccCCCChhHHHHHHHHHHHHHhhcCCCcEEecCCCCCCCCC
Q psy12962 1 MSWHVWSWGYGNPNLLCKINITIPDLNTTQEYWGPIDPTKSSSYDFVRDLFTEVRSVFHDEFLHTGGDEVDFYCW 75 (75)
Q Consensus 1 ~PGH~~a~~~a~P~l~~~~~~~~~~~~~~~~~~~~l~~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgDEv~~~cW 75 (75)
||||+.||+++||+|.+.|.+.. .........++|||.+++||+|+++|++|++++||++||||||||+...||
T Consensus 92 ~PGH~~a~~~~~p~l~~~~~~~~-~~~~~~~~~~~L~~~~~~t~~fl~~vl~E~~~lF~~~~iHiGgDE~~~~~w 165 (348)
T cd06562 92 TPGHTGSWGQGYPELLTGCYAVW-RKYCPEPPCGQLNPTNPKTYDFLKTLFKEVSELFPDKYFHLGGDEVNFNCW 165 (348)
T ss_pred CchhhHHHHHhChhhhCCCCccc-cccccCCCCccccCCChhHHHHHHHHHHHHHHhcCCcceEeecCCCCCCcc
Confidence 79999999999999988665210 000112234789999999999999999999999999999999999999998
No 2
>cd06570 GH20_chitobiase-like_1 A functionally uncharacterized subgroup of the Glycosyl hydrolase family 20 (GH20) catalytic domain found in proteins similar to the chitobiase of Serratia marcescens, a beta-N-1,4-acetylhexosaminidase that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a chitinase hydrolyzes the chitin to oligosaccharides and disaccharides such as di-N-acetyl-D-glucosamine and chitobiose, ii) chitobiase then further degrades these oligomers into monomers. This subgroup lacks the C-terminal PKD (polycystic kidney disease I)-like domain found in the chitobiases. The GH20 hexosaminidases are thought to act via a catalytic mechanism in which the catalytic nucleophile is not provided by solvent or the enzyme, but by the substrate itself.
Probab=99.85 E-value=1.1e-21 Score=139.65 Aligned_cols=73 Identities=30% Similarity=0.498 Sum_probs=60.6
Q ss_pred CchhHHHHHHhCCCCcccccccCCCCCCCccc-ccccCCCChhHHHHHHHHHHHHHhhcCCCcEEecCCCCCCCCC
Q psy12962 1 MSWHVWSWGYGNPNLLCKINITIPDLNTTQEY-WGPIDPTKSSSYDFVRDLFTEVRSVFHDEFLHTGGDEVDFYCW 75 (75)
Q Consensus 1 ~PGH~~a~~~a~P~l~~~~~~~~~~~~~~~~~-~~~l~~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgDEv~~~cW 75 (75)
||||+.+|+++||+|.+.|...... ..++. ..+|||++|+||+|+++|++|++++||++||||||||++..||
T Consensus 90 ~PGH~~a~~~~ypel~~~~~~~~~~--~~~~~~~~~l~~~~p~t~~f~~~l~~E~~~lF~~~~iHiGgDE~~~~~W 163 (311)
T cd06570 90 VPGHASAIAVAYPELASGPGPYVIE--RGWGVFEPLLDPTNEETYTFLDNLFGEMAELFPDEYFHIGGDEVDPKQW 163 (311)
T ss_pred CccchHHHHHhCHHhccCCCccccc--cccccCCCccCCCChhHHHHHHHHHHHHHHhCCCCceEeeccCCCCCcc
Confidence 7999999999999998755411110 11221 2479999999999999999999999999999999999999998
No 3
>cd06563 GH20_chitobiase-like The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a chitinase hydrolyzes the chitin to oligosaccharides and disaccharides such as di-N-acetyl-D-glucosamine and chitobiose, ii) chitobiase then further degrades these oligomers into monomers. This GH20 domain family includes an N-acetylglucosamidase (GlcNAcase A) from Pseudoalteromonas piscicida and an N-acetylhexosaminidase (SpHex) from Streptomyces plicatus. SpHex lacks the C-terminal PKD (polycystic kidney disease I)-like domain found in the chitobiases. The GH20 hexosaminidases are thought to act via a catalytic mechanism in which the catalytic nucleophile is not provided by solvent or the enzyme, but by the substrate itself.
Probab=99.85 E-value=3.1e-21 Score=138.80 Aligned_cols=74 Identities=27% Similarity=0.379 Sum_probs=60.8
Q ss_pred CchhHHHHHHhCCCCcccccccCCCCCCCcccccccCCCChhHHHHHHHHHHHHHhhcCCCcEEecCCCCCCCCC
Q psy12962 1 MSWHVWSWGYGNPNLLCKINITIPDLNTTQEYWGPIDPTKSSSYDFVRDLFTEVRSVFHDEFLHTGGDEVDFYCW 75 (75)
Q Consensus 1 ~PGH~~a~~~a~P~l~~~~~~~~~~~~~~~~~~~~l~~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgDEv~~~cW 75 (75)
||||+.+|+++||+|.+.+....+.. ......++|||.+++||+|+++|++|++++||++||||||||+...||
T Consensus 108 ~PGH~~a~l~~~pel~~~~~~~~~~~-~~~~~~~~L~~~~~~t~~f~~~ll~E~~~lF~~~~iHiGgDE~~~~~w 181 (357)
T cd06563 108 MPGHALAALAAYPELGCTGGPGSVVS-VQGVVSNVLCPGKPETYTFLEDVLDEVAELFPSPYIHIGGDEVPKGQW 181 (357)
T ss_pred CchhHHHHHHhCccccCCCCCCcccc-ccCcCCCccCCCChhHHHHHHHHHHHHHHhCCCCeEEEeccccCCccc
Confidence 79999999999999987554111100 111223689999999999999999999999999999999999999998
No 4
>KOG2499|consensus
Probab=99.83 E-value=2e-21 Score=144.76 Aligned_cols=71 Identities=41% Similarity=0.811 Sum_probs=65.3
Q ss_pred CchhHHHHHHhCCCCcccccccCCCCCCCcccccccCCCChhHHHHHHHHHHHHHhhcCCCcEEecCCCCCCCCC
Q psy12962 1 MSWHVWSWGYGNPNLLCKINITIPDLNTTQEYWGPIDPTKSSSYDFVRDLFTEVRSVFHDEFLHTGGDEVDFYCW 75 (75)
Q Consensus 1 ~PGH~~a~~~a~P~l~~~~~~~~~~~~~~~~~~~~l~~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgDEv~~~cW 75 (75)
+|||+.+|+.++|+|...|. ...+..+.+|+|||.++.||+|++++|.||.+.||+++||+|||||...||
T Consensus 272 ~PgHt~sWg~g~~~fl~p~~----~~~~~~~~~gplnP~~n~tydvls~i~~dv~evFp~~~~HlGGDEV~~~CW 342 (542)
T KOG2499|consen 272 TPGHTGSWGPGYPDFLTPCW----SSFEVQPPFGPLNPTNNHTYDVLSEIFEDVSEVFPDEFFHLGGDEVSTPCW 342 (542)
T ss_pred CCcccccccCCCCcccCCcc----cccccCCCCcCCCCCchhHHHHHHHHHHHHHHhCcHHHeecCCceeecccc
Confidence 59999999999999988888 444445667999999999999999999999999999999999999999999
No 5
>cd02742 GH20_hexosaminidase Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides. These enzymes are broadly distributed in microorganisms, plants and animals, and play roles in various key physiological and pathological processes. These processes include cell structural integrity, energy storage, cellular signaling, fertilization, pathogen defense, viral penetration, the development of carcinomas, inflammatory events and lysosomal storage disorders. The GH20 enzymes include the eukaryotic beta-N-acetylhexosaminidases A and B, the bacterial chitobiases, dispersin B, and lacto-N-biosidase. The GH20 hexosaminidases are thought to act via a catalytic mechanism in which the catalytic nucleophile is not provided by the solvent or the enzyme, but by the substrate itself.
Probab=99.82 E-value=1.6e-20 Score=132.64 Aligned_cols=68 Identities=37% Similarity=0.652 Sum_probs=58.4
Q ss_pred CchhHHHHHHhCCCCcccccccCCCCCCCcccccccCCCChhHHHHHHHHHHHHHhhcCCCcEEecCCCCCC
Q psy12962 1 MSWHVWSWGYGNPNLLCKINITIPDLNTTQEYWGPIDPTKSSSYDFVRDLFTEVRSVFHDEFLHTGGDEVDF 72 (75)
Q Consensus 1 ~PGH~~a~~~a~P~l~~~~~~~~~~~~~~~~~~~~l~~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgDEv~~ 72 (75)
||||+.+|+++||++.+.|.. ........++|||.+++||+|+++|++|++++||++||||||||+..
T Consensus 94 ~PGH~~a~~~~~p~l~~~~~~----~~~~~~~~~~l~~~~~~t~~fl~~l~~e~~~lf~~~~iHiGgDE~~~ 161 (303)
T cd02742 94 MPGHSTAFVKSFPKLLTECYA----GLKLRDVFDPLDPTLPKGYDFLDDLFGEIAELFPDRYLHIGGDEAHF 161 (303)
T ss_pred chHHHHHHHHhCHHhccCccc----cCCCCCCCCccCCCCccHHHHHHHHHHHHHHhCCCCeEEecceecCC
Confidence 799999999999999987762 21111233789999999999999999999999999999999999974
No 6
>cd06568 GH20_SpHex_like A subgroup of the Glycosyl hydrolase family 20 (GH20) catalytic domain found in proteins similar to the N-acetylhexosaminidase from Streptomyces plicatus (SpHex). SpHex catalyzes the hydrolysis of N-acetyl-beta-hexosaminides. An Asp residue within the active site plays a critical role in substrate-assisted catalysis by orienting the 2-acetamido group and stabilizing the transition state. The GH20 hexosaminidases are thought to act via a catalytic mechanism in which the catalytic nucleophile is not provided by solvent or the enzyme, but by the substrate itself. Proteins belonging to this subgroup lack the C-terminal PKD (polycystic kidney disease I)-like domain found in the chitobiases.
Probab=99.80 E-value=9.3e-20 Score=130.45 Aligned_cols=72 Identities=26% Similarity=0.424 Sum_probs=57.3
Q ss_pred CchhHHHHHHhCCCCcccccccCCCCCCCcccccccCCCChhHHHHHHHHHHHHHhhcCCCcEEecCCCCCCC
Q psy12962 1 MSWHVWSWGYGNPNLLCKINITIPDLNTTQEYWGPIDPTKSSSYDFVRDLFTEVRSVFHDEFLHTGGDEVDFY 73 (75)
Q Consensus 1 ~PGH~~a~~~a~P~l~~~~~~~~~~~~~~~~~~~~l~~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgDEv~~~ 73 (75)
||||+.||+++||+|.+.+.. .+........+++|||++++||+|+++|++|++++||++||||||||+...
T Consensus 97 ~PGH~~a~~~~~p~l~~~~~~-~~~~~~~~~~~~~l~~~~~~t~~fl~~v~~E~~~~f~~~~iHiGgDE~~~~ 168 (329)
T cd06568 97 MPGHTNAALAAYPELNCDGKA-KPLYTGIEVGFSSLDVDKPTTYEFVDDVFRELAALTPGPYIHIGGDEAHST 168 (329)
T ss_pred CcHHHHHHHHhChhhccCCCC-CccccccCCCCcccCCCCHHHHHHHHHHHHHHHHhCCCCeEEEecccCCCC
Confidence 799999999999999763321 111111112247899999999999999999999999999999999999864
No 7
>cd06564 GH20_DspB_LnbB-like Glycosyl hydrolase family 20 (GH20) catalytic domain of dispersin B (DspB), lacto-N-biosidase (LnbB) and related proteins. Dispersin B is a soluble beta-N-acetylglucosamidase found in bacteria that hydrolyzes the beta-1,6-linkages of PGA (poly-beta-(1,6)-N-acetylglucosamine), a major component of the extracellular polysaccharide matrix. Lacto-N-biosidase hydrolyzes lacto-N-biose (LNB) type I oligosaccharides at the nonreducing terminus to produce lacto-N-biose as part of the GNB/LNB (galacto-N-biose/lacto-N-biose I) degradation pathway. The lacto-N-biosidase from Bifidobacterium bifidum has this GH20 domain, a carbohydrate binding module 32, and a bacterial immunoglobulin-like domain 2, as well as a YSIRK signal peptide and a G5 membrane anchor at the N and C termini, respectively. The GH20 hexosaminidases are thought to act via a catalytic mechanism in which the catalytic nucleophile is not provided by solvent or the enzyme, but by the substrate itself.
Probab=99.79 E-value=1.4e-19 Score=128.73 Aligned_cols=65 Identities=23% Similarity=0.268 Sum_probs=56.8
Q ss_pred CchhHHHHHHhCCCCcccccccCCCCCCCcccccccCCCChhHHHHHHHHHHHHHhhcC--CCcEEecCCCCCC
Q psy12962 1 MSWHVWSWGYGNPNLLCKINITIPDLNTTQEYWGPIDPTKSSSYDFVRDLFTEVRSVFH--DEFLHTGGDEVDF 72 (75)
Q Consensus 1 ~PGH~~a~~~a~P~l~~~~~~~~~~~~~~~~~~~~l~~~~~~t~~f~~~v~~ev~~lf~--~~~~H~GgDEv~~ 72 (75)
||||+.+|+++||+|.+.|. ..+...++|||.+++|++|+++|++|++++|+ ++||||||||+..
T Consensus 104 ~PGH~~a~~~~~pel~~~~~-------~~~~~~~~l~~~~~~t~~f~~~l~~E~~~~f~~~~~~~HiGgDE~~~ 170 (326)
T cd06564 104 SPGHSLAFTKAMPELGLKNP-------FSKYDKDTLDISNPEAVKFVKALFDEYLDGFNPKSDTVHIGADEYAG 170 (326)
T ss_pred CcHHHHHHHHhhHHhcCCCc-------ccCCCcccccCCCHHHHHHHHHHHHHHHHhcCCCCCEEEeccccccc
Confidence 79999999999999987443 11233479999999999999999999999999 9999999999975
No 8
>cd06569 GH20_Sm-chitobiase-like The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a chitinase hydrolyzes the chitin to oligosaccharides and disaccharides such as di-N-acetyl-D-glucosamine and chitobiose, ii) chitobiase then further degrades these oligomers into monomers. The GH20 hexosaminidases are thought to act via a catalytic mechanism in which the catalytic nucleophile is not provided by solvent or the enzyme, but by the substrate itself.
Probab=99.77 E-value=8e-19 Score=129.94 Aligned_cols=75 Identities=25% Similarity=0.269 Sum_probs=57.8
Q ss_pred CchhHHHHHHh----CCCCcccccccC--------CCC----CCCcc-cccccCCCChhHHHHHHHHHHHHHhhc-----
Q psy12962 1 MSWHVWSWGYG----NPNLLCKINITI--------PDL----NTTQE-YWGPIDPTKSSSYDFVRDLFTEVRSVF----- 58 (75)
Q Consensus 1 ~PGH~~a~~~a----~P~l~~~~~~~~--------~~~----~~~~~-~~~~l~~~~~~t~~f~~~v~~ev~~lf----- 58 (75)
||||+.||+++ ||+|.+.+.... +.. ....+ ..++|||.+++||+|+++||+||+++|
T Consensus 119 ~PGH~~a~l~a~~~~yp~l~~~g~~~~~~~~~~~d~~~~~~~~~~~~~~~~~L~p~~~~ty~fl~~vl~Ev~~lF~~~g~ 198 (445)
T cd06569 119 MPGHARAAIKAMEARYRKLMAAGKPAEAEEYRLSDPADTSQYLSVQFYTDNVINPCMPSTYRFVDKVIDEIARMHQEAGQ 198 (445)
T ss_pred CchhHHHHHHhhhccchhhhccCCccccccccccCcccccccccccccccccccCCchhHHHHHHHHHHHHHHHHhccCC
Confidence 79999999987 899876332100 000 00011 126899999999999999999999999
Q ss_pred CCCcEEecCCCCCCCCC
Q psy12962 59 HDEFLHTGGDEVDFYCW 75 (75)
Q Consensus 59 ~~~~~H~GgDEv~~~cW 75 (75)
|++||||||||++..||
T Consensus 199 P~~yiHiGGDEv~~~~W 215 (445)
T cd06569 199 PLTTIHFGGDEVPEGAW 215 (445)
T ss_pred CcceEEEeccccCCCcc
Confidence 67999999999999998
No 9
>PF00728 Glyco_hydro_20: Glycosyl hydrolase family 20, catalytic domain; InterPro: IPR015883 Glycoside hydrolase family 20 GH20 from CAZY comprises enzymes with several known activities; beta-hexosaminidase (3.2.1.52 from EC); lacto-N-biosidase (3.2.1.140 from EC). Carbonyl oxygen of the C-2 acetamido group of the substrate acts as the catalytic nucleophile/base in this family of enzymes. In the brain and other tissues, beta-hexosaminidase A degrades GM2 gangliosides; specifically, the enzyme hydrolyses terminal non-reducing N-acetyl-D-hexosamine residues in N-acetyl-beta-D-hexosaminides. There are 3 forms of beta-hexosaminidase: hexosaminidase A is a trimer, with one alpha, one beta-A and one beta-B chain; hexosaminidase B is a tetramer of two beta-A and two beta-B chains; and hexosaminidase S is a homodimer of alpha chains. The two beta chains are derived from the cleavage of a precursor. Mutations in the beta-chain lead to Sandhoff disease, a lysosomal storage disorder characterised by accumulation of GM2 ganglioside [].; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds; PDB: 3RPM_A 1C7T_A 1QBA_A 1QBB_A 1C7S_A 3RCN_A 2YL8_A 2YL6_A 2YLL_A 2YL5_C ....
Probab=99.76 E-value=7.6e-20 Score=129.17 Aligned_cols=75 Identities=32% Similarity=0.697 Sum_probs=55.5
Q ss_pred CchhHHHHHHhCCCCcccc-c-ccC-CCCCCCcccccccCCCChhHHHHHHHHHHHHHhhcCCCcEEecCCCCCCCCC
Q psy12962 1 MSWHVWSWGYGNPNLLCKI-N-ITI-PDLNTTQEYWGPIDPTKSSSYDFVRDLFTEVRSVFHDEFLHTGGDEVDFYCW 75 (75)
Q Consensus 1 ~PGH~~a~~~a~P~l~~~~-~-~~~-~~~~~~~~~~~~l~~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgDEv~~~cW 75 (75)
+|||+.+|++++|++...+ . +.. +.........++|||.+++|++|+++|++||+++|+++||||||||++..||
T Consensus 95 ~PGH~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~t~~~~~~l~~e~~~~f~~~~iHiGgDEv~~~~~ 172 (351)
T PF00728_consen 95 TPGHAEAWLKAYPELGCSAWPEDKSWPNSTCWYPDNGVLDPSNPETYEFLKDLLDEVADLFPSKYIHIGGDEVNYNCW 172 (351)
T ss_dssp ESSS-HHHHHHHHHHCCCHTTCSSSCEEEETTSEEEEEE-TTSHHHHHHHHHHHHHHHHHHTSSEEEEE-TSTTTHHH
T ss_pred CchHHHHHHHhCchhhccccccccccccccccCCCcccCCCCcHHHHHHHHHHHHHHHhhCCCCeEEeCCcccccccc
Confidence 6999999999999997641 1 000 0000111122589999999999999999999999999999999999998887
No 10
>cd06565 GH20_GcnA-like Glycosyl hydrolase family 20 (GH20) catalytic domain of N-acetyl-beta-D-glucosaminidase (GcnA, also known as BhsA) and related proteins. GcnA is an exoglucosidase which cleaves N-acetyl-beta-D-galactosamine (NAG) and N-acetyl-beta-D-galactosamine residues from 4-methylumbelliferylated (4MU) substrates, as well as cleaving NAG from chito-oligosaccharides (i.e. NAG polymers). In contrast, sulfated forms of the substrate are unable to be cleaved and act instead as mild competitive inhibitors. Additionally, the enzyme is known to be poisoned by several first-row transition metals as well as by mercury. GcnA forms a homodimer with subunits comprised of three domains, an N-terminal zincin-like domain, this central catalytic GH20 domain, and a C-terminal alpha helical domain. The GH20 hexosaminidases are thought to act via a catalytic mechanism in which the catalytic nucleophile is not provided by solvent or the enzyme, but by the substrate itself.
Probab=99.63 E-value=8.9e-16 Score=108.64 Aligned_cols=63 Identities=17% Similarity=0.192 Sum_probs=52.2
Q ss_pred CchhHHHHHHhCCCCcccccccCCCCCCCcccccccCCCChhHHHHHHHHHHHHHhhcCCCcEEecCCCCCC
Q psy12962 1 MSWHVWSWGYGNPNLLCKINITIPDLNTTQEYWGPIDPTKSSSYDFVRDLFTEVRSVFHDEFLHTGGDEVDF 72 (75)
Q Consensus 1 ~PGH~~a~~~a~P~l~~~~~~~~~~~~~~~~~~~~l~~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgDEv~~ 72 (75)
+|||+.+|++. |++..-|. .. ...++|||.+++|++|+++|++|++++|+++||||||||+..
T Consensus 82 ~pGH~~~~l~~-~~~~~l~~----~~----~~~~~l~~~~~~t~~fi~~li~ev~~~f~s~~~HIG~DE~~~ 144 (301)
T cd06565 82 TLGHLEFILKH-PEFRHLRE----VD----DPPQTLCPGEPKTYDFIEEMIRQVLELHPSKYIHIGMDEAYD 144 (301)
T ss_pred CHHHHHHHHhC-cccccccc----cC----CCCCccCCCChhHHHHHHHHHHHHHHhCCCCeEEECCCcccc
Confidence 69999999974 66654332 11 113789999999999999999999999999999999999975
No 11
>COG3525 Chb N-acetyl-beta-hexosaminidase [Carbohydrate transport and metabolism]
Probab=99.52 E-value=1.4e-14 Score=111.42 Aligned_cols=75 Identities=23% Similarity=0.264 Sum_probs=58.0
Q ss_pred CchhHHHHHHhCCCCcccccccCCCCCCCcccccccCCCChhHHHHHHHHHHHHHhhcCCCcEEecCCCCCCCCC
Q psy12962 1 MSWHVWSWGYGNPNLLCKINITIPDLNTTQEYWGPIDPTKSSSYDFVRDLFTEVRSVFHDEFLHTGGDEVDFYCW 75 (75)
Q Consensus 1 ~PGH~~a~~~a~P~l~~~~~~~~~~~~~~~~~~~~l~~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgDEv~~~cW 75 (75)
||||++|...++|++...-..+.+.....+.....|+|+.+-+++|+++|++||+++||+.+||+||||+....|
T Consensus 368 ~PgHa~aav~A~p~~~l~~a~~ds~~sv~~~~n~~ln~tl~~t~~fldkv~dEv~~lfPs~~iHiGgDE~~~~qw 442 (732)
T COG3525 368 MPGHARAAVVAYPDLNLGRADPDSYDSVQAYLNPVLNPTLDPTYQFLDKVLDEVADLFPSTTIHIGGDEFIDGQW 442 (732)
T ss_pred CcchhhhhhhhCccccccccCCCcchhhhhcccccccccccHHHHHHHHHHHHHHHhCCcceEEeccchhccCee
Confidence 799999999999976542111111111122222479999999999999999999999999999999999998877
No 12
>PF02638 DUF187: Glycosyl hydrolase like GH101; InterPro: IPR003790 This entry describes proteins of unknown function.
Probab=82.16 E-value=2.5 Score=30.25 Aligned_cols=26 Identities=15% Similarity=0.350 Sum_probs=23.3
Q ss_pred cccCCCChhHHHHHHHHHHHHHhhcC
Q psy12962 34 GPIDPTKSSSYDFVRDLFTEVRSVFH 59 (75)
Q Consensus 34 ~~l~~~~~~t~~f~~~v~~ev~~lf~ 59 (75)
..|||.+|++.+|+.+++.||.+-.+
T Consensus 129 ~~lnP~~PeVr~~i~~~v~Eiv~~Yd 154 (311)
T PF02638_consen 129 YWLNPGHPEVRDYIIDIVKEIVKNYD 154 (311)
T ss_pred eEECCCCHHHHHHHHHHHHHHHhcCC
Confidence 46999999999999999999997555
No 13
>PF07931 CPT: Chloramphenicol phosphotransferase-like protein; InterPro: IPR012853 The members of this family are all similar to chloramphenicol 3-O phosphotransferase (CPT, Q56148 from SWISSPROT) expressed by Streptomyces venezuelae. Chloramphenicol (Cm) is a metabolite produced by this bacterium that can inhibit ribosomal peptidyl transferase activity and therefore protein production. By transferring a phosphate group to the C-3 hydroxyl group of Cm, CPT inactivates this potentially lethal metabolite [, ]. ; GO: 0005524 ATP binding, 0016740 transferase activity; PDB: 1QHX_A 1QHN_A 1GRR_A 1QHY_A 1QHS_A 1GRQ_A.
Probab=78.13 E-value=1.7 Score=28.91 Aligned_cols=22 Identities=14% Similarity=0.297 Sum_probs=18.3
Q ss_pred HHHHHHHhhcCCCcEEecCCCC
Q psy12962 49 DLFTEVRSVFHDEFLHTGGDEV 70 (75)
Q Consensus 49 ~v~~ev~~lf~~~~~H~GgDEv 70 (75)
+|-+++.+.|+.+|+|+|.|.+
T Consensus 16 sia~~Lq~~~~~p~~~l~~D~f 37 (174)
T PF07931_consen 16 SIARALQERLPEPWLHLSVDTF 37 (174)
T ss_dssp HHHHHHHHHSSS-EEEEEHHHH
T ss_pred HHHHHHHHhCcCCeEEEecChH
Confidence 6778889999999999999864
No 14
>PF13200 DUF4015: Putative glycosyl hydrolase domain
Probab=77.12 E-value=4.1 Score=29.65 Aligned_cols=24 Identities=17% Similarity=0.355 Sum_probs=22.0
Q ss_pred cccCCCChhHHHHHHHHHHHHHhh
Q psy12962 34 GPIDPTKSSSYDFVRDLFTEVRSV 57 (75)
Q Consensus 34 ~~l~~~~~~t~~f~~~v~~ev~~l 57 (75)
..+||.+++++++.-+|-.|++++
T Consensus 113 ~WvnP~~~evw~Y~i~IA~Eaa~~ 136 (316)
T PF13200_consen 113 AWVNPYSKEVWDYNIDIAKEAAKL 136 (316)
T ss_pred ccCCCCCHHHHHHHHHHHHHHHHc
Confidence 479999999999999999999974
No 15
>KOG0673|consensus
Probab=77.00 E-value=3.3 Score=29.59 Aligned_cols=32 Identities=25% Similarity=0.477 Sum_probs=28.6
Q ss_pred CCChhHHHHHHHHHHHHHhhcCCCcEEecCCC
Q psy12962 38 PTKSSSYDFVRDLFTEVRSVFHDEFLHTGGDE 69 (75)
Q Consensus 38 ~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgDE 69 (75)
|-|-.+|.++.-++.-|..+-|+.|+|+=||-
T Consensus 204 PFnIASYsLLT~miAhv~gl~pgdfiH~lGda 235 (293)
T KOG0673|consen 204 PFNIASYSLLTCMIAHVCGLKPGDFIHVLGDA 235 (293)
T ss_pred cchhHHHHHHHHHHHHHhCCCCCceEEecchh
Confidence 44556999999999999999999999999985
No 16
>PRK13821 thyA thymidylate synthase; Provisional
Probab=75.58 E-value=2.1 Score=31.42 Aligned_cols=31 Identities=16% Similarity=0.043 Sum_probs=28.3
Q ss_pred CCChhHHHHHHHHHHHHHhhcCCCcEEecCC
Q psy12962 38 PTKSSSYDFVRDLFTEVRSVFHDEFLHTGGD 68 (75)
Q Consensus 38 ~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgD 68 (75)
|-|-.+|.++..++.++..+=+++++|.+||
T Consensus 223 PfNiasyalL~~miA~~~gl~~G~~ih~igd 253 (323)
T PRK13821 223 PFNLTEGAALLSLVGRLTGYTPRWFTYFIGD 253 (323)
T ss_pred cHHHHHHHHHHHHHHHHhCCEeeeEEEEEEE
Confidence 4566799999999999999999999999997
No 17
>COG1336 CRISPR system related protein, RAMP superfamily [Defense mechanisms]
Probab=70.99 E-value=4.3 Score=29.52 Aligned_cols=24 Identities=17% Similarity=0.314 Sum_probs=18.2
Q ss_pred HHHHHHHHhhcCCCcEEecCCCCC
Q psy12962 48 RDLFTEVRSVFHDEFLHTGGDEVD 71 (75)
Q Consensus 48 ~~v~~ev~~lf~~~~~H~GgDEv~ 71 (75)
+.+...+..+++..|+++||+|.-
T Consensus 262 ~~~~E~lk~~~~~~~l~iGG~eTv 285 (298)
T COG1336 262 EKVREVLKRLSNLRYLQIGGKETV 285 (298)
T ss_pred HHHHHHHHhcCCCcEEEecCcccc
Confidence 344555667777899999999964
No 18
>TIGR03284 thym_sym thymidylate synthase. Members of this protein family are thymidylate synthase, an enzyme that produces dTMP from dUMP. In prokaryotes, its gene usually is found close to that for dihydrofolate reductase, and in some systems the two enzymes are found as a fusion protein. This model excludes a set of related proteins (TIGR03283) that appears to replace this family in archaeal methanogens, where tetrahydrofolate is replaced by tetrahydromethanopterin.
Probab=70.46 E-value=3.4 Score=29.96 Aligned_cols=31 Identities=29% Similarity=0.510 Sum_probs=28.6
Q ss_pred CCChhHHHHHHHHHHHHHhhcCCCcEEecCC
Q psy12962 38 PTKSSSYDFVRDLFTEVRSVFHDEFLHTGGD 68 (75)
Q Consensus 38 ~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgD 68 (75)
|.|-.+|.++..++.++..+=+++|+|.+||
T Consensus 207 pfNiasyalL~~mvA~~~Gl~~G~~~h~igd 237 (296)
T TIGR03284 207 PFNIASYALLTHMIAQETGLEVGEFVHTLGD 237 (296)
T ss_pred hhhHHHHHHHHHHHHHHhCCEeEEEEEEEEE
Confidence 5677799999999999999999999999987
No 19
>PRK01827 thyA thymidylate synthase; Reviewed
Probab=62.10 E-value=5.9 Score=28.16 Aligned_cols=31 Identities=29% Similarity=0.520 Sum_probs=28.7
Q ss_pred CCChhHHHHHHHHHHHHHhhcCCCcEEecCC
Q psy12962 38 PTKSSSYDFVRDLFTEVRSVFHDEFLHTGGD 68 (75)
Q Consensus 38 ~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgD 68 (75)
|.|-.+|.++..++.++..+=+++|+|..||
T Consensus 175 p~Ni~~y~~L~~~vA~~~gl~~G~~~h~~g~ 205 (264)
T PRK01827 175 PFNIASYALLTHMIAQQTGLKVGEFVHTIGD 205 (264)
T ss_pred cchHHHHHHHHHHHHHHcCCeeEEEEEEEee
Confidence 6777899999999999999999999999987
No 20
>COG0207 ThyA Thymidylate synthase [Nucleotide transport and metabolism]
Probab=61.46 E-value=7.5 Score=27.89 Aligned_cols=31 Identities=32% Similarity=0.566 Sum_probs=28.4
Q ss_pred CCChhHHHHHHHHHHHHHhhcCCCcEEecCC
Q psy12962 38 PTKSSSYDFVRDLFTEVRSVFHDEFLHTGGD 68 (75)
Q Consensus 38 ~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgD 68 (75)
|.|-.+|..+..++.++..+=|++|+|.+||
T Consensus 179 pfNi~syalL~~mvA~~~Gle~G~f~h~~~d 209 (268)
T COG0207 179 PFNIASYALLTHMVAQVTGLEPGEFVHTIGD 209 (268)
T ss_pred cHHHHHHHHHHHHHHHHhCCcceEEEEEeee
Confidence 4577899999999999999999999999987
No 21
>PTZ00164 bifunctional dihydrofolate reductase-thymidylate synthase; Provisional
Probab=59.22 E-value=8.1 Score=29.91 Aligned_cols=31 Identities=29% Similarity=0.513 Sum_probs=28.8
Q ss_pred CCChhHHHHHHHHHHHHHhhcCCCcEEecCC
Q psy12962 38 PTKSSSYDFVRDLFTEVRSVFHDEFLHTGGD 68 (75)
Q Consensus 38 ~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgD 68 (75)
|-|-.+|.++..++.++..+-+++|+|.+||
T Consensus 425 pfNi~~ya~L~~~iA~~~gl~~G~~~h~~g~ 455 (514)
T PTZ00164 425 PFNIASYALLTHMIAQVCGLRPGEFVHFLGD 455 (514)
T ss_pred hhhHHHHHHHHHHHHHHhCCEeeEEEEEecc
Confidence 6777899999999999999999999999987
No 22
>PRK14582 pgaB outer membrane N-deacetylase; Provisional
Probab=50.66 E-value=30 Score=27.79 Aligned_cols=27 Identities=11% Similarity=0.170 Sum_probs=23.8
Q ss_pred ccccCCCChhHHHHHHHHHHHHHhhcC
Q psy12962 33 WGPIDPTKSSSYDFVRDLFTEVRSVFH 59 (75)
Q Consensus 33 ~~~l~~~~~~t~~f~~~v~~ev~~lf~ 59 (75)
++.|+|-+|++.+++.+|+.|++.-.+
T Consensus 432 ~~rl~P~~pe~r~~i~~i~~dla~~~~ 458 (671)
T PRK14582 432 YRRLSPFDDRVRAQVGMLYEDLAGHAA 458 (671)
T ss_pred CcCCCCCCHHHHHHHHHHHHHHHHhCC
Confidence 356999999999999999999998544
No 23
>PF06992 Phage_lambda_P: Replication protein P; InterPro: IPR009731 This family consists of several Bacteriophage lambda replication protein P like proteins. The bacteriophage lambda P protein promoters replication of the phage chromosome by recruiting a key component of the cellular replication machinery to the viral origin. Specifically, P protein delivers one or more molecules of Escherichia coli DnaB helicase to a nucleoprotein structure formed by the lambda O initiator at the lambda replication origin [].; GO: 0006270 DNA-dependent DNA replication initiation
Probab=47.53 E-value=37 Score=23.93 Aligned_cols=22 Identities=18% Similarity=0.451 Sum_probs=19.1
Q ss_pred CChhHHHHHHHHHHHHHhhcCC
Q psy12962 39 TKSSSYDFVRDLFTEVRSVFHD 60 (75)
Q Consensus 39 ~~~~t~~f~~~v~~ev~~lf~~ 60 (75)
..+++-++++.||++|..+||.
T Consensus 32 ~~~~~~~~vd~lF~~L~aifPa 53 (233)
T PF06992_consen 32 QVEQAAKLVDRLFRQLKAIFPA 53 (233)
T ss_pred hHHHHHHHHHHHHHHHHHhCch
Confidence 3467789999999999999996
No 24
>PF14871 GHL6: Hypothetical glycosyl hydrolase 6
Probab=46.19 E-value=74 Score=20.04 Aligned_cols=51 Identities=10% Similarity=0.064 Sum_probs=30.8
Q ss_pred HHHhCCCCcccccccCCCC--CCCcccccccCCCChhHHHHHHHHHHHHHhhcC
Q psy12962 8 WGYGNPNLLCKINITIPDL--NTTQEYWGPIDPTKSSSYDFVRDLFTEVRSVFH 59 (75)
Q Consensus 8 ~~~a~P~l~~~~~~~~~~~--~~~~~~~~~l~~~~~~t~~f~~~v~~ev~~lf~ 59 (75)
+...+||......+..|.. ......+..+|++. .-++|+..+++|+.+.++
T Consensus 72 ~~~~HPeW~~~~~~G~~~~~~~~~~~~~~~~c~ns-~Y~e~~~~~i~Ei~~~y~ 124 (132)
T PF14871_consen 72 AAERHPEWFVRDADGRPMRGERFGYPGWYTCCLNS-PYREFLLEQIREILDRYD 124 (132)
T ss_pred HHHhCCceeeECCCCCCcCCCCcCCCCceecCCCc-cHHHHHHHHHHHHHHcCC
Confidence 4456899876544322211 11111244677755 455999999999998776
No 25
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=45.39 E-value=37 Score=20.18 Aligned_cols=33 Identities=12% Similarity=0.253 Sum_probs=27.1
Q ss_pred cCCCChhHHHHHHHHHHHHHhhcC-CCcEEecCC
Q psy12962 36 IDPTKSSSYDFVRDLFTEVRSVFH-DEFLHTGGD 68 (75)
Q Consensus 36 l~~~~~~t~~f~~~v~~ev~~lf~-~~~~H~GgD 68 (75)
+...+...+..+.++++++.+..+ +..+-+||-
T Consensus 56 iS~~~~~~~~~~~~~i~~l~~~~~~~~~i~vGG~ 89 (119)
T cd02067 56 LSGLLTTHMTLMKEVIEELKEAGLDDIPVLVGGA 89 (119)
T ss_pred EeccccccHHHHHHHHHHHHHcCCCCCeEEEECC
Confidence 555667788888999999999988 777889884
No 26
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=43.29 E-value=25 Score=17.59 Aligned_cols=13 Identities=15% Similarity=0.601 Sum_probs=10.3
Q ss_pred HHHHHHHHhhcCC
Q psy12962 48 RDLFTEVRSVFHD 60 (75)
Q Consensus 48 ~~v~~ev~~lf~~ 60 (75)
++.++++.++||+
T Consensus 2 ~~~v~~L~~mFP~ 14 (42)
T PF02845_consen 2 EEMVQQLQEMFPD 14 (42)
T ss_dssp HHHHHHHHHHSSS
T ss_pred HHHHHHHHHHCCC
Confidence 3567889999995
No 27
>PF00390 malic: Malic enzyme, N-terminal domain; InterPro: IPR012301 Malic enzymes (malate oxidoreductases) catalyse the oxidative decarboxylation of malate to form pyruvate [], a reaction important in a number of metabolic pathways - e.g. carbon dioxide released from the reaction may be used in sugar production during the Calvin cycle of photosynthesis []. There are 3 forms of the enzyme []: an NAD-dependent form that decarboxylates oxaloacetate; an NAD-dependent form that does not decarboxylate oxalo-acetate; and an NADPH-dependent form []. Other proteins known to be similar to malic enzymes are the Escherichia coli scfA protein; an enzyme from Zea mays (Maize), formerly thought to be cinnamyl-alcohol dehydrogenase []; and the hypothetical Saccharomyces cerevisiae protein YKL029c. Studies on the duck liver malic enzyme reveals that it can be alkylated by bromopyruvate, resulting in the loss of oxidative decarboxylation and the subsequent enhancement of pyruvate reductase activity []. The alkylated form is able to bind NADPH but not L-malate, indicating impaired substrate-or divalent metal ion-binding in the active site []. Sequence analysis has highlighted a cysteine residue as the point of alkylation, suggesting that it may play an important role in the activity of the enzyme [], although it is absent in the sequences from some species. There are three well conserved regions in the enzyme sequences. Two of them seem to be involved in the binding NAD or NADP. The significance of the third one, located in the central part of the enzymes, is not yet known.; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0055114 oxidation-reduction process; PDB: 2DVM_B 1WW8_A 2HAE_B 1VL6_A 1PJ2_A 1PJL_B 1GZ3_A 1PJ4_A 1PJ3_C 1EFL_A ....
Probab=42.04 E-value=45 Score=22.56 Aligned_cols=29 Identities=14% Similarity=0.296 Sum_probs=23.3
Q ss_pred CCCChhHHHHHHHHHHHHHhhc-CCCcEEe
Q psy12962 37 DPTKSSSYDFVRDLFTEVRSVF-HDEFLHT 65 (75)
Q Consensus 37 ~~~~~~t~~f~~~v~~ev~~lf-~~~~~H~ 65 (75)
.+..++-.+|+++++..+..+| |...+|+
T Consensus 137 R~~g~~y~~fvdefv~av~~~~gp~~~Iqf 166 (182)
T PF00390_consen 137 RVRGEEYDEFVDEFVEAVKRRFGPNALIQF 166 (182)
T ss_dssp ---THHHHHHHHHHHHHHHHHHGCTSEEEE
T ss_pred CCChhhhhhCHHHHHHHHHHHhCCCeEEEE
Confidence 3456777899999999999999 8888886
No 28
>PF00031 Cystatin: Cystatin domain; InterPro: IPR000010 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. The cystatins are cysteine proteinase inhibitors belonging to MEROPS inhibitor family I25, clan IH [, , ]. They mainly inhibit peptidases belonging to peptidase families C1 (papain family) and C13 (legumain family). The cystatin family includes: The Type 1 cystatins, which are intracellular cystatins that are present in the cytosol of many cell types, but can also appear in body fluids at significant concentrations. They are single-chain polypeptides of about 100 residues, which have neither disulphide bonds nor carbohydrate side chains. The Type 2 cystatins, which are mainly extracellular secreted polypeptides synthesised with a 19-28 residue signal peptide. They are broadly distributed and found in most body fluids. The Type 3 cystatins, which are multidomain proteins. The mammalian representatives of this group are the kininogens. There are three different kininogens in mammals: H- (high molecular mass, IPR002395 from INTERPRO) and L- (low molecular mass) kininogen which are found in a number of species, and T-kininogen that is found only in rat. Unclassified cystatins. These are cystatin-like proteins found in a range of organisms: plant phytocystatins, fetuin in mammals, insect cystatins and a puff adder venom cystatin which inhibits metalloproteases of the MEROPS peptidase family M12 (astacin/adamalysin). Also a number of the cystatins-like proteins have been shown to be devoid of inhibitory activity. All true cystatins inhibit cysteine peptidases of the papain family (MEROPS peptidase family C1), and some also inhibit legumain family enzymes (MEROPS peptidase family C13). These peptidases play key roles in physiological processes, such as intracellular protein degradation (cathepsins B, H and L), are pivotal in the remodelling of bone (cathepsin K), and may be important in the control of antigen presentation (cathepsin S, mammalian legumain). Moreover, the activities of such peptidases are increased in pathophysiological conditions, such as cancer metastasis and inflammation. Additionally, such peptidases are essential for several pathogenic parasites and bacteria. Thus in animals cystatins not only have capacity to regulate normal body processes and perhaps cause disease when down-regulated, but in other organisms may also participate in defence against biotic and abiotic stress. ; GO: 0004869 cysteine-type endopeptidase inhibitor activity; PDB: 3L0R_B 2W9P_K 2W9Q_A 3S67_A 3QRD_D 1R4C_G 3GAX_A 1TIJ_B 1G96_A 3NX0_A ....
Probab=41.80 E-value=66 Score=18.18 Aligned_cols=29 Identities=10% Similarity=0.266 Sum_probs=24.4
Q ss_pred cccCCCChhHHHHHHHHHHHHHhhcCCCc
Q psy12962 34 GPIDPTKSSSYDFVRDLFTEVRSVFHDEF 62 (75)
Q Consensus 34 ~~l~~~~~~t~~f~~~v~~ev~~lf~~~~ 62 (75)
..+++.+|+..++++..+.++.+...+.+
T Consensus 4 ~~~~~~dp~v~~~~~~al~~~N~~~~~~~ 32 (94)
T PF00031_consen 4 SPVDPNDPEVQEAAEFALDKFNEQSNSGY 32 (94)
T ss_dssp EEECTTSHHHHHHHHHHHHHHHHHSTTSE
T ss_pred ccCCCCCHHHHHHHHHHHHHHHHhCcccC
Confidence 46788999999999999999998876543
No 29
>PRK02733 photosystem I reaction center subunit IX; Provisional
Probab=40.64 E-value=30 Score=18.14 Aligned_cols=21 Identities=19% Similarity=0.436 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHhhcCCCcEE
Q psy12962 44 YDFVRDLFTEVRSVFHDEFLH 64 (75)
Q Consensus 44 ~~f~~~v~~ev~~lf~~~~~H 64 (75)
+.+...++-|+.+.|||-.+|
T Consensus 19 ~~~tag~lIEiNRffPD~L~~ 39 (42)
T PRK02733 19 LTLTAGILIEFNRFFPDLLFH 39 (42)
T ss_pred HHHHHHHHHHHHHhCchHhcc
Confidence 456678899999999997766
No 30
>CHL00105 psaJ photosystem I subunit IX
Probab=40.30 E-value=33 Score=17.96 Aligned_cols=21 Identities=24% Similarity=0.588 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHhhcCCCcEE
Q psy12962 44 YDFVRDLFTEVRSVFHDEFLH 64 (75)
Q Consensus 44 ~~f~~~v~~ev~~lf~~~~~H 64 (75)
..+...++-|+.+.|||-.+|
T Consensus 19 ~~~tag~lIEiNRffPD~L~~ 39 (42)
T CHL00105 19 FGFLAGLLIEINRFFPDALTF 39 (42)
T ss_pred HHHHHHHHHHHHHhCChhhcc
Confidence 456678899999999987665
No 31
>cd00351 TS_Pyrimidine_HMase Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the biosynthesis of DNA precursors and are active as homodimers. However, they exhibit distinct pyrimidine base specificities and differ in the details of their catalyzed reactions. TS is biologically ubiquitous and catalyzes the conversion of dUMP and methylene-tetrahydrofolate (CH2THF) to dTMP and dihydrofolate (DHF). It also acts as a regulator of its own expression by binding and inactivating its own RNA. Due to its key role in the de novo pathway for thymidylate synthesis and, hence, DNA synthesis, it is one of the most conserved enzymes across species and phyla. TS is a well-recognized target for anticancer chemotherapy, as well as a valuable new target against infectious diseases. Interestingly, in several protozoa,
Probab=39.93 E-value=19 Score=24.51 Aligned_cols=31 Identities=32% Similarity=0.597 Sum_probs=27.0
Q ss_pred CCChhHHHHHHHHHHHHHhhcCCCcEEecCC
Q psy12962 38 PTKSSSYDFVRDLFTEVRSVFHDEFLHTGGD 68 (75)
Q Consensus 38 ~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgD 68 (75)
|.|--.|.++..++.+..++=+++|.|+.+|
T Consensus 173 ~~N~~~~~~L~~~iA~~~g~~~G~~~~~~~~ 203 (215)
T cd00351 173 PFNIASYALLTEMIARVTGLEPGEFIHTIGD 203 (215)
T ss_pred hhhHHHHHHHHHHHHHhcCCEeEEEEEEEEE
Confidence 4677788999999999999999999999886
No 32
>COG4749 Uncharacterized protein conserved in archaea [Function unknown]
Probab=38.86 E-value=38 Score=23.00 Aligned_cols=22 Identities=9% Similarity=0.357 Sum_probs=19.5
Q ss_pred cccCCCChhHHHHHHHHHHHHH
Q psy12962 34 GPIDPTKSSSYDFVRDLFTEVR 55 (75)
Q Consensus 34 ~~l~~~~~~t~~f~~~v~~ev~ 55 (75)
.+|++.+++|..++.+++++|.
T Consensus 24 ~elde~~ee~~~vf~nm~dDVi 45 (196)
T COG4749 24 TELDEDNEETFAVFDNMLDDVI 45 (196)
T ss_pred hhcCCcchHHHHHHHHHHHHHH
Confidence 3799999999999999988875
No 33
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=36.88 E-value=35 Score=17.03 Aligned_cols=13 Identities=8% Similarity=0.521 Sum_probs=10.3
Q ss_pred HHHHHHHHhhcCC
Q psy12962 48 RDLFTEVRSVFHD 60 (75)
Q Consensus 48 ~~v~~ev~~lf~~ 60 (75)
...+.++.++||+
T Consensus 3 ~~~v~~L~~mFP~ 15 (43)
T smart00546 3 DEALHDLKDMFPN 15 (43)
T ss_pred HHHHHHHHHHCCC
Confidence 4567888999995
No 34
>TIGR03283 thy_syn_methano thymidylate synthase, methanogen type. Thymidylate synthase makes dTMP for DNA synthesis, and is among the most widely distributed of all enzymes. Members of this protein family are encoded within a completed genome sequence if and only if that species is one of the methanogenenic archaea. In these species, tetrahydromethanopterin replaces tetrahydrofolate, The member from Methanobacterium thermoautotrophicum was shown to behave as a thymidylate synthase based on similar side reactions (the exchange of a characteristic proton with water), although the full reaction was not reconstituted. Partial sequence data showed no similarity to known thymidylate synthases simply because the region sequenced was from a distinctive N-terminal region not found in other thymidylate synthases. Members of this protein family appear, therefore, to a novel, tetrahydromethanopterin-dependent thymidylate synthase.
Probab=36.09 E-value=29 Score=23.48 Aligned_cols=31 Identities=6% Similarity=-0.021 Sum_probs=26.1
Q ss_pred CCChhHHHHHHHHHHHHHhhcCCCcEEecCC
Q psy12962 38 PTKSSSYDFVRDLFTEVRSVFHDEFLHTGGD 68 (75)
Q Consensus 38 ~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgD 68 (75)
|.|--.+.++..++.+...+=+++|.|+.+|
T Consensus 158 p~N~~~~~~L~~~iA~~~gl~~G~~~~~~~~ 188 (199)
T TIGR03283 158 VANAIGLRRLQEYVAEKVGVEPGTLTTHAIS 188 (199)
T ss_pred hhHHHHHHHHHHHHHHHhCCcceEEEEEEEE
Confidence 3566678888899999999999999999886
No 35
>COG2199 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]
Probab=35.11 E-value=56 Score=20.44 Aligned_cols=24 Identities=29% Similarity=0.479 Sum_probs=15.1
Q ss_pred HHHHHHHH----hhcCC--CcEEecCCCCC
Q psy12962 48 RDLFTEVR----SVFHD--EFLHTGGDEVD 71 (75)
Q Consensus 48 ~~v~~ev~----~lf~~--~~~H~GgDEv~ 71 (75)
+.++.+++ ..++. ...++||||.-
T Consensus 75 D~vL~~va~~L~~~~~~~~~~~R~gGdEF~ 104 (181)
T COG2199 75 DEVLREVARRLRSNLREGDLVARLGGDEFA 104 (181)
T ss_pred HHHHHHHHHHHHHhcCCCCEEEEeccceeE
Confidence 44444444 34443 48999999963
No 36
>PTZ00196 60S ribosomal protein L36; Provisional
Probab=34.11 E-value=29 Score=21.36 Aligned_cols=18 Identities=22% Similarity=0.266 Sum_probs=15.4
Q ss_pred hHHHHHHHHHHHHHhhcC
Q psy12962 42 SSYDFVRDLFTEVRSVFH 59 (75)
Q Consensus 42 ~t~~f~~~v~~ev~~lf~ 59 (75)
.--.|+.+|++||+.+-|
T Consensus 33 kr~~fVr~vIrEV~GfaP 50 (98)
T PTZ00196 33 KRKRLVKDVIREVCGFSP 50 (98)
T ss_pred chhHHHHHHHHHHhcccH
Confidence 456899999999998877
No 37
>TIGR02580 cas_RAMP_Cmr4 CRISPR-associated RAMP protein, Cmr4 family. This model represents a CRISPR-associated protein from the family that includes TM1792 of Thermotoga maritima. This family is part of the broad RAMP superfamily (pfam03787) collection of CRISPR-associated proteins. It is the fourth of a recurring set of six proteins, four of are in the RAMP superfamily, that we designate the CRISPR RAMP module.
Probab=34.05 E-value=46 Score=23.69 Aligned_cols=23 Identities=22% Similarity=0.507 Sum_probs=15.7
Q ss_pred HHHHHHhhcCC-CcEEecCCCCCC
Q psy12962 50 LFTEVRSVFHD-EFLHTGGDEVDF 72 (75)
Q Consensus 50 v~~ev~~lf~~-~~~H~GgDEv~~ 72 (75)
++..+..+... +++.|||+|.--
T Consensus 252 ~~~~~~~~~~~~~~lqIGG~eTvG 275 (280)
T TIGR02580 252 IFKEFSKIINNGKVIQIGGKETVG 275 (280)
T ss_pred HHHHHHhhcCCCcEEEECCCCccc
Confidence 44445555554 799999999753
No 38
>cd00405 PRAI Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric, monofunctional and thermolabile, but in some thermophile organisms PRAI is dimeric for reasons of stability and in others it is fused to other components of the tryptophan biosynthesis pathway to form multifunctional enzymes.
Probab=33.67 E-value=52 Score=21.60 Aligned_cols=17 Identities=24% Similarity=0.374 Sum_probs=12.8
Q ss_pred HHHhhcCCCcEEecCCC
Q psy12962 53 EVRSVFHDEFLHTGGDE 69 (75)
Q Consensus 53 ev~~lf~~~~~H~GgDE 69 (75)
+++....-.++|+||+|
T Consensus 67 ~ia~~~~~d~Vqlhg~e 83 (203)
T cd00405 67 EIAEELGLDVVQLHGDE 83 (203)
T ss_pred HHHHhcCCCEEEECCCC
Confidence 44555566899999998
No 39
>COG1088 RfbB dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]
Probab=32.94 E-value=37 Score=25.19 Aligned_cols=23 Identities=26% Similarity=0.212 Sum_probs=15.5
Q ss_pred HHHHHhhcC-CCcEEecCCCCCCC
Q psy12962 51 FTEVRSVFH-DEFLHTGGDEVDFY 73 (75)
Q Consensus 51 ~~ev~~lf~-~~~~H~GgDEv~~~ 73 (75)
|..+...-. -+|+||..|||.-.
T Consensus 109 LEaar~~~~~frf~HISTDEVYG~ 132 (340)
T COG1088 109 LEAARKYWGKFRFHHISTDEVYGD 132 (340)
T ss_pred HHHHHHhcccceEEEecccccccc
Confidence 333444444 38999999999754
No 40
>PF00059 Lectin_C: Lectin C-type domain; InterPro: IPR001304 Lectins occur in plants, animals, bacteria and viruses. Initially described for their carbohydrate-binding activity [], they are now recognised as a more diverse group of proteins, some of which are involved in protein-protein, protein-lipid or protein-nucleic acid interactions []. There are at least twelve structural families of lectins: C-type lectins, which are Ca+-dependent. S-type (galectins), a widespread family of glycan-binding proteins []. I-type, which have an immunoglobulin-like fold and can recognise sialic acids, other sugars and glycosaminoglycans []. P-type, which bind phosphomannosyl receptors []. Pentraxins []. (Trout) egg lectins. Calreticulin and calnexin, which act as molecular chaperones of the endoplasmic reticulum []. ERGIC-53 and VIP-36 []. Discoidins []. Eel aggutinins (fucolectins) []. Annexin lectins []. Fibrinogen-type lectins, which includes ficolins, tachylectins 5A and 5B, and Limax flavus (Spotted garden slug) agglutinin (these proteins have clear distinctions from one another, but they share a homologous fibrinogen-like domain used for carbohydrate binding). Also unclassified orphan lectins, including amphoterin, Cel-II, complement factor H, thrombospondin, sailic acid-binding lectins, adherence lectin, and cytokins (such as tumour necrosis factor and several interleukins). C-type lectins can be further divided into seven subgroups based on additional non-lectin domains and gene structure: (I) hyalectans, (II) asialoglycoprotein receptors, (III) collectins, (IV) selectins, (V) NK group transmembrane receptors, (VI) macrophage mannose receptors, and (VII) simple (single domain) lectins []. Therefore, lectins are a diverse group of proteins, both in terms of structure and activity. Carbohydrate binding ability may have evolved independently and sporadically in numerous unrelated families, where each evolved a structure that was conserved to fulfil some other activity and function. In general, animal lectins act as recognition molecules within the immune system, their functions involving defence against pathogens, cell trafficking, immune regulation and the prevention of autoimmunity [].; GO: 0005488 binding; PDB: 1T8D_A 2H2T_B 1T8C_A 2H2R_A 1TN3_A 1RJH_A 1HTN_A 3G8K_B 2E3X_B 1UMR_D ....
Probab=32.90 E-value=59 Score=17.79 Aligned_cols=28 Identities=18% Similarity=0.242 Sum_probs=21.5
Q ss_pred ccCCCChhHHHHHHHHHHHHHhhcCCCcEEecCC
Q psy12962 35 PIDPTKSSSYDFVRDLFTEVRSVFHDEFLHTGGD 68 (75)
Q Consensus 35 ~l~~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgD 68 (75)
.+-+.+.+..+|+.+++. ....+.||++
T Consensus 19 L~~i~~~~e~~~i~~~~~------~~~~~Wig~~ 46 (105)
T PF00059_consen 19 LASINSEEENDFIQSQLK------SNESYWIGLD 46 (105)
T ss_dssp EB-GSSHHHHHHHHHHHH------SSSEEEEEEE
T ss_pred EeEeCCHHHhhhhhhccc------ccceeeeeee
Confidence 355667888999988888 7778888883
No 41
>PF08511 COQ9: COQ9; InterPro: IPR013718 COQ9 is an enzyme that is required for the biosynthesis of coenzyme Q []. It may either catalyse a reaction in the coenzyme Q biosynthetic pathway or have a regulatory role. ; PDB: 3NI7_B.
Probab=32.83 E-value=39 Score=19.74 Aligned_cols=21 Identities=14% Similarity=0.358 Sum_probs=15.5
Q ss_pred CCCChhHHHHHHHHHHHHHhh
Q psy12962 37 DPTKSSSYDFVRDLFTEVRSV 57 (75)
Q Consensus 37 ~~~~~~t~~f~~~v~~ev~~l 57 (75)
.+.-.+|++|+++-+++++.+
T Consensus 54 S~~~~~T~~Fl~rri~~v~~~ 74 (79)
T PF08511_consen 54 SPDFEDTWAFLDRRIDDVMQF 74 (79)
T ss_dssp SGGGHHHHHHHHHHHHHH---
T ss_pred CCCHHHHHHHHHHHHHhhhcc
Confidence 356678999999999999875
No 42
>PRK02289 4-oxalocrotonate tautomerase; Provisional
Probab=31.82 E-value=64 Score=17.16 Aligned_cols=37 Identities=11% Similarity=0.143 Sum_probs=29.2
Q ss_pred CChhHHHHHHHHHHHHHhhcC--CCcEEecCCCCCCCCC
Q psy12962 39 TKSSSYDFVRDLFTEVRSVFH--DEFLHTGGDEVDFYCW 75 (75)
Q Consensus 39 ~~~~t~~f~~~v~~ev~~lf~--~~~~H~GgDEv~~~cW 75 (75)
+.++--++++.|.+-+.+.|. ...+.+--.|++..+|
T Consensus 13 s~EqK~~L~~~it~a~~~~~~~p~~~v~V~i~ev~~~~~ 51 (60)
T PRK02289 13 SQEQKNALAREVTEVVSRIAKAPKEAIHVFINDMPEGTY 51 (60)
T ss_pred CHHHHHHHHHHHHHHHHHHhCcCcceEEEEEEEeChhhe
Confidence 455566777888888888887 4789999999988877
No 43
>PF09418 DUF2009: Protein of unknown function (DUF2009); InterPro: IPR018553 This is a eukaryotic family of proteins with unknown function.
Probab=31.19 E-value=79 Score=24.48 Aligned_cols=33 Identities=18% Similarity=0.327 Sum_probs=27.6
Q ss_pred ChhHHHHHHHHHHHHHhhcC----CCcEEecCCCCCC
Q psy12962 40 KSSSYDFVRDLFTEVRSVFH----DEFLHTGGDEVDF 72 (75)
Q Consensus 40 ~~~t~~f~~~v~~ev~~lf~----~~~~H~GgDEv~~ 72 (75)
-|.++.-+..|+.++..-.. ++.+|+|-+-|+.
T Consensus 312 ~p~~~~~m~~il~~~q~~~~~WvGssviHLGD~~VPN 348 (458)
T PF09418_consen 312 CPKVYRAMHRILSETQSKLGGWVGSSVIHLGDHNVPN 348 (458)
T ss_pred CChHHHHHHHHHHHHHHhcCCccCceeeecCCCCCCc
Confidence 46799999999999987655 6899999998875
No 44
>cd07556 Nucleotidyl_cyc_III Class III nucleotidyl cyclases. Class III nucleotidyl cyclases are the largest, most diverse group of nucleotidyl cyclases (NC's) containing prokaryotic and eukaryotic proteins. They can be divided into two major groups; the mononucleotidyl cyclases (MNC's) and the diguanylate cyclases (DGC's). The MNC's, which include the adenylate cyclases (AC's) and the guanylate cyclases (GC's), have a conserved cyclase homology domain (CHD), while the DGC's have a conserved GGDEF domain, named after a conserved motif within this subgroup. Their products, cyclic guanylyl and adenylyl nucleotides, are second messengers that play important roles in eukaryotic signal transduction and prokaryotic sensory pathways.
Probab=30.25 E-value=88 Score=17.84 Aligned_cols=25 Identities=28% Similarity=0.351 Sum_probs=14.2
Q ss_pred HHHHHHHHHHhhc---CCCcEEecCCCC
Q psy12962 46 FVRDLFTEVRSVF---HDEFLHTGGDEV 70 (75)
Q Consensus 46 f~~~v~~ev~~lf---~~~~~H~GgDEv 70 (75)
+++.+.+.+.+++ .+...+++|||+
T Consensus 27 ~l~~~~~~l~~~~~~~~~~~~r~~~d~f 54 (133)
T cd07556 27 LLNELAGRFDSLIRRSGDLKIKTIGDEF 54 (133)
T ss_pred HHHHHHHHHHHHHHHcCcEEEEeecceE
Confidence 3334444444444 345778899986
No 45
>PF02262 Cbl_N: CBL proto-oncogene N-terminal domain 1; InterPro: IPR003153 Cbl (Casitas B-lineage lymphoma) is an adaptor protein that functions as a negative regulator of many signalling pathways that start from receptors at the cell surface. The N-terminal region of Cbl contains a Cbl-type phosphotyrosine-binding (Cbl-PTB) domain, which is composed of three evolutionarily conserved domains: an N-terminal four-helix bundle (4H) domain, an EF hand-like calcium-binding domain, and a divergent SH2-like domain. The calcium-bound EF-hand wedges between the 4H and SH2 domains, and roughly determines their relative orientation. The Cbl-PTB domain has also been named Cbl N-terminal (Cbl-N) or tyrosine kinase binding (TKB) domain [, ]. The N-terminal 4H domain contains four long alpha-helices. The C and D helices in this domain pack against the adjacent EF-hand-like domain, and a highly conserved loop connecting the A and B helices contacts the SH2-like domain. The EF-hand motif is similar to classical EF-hand proteins. The SH2-like domain retains the general helix-sheet-helix architecture of the SH2 fold, but lacks the secondary beta-sheet, comprising beta-strands D', E and F, and also a prominent BG loop []. This entry represents the N-terminal four-helical bundle domain.; GO: 0004871 signal transducer activity, 0007166 cell surface receptor linked signaling pathway, 0005634 nucleus; PDB: 3PLF_B 2Y1M_A 2CBL_A 3BUX_B 3BUN_B 3BUM_B 3OB1_B 3BUW_B 1B47_C 3BUO_D ....
Probab=30.07 E-value=42 Score=21.67 Aligned_cols=17 Identities=24% Similarity=0.716 Sum_probs=13.0
Q ss_pred HHHHHHHHHHhhcCC-Cc
Q psy12962 46 FVRDLFTEVRSVFHD-EF 62 (75)
Q Consensus 46 f~~~v~~ev~~lf~~-~~ 62 (75)
+++.++.|+.++||+ +|
T Consensus 111 iFSHMlaELkAlFP~G~f 128 (130)
T PF02262_consen 111 IFSHMLAELKALFPDGKF 128 (130)
T ss_dssp HHHHHHHHHHHHSGGGS-
T ss_pred HHHHHHHHHHHhCCCCcc
Confidence 456889999999995 44
No 46
>PRK00956 thyA thymidylate synthase; Provisional
Probab=29.80 E-value=42 Score=22.80 Aligned_cols=31 Identities=10% Similarity=0.025 Sum_probs=26.0
Q ss_pred CCChhHHHHHHHHHHHHHhhcCCCcEEecCC
Q psy12962 38 PTKSSSYDFVRDLFTEVRSVFHDEFLHTGGD 68 (75)
Q Consensus 38 ~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgD 68 (75)
|.|--.+.++..++.+...+=+++|.|+.+|
T Consensus 161 p~N~~~~~~L~~~iA~~~gl~~G~~~~~~~~ 191 (208)
T PRK00956 161 HANAIGLIKLGEYVAEKVGVELGTYTHHSVS 191 (208)
T ss_pred chHHHHHHHHHHHHHHHhCCcceEEEEEEEE
Confidence 3566788888899999999988999999876
No 47
>PF14883 GHL13: Hypothetical glycosyl hydrolase family 13
Probab=28.73 E-value=73 Score=23.23 Aligned_cols=32 Identities=9% Similarity=0.489 Sum_probs=25.2
Q ss_pred ccccCCCChhHHHHHHHHHHHHHhh--cCCCcEE
Q psy12962 33 WGPIDPTKSSSYDFVRDLFTEVRSV--FHDEFLH 64 (75)
Q Consensus 33 ~~~l~~~~~~t~~f~~~v~~ev~~l--f~~~~~H 64 (75)
+-.|.|-++++.+.+++|+.+++.. |.+=.||
T Consensus 110 y~RLSPf~p~~r~~I~~IYeDLA~y~~fdGILFh 143 (294)
T PF14883_consen 110 YRRLSPFDPEARQIIKEIYEDLARYSKFDGILFH 143 (294)
T ss_pred ceecCCCCHHHHHHHHHHHHHHHhhCCCCeEEEc
Confidence 3569999999999999999999973 4333444
No 48
>PF01158 Ribosomal_L36e: Ribosomal protein L36e; InterPro: IPR000509 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic ribosomal proteins can be grouped on the basis of sequence similarities. The L36E ribosomal family consists of mammalian, Caenorhabditis elegans and Drosophila L36, Candida albicans L39, and yeast YL39 ribosomal proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1B_Q 4A1D_Q 4A19_Q 4A18_Q 3IZS_k 3IZR_k.
Probab=28.08 E-value=46 Score=20.42 Aligned_cols=17 Identities=35% Similarity=0.446 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHhhcC
Q psy12962 43 SYDFVRDLFTEVRSVFH 59 (75)
Q Consensus 43 t~~f~~~v~~ev~~lf~ 59 (75)
--.|+.+|+.||+.+-|
T Consensus 34 ~~kfvr~vIrEv~GfaP 50 (98)
T PF01158_consen 34 RTKFVRDVIREVCGFAP 50 (98)
T ss_dssp HHHHHHHHHHHHHHHCH
T ss_pred hHHHHHHHHHHhcCCCh
Confidence 44799999999998876
No 49
>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.
Probab=27.52 E-value=54 Score=20.81 Aligned_cols=22 Identities=27% Similarity=0.498 Sum_probs=14.5
Q ss_pred HHHHHHHhhcCCCcEEecCCCC
Q psy12962 49 DLFTEVRSVFHDEFLHTGGDEV 70 (75)
Q Consensus 49 ~v~~ev~~lf~~~~~H~GgDEv 70 (75)
.+-+++++.++..++|+|.|.+
T Consensus 17 t~a~~l~~~~~~~~~~~~~D~~ 38 (175)
T cd00227 17 SIARALQSVLAEPWLHFGVDSF 38 (175)
T ss_pred HHHHHHHHhhCCCccccCccHH
Confidence 3455666666667888888743
No 50
>COG0825 AccA Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]
Probab=27.47 E-value=73 Score=23.47 Aligned_cols=26 Identities=23% Similarity=0.482 Sum_probs=22.9
Q ss_pred cCCCChhHHHHHHHHHHHHHhhcCCC
Q psy12962 36 IDPTKSSSYDFVRDLFTEVRSVFHDE 61 (75)
Q Consensus 36 l~~~~~~t~~f~~~v~~ev~~lf~~~ 61 (75)
=.|.+|-|+++++.++++..+|+-+.
T Consensus 64 Rhp~RP~tldyi~~i~~df~eL~GDR 89 (317)
T COG0825 64 RHPDRPYTLDYIELLFTDFVELHGDR 89 (317)
T ss_pred hCCCCCcHHHHHHHHHhHHHHhcCcc
Confidence 46789999999999999999988753
No 51
>PF02065 Melibiase: Melibiase; InterPro: IPR000111 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycosyl hydrolase family 27, family 31 and family 36 alpha-galactosidases form the glycosyl hydrolase clan GH-D (acc_GH from CAZY), a superfamily of alpha-galactosidases, alpha-N-acetylgalactosaminidases, and isomaltodextranases which are likely to share a common catalytic mechanism and structural topology. Alpha-galactosidase (3.2.1.22 from EC) (melibiase) [] catalyzes the hydrolysis of melibiose into galactose and glucose. In man, the deficiency of this enzyme is the cause of Fabry's disease (X-linked sphingolipidosis). Alpha-galactosidase is present in a variety of organisms. There is a considerable degree of similarity in the sequence of alpha-galactosidase from various eukaryotic species. Escherichia coli alpha-galactosidase (gene melA), which requires NAD and magnesium as cofactors, is not structurally related to the eukaryotic enzymes; by contrast, an Escherichia coli plasmid encoded alpha-galactosidase (gene rafA P16551 from SWISSPROT) [] contains a region of about 50 amino acids which is similar to a domain of the eukaryotic alpha-galactosidases. Alpha-N-acetylgalactosaminidase (3.2.1.49 from EC) [] catalyzes the hydrolysis of terminal non-reducing N-acetyl-D-galactosamine residues in N-acetyl-alpha-D- galactosaminides. In man, the deficiency of this enzyme is the cause of Schindler and Kanzaki diseases. The sequence of this enzyme is highly related to that of the eukaryotic alpha-galactosidases.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 1KTC_A 1KTB_A 1UAS_A 3H55_A 3H53_A 3IGU_B 3H54_A 3LRM_A 3LRL_A 3LRK_A ....
Probab=27.28 E-value=1e+02 Score=23.07 Aligned_cols=29 Identities=7% Similarity=0.281 Sum_probs=21.4
Q ss_pred ccCCCChhHHHHHHHHHHHHHhhcCCCcE
Q psy12962 35 PIDPTKSSSYDFVRDLFTEVRSVFHDEFL 63 (75)
Q Consensus 35 ~l~~~~~~t~~f~~~v~~ev~~lf~~~~~ 63 (75)
.||+++|++.+++.+.+..+..-..-.||
T Consensus 159 vLD~~~pev~~~l~~~i~~ll~~~gidYi 187 (394)
T PF02065_consen 159 VLDLSNPEVRDYLFEVIDRLLREWGIDYI 187 (394)
T ss_dssp EB-TTSHHHHHHHHHHHHHHHHHTT-SEE
T ss_pred EEcCCCHHHHHHHHHHHHHHHHhcCCCEE
Confidence 59999999999999998887654443343
No 52
>PF15133 DUF4569: Domain of unknown function (DUF4569)
Probab=26.92 E-value=27 Score=25.57 Aligned_cols=11 Identities=55% Similarity=0.640 Sum_probs=9.0
Q ss_pred cEEecCCCCCC
Q psy12962 62 FLHTGGDEVDF 72 (75)
Q Consensus 62 ~~H~GgDEv~~ 72 (75)
-+|||||-|-.
T Consensus 132 DLhIgGd~V~~ 142 (306)
T PF15133_consen 132 DLHIGGDQVMP 142 (306)
T ss_pred cceeccccccc
Confidence 49999998854
No 53
>COG3618 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]
Probab=26.66 E-value=97 Score=22.38 Aligned_cols=33 Identities=21% Similarity=0.211 Sum_probs=26.5
Q ss_pred cCCCChh-HHHHHHHHHHHHHhhcCCCcEEecCC
Q psy12962 36 IDPTKSS-SYDFVRDLFTEVRSVFHDEFLHTGGD 68 (75)
Q Consensus 36 l~~~~~~-t~~f~~~v~~ev~~lf~~~~~H~GgD 68 (75)
.--..+. +++++..++.++.++|+-..+-.|+|
T Consensus 203 ~~~~~~~w~~~~v~p~~e~~i~~fg~dR~vfGSd 236 (279)
T COG3618 203 YAYSDESWTVEDVRPYVEELIELFGWDRFVFGSD 236 (279)
T ss_pred cccccCCCCHHHHHHHHHHHHHhcCccceEecCC
Confidence 3334444 79999999999999999778888887
No 54
>KOG3452|consensus
Probab=25.98 E-value=52 Score=20.36 Aligned_cols=18 Identities=39% Similarity=0.493 Sum_probs=15.3
Q ss_pred hHHHHHHHHHHHHHhhcC
Q psy12962 42 SSYDFVRDLFTEVRSVFH 59 (75)
Q Consensus 42 ~t~~f~~~v~~ev~~lf~ 59 (75)
+.-.|+.+|++||+.+-|
T Consensus 35 k~tkfvr~lirEv~G~aP 52 (102)
T KOG3452|consen 35 KRTKFVRDLIREVAGFAP 52 (102)
T ss_pred hhHHHHHHHHHHHhCCCh
Confidence 456799999999998877
No 55
>cd06593 GH31_xylosidase_YicI YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a homohexamer (a trimer of dimers). All GH31 enzymes cleave a terminal carbohydrate moiety from a substrate that varies considerably in size, depending on the enzyme, and may be either a starch or a glycoprotein. The YicI family corresponds to subgroup 4 in the Ernst et al classification of GH31 enzymes.
Probab=25.55 E-value=97 Score=21.69 Aligned_cols=23 Identities=22% Similarity=0.345 Sum_probs=20.7
Q ss_pred cccCCCChhHHHHHHHHHHHHHh
Q psy12962 34 GPIDPTKSSSYDFVRDLFTEVRS 56 (75)
Q Consensus 34 ~~l~~~~~~t~~f~~~v~~ev~~ 56 (75)
+.+|.++|++.++..+.++++.+
T Consensus 125 ~~~Dftnp~a~~w~~~~~~~~~~ 147 (308)
T cd06593 125 GIIDFTNPDACKWYKDKLKPLLD 147 (308)
T ss_pred ccccCCCHHHHHHHHHHHHHHHH
Confidence 56999999999999999998775
No 56
>cd07395 MPP_CSTP1 Homo sapiens CSTP1 and related proteins, metallophosphatase domain. CSTP1 (complete S-transactivated protein 1) is an uncharacterized Homo sapiens protein with a metallophosphatase domain, that is transactivated by the complete S protein of hepatitis B virus. CSTP1 belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is th
Probab=25.44 E-value=1.3e+02 Score=20.30 Aligned_cols=33 Identities=12% Similarity=0.192 Sum_probs=25.9
Q ss_pred ChhHHHHHHHHHHHHHhhcCC-CcEEecCCCCCC
Q psy12962 40 KSSSYDFVRDLFTEVRSVFHD-EFLHTGGDEVDF 72 (75)
Q Consensus 40 ~~~t~~f~~~v~~ev~~lf~~-~~~H~GgDEv~~ 72 (75)
..++...++.+++++.++.+. .++-+.||=+..
T Consensus 29 ~~~~~~~l~~~~~~i~~~~~~pd~ii~~GDl~~~ 62 (262)
T cd07395 29 WDEEIKLTEQAVQAINKLNPKPKFVVVCGDLVNA 62 (262)
T ss_pred hhhHHHHHHHHHHHHHhcCCCCCEEEEeCCcCCC
Confidence 356778889999999999764 588888886654
No 57
>cd06808 PLPDE_III Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes. The fold type III PLP-dependent enzyme family is predominantly composed of two-domain proteins with similarity to bacterial alanine racemases (AR) including eukaryotic ornithine decarboxylases (ODC), prokaryotic diaminopimelate decarboxylases (DapDC), biosynthetic arginine decarboxylases (ADC), carboxynorspermidine decarboxylases (CANSDC), and similar proteins. AR-like proteins contain an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. They exist as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. These proteins play important roles in the biosynthesis of amino acids and polyamine. The family also includes the single-domain YBL036c-like proteins, which contain a single PLP-binding TIM-barrel domain without any N- or C-terminal extensions. Due to the lack of a second domain, these p
Probab=24.79 E-value=1.4e+02 Score=19.02 Aligned_cols=24 Identities=17% Similarity=0.098 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHhhcC-CCcEEecCC
Q psy12962 45 DFVRDLFTEVRSVFH-DEFLHTGGD 68 (75)
Q Consensus 45 ~f~~~v~~ev~~lf~-~~~~H~GgD 68 (75)
+-+..+++++.+... -.++|+||-
T Consensus 166 ~~~~~~~~~l~~~~~~~~~i~~Ggg 190 (211)
T cd06808 166 SRFVAALDQLGELGIDLEQLSIGGS 190 (211)
T ss_pred HHHHHHHHHHHhcCCCCCEEEECCC
Confidence 344455555555333 369999984
No 58
>COG2924 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.70 E-value=1.3e+02 Score=18.13 Aligned_cols=32 Identities=9% Similarity=0.280 Sum_probs=23.1
Q ss_pred cccCCCChhHHHHHHHHHHHHHhhcCCCcEEecC
Q psy12962 34 GPIDPTKSSSYDFVRDLFTEVRSVFHDEFLHTGG 67 (75)
Q Consensus 34 ~~l~~~~~~t~~f~~~v~~ev~~lf~~~~~H~Gg 67 (75)
.-|++.|++..+|++.-+... +|..+..|+-|
T Consensus 53 ~rLnm~n~e~Rk~Leqem~~f--lf~~~~~~~~G 84 (90)
T COG2924 53 KRLNMMNAEHRKLLEQEMVNF--LFEGKAVHIEG 84 (90)
T ss_pred hhcCcCCHHHHHHHHHHHHHH--hhcCccccccc
Confidence 469999999999887554332 56677777755
No 59
>PF06198 DUF999: Protein of unknown function (DUF999); InterPro: IPR009340 This is a family of conserved Schizosaccharomyces pombe proteins with unknown function.
Probab=24.57 E-value=93 Score=19.86 Aligned_cols=26 Identities=23% Similarity=0.438 Sum_probs=21.1
Q ss_pred ccCCCChhHHHHHHHHHHHHHhhcCC
Q psy12962 35 PIDPTKSSSYDFVRDLFTEVRSVFHD 60 (75)
Q Consensus 35 ~l~~~~~~t~~f~~~v~~ev~~lf~~ 60 (75)
-+++...+.-.|+.++|.|....+.+
T Consensus 47 kmniktnkik~flndlftefskfhns 72 (143)
T PF06198_consen 47 KMNIKTNKIKEFLNDLFTEFSKFHNS 72 (143)
T ss_pred cccccHHHHHHHHHhHHHHHHHhhhc
Confidence 46777778889999999999976654
No 60
>COG5470 Uncharacterized conserved protein [Function unknown]
Probab=23.89 E-value=1.6e+02 Score=18.06 Aligned_cols=35 Identities=17% Similarity=0.272 Sum_probs=29.8
Q ss_pred cccCCCChhHHHHHHHHHHHHHhhcCCCcEEecCC
Q psy12962 34 GPIDPTKSSSYDFVRDLFTEVRSVFHDEFLHTGGD 68 (75)
Q Consensus 34 ~~l~~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgD 68 (75)
-.++..+++.|+=..+-.....+-|-.+|+--||+
T Consensus 8 a~vdv~D~e~y~~Y~~~~~~a~~~~Ggr~LvRGG~ 42 (96)
T COG5470 8 ADVDVRDPEQYKDYVSKAKPAIEKFGGRYLVRGGE 42 (96)
T ss_pred EEEeecCHHHHHHHHHHhHHHHHHhCCeeEeeCCC
Confidence 36788899999877788888888999999999986
No 61
>COG5051 RPL36A Ribosomal protein L36E [Translation, ribosomal structure and biogenesis]
Probab=23.73 E-value=51 Score=20.08 Aligned_cols=22 Identities=23% Similarity=0.492 Sum_probs=16.9
Q ss_pred cccCCCChhHHHHHHHHHHHHHhhcC
Q psy12962 34 GPIDPTKSSSYDFVRDLFTEVRSVFH 59 (75)
Q Consensus 34 ~~l~~~~~~t~~f~~~v~~ev~~lf~ 59 (75)
|++.+- -+|+.+|.+|++.+-|
T Consensus 31 gq~s~R----t~fvrsivrEiaGlsP 52 (97)
T COG5051 31 GQLSKR----TEFVRSIVREIAGLSP 52 (97)
T ss_pred hccccH----HHHHHHHHHHHccCCH
Confidence 566553 2499999999999877
No 62
>cd06592 GH31_glucosidase_KIAA1161 KIAA1161 is an uncharacterized Homo sapiens protein with a glycosyl hydrolase family 31 (GH31) domain that is homologous to the Escherichia coli YihQ glucosidase. Orthologs of KIA1161 are found in eukaryotes and prokaryotes. In bacteria, YihQ (along with YihO) is important for bacterial O-antigen capsule assembly and translocation. Enzymes of the GH31 family possess a wide range of different hydrolytic activities including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase, 3-alpha-isomaltosyltransferase and alpha-1,4-glucan lyase. All GH31 enzymes cleave a terminal carbohydrate moiety from a substrate that varies considerably in size, depending on the enzyme, and may be either a starch or a glycoprotein.
Probab=23.24 E-value=99 Score=21.83 Aligned_cols=22 Identities=14% Similarity=0.250 Sum_probs=20.2
Q ss_pred cccCCCChhHHHHHHHHHHHHH
Q psy12962 34 GPIDPTKSSSYDFVRDLFTEVR 55 (75)
Q Consensus 34 ~~l~~~~~~t~~f~~~v~~ev~ 55 (75)
+.+|.+||+++++..+.++++.
T Consensus 130 ~~~Dftnp~a~~w~~~~~~~~~ 151 (303)
T cd06592 130 AVLDFTNPEAVDWFLSRLKSLQ 151 (303)
T ss_pred ceEeCCCHHHHHHHHHHHHHHH
Confidence 5699999999999999998887
No 63
>TIGR02848 spore_III_AC stage III sporulation protein AC. Members of this protein family are designated SpoIIIAC, part of the spoIIIA operon of sporulation genes whose mutant phenotype is linked to sporulation stage III. Members of this family are encoded by the genome of a species if and only if that species is capable of endospore formation, as in Bacillus subtilis. The molecular function of this small, probable integral membrane protein is unknown.
Probab=23.19 E-value=98 Score=17.60 Aligned_cols=17 Identities=29% Similarity=0.723 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHhhcC
Q psy12962 43 SYDFVRDLFTEVRSVFH 59 (75)
Q Consensus 43 t~~f~~~v~~ev~~lf~ 59 (75)
...++.++|+++.++|.
T Consensus 47 Vi~~i~~LF~~vks~F~ 63 (64)
T TIGR02848 47 VITLINDLFNKIKTVFL 63 (64)
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 34667788888888874
No 64
>PRK04217 hypothetical protein; Provisional
Probab=23.11 E-value=1.1e+02 Score=18.92 Aligned_cols=39 Identities=10% Similarity=0.174 Sum_probs=26.1
Q ss_pred ccCCCChhHHHHHHHHHHHHHhhcC---CCcEEecCCCCCCC
Q psy12962 35 PIDPTKSSSYDFVRDLFTEVRSVFH---DEFLHTGGDEVDFY 73 (75)
Q Consensus 35 ~l~~~~~~t~~f~~~v~~ev~~lf~---~~~~H~GgDEv~~~ 73 (75)
.+..+....+..+......+.+... ...+--|||||+.+
T Consensus 67 ~LGIS~sTV~r~L~RArkkLre~L~~~~~~~~~~~~~~~~~~ 108 (110)
T PRK04217 67 RMGVSRGTVWRALTSARKKVAQMLVEGRELIILPQGNEVPRD 108 (110)
T ss_pred HHCcCHHHHHHHHHHHHHHHHHHHHhccceeEecCCcccccc
Confidence 4777777777777666666665444 34566699999764
No 65
>PF03956 DUF340: Membrane protein of unknown function (DUF340); InterPro: IPR005642 Members of this family contain a conserved core of four predicted transmembrane segments. Some members have an additional pair of N-terminal transmembrane helices. The functions of the proteins in this family are unknown.
Probab=22.08 E-value=82 Score=21.19 Aligned_cols=19 Identities=21% Similarity=0.550 Sum_probs=15.4
Q ss_pred ChhHHHHHHHHHHHHHhhc
Q psy12962 40 KSSSYDFVRDLFTEVRSVF 58 (75)
Q Consensus 40 ~~~t~~f~~~v~~ev~~lf 58 (75)
.=-|..|+.|+++|+..++
T Consensus 111 ~~G~iafl~n~~RE~~a~~ 129 (191)
T PF03956_consen 111 ELGTIAFLSNLFREILAII 129 (191)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3468999999999998754
No 66
>PRK09894 diguanylate cyclase; Provisional
Probab=22.08 E-value=1e+02 Score=20.68 Aligned_cols=26 Identities=15% Similarity=0.184 Sum_probs=16.6
Q ss_pred HHHHHHHHHHH----hhcC--CCcEEecCCCC
Q psy12962 45 DFVRDLFTEVR----SVFH--DEFLHTGGDEV 70 (75)
Q Consensus 45 ~f~~~v~~ev~----~lf~--~~~~H~GgDEv 70 (75)
..-+.++.+++ ..++ +...++||||+
T Consensus 179 ~~gd~~L~~ia~~l~~~~~~~~~~~R~~g~~F 210 (296)
T PRK09894 179 LIGDVVLRTLATYLASWTRDYETVYRYGGEEF 210 (296)
T ss_pred HHHHHHHHHHHHHHHHhCCCCCEEEEEcCCeE
Confidence 44455555555 4555 35789999986
No 67
>COG4496 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.01 E-value=88 Score=19.17 Aligned_cols=18 Identities=33% Similarity=0.626 Sum_probs=12.6
Q ss_pred CChhHHHHHHHH--HHHHHh
Q psy12962 39 TKSSSYDFVRDL--FTEVRS 56 (75)
Q Consensus 39 ~~~~t~~f~~~v--~~ev~~ 56 (75)
+.++.|.|++++ ++|+.+
T Consensus 23 n~eecy~FfdDlcTinEiqs 42 (100)
T COG4496 23 NLEECYAFFDDLCTINEIQS 42 (100)
T ss_pred cHHHHHHHHHhhcCHHHHHH
Confidence 456889999988 445443
No 68
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=21.78 E-value=1.2e+02 Score=17.37 Aligned_cols=24 Identities=13% Similarity=0.308 Sum_probs=19.6
Q ss_pred ccCCCChhHHHHHHHHHHHHHhhc
Q psy12962 35 PIDPTKSSSYDFVRDLFTEVRSVF 58 (75)
Q Consensus 35 ~l~~~~~~t~~f~~~v~~ev~~lf 58 (75)
..|.+++++++.+..++..+..+-
T Consensus 80 v~D~s~~~s~~~~~~~~~~l~~~~ 103 (119)
T PF08477_consen 80 VYDLSDPESLEYLSQLLKWLKNIR 103 (119)
T ss_dssp EEECCGHHHHHHHHHHHHHHHHHH
T ss_pred EEcCCChHHHHHHHHHHHHHHHHH
Confidence 478899999999999977777654
No 69
>TIGR02396 diverge_rpsU rpsU-divergently transcribed protein. This uncharacterized protein is found in a number of Alphaproteobacteria and, with N-terminal regions long enough to be transit peptides, in eukaryotes. This phylogeny suggests mitochondrial derivation. In several Alphaproteobacteria, the gene for this protein is encoded divergently from rpsU, the gene for ribosomal protein S21. S21 is unusual in being encoded outside the usual long ribosomal protein operons, but rather in contexts that suggest regulation of the initiation of protein translation.
Probab=20.42 E-value=1.2e+02 Score=20.10 Aligned_cols=21 Identities=5% Similarity=0.178 Sum_probs=18.3
Q ss_pred CCCChhHHHHHHHHHHHHHhh
Q psy12962 37 DPTKSSSYDFVRDLFTEVRSV 57 (75)
Q Consensus 37 ~~~~~~t~~f~~~v~~ev~~l 57 (75)
.+...+|+.|++.-+++++.+
T Consensus 157 S~~~~~T~~FLdrri~~v~~~ 177 (184)
T TIGR02396 157 SEGFEDTWSFLDSRIDNAVKL 177 (184)
T ss_pred CCCHHHHHHHHHHHHHHHHHH
Confidence 467789999999999999875
No 70
>PF06162 DUF976: Caenorhabditis elegans protein of unknown function (DUF976); InterPro: IPR010381 This family consists of proteins of unknown function found in Caenorhabditis species.
Probab=20.35 E-value=1.3e+02 Score=20.15 Aligned_cols=33 Identities=21% Similarity=0.188 Sum_probs=27.2
Q ss_pred CCChhHHHHHHHHHHHHHhhcCCCcEEecCCCC
Q psy12962 38 PTKSSSYDFVRDLFTEVRSVFHDEFLHTGGDEV 70 (75)
Q Consensus 38 ~~~~~t~~f~~~v~~ev~~lf~~~~~H~GgDEv 70 (75)
...+.+|+=++..+-|+...-++--||+|.=-+
T Consensus 61 ~K~~~sYe~V~ekvpel~~~~~~~viHL~~Hs~ 93 (166)
T PF06162_consen 61 FKMEVSYEEVDEKVPELWKEQPDFVIHLASHSV 93 (166)
T ss_pred eeccchHHHHHHHhHHHHhhCCCeEEEecCCCC
Confidence 367789999999999999888888999997443
No 71
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=20.23 E-value=2.1e+02 Score=17.17 Aligned_cols=33 Identities=12% Similarity=0.240 Sum_probs=25.4
Q ss_pred cCCCChhHHHHHHHHHHHHHhh-cCCCcEEecCC
Q psy12962 36 IDPTKSSSYDFVRDLFTEVRSV-FHDEFLHTGGD 68 (75)
Q Consensus 36 l~~~~~~t~~f~~~v~~ev~~l-f~~~~~H~GgD 68 (75)
++..+......++++++++.+. ++.-.+.+||-
T Consensus 56 iS~~~~~~~~~~~~~~~~L~~~~~~~i~i~~GG~ 89 (122)
T cd02071 56 LSSLSGGHMTLFPEVIELLRELGAGDILVVGGGI 89 (122)
T ss_pred EcccchhhHHHHHHHHHHHHhcCCCCCEEEEECC
Confidence 5556777888889999999987 44556788874
Done!