Query 030403
Match_columns 178
No_of_seqs 117 out of 760
Neff 3.0
Searched_HMMs 46136
Date Fri Mar 29 13:12:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030403.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030403hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 CHL00075 rpl21 ribosomal prote 99.6 5E-15 1.1E-19 114.0 5.4 42 136-178 2-43 (108)
2 PF00829 Ribosomal_L21p: Ribos 99.5 4.6E-15 9.9E-20 111.1 4.5 41 137-178 1-41 (96)
3 COG0261 RplU Ribosomal protein 99.5 5.3E-15 1.2E-19 114.0 5.0 41 137-178 1-41 (103)
4 PRK05573 rplU 50S ribosomal pr 99.5 1.1E-14 2.4E-19 110.7 5.1 41 137-178 1-41 (103)
5 KOG1686 Mitochondrial/chloropl 99.5 8.9E-15 1.9E-19 118.9 3.6 67 112-178 1-67 (151)
6 TIGR00061 L21 ribosomal protei 99.4 1.6E-13 3.4E-18 104.4 4.8 40 138-178 1-40 (101)
7 PF11356 Pilus_PilP: Type IV p 91.6 0.18 3.9E-06 35.6 2.7 42 110-157 20-62 (87)
8 PF04931 DNA_pol_phi: DNA poly 87.3 0.47 1E-05 46.3 2.8 11 108-118 704-714 (784)
9 PF04351 PilP: Pilus assembly 83.4 1.4 3.1E-05 34.9 3.4 35 118-159 79-114 (149)
10 PF10446 DUF2457: Protein of u 81.5 0.73 1.6E-05 43.9 1.3 6 130-135 124-129 (458)
11 COG0662 {ManC} Mannose-6-phosp 80.9 2.3 4.9E-05 32.4 3.6 22 139-160 68-89 (127)
12 PF02311 AraC_binding: AraC-li 79.7 2.9 6.3E-05 29.1 3.6 22 139-160 34-55 (136)
13 PF12791 RsgI_N: Anti-sigma fa 77.7 4.6 0.0001 26.7 3.9 33 136-175 5-37 (56)
14 COG3168 PilP Tfp pilus assembl 72.8 5.2 0.00011 34.0 3.8 51 118-175 98-149 (170)
15 PF07883 Cupin_2: Cupin domain 69.6 7.5 0.00016 25.2 3.4 22 139-160 30-51 (71)
16 KOG4264 Nucleo-cytoplasmic pro 64.7 6.3 0.00014 39.1 3.1 16 55-70 56-71 (694)
17 PRK09943 DNA-binding transcrip 63.5 10 0.00022 30.2 3.6 22 139-160 139-160 (185)
18 KOG0943 Predicted ubiquitin-pr 62.4 4.1 8.8E-05 44.4 1.5 7 57-63 1726-1732(3015)
19 PF14851 FAM176: FAM176 family 62.2 13 0.00029 30.7 4.2 14 101-114 110-123 (153)
20 TIGR01675 plant-AP plant acid 60.7 7.5 0.00016 33.6 2.6 34 107-140 185-228 (229)
21 PRK15047 N-hydroxyarylamine O- 60.4 14 0.0003 32.5 4.2 42 112-153 79-124 (281)
22 PF15234 LAT: Linker for activ 59.6 16 0.00034 32.2 4.3 12 56-67 88-99 (230)
23 PF05764 YL1: YL1 nuclear prot 58.8 9.4 0.0002 32.7 2.9 16 53-68 27-42 (240)
24 PF13324 GCIP: Grap2 and cycli 56.4 6.8 0.00015 33.5 1.6 12 104-115 179-190 (275)
25 KOG3130 Uncharacterized conser 55.3 6.1 0.00013 38.1 1.2 13 112-124 339-351 (514)
26 PHA03209 serine/threonine kina 54.9 29 0.00063 29.5 5.2 20 108-127 58-77 (357)
27 PF01050 MannoseP_isomer: Mann 53.1 20 0.00043 28.9 3.7 23 138-160 94-116 (151)
28 PF12720 DUF3807: Protein of u 52.9 12 0.00026 31.3 2.5 10 100-109 46-55 (172)
29 KOG0772 Uncharacterized conser 51.8 7.3 0.00016 38.5 1.2 16 143-158 217-232 (641)
30 PF05086 Dicty_REP: Dictyostel 51.4 6.9 0.00015 40.1 1.0 13 60-72 884-896 (911)
31 PHA03211 serine/threonine kina 50.4 48 0.001 30.5 6.2 13 98-110 130-142 (461)
32 PF06249 EutQ: Ethanolamine ut 50.1 28 0.00061 28.7 4.2 27 141-173 108-134 (152)
33 PF03153 TFIIA: Transcription 49.9 10 0.00022 33.6 1.7 36 115-151 329-367 (375)
34 TIGR01713 typeII_sec_gspC gene 49.4 21 0.00046 30.9 3.5 37 116-157 81-117 (259)
35 PF00797 Acetyltransf_2: N-ace 48.5 27 0.00059 28.4 3.9 42 112-153 59-105 (240)
36 PRK12784 hypothetical protein; 48.0 21 0.00045 27.4 2.9 42 135-177 31-72 (84)
37 PF11421 Synthase_beta: ATP sy 46.6 19 0.00042 25.1 2.3 17 1-17 1-17 (49)
38 KOG1824 TATA-binding protein-i 45.6 19 0.00041 38.1 3.0 10 6-15 236-245 (1233)
39 KOG0127 Nucleolar protein fibr 45.2 15 0.00033 36.6 2.2 17 146-162 285-301 (678)
40 PF10949 DUF2777: Protein of u 44.8 23 0.00049 30.3 3.0 22 140-161 67-88 (185)
41 cd04867 TGS_YchF_C TGS_YchF_C: 43.2 13 0.00027 28.3 1.1 20 139-158 62-81 (83)
42 PF05285 SDA1: SDA1; InterPro 43.1 14 0.00031 32.9 1.6 22 1-23 22-43 (324)
43 TIGR03214 ura-cupin putative a 41.0 35 0.00076 29.3 3.6 23 138-160 210-232 (260)
44 PRK15457 ethanolamine utilizat 41.0 35 0.00075 30.2 3.6 22 140-161 187-208 (233)
45 PRK13501 transcriptional activ 38.4 36 0.00078 28.4 3.2 23 139-161 49-71 (290)
46 PRK12766 50S ribosomal protein 36.9 28 0.0006 30.7 2.4 17 96-112 92-108 (232)
47 PRK11171 hypothetical protein; 36.6 45 0.00097 28.7 3.5 21 139-159 216-236 (266)
48 PF04050 Upf2: Up-frameshift s 35.6 12 0.00027 30.2 0.0 13 135-147 120-133 (170)
49 PRK10296 DNA-binding transcrip 35.4 51 0.0011 27.1 3.6 22 139-160 54-75 (278)
50 PF13167 GTP-bdg_N: GTP-bindin 35.4 41 0.00089 25.6 2.8 25 104-128 8-32 (95)
51 PRK10371 DNA-binding transcrip 35.0 49 0.0011 28.4 3.5 22 139-160 57-78 (302)
52 TIGR03021 pilP_fam type IV pil 34.7 44 0.00096 26.2 3.0 27 130-156 74-101 (119)
53 COG5137 Histone chaperone invo 33.8 18 0.00039 32.6 0.7 15 98-113 202-216 (279)
54 PTZ00305 NADH:ubiquinone oxido 33.1 38 0.00083 30.9 2.7 20 138-157 68-88 (297)
55 PF00717 Peptidase_S24: Peptid 31.6 38 0.00082 22.1 1.9 11 149-159 24-34 (70)
56 TIGR02988 YaaA_near_RecF S4 do 30.8 35 0.00076 22.7 1.6 12 147-158 47-58 (59)
57 PF11699 CENP-C_C: Mif2/CENP-C 30.2 70 0.0015 23.7 3.3 23 140-162 45-67 (85)
58 KOG0126 Predicted RNA-binding 29.9 55 0.0012 28.8 3.0 32 138-173 35-66 (219)
59 cd04092 mtEFG2_II_like mtEFG2_ 29.6 66 0.0014 22.3 2.9 23 149-171 60-82 (83)
60 PTZ00007 (NAP-L) nucleosome as 29.5 48 0.001 30.4 2.7 14 54-67 267-281 (337)
61 PF06071 YchF-GTPase_C: Protei 29.2 12 0.00027 28.3 -0.9 19 140-158 63-81 (84)
62 cd06530 S26_SPase_I The S26 Ty 29.2 81 0.0018 21.5 3.3 24 150-173 14-41 (85)
63 PHA02664 hypothetical protein; 29.0 48 0.001 31.7 2.7 14 104-117 513-526 (534)
64 TIGR01680 Veg_Stor_Prot vegeta 28.6 58 0.0012 29.3 3.0 33 108-140 212-255 (275)
65 PF13510 Fer2_4: 2Fe-2S iron-s 28.5 30 0.00066 24.7 1.1 18 140-157 5-22 (82)
66 PRK13500 transcriptional activ 28.2 68 0.0015 27.5 3.3 23 139-161 79-101 (312)
67 cd01614 EutN_CcmL Ethanolamine 28.1 1.3E+02 0.0027 22.5 4.3 53 119-172 5-57 (83)
68 TIGR02297 HpaA 4-hydroxyphenyl 26.7 77 0.0017 26.0 3.2 23 139-161 55-77 (287)
69 cd03690 Tet_II Tet_II: This su 26.3 99 0.0021 21.9 3.4 22 149-170 62-83 (85)
70 PF13079 DUF3916: Protein of u 26.1 53 0.0011 27.3 2.2 21 3-23 43-63 (153)
71 PRK13290 ectC L-ectoine syntha 26.0 85 0.0019 24.4 3.2 21 141-161 68-90 (125)
72 cd04088 EFG_mtEFG_II EFG_mtEFG 25.9 85 0.0018 21.5 2.9 23 149-171 60-82 (83)
73 TIGR01479 GMP_PMI mannose-1-ph 25.9 83 0.0018 29.2 3.6 22 139-160 408-429 (468)
74 PRK10572 DNA-binding transcrip 25.8 76 0.0016 26.3 3.1 21 140-160 61-81 (290)
75 PRK15460 cpsB mannose-1-phosph 25.7 82 0.0018 29.9 3.6 22 139-160 417-438 (478)
76 cd04883 ACT_AcuB C-terminal AC 25.5 71 0.0015 20.8 2.3 17 107-123 55-71 (72)
77 KOG1819 FYVE finger-containing 25.4 1.2E+02 0.0026 30.8 4.7 13 136-148 497-509 (990)
78 cd03691 BipA_TypA_II BipA_TypA 25.3 81 0.0017 21.8 2.7 21 150-170 64-84 (86)
79 smart00540 LEM in nuclear memb 25.3 55 0.0012 21.9 1.8 26 103-129 5-30 (44)
80 PF12299 DUF3627: Protein of u 25.1 30 0.00064 25.1 0.5 38 136-173 23-61 (88)
81 PF10649 DUF2478: Protein of u 25.0 1.7E+02 0.0036 24.2 4.9 46 108-153 18-64 (159)
82 PRK13502 transcriptional activ 24.9 94 0.002 25.6 3.4 23 139-161 49-71 (282)
83 PRK15448 ethanolamine cataboli 24.7 1.6E+02 0.0035 22.5 4.5 53 119-172 5-57 (95)
84 PF04615 Utp14: Utp14 protein; 24.6 33 0.00071 33.6 0.8 18 137-155 55-72 (735)
85 PF04347 FliO: Flagellar biosy 24.2 80 0.0017 22.0 2.6 26 136-161 30-57 (84)
86 smart00835 Cupin_1 Cupin. This 24.1 86 0.0019 23.9 2.9 14 147-160 76-89 (146)
87 PF10165 Ric8: Guanine nucleot 24.1 97 0.0021 28.7 3.7 19 99-117 402-420 (446)
88 KOG0795 Chorismate mutase [Ami 23.9 43 0.00094 30.1 1.4 11 4-14 149-159 (262)
89 PRK09681 putative type II secr 23.5 82 0.0018 28.2 3.0 35 116-158 82-116 (276)
90 PHA02885 putative interleukin 23.4 44 0.00095 27.2 1.2 29 145-173 61-94 (135)
91 TIGR00993 3a0901s04IAP86 chlor 23.3 40 0.00088 34.4 1.2 17 104-120 424-440 (763)
92 PRK09685 DNA-binding transcrip 23.3 1.1E+02 0.0023 25.4 3.5 22 139-160 82-103 (302)
93 TIGR01802 CM_pl-yst monofuncti 23.1 44 0.00096 29.9 1.3 10 5-14 139-148 (246)
94 PF05899 Cupin_3: Protein of u 23.1 1.3E+02 0.0027 21.0 3.4 17 144-160 42-58 (74)
95 PF14525 AraC_binding_2: AraC- 22.8 1.2E+02 0.0027 22.2 3.4 22 139-160 66-87 (172)
96 COG0681 LepB Signal peptidase 22.4 1.3E+02 0.0028 22.6 3.5 24 139-162 34-57 (166)
97 PF14290 DUF4370: Domain of un 22.1 63 0.0014 28.8 2.0 12 55-66 65-76 (239)
98 PF11213 DUF3006: Protein of u 21.7 1.6E+02 0.0034 20.7 3.6 32 135-172 8-42 (71)
99 COG1917 Uncharacterized conser 21.6 1.1E+02 0.0024 22.7 3.0 21 140-160 76-96 (131)
100 PF12518 DUF3721: Protein of u 21.5 80 0.0017 20.4 1.9 18 104-121 2-19 (34)
101 PRK13503 transcriptional activ 21.3 66 0.0014 26.1 1.9 22 139-160 46-67 (278)
102 TIGR00092 GTP-binding protein 21.3 60 0.0013 30.0 1.8 20 139-158 345-364 (368)
103 smart00596 PRE_C2HC PRE_C2HC d 21.0 1.3E+02 0.0029 22.1 3.2 34 107-140 2-35 (69)
104 PRK11171 hypothetical protein; 20.9 1.3E+02 0.0028 25.9 3.6 22 139-160 94-115 (266)
105 PF07530 PRE_C2HC: Associated 20.8 1.5E+02 0.0032 21.1 3.3 33 107-139 2-34 (68)
106 smart00481 POLIIIAc DNA polyme 20.5 1.1E+02 0.0024 20.2 2.6 27 101-127 12-38 (67)
107 KOG1819 FYVE finger-containing 20.4 1.5E+02 0.0034 30.0 4.4 9 64-72 419-427 (990)
108 KOG0262 RNA polymerase I, larg 20.3 45 0.00097 36.4 0.8 16 145-160 1432-1447(1640)
109 PF04712 Radial_spoke: Radial 20.2 63 0.0014 30.8 1.8 7 53-59 334-340 (491)
110 KOG1824 TATA-binding protein-i 20.2 47 0.001 35.3 1.0 8 86-93 336-344 (1233)
No 1
>CHL00075 rpl21 ribosomal protein L21
Probab=99.55 E-value=5e-15 Score=113.98 Aligned_cols=42 Identities=19% Similarity=0.272 Sum_probs=40.5
Q ss_pred ceEEEEeeCCeEEEEeCCCEEEecccCCCCCCCeEEecccccC
Q 030403 136 PAFAVVQIGSHQFKVSNGDSIFTERLKFCEVNDKLSFERPCWF 178 (178)
Q Consensus 136 ~MYAIVeiGGKQYKV~eGD~I~VErL~~aEvGdkI~LdkVLLv 178 (178)
.|||||++|||||||++||+|.||+|+ +++|++|+|++|||+
T Consensus 2 ~myAIi~~gGkQykV~~Gd~i~vekl~-~~~G~~i~l~~VL~~ 43 (108)
T CHL00075 2 MTYAIIEAGGKQLWVEPGRFYDINHFP-LEPGTKILLNRVLLI 43 (108)
T ss_pred cEEEEEEECCEEEEEeCCCEEEEEEcC-CCCCCEEEEEEEEEE
Confidence 699999999999999999999999997 899999999999985
No 2
>PF00829 Ribosomal_L21p: Ribosomal prokaryotic L21 protein; InterPro: IPR001787 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 [, ]. Ribosomal protein L21 is one of the proteins from the large ribosomal subunit. In Escherichia coli, L21 is known to bind to the 23S rRNA in the presence of L20. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities, groups: Bacterial L21. Marchantia polymorpha chloroplast L21. Cyanelle L21. Plant chloroplast L21 (nuclear-encoded). Bacterial L21 is a protein of about 100 amino-acid residues, the mature form of the spinach chloroplast L21 has 200 residues.; GO: 0003723 RNA binding, 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2XG0_V 2X9S_V 2XG2_V 3UZ1_2 2Y19_V 2WDL_V 3V23_V 2WRO_V 2WRL_V 2Y11_V ....
Probab=99.54 E-value=4.6e-15 Score=111.13 Aligned_cols=41 Identities=39% Similarity=0.712 Sum_probs=38.7
Q ss_pred eEEEEeeCCeEEEEeCCCEEEecccCCCCCCCeEEecccccC
Q 030403 137 AFAVVQIGSHQFKVSNGDSIFTERLKFCEVNDKLSFERPCWF 178 (178)
Q Consensus 137 MYAIVeiGGKQYKV~eGD~I~VErL~~aEvGdkI~LdkVLLv 178 (178)
|||||++|||||||++||+|.|++|. +++|++|+|++|||+
T Consensus 1 myAIi~~ggkQykV~~gd~i~v~~l~-~~~G~~i~l~~VL~~ 41 (96)
T PF00829_consen 1 MYAIIEIGGKQYKVEEGDVIDVERLD-AEVGDKIELDKVLLI 41 (96)
T ss_dssp -EEEEESSSEEEEESSSEEEEEESTS-SSTTSEEEETTEEEE
T ss_pred CEEEEEECCEEEEEeCCCEEEECCcC-cCCCCEEEEEEEEEE
Confidence 99999999999999999999999995 999999999999985
No 3
>COG0261 RplU Ribosomal protein L21 [Translation, ribosomal structure and biogenesis]
Probab=99.54 E-value=5.3e-15 Score=114.04 Aligned_cols=41 Identities=34% Similarity=0.629 Sum_probs=40.0
Q ss_pred eEEEEeeCCeEEEEeCCCEEEecccCCCCCCCeEEecccccC
Q 030403 137 AFAVVQIGSHQFKVSNGDSIFTERLKFCEVNDKLSFERPCWF 178 (178)
Q Consensus 137 MYAIVeiGGKQYKV~eGD~I~VErL~~aEvGdkI~LdkVLLv 178 (178)
|||||++|||||||++||+|+||+|. +++|++|+|++|||+
T Consensus 1 mYAii~tGGKQykV~~G~~i~vEkl~-~e~g~~v~f~~VL~v 41 (103)
T COG0261 1 MYAIIKTGGKQYKVEEGDVIKVEKLD-AEPGDKVEFDEVLMV 41 (103)
T ss_pred CeEEEEECCEEEEEecCCEEEEEEcC-CCCCCEEEEEEEEEE
Confidence 99999999999999999999999997 899999999999986
No 4
>PRK05573 rplU 50S ribosomal protein L21; Validated
Probab=99.52 E-value=1.1e-14 Score=110.66 Aligned_cols=41 Identities=34% Similarity=0.648 Sum_probs=39.8
Q ss_pred eEEEEeeCCeEEEEeCCCEEEecccCCCCCCCeEEecccccC
Q 030403 137 AFAVVQIGSHQFKVSNGDSIFTERLKFCEVNDKLSFERPCWF 178 (178)
Q Consensus 137 MYAIVeiGGKQYKV~eGD~I~VErL~~aEvGdkI~LdkVLLv 178 (178)
|||||++|||||||++||+|.|++|+ +++|++|.|++|||+
T Consensus 1 MyAIi~~gGkQykV~~Gd~i~v~~l~-~~~G~~i~l~~VL~~ 41 (103)
T PRK05573 1 MYAIIKTGGKQYKVEEGDVIKVEKLD-AEVGDTVEFDEVLLV 41 (103)
T ss_pred CEEEEEECCEEEEEeCCCEEEEcccC-CCCCCEEEEeEEEEE
Confidence 99999999999999999999999997 999999999999985
No 5
>KOG1686 consensus Mitochondrial/chloroplast ribosomal L21 protein [Translation, ribosomal structure and biogenesis]
Probab=99.51 E-value=8.9e-15 Score=118.93 Aligned_cols=67 Identities=36% Similarity=0.378 Sum_probs=65.0
Q ss_pred HHHHhCcEEecccccCccccccCCceEEEEeeCCeEEEEeCCCEEEecccCCCCCCCeEEecccccC
Q 030403 112 EAAEIGYKVLGPLRKSDRVFKKYEPAFAVVQIGSHQFKVSNGDSIFTERLKFCEVNDKLSFERPCWF 178 (178)
Q Consensus 112 ea~~igykvvg~~~~~~~~~k~~~~MYAIVeiGGKQYKV~eGD~I~VErL~~aEvGdkI~LdkVLLv 178 (178)
||+.|+|+|||++.++.+-+.+|++.||||.+||+||||+.||+||.++++.++++|+|.+++|||+
T Consensus 1 ea~~~e~v~vg~l~s~~~~~~kr~~~favv~v~srq~kvs~gd~iy~eg~~p~nv~d~i~l~kVlLv 67 (151)
T KOG1686|consen 1 MAASSETVTVGRLASACSHSIKRPSGFAVVSVGSRQRKVSSGDTIYTEGLKPKNVLDSIPLPKVLLV 67 (151)
T ss_pred CcccceeEEEeccchhhhhccccCCccEEEEEcceeEEecCCCeeeecCccccccccccccceEEEe
Confidence 5788999999999999999999999999999999999999999999999999999999999999985
No 6
>TIGR00061 L21 ribosomal protein L21. Eubacterial and chloroplast.
Probab=99.42 E-value=1.6e-13 Score=104.44 Aligned_cols=40 Identities=30% Similarity=0.634 Sum_probs=38.7
Q ss_pred EEEEeeCCeEEEEeCCCEEEecccCCCCCCCeEEecccccC
Q 030403 138 FAVVQIGSHQFKVSNGDSIFTERLKFCEVNDKLSFERPCWF 178 (178)
Q Consensus 138 YAIVeiGGKQYKV~eGD~I~VErL~~aEvGdkI~LdkVLLv 178 (178)
||||++|||||||++||+|.||+|+ +++|+.|+|++|||+
T Consensus 1 yAIi~~gGkQykV~~Gd~i~Ve~l~-~~~G~~i~l~~VLlv 40 (101)
T TIGR00061 1 YAIVEIGGKQYKVEEGQTVRIEKLD-AAPGDTVEFDKVLMV 40 (101)
T ss_pred CEEEEECCEEEEEeCCCEEEEcccC-CCCCCEEEEEEEEEE
Confidence 8999999999999999999999997 899999999999985
No 7
>PF11356 Pilus_PilP: Type IV pilus biogenesis; InterPro: IPR022753 Type IV pili are required for auto-agglutination, twitching motility, biofilm formation, adherence and DNA uptake during transformation []. PilP is an inner membrane protein, required for pilus expression and transformation []. PilP interacts with PilQ which suggests that the two proteins may have coordinated activity in functions such as pilus extrusion/retraction []. ; PDB: 3OSS_C 2LNV_A.
Probab=91.61 E-value=0.18 Score=35.62 Aligned_cols=42 Identities=21% Similarity=0.284 Sum_probs=28.8
Q ss_pred HHHHHHhCcEEecccccCccccccCCceEEEEe-eCCeEEEEeCCCEEE
Q 030403 110 EAEAAEIGYKVLGPLRKSDRVFKKYEPAFAVVQ-IGSHQFKVSNGDSIF 157 (178)
Q Consensus 110 ~~ea~~igykvvg~~~~~~~~~k~~~~MYAIVe-iGGKQYKV~eGD~I~ 157 (178)
...+...+++++|-+... ....+|||+ .+|+|..+..||.|-
T Consensus 20 ~~~~~~~~l~L~Gvi~~~------~~~~~Aii~~~~~~~~~~~~Gd~i~ 62 (87)
T PF11356_consen 20 PAPATSLNLTLVGVISGG------GGRSSAIIRPSGGEQRTYRVGDTIP 62 (87)
T ss_dssp -S--S-SSSEEEEEE-SC------SSS-EEEEE-CTTEEEEE-TTEE-S
T ss_pred CCCCCCCCcEEEEEEEcC------CCceEEEEEeCCCcEEEEECcCEeC
Confidence 345566789999988322 267899999 999999999999987
No 8
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=87.26 E-value=0.47 Score=46.32 Aligned_cols=11 Identities=27% Similarity=0.220 Sum_probs=5.8
Q ss_pred HHHHHHHHhCc
Q 030403 108 EKEAEAAEIGY 118 (178)
Q Consensus 108 e~~~ea~~igy 118 (178)
-..+.++++|.
T Consensus 704 ~~~~l~~aL~~ 714 (784)
T PF04931_consen 704 FRSALAKALGD 714 (784)
T ss_pred HHHHHHHHhcc
Confidence 33444666664
No 9
>PF04351 PilP: Pilus assembly protein, PilP; InterPro: IPR007446 The PilP family are periplasmic proteins involved in the biogenesis of type IV pili [].; PDB: 2Y4Y_B 2Y4X_A 2IVW_A 2LC4_A.
Probab=83.39 E-value=1.4 Score=34.91 Aligned_cols=35 Identities=29% Similarity=0.443 Sum_probs=28.8
Q ss_pred cEEecccccCccccccCCceEEEEee-CCeEEEEeCCCEEEec
Q 030403 118 YKVLGPLRKSDRVFKKYEPAFAVVQI-GSHQFKVSNGDSIFTE 159 (178)
Q Consensus 118 ykvvg~~~~~~~~~k~~~~MYAIVei-GGKQYKV~eGD~I~VE 159 (178)
.|.||-|... ..++|+|+. .|+=|+|..|++|=-+
T Consensus 79 LklvG~l~~~-------~~~~ALv~~pdg~v~~V~~G~yiG~n 114 (149)
T PF04351_consen 79 LKLVGTLSQG-------GQPWALVQDPDGKVYRVKVGDYIGQN 114 (149)
T ss_dssp EEEEEEEEET-------TEEEEEEEE-TTEEEEEETTEEETTT
T ss_pred eEEEEEEeeC-------CEEEEEEEeCCCCEEEecCCCEeccC
Confidence 5889987533 578999999 9999999999998543
No 10
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=81.55 E-value=0.73 Score=43.91 Aligned_cols=6 Identities=0% Similarity=-0.042 Sum_probs=2.7
Q ss_pred ccccCC
Q 030403 130 VFKKYE 135 (178)
Q Consensus 130 ~~k~~~ 135 (178)
.|+|..
T Consensus 124 ~WtP~~ 129 (458)
T PF10446_consen 124 FWTPGA 129 (458)
T ss_pred eecccc
Confidence 445543
No 11
>COG0662 {ManC} Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=80.94 E-value=2.3 Score=32.40 Aligned_cols=22 Identities=32% Similarity=0.604 Sum_probs=20.1
Q ss_pred EEEeeCCeEEEEeCCCEEEecc
Q 030403 139 AVVQIGSHQFKVSNGDSIFTER 160 (178)
Q Consensus 139 AIVeiGGKQYKV~eGD~I~VEr 160 (178)
|+|.++|+++-|++||.++|+.
T Consensus 68 g~v~~~~~~~~v~~gd~~~iP~ 89 (127)
T COG0662 68 GKVTIGGEEVEVKAGDSVYIPA 89 (127)
T ss_pred EEEEECCEEEEecCCCEEEECC
Confidence 6688999999999999999974
No 12
>PF02311 AraC_binding: AraC-like ligand binding domain; InterPro: IPR003313 This entry defines the arabinose-binding and dimerisation domain of the bacterial gene regulatory protein AraC. The crystal structure of the arabinose-binding and dimerization domain of the Escherichia coli gene regulatory protein AraC was determined in the presence and absence of L-arabinose. The arabinose-bound molecule shows that the protein adopts an unusual fold, binding sugar within a beta barrel and completely burying the arabinose with the amino-terminal arm of the protein. Dimer contacts in the presence of arabinose are mediated by an antiparallel coiled-coil. In the uncomplexed protein, the amino-terminal arm is disordered, uncovering the sugar-binding pocket and allowing it to serve as an oligomerization interface [].; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 1XJA_B 2ARA_A 2AAC_B 2ARC_A.
Probab=79.69 E-value=2.9 Score=29.09 Aligned_cols=22 Identities=14% Similarity=0.404 Sum_probs=16.6
Q ss_pred EEEeeCCeEEEEeCCCEEEecc
Q 030403 139 AVVQIGSHQFKVSNGDSIFTER 160 (178)
Q Consensus 139 AIVeiGGKQYKV~eGD~I~VEr 160 (178)
+.+.++|++|.|++|+++.+..
T Consensus 34 ~~~~~~~~~~~l~~g~~~li~p 55 (136)
T PF02311_consen 34 GTLHIDGQEYPLKPGDLFLIPP 55 (136)
T ss_dssp EEEEETTEEEEE-TT-EEEE-T
T ss_pred EEEEECCEEEEEECCEEEEecC
Confidence 4578999999999999999864
No 13
>PF12791 RsgI_N: Anti-sigma factor N-terminus; InterPro: IPR024449 The heat shock genes in Bacillus subtilis can be classified into several groups according to their regulation [], and the sigma gene, sigI, of Bacillus subtilis belongs to the group IV heat-shock response genes and has many orthologues in the bacterial phylum Firmicutes []. Regulation of sigma factor I is carried out by RsgI from the same operon. This entry represents the N-terminal cytoplasmic portion of RsgI ('upstream' of the single transmembrane helix) which has been shown to interact directly with Sigma-I [].
Probab=77.70 E-value=4.6 Score=26.75 Aligned_cols=33 Identities=24% Similarity=0.376 Sum_probs=26.5
Q ss_pred ceEEEEeeCCeEEEEeCCCEEEecccCCCCCCCeEEeccc
Q 030403 136 PAFAVVQIGSHQFKVSNGDSIFTERLKFCEVNDKLSFERP 175 (178)
Q Consensus 136 ~MYAIVeiGGKQYKV~eGD~I~VErL~~aEvGdkI~LdkV 175 (178)
.-||||-+. .|+++.|.+..++++|++|.|+..
T Consensus 5 ~~~aiVlT~-------dGeF~~ik~~~~~~vG~eI~~~~~ 37 (56)
T PF12791_consen 5 KKYAIVLTP-------DGEFIKIKRKPGMEVGQEIEFDEK 37 (56)
T ss_pred CCEEEEEcC-------CCcEEEEeCCCCCcccCEEEEech
Confidence 346777665 688899998888999999999863
No 14
>COG3168 PilP Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=72.79 E-value=5.2 Score=33.96 Aligned_cols=51 Identities=12% Similarity=0.297 Sum_probs=35.5
Q ss_pred cEEecccccCccccccCCceEEEEeeCCeEEEEeCCCEEEecccCCCCC-CCeEEeccc
Q 030403 118 YKVLGPLRKSDRVFKKYEPAFAVVQIGSHQFKVSNGDSIFTERLKFCEV-NDKLSFERP 175 (178)
Q Consensus 118 ykvvg~~~~~~~~~k~~~~MYAIVeiGGKQYKV~eGD~I~VErL~~aEv-GdkI~LdkV 175 (178)
+|.||-+. ..+..+|+|+..|+-|+|..|++|=.+.=+=+.+ .+.|.|+++
T Consensus 98 ~rlvGtm~-------~g~~~~A~i~~~~~v~~V~vG~YlGqN~GrV~rI~d~~i~l~El 149 (170)
T COG3168 98 FRLVGTLK-------SGQGVSALIEAPGGVYRVRVGQYLGQNYGRVVRITDDSIVLNEL 149 (170)
T ss_pred eeeEEEec-------CCCceEEEEEcCCceEEEeeccEeeccCceEEEecCCeEEeeee
Confidence 67787654 4467899999999999999999997553221122 345666554
No 15
>PF07883 Cupin_2: Cupin domain; InterPro: IPR013096 This family represents the conserved barrel domain of the cupin superfamily [] (cupa is the Latin term for a small barrel). ; PDB: 2OPK_C 3BU7_B 2PHD_D 3NVC_A 3NKT_A 3NJZ_A 3NW4_A 3NST_A 3NL1_A 2H0V_A ....
Probab=69.56 E-value=7.5 Score=25.17 Aligned_cols=22 Identities=14% Similarity=0.450 Sum_probs=18.7
Q ss_pred EEEeeCCeEEEEeCCCEEEecc
Q 030403 139 AVVQIGSHQFKVSNGDSIFTER 160 (178)
Q Consensus 139 AIVeiGGKQYKV~eGD~I~VEr 160 (178)
+.+.++|+.+.+++||.++++.
T Consensus 30 ~~~~~~~~~~~l~~Gd~~~i~~ 51 (71)
T PF07883_consen 30 GTLTVDGERVELKPGDAIYIPP 51 (71)
T ss_dssp EEEEETTEEEEEETTEEEEEET
T ss_pred EEEEEccEEeEccCCEEEEECC
Confidence 3455899999999999999875
No 16
>KOG4264 consensus Nucleo-cytoplasmic protein MLN51 [General function prediction only]
Probab=64.69 E-value=6.3 Score=39.06 Aligned_cols=16 Identities=25% Similarity=0.198 Sum_probs=9.6
Q ss_pred cccccccccCCCCCCC
Q 030403 55 WSHYRHFSSNKNDDEG 70 (178)
Q Consensus 55 ~~~~r~fss~~~~d~~ 70 (178)
-+|.|.+-|-+.-..+
T Consensus 56 alHlrrvesa~~~e~~ 71 (694)
T KOG4264|consen 56 ALHLRRVESAKPAESV 71 (694)
T ss_pred ccchhcccccCccccc
Confidence 4588887775543333
No 17
>PRK09943 DNA-binding transcriptional repressor PuuR; Provisional
Probab=63.45 E-value=10 Score=30.19 Aligned_cols=22 Identities=18% Similarity=0.369 Sum_probs=19.5
Q ss_pred EEEeeCCeEEEEeCCCEEEecc
Q 030403 139 AVVQIGSHQFKVSNGDSIFTER 160 (178)
Q Consensus 139 AIVeiGGKQYKV~eGD~I~VEr 160 (178)
+.+.++|+.|.+.+||.++++.
T Consensus 139 ~~~~~~~~~~~l~~Gd~~~~~~ 160 (185)
T PRK09943 139 IVLTINGQDYHLVAGQSYAINT 160 (185)
T ss_pred EEEEECCEEEEecCCCEEEEcC
Confidence 4578999999999999999875
No 18
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=62.40 E-value=4.1 Score=44.41 Aligned_cols=7 Identities=14% Similarity=0.306 Sum_probs=3.5
Q ss_pred ccccccc
Q 030403 57 HYRHFSS 63 (178)
Q Consensus 57 ~~r~fss 63 (178)
.-|-|.-
T Consensus 1726 q~~ef~G 1732 (3015)
T KOG0943|consen 1726 QEGEFAG 1732 (3015)
T ss_pred CcccccC
Confidence 3455654
No 19
>PF14851 FAM176: FAM176 family
Probab=62.16 E-value=13 Score=30.65 Aligned_cols=14 Identities=21% Similarity=0.126 Sum_probs=7.4
Q ss_pred CCCCCHHHHHHHHH
Q 030403 101 GREYTLEEKEAEAA 114 (178)
Q Consensus 101 ~~~~~~ee~~~ea~ 114 (178)
..+||+.|..+.|.
T Consensus 110 ~nvf~sae~~e~A~ 123 (153)
T PF14851_consen 110 VNVFTSAEELERAQ 123 (153)
T ss_pred cCCcccHHHHHHHH
Confidence 34567765444443
No 20
>TIGR01675 plant-AP plant acid phosphatase. This model explicitly excludes the VSPs which lack the nucleophilc aspartate. The possibility exists, however, that some members of this family may, while containing all of the conserved HAD-superfamily catalytic residues, lack activity and have a function related to the function of the VSPs rather than the acid phosphatases.
Probab=60.67 E-value=7.5 Score=33.56 Aligned_cols=34 Identities=29% Similarity=0.515 Sum_probs=26.0
Q ss_pred HHHHHHHHHhCcEEecccccC----------ccccccCCceEEE
Q 030403 107 EEKEAEAAEIGYKVLGPLRKS----------DRVFKKYEPAFAV 140 (178)
Q Consensus 107 ee~~~ea~~igykvvg~~~~~----------~~~~k~~~~MYAI 140 (178)
.+..++..+-||+|+|-++.+ .|.||-..+||=|
T Consensus 185 s~~R~~l~~~GYrIv~~iGDq~sDl~G~~~~~RtFKLPNPmYyi 228 (229)
T TIGR01675 185 SEVRKSLMEEGYRIWGNIGDQWSDLLGSPPGRRTFKLPNPMYYV 228 (229)
T ss_pred HHHHHHHHhCCceEEEEECCChHHhcCCCccCceeeCCCCcccC
Confidence 455667777899999998776 4778888888743
No 21
>PRK15047 N-hydroxyarylamine O-acetyltransferase; Provisional
Probab=60.37 E-value=14 Score=32.52 Aligned_cols=42 Identities=17% Similarity=0.289 Sum_probs=31.1
Q ss_pred HHHHhCcEEe---cccccC-ccccccCCceEEEEeeCCeEEEEeCC
Q 030403 112 EAAEIGYKVL---GPLRKS-DRVFKKYEPAFAVVQIGSHQFKVSNG 153 (178)
Q Consensus 112 ea~~igykvv---g~~~~~-~~~~k~~~~MYAIVeiGGKQYKV~eG 153 (178)
--.++||+|. |++... ...+.+...|.-+|.++|++|.|-.|
T Consensus 79 ~L~~LGF~v~~~~arV~~~~~~~~~~~tH~~l~V~i~~~~yLvDVG 124 (281)
T PRK15047 79 VLRELGFNVRSLLGRVVLSNPPALPPRTHRLLLVELEGEKWIADVG 124 (281)
T ss_pred HHHHcCCcEEEEEEEEEecCCCCCCCcCcEEEEEEECCeeEEEEec
Confidence 4568999976 444332 23346778999999999999999876
No 22
>PF15234 LAT: Linker for activation of T-cells
Probab=59.57 E-value=16 Score=32.18 Aligned_cols=12 Identities=25% Similarity=0.182 Sum_probs=6.9
Q ss_pred ccccccccCCCC
Q 030403 56 SHYRHFSSNKND 67 (178)
Q Consensus 56 ~~~r~fss~~~~ 67 (178)
.++|.=||+..-
T Consensus 88 gShrmpSSrqds 99 (230)
T PF15234_consen 88 GSHRMPSSRQDS 99 (230)
T ss_pred CcccCcccccCC
Confidence 367776765433
No 23
>PF05764 YL1: YL1 nuclear protein; InterPro: IPR008895 The proteins in this family are designated YL1 []. They have been shown to be DNA-binding and may be transcription factors [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=58.80 E-value=9.4 Score=32.66 Aligned_cols=16 Identities=25% Similarity=0.729 Sum_probs=10.4
Q ss_pred CccccccccccCCCCC
Q 030403 53 TNWSHYRHFSSNKNDD 68 (178)
Q Consensus 53 ~~~~~~r~fss~~~~d 68 (178)
.||-|.-.|.-...|+
T Consensus 27 ~~~~~~~~f~Eee~D~ 42 (240)
T PF05764_consen 27 FFWNQYGLFQEEEDDE 42 (240)
T ss_pred hhhhhcccccccCCCc
Confidence 4687777777655444
No 24
>PF13324 GCIP: Grap2 and cyclin-D-interacting; PDB: 3AY5_A.
Probab=56.37 E-value=6.8 Score=33.55 Aligned_cols=12 Identities=33% Similarity=0.196 Sum_probs=5.8
Q ss_pred CCHHHHHHHHHH
Q 030403 104 YTLEEKEAEAAE 115 (178)
Q Consensus 104 ~~~ee~~~ea~~ 115 (178)
+|+||++.....
T Consensus 179 ~seee~~~~~~~ 190 (275)
T PF13324_consen 179 LSEEEMELAKAV 190 (275)
T ss_dssp --HHHHHHHHHH
T ss_pred CCHHHHHHHHHH
Confidence 788876544443
No 25
>KOG3130 consensus Uncharacterized conserved protein [Function unknown]
Probab=55.27 E-value=6.1 Score=38.06 Aligned_cols=13 Identities=23% Similarity=0.051 Sum_probs=6.5
Q ss_pred HHHHhCcEEeccc
Q 030403 112 EAAEIGYKVLGPL 124 (178)
Q Consensus 112 ea~~igykvvg~~ 124 (178)
+|..+-=+-.|..
T Consensus 339 ~~~r~~~~stG~~ 351 (514)
T KOG3130|consen 339 EAKRKRKNSTGSG 351 (514)
T ss_pred HHHHHHhcccccc
Confidence 4444544455555
No 26
>PHA03209 serine/threonine kinase US3; Provisional
Probab=54.90 E-value=29 Score=29.46 Aligned_cols=20 Identities=25% Similarity=0.469 Sum_probs=14.7
Q ss_pred HHHHHHHHhCcEEecccccC
Q 030403 108 EKEAEAAEIGYKVLGPLRKS 127 (178)
Q Consensus 108 e~~~ea~~igykvvg~~~~~ 127 (178)
.........||+++..|...
T Consensus 58 ~~~~~~~~~~y~~~~~lg~G 77 (357)
T PHA03209 58 KAREVVASLGYTVIKTLTPG 77 (357)
T ss_pred hhhhhhhhcCcEEEEEecCC
Confidence 33455667899999998765
No 27
>PF01050 MannoseP_isomer: Mannose-6-phosphate isomerase; InterPro: IPR001538 Mannose-6-phosphate isomerase or phosphomannose isomerase (5.3.1.8 from EC) (PMI) is the enzyme that catalyses the interconversion of mannose-6-phosphate and fructose-6-phosphate. In eukaryotes PMI is involved in the synthesis of GDP-mannose, a constituent of N- and O-linked glycans and GPI anchors and in prokaryotes it participates in a variety of pathways, including capsular polysaccharide biosynthesis and D-mannose metabolism. PMI's belong to the cupin superfamily whose functions range from isomerase and epimerase activities involved in the modification of cell wall carbohydrates in bacteria and plants, to non-enzymatic storage proteins in plant seeds, and transcription factors linked to congenital baldness in mammals []. Three classes of PMI have been defined []. The type II phosphomannose isomerases are bifunctional enzymes 5.3.1.8 from EC. This entry covers the isomerase region of the protein []. The guanosine diphospho-D-mannose pyrophosphorylase region is described in another InterPro entry (see IPR005836 from INTERPRO).; GO: 0016779 nucleotidyltransferase activity, 0005976 polysaccharide metabolic process
Probab=53.12 E-value=20 Score=28.95 Aligned_cols=23 Identities=30% Similarity=0.615 Sum_probs=20.7
Q ss_pred EEEEeeCCeEEEEeCCCEEEecc
Q 030403 138 FAVVQIGSHQFKVSNGDSIFTER 160 (178)
Q Consensus 138 YAIVeiGGKQYKV~eGD~I~VEr 160 (178)
-|.|.++++.+.|.+|+.++|++
T Consensus 94 ~a~v~~~~~~~~~~~g~sv~Ip~ 116 (151)
T PF01050_consen 94 TAEVTLDDEEFTLKEGDSVYIPR 116 (151)
T ss_pred eEEEEECCEEEEEcCCCEEEECC
Confidence 47789999999999999999874
No 28
>PF12720 DUF3807: Protein of unknown function (DUF3807); InterPro: IPR024526 This is a family of conserved fungal proteins of unknown function.
Probab=52.90 E-value=12 Score=31.27 Aligned_cols=10 Identities=30% Similarity=0.235 Sum_probs=7.9
Q ss_pred CCCCCCHHHH
Q 030403 100 LGREYTLEEK 109 (178)
Q Consensus 100 ~~~~~~~ee~ 109 (178)
.||-||.|+.
T Consensus 46 VKRTLTDEQI 55 (172)
T PF12720_consen 46 VKRTLTDEQI 55 (172)
T ss_pred CcccccHHHH
Confidence 4889999874
No 29
>KOG0772 consensus Uncharacterized conserved protein, contains WD40 repeat [Function unknown]
Probab=51.84 E-value=7.3 Score=38.51 Aligned_cols=16 Identities=25% Similarity=0.418 Sum_probs=9.6
Q ss_pred eCCeEEEEeCCCEEEe
Q 030403 143 IGSHQFKVSNGDSIFT 158 (178)
Q Consensus 143 iGGKQYKV~eGD~I~V 158 (178)
|++-||-|.-+.++.|
T Consensus 217 i~sl~ys~Tg~~iLvv 232 (641)
T KOG0772|consen 217 INSLQYSVTGDQILVV 232 (641)
T ss_pred cceeeecCCCCeEEEE
Confidence 5666777755555444
No 30
>PF05086 Dicty_REP: Dictyostelium (Slime Mold) REP protein; InterPro: IPR007778 This family consists of REP proteins from a number of Dictyostelium species (Slime molds). REP protein is probably involved in transcription regulation and control of DNA replication, specifically the amplification of plasmid at low copy numbers. The formation of homomultimers may be required for their regulatory activity [].
Probab=51.42 E-value=6.9 Score=40.11 Aligned_cols=13 Identities=46% Similarity=0.800 Sum_probs=6.0
Q ss_pred ccccCCCCCCCCC
Q 030403 60 HFSSNKNDDEGED 72 (178)
Q Consensus 60 ~fss~~~~d~~~~ 72 (178)
+|.+...+|.+|+
T Consensus 884 ~f~~~~~~d~dE~ 896 (911)
T PF05086_consen 884 QFQSNGDEDTDED 896 (911)
T ss_pred HHHhcCCcccccc
Confidence 4555544444433
No 31
>PHA03211 serine/threonine kinase US3; Provisional
Probab=50.41 E-value=48 Score=30.45 Aligned_cols=13 Identities=38% Similarity=0.271 Sum_probs=7.2
Q ss_pred CCCCCCCCHHHHH
Q 030403 98 PDLGREYTLEEKE 110 (178)
Q Consensus 98 ~~~~~~~~~ee~~ 110 (178)
..+....|.++.+
T Consensus 130 ~~~~~~~t~~~l~ 142 (461)
T PHA03211 130 PAPPGGLTPEELE 142 (461)
T ss_pred CCCCCCCChhhhh
Confidence 3444566677644
No 32
>PF06249 EutQ: Ethanolamine utilisation protein EutQ; InterPro: IPR010424 The eut operon of Salmonella typhimurium encodes proteins involved in the cobalamin-dependent degradation of ethanolamine. The role of EutQ in this process is unclear [].; PDB: 2PYT_B 3LWC_A.
Probab=50.13 E-value=28 Score=28.68 Aligned_cols=27 Identities=22% Similarity=0.543 Sum_probs=20.4
Q ss_pred EeeCCeEEEEeCCCEEEecccCCCCCCCeEEec
Q 030403 141 VQIGSHQFKVSNGDSIFTERLKFCEVNDKLSFE 173 (178)
Q Consensus 141 VeiGGKQYKV~eGD~I~VErL~~aEvGdkI~Ld 173 (178)
|.+.|+-|...+||+|++++ |.+|+|.
T Consensus 108 i~~~G~~~~A~~GDvi~iPk------Gs~I~fs 134 (152)
T PF06249_consen 108 ISIDGQTVTAKPGDVIFIPK------GSTITFS 134 (152)
T ss_dssp EEETTEEEEEETT-EEEE-T------T-EEEEE
T ss_pred EEECCEEEEEcCCcEEEECC------CCEEEEe
Confidence 45899999999999999876 4488874
No 33
>PF03153 TFIIA: Transcription factor IIA, alpha/beta subunit; InterPro: IPR004855 Transcription factor IIA (TFIIA) is one of several factors that form part of a transcription pre-initiation complex along with RNA polymerase II, the TATA-box-binding protein (TBP) and TBP-associated factors, on the TATA-box sequence upstream of the initiation start site. After initiation, some components of the pre-initiation complex (including TFIIA) remain attached and re-initiate a subsequent round of transcription. TFIIA binds to TBP to stabilise TBP binding to the TATA element. TFIIA also inhibits the cytokine HMGB1 (high mobility group 1 protein) binding to TBP [], and can dissociate HMGB1 already bound to TBP/TATA-box. Human and Drosophila TFIIA have three subunits: two large subunits, LN/alpha and LC/beta, derived from the same gene, and a small subunit, S/gamma. Yeast TFIIA has two subunits: a large TOA1 subunit that shows sequence similarity to the N-terminal of LN/alpha and the C-terminal of LC/beta, and a small subunit, TOA2 that is highly homologous with S/gamma. The conserved regions of the large and small subunits of TFIIA combine to form two domains: a four-helix bundle (helical domain) composed of two helices from each of the N-terminal regions of TOA1 and TOA2 in yeast; and a beta-barrel (beta-barrel domain) composed of beta-sheets from the C-terminal regions of TOA1 and TOA2 []. This entry represents the precursor that yields both the alpha and beta subunits of TFIIA. The TFIIA heterotrimer is an essential general transcription initiation factor for the expression of genes transcribed by RNA polymerase II []. ; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005672 transcription factor TFIIA complex; PDB: 1NVP_B 1YTF_B 1RM1_C 1NH2_B.
Probab=49.87 E-value=10 Score=33.58 Aligned_cols=36 Identities=17% Similarity=0.208 Sum_probs=19.5
Q ss_pred HhCcEEecccccCcc---ccccCCceEEEEeeCCeEEEEe
Q 030403 115 EIGYKVLGPLRKSDR---VFKKYEPAFAVVQIGSHQFKVS 151 (178)
Q Consensus 115 ~igykvvg~~~~~~~---~~k~~~~MYAIVeiGGKQYKV~ 151 (178)
..+.-|+.-+.+=.| .||- .---.|+.++||=|...
T Consensus 329 ~~~~~~~c~~~kv~r~k~~wk~-~lk~g~~~~~~~d~~f~ 367 (375)
T PF03153_consen 329 DTDNVVLCQYDKVTRVKNKWKC-TLKDGIMHINGKDYVFQ 367 (375)
T ss_dssp TTS-EEEEEEEEEEEETTEEEE-EEEEEEEEETTEEEEEE
T ss_pred CcCCEEEEEeeccccccceeEE-EeeeeEEEECCeEEEEe
Confidence 455555554433222 2222 23568889999988654
No 34
>TIGR01713 typeII_sec_gspC general secretion pathway protein C. This model represents GspC, protein C of the main terminal branch of the general secretion pathway, also called type II secretion. This system transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.
Probab=49.42 E-value=21 Score=30.92 Aligned_cols=37 Identities=24% Similarity=0.337 Sum_probs=31.2
Q ss_pred hCcEEecccccCccccccCCceEEEEeeCCeEEEEeCCCEEE
Q 030403 116 IGYKVLGPLRKSDRVFKKYEPAFAVVQIGSHQFKVSNGDSIF 157 (178)
Q Consensus 116 igykvvg~~~~~~~~~k~~~~MYAIVeiGGKQYKV~eGD~I~ 157 (178)
+.-+++|-+..++ .+.-+|||+.+|+|.....||.|-
T Consensus 81 L~l~L~Gv~~~~~-----~~~s~AiI~~~~~q~~y~iGd~i~ 117 (259)
T TIGR01713 81 LSLKLTGIVASSD-----RIRSIAIIEEGSEQVSLGINESFE 117 (259)
T ss_pred cceEEEEEEEcCC-----CcceEEEEEeCCeEEEEeCCCCcC
Confidence 5678899998766 256789999999999999999985
No 35
>PF00797 Acetyltransf_2: N-acetyltransferase; InterPro: IPR001447 Arylamine N-acetyltransferase (NAT) is a cytosolic enzyme of approximately 30 kDa. It facilitates the transfer of an acetyl group from acetyl coenzyme A on to a wide range of arylamine, N-hydroxyarylamines and hydrazines. Acetylation of these compounds generally results in inactivation. NAT is found in many species from Mycobacteria (Mycobacterium tuberculosis, Mycobacterium smegmatis etc) to Homo sapiens (Human). It was the first enzyme to be observed to have polymorphic activity amongst human individuals. NAT is responsible for the inactivation of Isoniazid (a drug used to treat tuberculosis) in humans. The NAT protein has also been shown to be involved in the breakdown of folic acid. NAT catalyses the reaction: Acetyl-coA + arylamine = coA + N-acetylarylamine NAT is the target of a common genetic polymorphism of clinical relevance in humans. The N-acetylation polymorphism is determined by low or high NAT activity in liver. NAT has been implicated in the action and toxicity of amine-containing drugs, and in the susceptibility to cancer and systematic lupus erythematosus. Two highly similar human genes for NAT, termed NAT1 and NAT2, encode genetically invariant and variant NAT proteins, respectively. ; GO: 0016407 acetyltransferase activity, 0008152 metabolic process; PDB: 1W6F_A 1W5R_A 1GX3_D 2PQT_A 2IJA_A 1W4T_A 2BSZ_B 3D9W_B 3LTW_A 3LNB_A ....
Probab=48.50 E-value=27 Score=28.41 Aligned_cols=42 Identities=14% Similarity=0.268 Sum_probs=28.3
Q ss_pred HHHHhCcEEe---cccccCccc--cccCCceEEEEeeCCeEEEEeCC
Q 030403 112 EAAEIGYKVL---GPLRKSDRV--FKKYEPAFAVVQIGSHQFKVSNG 153 (178)
Q Consensus 112 ea~~igykvv---g~~~~~~~~--~k~~~~MYAIVeiGGKQYKV~eG 153 (178)
.-.++||+|- |++...... ..+...|--||.+.|+.|.|-.|
T Consensus 59 lL~~lGf~v~~~~arv~~~~~~~~~~~~~H~~liV~~~~~~ylvDvG 105 (240)
T PF00797_consen 59 LLRELGFDVTLVSARVYSPGGPDYWPPRTHLVLIVTLDGERYLVDVG 105 (240)
T ss_dssp HHHHCT-EEEEEEEEEETTTTTCCSSSEEEEEEEEEETTEEEEE-SS
T ss_pred HHHHCCCeEEEEEEEEEeCCCCCCCCCCceEEEEEEECCEEEEEecc
Confidence 3467999986 333333222 45667899999999999999876
No 36
>PRK12784 hypothetical protein; Provisional
Probab=48.02 E-value=21 Score=27.36 Aligned_cols=42 Identities=14% Similarity=0.019 Sum_probs=38.0
Q ss_pred CceEEEEeeCCeEEEEeCCCEEEecccCCCCCCCeEEeccccc
Q 030403 135 EPAFAVVQIGSHQFKVSNGDSIFTERLKFCEVNDKLSFERPCW 177 (178)
Q Consensus 135 ~~MYAIVeiGGKQYKV~eGD~I~VErL~~aEvGdkI~LdkVLL 177 (178)
++.|.|=..+|+--||..|=.=+|..++ +++|++|.-+.+|+
T Consensus 31 EkL~~I~~~dg~le~v~vGiSG~I~~v~-Ve~Gq~i~~dtlL~ 72 (84)
T PRK12784 31 EKLMMIRKNNGELEKVAVGISGNIRLVN-VVVGQQIHTDTLLV 72 (84)
T ss_pred eeeeEEeecCCcEEEEEEeeeeeEEEEE-eecCceecCCcEEE
Confidence 6799999999999999999999999997 99999998877764
No 37
>PF11421 Synthase_beta: ATP synthase F1 beta subunit; InterPro: IPR020971 F-type ATPases have 2 components, CF1 - the catalytic core - and CF0 - the membrane proton channel. CF1 has five subunits: alpha3, beta3, gamma1, delta1, epsilon1. CF0 has three main subunits: a, b and c. This entry represents the beta subunit of the F1 component. The NMR solution structure of the protein in SDS micelles was found to contain two helices, an N-terminal amphipathic alpha-helix and a C-terminal alpha-helix separated by a large unstructured internal domain. The N-terminal alpha-helix is the Tom20 receptor binding site whereas the C-terminal alpha-helix is located upstream of the mitochondrial processing peptidase cleavage site [].; GO: 0005524 ATP binding, 0016887 ATPase activity, 0006200 ATP catabolic process, 0006754 ATP biosynthetic process, 0000275 mitochondrial proton-transporting ATP synthase complex, catalytic core F(1); PDB: 1PYV_A.
Probab=46.58 E-value=19 Score=25.12 Aligned_cols=17 Identities=41% Similarity=0.452 Sum_probs=11.3
Q ss_pred CchhhHHHHHHHhhhhh
Q 030403 1 MAHRRCLHVLSRHAAAL 17 (178)
Q Consensus 1 ma~rrcl~~ltr~~~~~ 17 (178)
||+||-|-.|-|.+.-.
T Consensus 1 MASRR~lSSlLRSssrr 17 (49)
T PF11421_consen 1 MASRRLLSSLLRSSSRR 17 (49)
T ss_dssp ---SHHHHHHHHHHHTT
T ss_pred CchHHHHHHHHHHHhcc
Confidence 99999998888876655
No 38
>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]
Probab=45.61 E-value=19 Score=38.12 Aligned_cols=10 Identities=40% Similarity=0.883 Sum_probs=5.5
Q ss_pred HHHHHHHhhh
Q 030403 6 CLHVLSRHAA 15 (178)
Q Consensus 6 cl~~ltr~~~ 15 (178)
||-++.|++-
T Consensus 236 ~l~~i~r~ag 245 (1233)
T KOG1824|consen 236 CLAAICRQAG 245 (1233)
T ss_pred HHHHHHHHhc
Confidence 5555555543
No 39
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=45.23 E-value=15 Score=36.61 Aligned_cols=17 Identities=18% Similarity=0.518 Sum_probs=13.2
Q ss_pred eEEEEeCCCEEEecccC
Q 030403 146 HQFKVSNGDSIFTERLK 162 (178)
Q Consensus 146 KQYKV~eGD~I~VErL~ 162 (178)
.|=-+..|+++||-.|.
T Consensus 285 ~~en~~~~~tVFvRNL~ 301 (678)
T KOG0127|consen 285 TRENITEGKTVFVRNLP 301 (678)
T ss_pred ccccccccceEEEecCC
Confidence 45567788999998886
No 40
>PF10949 DUF2777: Protein of unknown function (DUF2777); InterPro: IPR024488 This family of proteins with unknown function appears to be restricted to Bacillaceae.
Probab=44.82 E-value=23 Score=30.30 Aligned_cols=22 Identities=36% Similarity=0.534 Sum_probs=20.1
Q ss_pred EEeeCCeEEEEeCCCEEEeccc
Q 030403 140 VVQIGSHQFKVSNGDSIFTERL 161 (178)
Q Consensus 140 IVeiGGKQYKV~eGD~I~VErL 161 (178)
+|.++|.||.++.|+.|.++|-
T Consensus 67 ~v~~~~e~~~L~~ge~IRi~K~ 88 (185)
T PF10949_consen 67 IVSIDGEQIPLSNGESIRIRKK 88 (185)
T ss_pred eEEeCCeEEecCCCCEEEEeec
Confidence 6799999999999999999874
No 41
>cd04867 TGS_YchF_C TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the family contain a C-terminal TGS domain. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role.
Probab=43.18 E-value=13 Score=28.27 Aligned_cols=20 Identities=25% Similarity=0.433 Sum_probs=17.5
Q ss_pred EEEeeCCeEEEEeCCCEEEe
Q 030403 139 AVVQIGSHQFKVSNGDSIFT 158 (178)
Q Consensus 139 AIVeiGGKQYKV~eGD~I~V 158 (178)
..|+.-||+|-|+.||+|.+
T Consensus 62 Gkir~eGK~Yiv~DGDi~~f 81 (83)
T cd04867 62 GKYRQEGKDYVVQDGDIIFF 81 (83)
T ss_pred ChhhhhCCceEeeCCeEEEE
Confidence 36788899999999999975
No 42
>PF05285 SDA1: SDA1; InterPro: IPR007949 This domain consists of several SDA1 protein homologues. SDA1 is a Saccharomyces cerevisiae protein which is involved in the control of the actin cytoskeleton. The protein is essential for cell viability and is localised in the nucleus [].
Probab=43.11 E-value=14 Score=32.93 Aligned_cols=22 Identities=36% Similarity=0.252 Sum_probs=14.7
Q ss_pred CchhhHHHHHHHhhhhhhccCCC
Q 030403 1 MAHRRCLHVLSRHAAALLSLKTP 23 (178)
Q Consensus 1 ma~rrcl~~ltr~~~~~ls~~~~ 23 (178)
||.| -|-.|-|.+.|-|-.+..
T Consensus 22 ~Aar-sli~l~Rev~P~lL~kkd 43 (324)
T PF05285_consen 22 MAAR-SLINLFREVNPELLHKKD 43 (324)
T ss_pred HHHH-HHHHHHHHHCHHhcCchh
Confidence 4544 456678888888766654
No 43
>TIGR03214 ura-cupin putative allantoin catabolism protein. This model represents a protein containing a tandem arrangement of cupin domains (N-terminal part of pfam07883 and C-terminal more distantly related to pfam00190). This protein is found in the vicinity of genes involved in the catabolism of allantoin, a breakdown product of urate and sometimes of urate iteslf. The distribution of pathway components in the genomes in which this family is observed suggests that the function is linked to the allantoate catabolism to glyoxylate pathway (GenProp0686) since it is sometimes found in genomes lacking any elements of the xanthine-to-allantoin pathways (e.g. in Enterococcus faecalis).
Probab=41.02 E-value=35 Score=29.33 Aligned_cols=23 Identities=22% Similarity=0.296 Sum_probs=20.1
Q ss_pred EEEEeeCCeEEEEeCCCEEEecc
Q 030403 138 FAVVQIGSHQFKVSNGDSIFTER 160 (178)
Q Consensus 138 YAIVeiGGKQYKV~eGD~I~VEr 160 (178)
-+++.++|+-+.|++||+|++.-
T Consensus 210 ~G~~~~~g~~~~V~~GD~i~i~~ 232 (260)
T TIGR03214 210 KGVYNLDNNWVPVEAGDYIWMGA 232 (260)
T ss_pred eEEEEECCEEEEecCCCEEEECC
Confidence 46778999999999999999864
No 44
>PRK15457 ethanolamine utilization protein EutQ; Provisional
Probab=40.96 E-value=35 Score=30.20 Aligned_cols=22 Identities=18% Similarity=0.261 Sum_probs=19.4
Q ss_pred EEeeCCeEEEEeCCCEEEeccc
Q 030403 140 VVQIGSHQFKVSNGDSIFTERL 161 (178)
Q Consensus 140 IVeiGGKQYKV~eGD~I~VErL 161 (178)
.+.++|+.|.+.+||+|+|++=
T Consensus 187 ~l~IdG~t~~l~pGDvlfIPkG 208 (233)
T PRK15457 187 HVRHEGETMIAKAGDVMFIPKG 208 (233)
T ss_pred EEEECCEEEEeCCCcEEEECCC
Confidence 3678999999999999999864
No 45
>PRK13501 transcriptional activator RhaR; Provisional
Probab=38.42 E-value=36 Score=28.35 Aligned_cols=23 Identities=13% Similarity=0.502 Sum_probs=19.8
Q ss_pred EEEeeCCeEEEEeCCCEEEeccc
Q 030403 139 AVVQIGSHQFKVSNGDSIFTERL 161 (178)
Q Consensus 139 AIVeiGGKQYKV~eGD~I~VErL 161 (178)
+.+.++|+.|.+++|+.++|+.-
T Consensus 49 ~~~~i~~~~~~l~~g~~~~I~p~ 71 (290)
T PRK13501 49 GLHVLNDHPYRITCGDVFYIQAA 71 (290)
T ss_pred eEEEECCeeeeecCCeEEEEcCC
Confidence 45778999999999999999653
No 46
>PRK12766 50S ribosomal protein L32e; Provisional
Probab=36.88 E-value=28 Score=30.74 Aligned_cols=17 Identities=18% Similarity=0.075 Sum_probs=12.7
Q ss_pred CCCCCCCCCCHHHHHHH
Q 030403 96 TVPDLGREYTLEEKEAE 112 (178)
Q Consensus 96 ~~~~~~~~~~~ee~~~e 112 (178)
-++..+.+|+.|.+...
T Consensus 92 ~~~~~~~~l~~~~~rll 108 (232)
T PRK12766 92 GLTEKTPELSDEEARLL 108 (232)
T ss_pred ccccCCCCCCHHHHHHH
Confidence 45777888988887664
No 47
>PRK11171 hypothetical protein; Provisional
Probab=36.63 E-value=45 Score=28.71 Aligned_cols=21 Identities=24% Similarity=0.423 Sum_probs=18.1
Q ss_pred EEEeeCCeEEEEeCCCEEEec
Q 030403 139 AVVQIGSHQFKVSNGDSIFTE 159 (178)
Q Consensus 139 AIVeiGGKQYKV~eGD~I~VE 159 (178)
++|.++|+-|.|++||+|++.
T Consensus 216 ~~~~~~~~~~~l~~GD~i~~~ 236 (266)
T PRK11171 216 GVYRLNNDWVEVEAGDFIWMR 236 (266)
T ss_pred EEEEECCEEEEeCCCCEEEEC
Confidence 456899999999999999975
No 48
>PF04050 Upf2: Up-frameshift suppressor 2 ; InterPro: IPR007193 This entry represents Up-frameshift suppressor 2 (also known as Nonsense-mediated mRNA decay protein 2). Transcripts harbouring premature signals for translation termination are recognised and rapidly degraded by eukaryotic cells through a pathway known as nonsense-mediated mRNA decay. In Saccharomyces cerevisiae, three trans-acting factors (Upf1 to Upf3) are required for nonsense-mediated mRNA decay [].; PDB: 2WJV_D.
Probab=35.58 E-value=12 Score=30.24 Aligned_cols=13 Identities=31% Similarity=0.595 Sum_probs=8.7
Q ss_pred CceEEEE-eeCCeE
Q 030403 135 EPAFAVV-QIGSHQ 147 (178)
Q Consensus 135 ~~MYAIV-eiGGKQ 147 (178)
...|+++ +-|+||
T Consensus 120 ~v~F~lLtKkGnK~ 133 (170)
T PF04050_consen 120 KVAFTLLTKKGNKQ 133 (170)
T ss_dssp EEEEEEEEEETTEE
T ss_pred eEEEEEEEEcCCCC
Confidence 3468866 777765
No 49
>PRK10296 DNA-binding transcriptional regulator ChbR; Provisional
Probab=35.36 E-value=51 Score=27.12 Aligned_cols=22 Identities=18% Similarity=0.296 Sum_probs=19.2
Q ss_pred EEEeeCCeEEEEeCCCEEEecc
Q 030403 139 AVVQIGSHQFKVSNGDSIFTER 160 (178)
Q Consensus 139 AIVeiGGKQYKV~eGD~I~VEr 160 (178)
+.+.++|+.|.+.+|+++.|+.
T Consensus 54 ~~~~i~~~~~~l~~g~l~~i~p 75 (278)
T PRK10296 54 YYQEINGKRVLLERGDFVFIPL 75 (278)
T ss_pred EEEEECCEEEEECCCcEEEeCC
Confidence 4578899999999999999875
No 50
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=35.36 E-value=41 Score=25.56 Aligned_cols=25 Identities=36% Similarity=0.518 Sum_probs=20.5
Q ss_pred CCHHHHHHHHHHhCcEEecccccCc
Q 030403 104 YTLEEKEAEAAEIGYKVLGPLRKSD 128 (178)
Q Consensus 104 ~~~ee~~~ea~~igykvvg~~~~~~ 128 (178)
.+-+|-++.|.+.||.|+|.+...-
T Consensus 8 ~~l~El~~L~~t~g~~vv~~~~q~~ 32 (95)
T PF13167_consen 8 ESLEELEELAETAGYEVVGTVVQKR 32 (95)
T ss_pred HHHHHHHHHHHHCCCeEEEEEEecC
Confidence 4567888889999999999887654
No 51
>PRK10371 DNA-binding transcriptional regulator MelR; Provisional
Probab=35.03 E-value=49 Score=28.41 Aligned_cols=22 Identities=9% Similarity=0.131 Sum_probs=19.7
Q ss_pred EEEeeCCeEEEEeCCCEEEecc
Q 030403 139 AVVQIGSHQFKVSNGDSIFTER 160 (178)
Q Consensus 139 AIVeiGGKQYKV~eGD~I~VEr 160 (178)
+.+.++|++|.+.+||.+.|+-
T Consensus 57 ~~~~i~g~~~~l~~Gd~ili~s 78 (302)
T PRK10371 57 VEYLINNEKVQINQGHITLFWA 78 (302)
T ss_pred EEEEECCEEEEEcCCcEEEEec
Confidence 4688999999999999999874
No 52
>TIGR03021 pilP_fam type IV pilus biogenesis protein PilP. Members of this protein family are found in type IV pilus biogenesis loci and include proteins designated PilP.
Probab=34.66 E-value=44 Score=26.18 Aligned_cols=27 Identities=26% Similarity=0.479 Sum_probs=23.6
Q ss_pred ccccCCceEEEEee-CCeEEEEeCCCEE
Q 030403 130 VFKKYEPAFAVVQI-GSHQFKVSNGDSI 156 (178)
Q Consensus 130 ~~k~~~~MYAIVei-GGKQYKV~eGD~I 156 (178)
+|-....|.|.++. +|++..|..||.|
T Consensus 74 I~G~~~~l~A~l~l~~G~~~~v~~G~~l 101 (119)
T TIGR03021 74 IFGRGGRLTATLRLPGGREVDVQVGDSL 101 (119)
T ss_pred EEccCCCeEEEEEeCCCcEEEecCCCcc
Confidence 55566789999999 9999999999987
No 53
>COG5137 Histone chaperone involved in gene silencing [Transcription / Chromatin structure and dynamics]
Probab=33.79 E-value=18 Score=32.56 Aligned_cols=15 Identities=47% Similarity=0.443 Sum_probs=7.6
Q ss_pred CCCCCCCCHHHHHHHH
Q 030403 98 PDLGREYTLEEKEAEA 113 (178)
Q Consensus 98 ~~~~~~~~~ee~~~ea 113 (178)
....|++..++ ++||
T Consensus 202 gEg~~e~~eee-eEE~ 216 (279)
T COG5137 202 GEGNRELNEEE-EEEA 216 (279)
T ss_pred cccchhhhhhh-hhhh
Confidence 34456666555 3344
No 54
>PTZ00305 NADH:ubiquinone oxidoreductase; Provisional
Probab=33.11 E-value=38 Score=30.86 Aligned_cols=20 Identities=5% Similarity=0.308 Sum_probs=17.3
Q ss_pred EEEEeeCCeEEEE-eCCCEEE
Q 030403 138 FAVVQIGSHQFKV-SNGDSIF 157 (178)
Q Consensus 138 YAIVeiGGKQYKV-~eGD~I~ 157 (178)
-++|.|.||++.| .+|.+|.
T Consensus 68 ~~~I~IDGk~VeV~~~G~TIL 88 (297)
T PTZ00305 68 RAIMFVNKRPVEIIPQEENLL 88 (297)
T ss_pred ceEEEECCEEEEecCCCChHH
Confidence 4899999999999 8998763
No 55
>PF00717 Peptidase_S24: Peptidase S24-like peptidase classification. ; InterPro: IPR019759 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ].; PDB: 1KCA_H 3BDN_A 1F39_A 1JHH_A 1JHE_B 3JSP_A 1JHF_B 1JHC_A 3JSO_B 1B12_D ....
Probab=31.64 E-value=38 Score=22.13 Aligned_cols=11 Identities=18% Similarity=0.474 Sum_probs=4.6
Q ss_pred EEeCCCEEEec
Q 030403 149 KVSNGDSIFTE 159 (178)
Q Consensus 149 KV~eGD~I~VE 159 (178)
.+..||++.+.
T Consensus 24 ~~~~gdivv~~ 34 (70)
T PF00717_consen 24 EPKDGDIVVVK 34 (70)
T ss_dssp ---TTSEEEEE
T ss_pred CCccCeEEEEE
Confidence 56666666553
No 56
>TIGR02988 YaaA_near_RecF S4 domain protein YaaA. This small protein has a single S4 domain (pfam01479), as do bacterial ribosomal protein S4, some pseudouridine synthases, tyrosyl-tRNA synthetases. The S4 domain may bind RNA. Members of this protein family are found almost exclusively in the Firmicutes, and almost invariably just a few nucleotides upstream of the gene for the DNA replication and repair protein RecF. The few members of this family that are not near recF are found instead near dnaA and/or dnaN, the usual neighbors of recF, near the origin of replication. The conserved location suggests a possible role in replication in the Firmicutes lineage.
Probab=30.80 E-value=35 Score=22.65 Aligned_cols=12 Identities=33% Similarity=0.216 Sum_probs=7.0
Q ss_pred EEEEeCCCEEEe
Q 030403 147 QFKVSNGDSIFT 158 (178)
Q Consensus 147 QYKV~eGD~I~V 158 (178)
.|+|..||.|.|
T Consensus 47 ~~~l~~Gd~v~i 58 (59)
T TIGR02988 47 GKKLYPGDVIEI 58 (59)
T ss_pred CCCCCCCCEEEe
Confidence 456666666654
No 57
>PF11699 CENP-C_C: Mif2/CENP-C like; PDB: 2VPV_B.
Probab=30.24 E-value=70 Score=23.73 Aligned_cols=23 Identities=30% Similarity=0.336 Sum_probs=17.5
Q ss_pred EEeeCCeEEEEeCCCEEEecccC
Q 030403 140 VVQIGSHQFKVSNGDSIFTERLK 162 (178)
Q Consensus 140 IVeiGGKQYKV~eGD~I~VErL~ 162 (178)
-|.+++++|.|..|+..+|++=+
T Consensus 45 ~Vti~~~~f~v~~G~~F~VP~gN 67 (85)
T PF11699_consen 45 EVTIHETSFVVTKGGSFQVPRGN 67 (85)
T ss_dssp EEEETTEEEEEETT-EEEE-TT-
T ss_pred EEEEcCcEEEEeCCCEEEECCCC
Confidence 36789999999999999998743
No 58
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=29.94 E-value=55 Score=28.82 Aligned_cols=32 Identities=19% Similarity=0.456 Sum_probs=26.0
Q ss_pred EEEEeeCCeEEEEeCCCEEEecccCCCCCCCeEEec
Q 030403 138 FAVVQIGSHQFKVSNGDSIFTERLKFCEVNDKLSFE 173 (178)
Q Consensus 138 YAIVeiGGKQYKV~eGD~I~VErL~~aEvGdkI~Ld 173 (178)
-|-|.|||--|-+++||+|-| +-+-|+.|.++
T Consensus 35 sA~Iyiggl~~~LtEgDil~V----FSqyGe~vdin 66 (219)
T KOG0126|consen 35 SAYIYIGGLPYELTEGDILCV----FSQYGEIVDIN 66 (219)
T ss_pred ceEEEECCCcccccCCcEEEE----eeccCceEEEE
Confidence 488999999999999999987 33566666654
No 59
>cd04092 mtEFG2_II_like mtEFG2_C: C-terminus of mitochondrial Elongation factor G2 (mtEFG2)-like proteins found in eukaryotes. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more complex than that in prokaryotes, with both cytoplasmic and mitochondrial elongation factors and multiple isoforms being expressed in certain species. Eukaryotic EF-2 operates in the cytosolic protein synthesis machinery of eukaryotes, EF-Gs in protein synthesis in bacteria. Eukaryotic mtEFG1 proteins show significant homology to bacterial EF-Gs. No clear phenotype has been found for mutants in the yeast homologue of mtEFG2, MEF2. There are two forms of mtEFG present in mammals (designated mtEFG1s and mtEFG2s) mtEFG1s are n
Probab=29.64 E-value=66 Score=22.28 Aligned_cols=23 Identities=26% Similarity=0.254 Sum_probs=19.0
Q ss_pred EEeCCCEEEecccCCCCCCCeEE
Q 030403 149 KVSNGDSIFTERLKFCEVNDKLS 171 (178)
Q Consensus 149 KV~eGD~I~VErL~~aEvGdkI~ 171 (178)
.+..||++.+-.++++.+||+|.
T Consensus 60 ~~~aGdI~~i~gl~~~~~Gdtl~ 82 (83)
T cd04092 60 SLSAGNIGVITGLKQTRTGDTLV 82 (83)
T ss_pred eeCCCCEEEEECCCCcccCCEEe
Confidence 46789999998887788998874
No 60
>PTZ00007 (NAP-L) nucleosome assembly protein -L; Provisional
Probab=29.54 E-value=48 Score=30.44 Aligned_cols=14 Identities=14% Similarity=-0.090 Sum_probs=7.2
Q ss_pred cccccc-ccccCCCC
Q 030403 54 NWSHYR-HFSSNKND 67 (178)
Q Consensus 54 ~~~~~r-~fss~~~~ 67 (178)
.||+.= ||--.--+
T Consensus 267 IIP~AV~yftGea~d 281 (337)
T PTZ00007 267 LIPYAVYWFLGEAID 281 (337)
T ss_pred cccccHHhhCCCccc
Confidence 588544 55543333
No 61
>PF06071 YchF-GTPase_C: Protein of unknown function (DUF933); InterPro: IPR013029 This domain is found at the C terminus of family of conserved hypothetical proteins found in both prokaryotes and eukaryotes. While the function of these proteins is not known, the crystal structure of P44681 from SWISSPROT from Haemophilus influenzae has been determined []. This protein consists of three domains: an N-terminal domain which has a mononucleotide binding fold typical for the P-loop NTPases, a central domain which forms an alpha-helical coiled coil, and this C-terminal domain which is composed of a six-stranded half-barrel curved around an alpha helix. The central domain and this domain are topologically similar to RNA-binding proteins, while the N-terminal region contains the features typical of GTP-dependent molecular switches. The purified protein was capable of binding both double-stranded nucleic acid and GTP. It was suggested, therefore, that this protein might be part of a nucleoprotein complex and could function as a GTP-dependent translation factor.; PDB: 1NI3_A 1JAL_A 2DWQ_B 2DBY_A 2OHF_A.
Probab=29.24 E-value=12 Score=28.25 Aligned_cols=19 Identities=21% Similarity=0.448 Sum_probs=13.2
Q ss_pred EEeeCCeEEEEeCCCEEEe
Q 030403 140 VVQIGSHQFKVSNGDSIFT 158 (178)
Q Consensus 140 IVeiGGKQYKV~eGD~I~V 158 (178)
.++.-||+|-|+.||+|.+
T Consensus 63 k~r~eGK~YivqDGDIi~f 81 (84)
T PF06071_consen 63 KLRLEGKDYIVQDGDIIHF 81 (84)
T ss_dssp -SEEEETT-B--TTEEEEE
T ss_pred CccccCCceeEeCCCEEEE
Confidence 4677899999999999985
No 62
>cd06530 S26_SPase_I The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are translocated across biological membranes. The bacterial signal peptidase I, which is the most intensively studied, has two N-terminal transmembrane segments inserted in the plasma membrane and a hydrophilic, C-terminal catalytic region that is located in the periplasmic space. Although the bacterial signal peptidase I is monomeric, signal peptidases of eukaryotic cells commonly function as oligomeric complexes containing two divergent copies of the catalytic monomer. These are the IMP1 and IMP2 signal peptidases of the mitochondrial inner membrane that remove leader peptides from nuclear- and mitochondrial-encoded proteins. Also, two components of the endoplasmic reticulum signal peptidase in mammals (18-kDa and 21-kDa
Probab=29.20 E-value=81 Score=21.55 Aligned_cols=24 Identities=21% Similarity=0.510 Sum_probs=11.6
Q ss_pred EeCCCEEEecccCC----CCCCCeEEec
Q 030403 150 VSNGDSIFTERLKF----CEVNDKLSFE 173 (178)
Q Consensus 150 V~eGD~I~VErL~~----aEvGdkI~Ld 173 (178)
...||+|.|++... .+.|+.|.|.
T Consensus 14 i~~gd~v~v~~~~~~~~~~~~GDiv~~~ 41 (85)
T cd06530 14 LQPGDLVLVNKLSYGFREPKRGDVVVFK 41 (85)
T ss_pred ccCCCEEEEEEeecccCCCCCCCEEEEe
Confidence 34555555555432 3445555443
No 63
>PHA02664 hypothetical protein; Provisional
Probab=29.02 E-value=48 Score=31.73 Aligned_cols=14 Identities=43% Similarity=0.461 Sum_probs=8.3
Q ss_pred CCHHHHHHHHHHhC
Q 030403 104 YTLEEKEAEAAEIG 117 (178)
Q Consensus 104 ~~~ee~~~ea~~ig 117 (178)
.-+||.++|++.+|
T Consensus 513 ~ieee~~ee~~vl~ 526 (534)
T PHA02664 513 AIEEEEEEERAVLG 526 (534)
T ss_pred hhhHHHHHHHHHHH
Confidence 34566666776654
No 64
>TIGR01680 Veg_Stor_Prot vegetative storage protein. The proteins represented by this model are close relatives of the plant acid phosphatases (TIGR01675), are limited to members of the Phaseoleae including Glycine max (soybean) and Phaseolus vulgaris (kidney bean). These proteins are highly expressed in the leaves of repeatedly depodded plants. VSP differs most strinkingly from the acid phosphatases in the lack of the conserved nucleophilic aspartate residue in the N-terminus, thus, they should be inactive as phosphatases. This issue was confused by the publication in 1992 of an article claiming activity for the Glycine max VSP. In 1994 this assertion was refuted by the separation of the activity from the VSP.
Probab=28.57 E-value=58 Score=29.30 Aligned_cols=33 Identities=24% Similarity=0.401 Sum_probs=23.7
Q ss_pred HHHHHHHHhCcEEecccccC-----------ccccccCCceEEE
Q 030403 108 EKEAEAAEIGYKVLGPLRKS-----------DRVFKKYEPAFAV 140 (178)
Q Consensus 108 e~~~ea~~igykvvg~~~~~-----------~~~~k~~~~MYAI 140 (178)
+.+++..+-||+|+|-++.+ +|.||-..|||..
T Consensus 212 ~~R~~li~eGYrIv~~iGDq~sDl~G~~~g~~RtFKLPNP~~~~ 255 (275)
T TIGR01680 212 AARAKLIQEGYNIVGIIGDQWNDLKGEHRGAIRSFKLPNPCTTF 255 (275)
T ss_pred HHHHHHHHcCceEEEEECCCHHhccCCCccCcceecCCCccccc
Confidence 33566667899999988655 4777777777653
No 65
>PF13510 Fer2_4: 2Fe-2S iron-sulfur cluster binding domain; PDB: 1Y56_A 3ADA_A 1VRQ_A 1X31_A 3AD9_A 3AD8_A 3AD7_A 2GAG_A 2GAH_A.
Probab=28.46 E-value=30 Score=24.75 Aligned_cols=18 Identities=22% Similarity=0.538 Sum_probs=14.7
Q ss_pred EEeeCCeEEEEeCCCEEE
Q 030403 140 VVQIGSHQFKVSNGDSIF 157 (178)
Q Consensus 140 IVeiGGKQYKV~eGD~I~ 157 (178)
-|.+.||.|.|.+|+.|.
T Consensus 5 ~i~idG~~v~~~~G~til 22 (82)
T PF13510_consen 5 TITIDGKPVEVPPGETIL 22 (82)
T ss_dssp EEEETTEEEEEEET-BHH
T ss_pred EEEECCEEEEEcCCCHHH
Confidence 378999999999999864
No 66
>PRK13500 transcriptional activator RhaR; Provisional
Probab=28.24 E-value=68 Score=27.46 Aligned_cols=23 Identities=9% Similarity=0.380 Sum_probs=19.8
Q ss_pred EEEeeCCeEEEEeCCCEEEeccc
Q 030403 139 AVVQIGSHQFKVSNGDSIFTERL 161 (178)
Q Consensus 139 AIVeiGGKQYKV~eGD~I~VErL 161 (178)
+.+.++|+.|.+.+||+++|+.-
T Consensus 79 g~~~v~~~~~~l~~Gdl~~I~~~ 101 (312)
T PRK13500 79 GLHVLNDRPYRITRGDLFYIHAD 101 (312)
T ss_pred EEEEECCEEEeecCCeEEEECCC
Confidence 45778899999999999999863
No 67
>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=28.09 E-value=1.3e+02 Score=22.50 Aligned_cols=53 Identities=13% Similarity=0.066 Sum_probs=37.4
Q ss_pred EEecccccCccccccCCceEEEEeeCCeEEEEeCCCEEEecccCCCCCCCeEEe
Q 030403 119 KVLGPLRKSDRVFKKYEPAFAVVQIGSHQFKVSNGDSIFTERLKFCEVNDKLSF 172 (178)
Q Consensus 119 kvvg~~~~~~~~~k~~~~MYAIVeiGGKQYKV~eGD~I~VErL~~aEvGdkI~L 172 (178)
||+|.+....+.-.....-+-||+.-+...+-...-.+-++.+. +-+|+.|.+
T Consensus 5 kViG~vvaT~K~~~L~G~kLliVq~~~~~~~~~g~~~VA~D~vG-AG~Ge~Vlv 57 (83)
T cd01614 5 RVIGTVVATRKHPSLAGKKLLVVQPLDGEGKPKGEPLVAVDPVG-AGVGEWVLV 57 (83)
T ss_pred EEEeEEEEeeEcCCCCCcEEEEEEECccCCCcCCCEEEEEECCC-CCCCCEEEE
Confidence 78999888766666666667777765544444444556699995 999998865
No 68
>TIGR02297 HpaA 4-hydroxyphenylacetate catabolism regulatory protein HpaA. This putative transcriptional regulator, which contains both the substrate-binding, dimerization domain (pfam02311) and the helix-turn-helix DNA-binding domain (pfam00165) of the AraC famil, is located proximal to genes of the 4-hydroxyphenylacetate catabolism pathway.
Probab=26.70 E-value=77 Score=25.97 Aligned_cols=23 Identities=13% Similarity=0.148 Sum_probs=19.7
Q ss_pred EEEeeCCeEEEEeCCCEEEeccc
Q 030403 139 AVVQIGSHQFKVSNGDSIFTERL 161 (178)
Q Consensus 139 AIVeiGGKQYKV~eGD~I~VErL 161 (178)
+.+.++|++|.+.+|+.+.++.-
T Consensus 55 ~~~~~~~~~~~l~~g~~~ii~~~ 77 (287)
T TIGR02297 55 IALQLDEHEYSEYAPCFFLTPPS 77 (287)
T ss_pred eEEEECCEEEEecCCeEEEeCCC
Confidence 46788999999999999998753
No 69
>cd03690 Tet_II Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a GTP-dependent manner thereby mediating Tc resistance. Tcs are broad-spectrum antibiotics. Typical Tcs bind to the ribosome and inhibit the elongation phase of protein synthesis, by inhibiting the occupation of site A by aminoacyl-tRNA.
Probab=26.27 E-value=99 Score=21.87 Aligned_cols=22 Identities=36% Similarity=0.360 Sum_probs=17.5
Q ss_pred EEeCCCEEEecccCCCCCCCeE
Q 030403 149 KVSNGDSIFTERLKFCEVNDKL 170 (178)
Q Consensus 149 KV~eGD~I~VErL~~aEvGdkI 170 (178)
.|..||++-+-.++++.+|+.|
T Consensus 62 ~~~aGdI~ai~gl~~~~~Gdtl 83 (85)
T cd03690 62 TVTAGDIAILTGLKGLRVGDVL 83 (85)
T ss_pred EECCCCEEEEECCCCCcCcccc
Confidence 4778888888888777788875
No 70
>PF13079 DUF3916: Protein of unknown function (DUF3916)
Probab=26.11 E-value=53 Score=27.32 Aligned_cols=21 Identities=29% Similarity=0.482 Sum_probs=19.2
Q ss_pred hhhHHHHHHHhhhhhhccCCC
Q 030403 3 HRRCLHVLSRHAAALLSLKTP 23 (178)
Q Consensus 3 ~rrcl~~ltr~~~~~ls~~~~ 23 (178)
+|.|+|+|-++|.-++..+|.
T Consensus 43 kr~c~Q~LIn~a~~Li~~kp~ 63 (153)
T PF13079_consen 43 KRLCIQTLINAAEHLIQAKPD 63 (153)
T ss_pred HHHHHHHHHHHHHHHHhCCcC
Confidence 688999999999999999985
No 71
>PRK13290 ectC L-ectoine synthase; Reviewed
Probab=26.04 E-value=85 Score=24.38 Aligned_cols=21 Identities=10% Similarity=0.189 Sum_probs=17.2
Q ss_pred Ee-e-CCeEEEEeCCCEEEeccc
Q 030403 141 VQ-I-GSHQFKVSNGDSIFTERL 161 (178)
Q Consensus 141 Ve-i-GGKQYKV~eGD~I~VErL 161 (178)
+. + +|+.|.+.+||.++++.-
T Consensus 68 ~~~i~~g~~~~L~aGD~i~~~~~ 90 (125)
T PRK13290 68 VEDLATGEVHPIRPGTMYALDKH 90 (125)
T ss_pred EEEcCCCEEEEeCCCeEEEECCC
Confidence 34 6 599999999999998743
No 72
>cd04088 EFG_mtEFG_II EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis and tRNA site changes, the ribosome is moved along the mRNA a distance equal to one codon with the addition of each amino acid. In bacteria this translocation step is catalyzed by EF-G_GTP, which is hydrolyzed to provide the required energy. Thus, this action releases the uncharged tRNA from the P site and transfers the newly formed peptidyl-tRNA from the A site to the P site. Eukaryotic cells harbor 2 protein synthesis systems: one localized in the cytoplasm, the other in the mitochondria. Most factors regulating mitochondrial protein synthesis are encoded by nuclear genes, translated in the cytoplasm, and then transported to the mitochondria. The eukaryotic system of elongation factor (EF) components is more compl
Probab=25.93 E-value=85 Score=21.50 Aligned_cols=23 Identities=26% Similarity=0.213 Sum_probs=18.7
Q ss_pred EEeCCCEEEecccCCCCCCCeEE
Q 030403 149 KVSNGDSIFTERLKFCEVNDKLS 171 (178)
Q Consensus 149 KV~eGD~I~VErL~~aEvGdkI~ 171 (178)
.+..||++.+..++.+.+|+.|.
T Consensus 60 ~~~aGdI~~i~g~~~~~~Gdtl~ 82 (83)
T cd04088 60 EAGAGDIGAVAGLKDTATGDTLC 82 (83)
T ss_pred EeCCCCEEEEECCCCCccCCEee
Confidence 46789999998888788898873
No 73
>TIGR01479 GMP_PMI mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase. This enzyme is known to be bifunctional, as both mannose-6-phosphate isomerase (EC 5.3.1.8) (PMI) and mannose-1-phosphate guanylyltransferase (EC 2.7.7.22) in Pseudomonas aeruginosa, Xanthomonas campestris, and Gluconacetobacter xylinus. The literature on the enzyme from E. coli attributes mannose-6-phosphate isomerase activity to an adjacent gene, but the present sequence has not been shown to lack the activity. The PMI domain is C-terminal.
Probab=25.89 E-value=83 Score=29.16 Aligned_cols=22 Identities=23% Similarity=0.394 Sum_probs=19.8
Q ss_pred EEEeeCCeEEEEeCCCEEEecc
Q 030403 139 AVVQIGSHQFKVSNGDSIFTER 160 (178)
Q Consensus 139 AIVeiGGKQYKV~eGD~I~VEr 160 (178)
+.|.++|+.|.+.+||.++++.
T Consensus 408 ~~v~~dg~~~~l~~GDsi~ip~ 429 (468)
T TIGR01479 408 ARVTIGDETLLLTENESTYIPL 429 (468)
T ss_pred EEEEECCEEEEecCCCEEEECC
Confidence 5588999999999999999885
No 74
>PRK10572 DNA-binding transcriptional regulator AraC; Provisional
Probab=25.83 E-value=76 Score=26.29 Aligned_cols=21 Identities=24% Similarity=0.368 Sum_probs=18.7
Q ss_pred EEeeCCeEEEEeCCCEEEecc
Q 030403 140 VVQIGSHQFKVSNGDSIFTER 160 (178)
Q Consensus 140 IVeiGGKQYKV~eGD~I~VEr 160 (178)
.+.++|+.|.+.+|+.|.+..
T Consensus 61 ~~~~~~~~~~~~~g~~i~i~p 81 (290)
T PRK10572 61 VIFNGGRAFVCRPGDLLLFPP 81 (290)
T ss_pred EEecCCeeEecCCCCEEEECC
Confidence 467899999999999999875
No 75
>PRK15460 cpsB mannose-1-phosphate guanyltransferase; Provisional
Probab=25.75 E-value=82 Score=29.87 Aligned_cols=22 Identities=23% Similarity=0.243 Sum_probs=19.4
Q ss_pred EEEeeCCeEEEEeCCCEEEecc
Q 030403 139 AVVQIGSHQFKVSNGDSIFTER 160 (178)
Q Consensus 139 AIVeiGGKQYKV~eGD~I~VEr 160 (178)
+.|.++|+.|.+.+||.|+++.
T Consensus 417 ~~v~idg~~~~L~~GDSi~ip~ 438 (478)
T PRK15460 417 AKVTIDGDIKLLGENESIYIPL 438 (478)
T ss_pred EEEEECCEEEEecCCCEEEECC
Confidence 4568999999999999999874
No 76
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=25.52 E-value=71 Score=20.79 Aligned_cols=17 Identities=29% Similarity=0.436 Sum_probs=13.3
Q ss_pred HHHHHHHHHhCcEEecc
Q 030403 107 EEKEAEAAEIGYKVLGP 123 (178)
Q Consensus 107 ee~~~ea~~igykvvg~ 123 (178)
++-.+.-.+.||+|++|
T Consensus 55 ~~~~~~L~~~G~~v~~~ 71 (72)
T cd04883 55 RPIIEDLRRAGYEVLWP 71 (72)
T ss_pred HHHHHHHHHCCCeeeCC
Confidence 35566777889999997
No 77
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=25.38 E-value=1.2e+02 Score=30.82 Aligned_cols=13 Identities=8% Similarity=-0.207 Sum_probs=7.6
Q ss_pred ceEEEEeeCCeEE
Q 030403 136 PAFAVVQIGSHQF 148 (178)
Q Consensus 136 ~MYAIVeiGGKQY 148 (178)
+||.--+-.|.|-
T Consensus 497 de~~saeqeg~qg 509 (990)
T KOG1819|consen 497 DEEESAEQEGDQG 509 (990)
T ss_pred chhhhhhhhhccc
Confidence 4666666666553
No 78
>cd03691 BipA_TypA_II BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways. BipA functions as a translation factor that is required specifically for the expression of the transcriptional modulator Fis. BipA binds to ribosomes at a site that coincides with that of EF-G and has a GTPase activity that is sensitive to high GDP:GTP ratios and, is stimulated by 70S ribosomes programmed with mRNA and aminoacylated tRNAs. The growth rate-dependent induction of BipA allows the efficient expression of Fis, thereby modulating a range of downstream processes, including DNA metabolism and type III secretion.
Probab=25.31 E-value=81 Score=21.83 Aligned_cols=21 Identities=14% Similarity=0.289 Sum_probs=18.2
Q ss_pred EeCCCEEEecccCCCCCCCeE
Q 030403 150 VSNGDSIFTERLKFCEVNDKL 170 (178)
Q Consensus 150 V~eGD~I~VErL~~aEvGdkI 170 (178)
+..||++.+..++++.+|+.+
T Consensus 64 ~~aG~I~~i~gl~~~~~Gdtl 84 (86)
T cd03691 64 AEAGDIVAIAGIEDITIGDTI 84 (86)
T ss_pred ECCCCEEEEECCCCCccccee
Confidence 688999999998878899886
No 79
>smart00540 LEM in nuclear membrane-associated proteins. LEM, domain in nuclear membrane-associated proteins, including lamino-associated polypeptide 2 and emerin.
Probab=25.28 E-value=55 Score=21.93 Aligned_cols=26 Identities=27% Similarity=0.423 Sum_probs=22.9
Q ss_pred CCCHHHHHHHHHHhCcEEecccccCcc
Q 030403 103 EYTLEEKEAEAAEIGYKVLGPLRKSDR 129 (178)
Q Consensus 103 ~~~~ee~~~ea~~igykvvg~~~~~~~ 129 (178)
.+|.+|-.++..+.|+.+ ||+..+-|
T Consensus 5 ~LSd~eL~~~L~~~G~~~-gPIt~sTR 30 (44)
T smart00540 5 RLSDAELRAELKQYGLPP-GPITDTTR 30 (44)
T ss_pred HcCHHHHHHHHHHcCCCC-CCcCcchH
Confidence 389999999999999998 99998754
No 80
>PF12299 DUF3627: Protein of unknown function (DUF3627); InterPro: IPR022549 This domain is found in bacteria and viruses, and is approximately 90 amino acids in length. The domain is found C-terminal to PF02498 from PFAM.
Probab=25.14 E-value=30 Score=25.12 Aligned_cols=38 Identities=18% Similarity=0.381 Sum_probs=29.2
Q ss_pred ceEEEEeeCCeEEEEeCCCEEEecccCC-CCCCCeEEec
Q 030403 136 PAFAVVQIGSHQFKVSNGDSIFTERLKF-CEVNDKLSFE 173 (178)
Q Consensus 136 ~MYAIVeiGGKQYKV~eGD~I~VErL~~-aEvGdkI~Ld 173 (178)
+++||++-+|.||.+--|+--++.+... .....+|.|+
T Consensus 23 ~~l~v~~~~~~~y~~irgQ~~~~~~~k~k~~~~~~ii~d 61 (88)
T PF12299_consen 23 PRLAVLKNDGNQYAFIRGQKRYVRRRKKKLKKDMEIIYD 61 (88)
T ss_pred eEEEEEEeCCcEEEEEehhHHHHHHHHHHhcCCceEEEE
Confidence 5999999999999999999999886541 1225566665
No 81
>PF10649 DUF2478: Protein of unknown function (DUF2478); InterPro: IPR018912 This is a family of hypothetical bacterial proteins encoded in the vicinity of molybdenum ABC transporter gene-products MobA, MobB and MobC. However the function could not be confirmed.
Probab=25.02 E-value=1.7e+02 Score=24.19 Aligned_cols=46 Identities=11% Similarity=-0.012 Sum_probs=34.6
Q ss_pred HHHHHHHHhCcEEecccccC-ccccccCCceEEEEeeCCeEEEEeCC
Q 030403 108 EKEAEAAEIGYKVLGPLRKS-DRVFKKYEPAFAVVQIGSHQFKVSNG 153 (178)
Q Consensus 108 e~~~ea~~igykvvg~~~~~-~~~~k~~~~MYAIVeiGGKQYKV~eG 153 (178)
+-.+...+-|++|.|-++.+ ...-...-.|....-..|.+|.+++.
T Consensus 18 ~~a~~L~~~G~rv~G~vQ~~~~~~~~~~~~m~l~dl~~G~~~~IsQ~ 64 (159)
T PF10649_consen 18 AFAARLRARGVRVAGLVQRNTADGDGGRCDMDLRDLPSGRRIRISQD 64 (159)
T ss_pred HHHHHHHhCCCeEEEEeccccCCCCCCccceEEEECCCCCEEEEeec
Confidence 34455667799999999987 33344445799988899999988764
No 82
>PRK13502 transcriptional activator RhaR; Provisional
Probab=24.86 E-value=94 Score=25.56 Aligned_cols=23 Identities=9% Similarity=0.393 Sum_probs=19.8
Q ss_pred EEEeeCCeEEEEeCCCEEEeccc
Q 030403 139 AVVQIGSHQFKVSNGDSIFTERL 161 (178)
Q Consensus 139 AIVeiGGKQYKV~eGD~I~VErL 161 (178)
..+.++|+.|.+.+|+++.|+.-
T Consensus 49 ~~~~i~~~~~~l~~g~l~li~~~ 71 (282)
T PRK13502 49 GLHVLNERPYRITRGDLFYIRAE 71 (282)
T ss_pred EEEEECCEEEeecCCcEEEECCC
Confidence 55778899999999999999853
No 83
>PRK15448 ethanolamine catabolic microcompartment shell protein EutN; Provisional
Probab=24.70 E-value=1.6e+02 Score=22.52 Aligned_cols=53 Identities=9% Similarity=0.034 Sum_probs=36.7
Q ss_pred EEecccccCccccccCCceEEEEeeCCeEEEEeCCCEEEecccCCCCCCCeEEe
Q 030403 119 KVLGPLRKSDRVFKKYEPAFAVVQIGSHQFKVSNGDSIFTERLKFCEVNDKLSF 172 (178)
Q Consensus 119 kvvg~~~~~~~~~k~~~~MYAIVeiGGKQYKV~eGD~I~VErL~~aEvGdkI~L 172 (178)
||+|.+...-+.-.....-+-||+.-....+-.-.-.|-++.+. +-+|+.|.+
T Consensus 5 kViG~vvaT~K~~~L~G~kLliVq~~~~~~~~~g~~~VAvD~vG-AG~Ge~Vlv 57 (95)
T PRK15448 5 VVTGQIVCTVRHHGLAHDKLLMVEMIDPQGNPDGQCAVAIDNIG-AGTGEWVLL 57 (95)
T ss_pred EEEeEEEEeeecCCCCCcEEEEEEECccCCCcCCCEEEEEECCC-CCCCCEEEE
Confidence 78898887766666666677788864444443333445599995 999999865
No 84
>PF04615 Utp14: Utp14 protein; InterPro: IPR006709 A large ribonuclear protein complex is required for the processing of the small-ribosomal-subunit rRNA - the small-subunit (SSU) processome [, ]. This preribosomal complex contains the U3 snoRNA and at least 40 proteins, which have the following properties: They are nucleolar. They are able to coimmunoprecipitate with the U3 snoRNA and Mpp10 (a protein specific to the SSU processome). They are required for 18S rRNA biogenesis. There appears to be a linkage between polymerase I transcription and the formation of the SSU processome; as some, but not all, of the SSU processome components are required for pre-rRNA transcription initiation. These SSU processome components have been termed t-Utps. They form a pre-complex with pre-18S rRNA in the absence of snoRNA U3 and other SSU processome components. It has been proposed that the t-Utp complex proteins are both rDNA and rRNA binding proteins that are involved in the initiation of pre18S rRNA transcription. Initially binding to rDNA then associating with the 5' end of the nascent pre18S rRNA. The t-Utpcomplex forms the nucleus around which the rest of the SSU processome components, including snoRNA U3, assemble []. From electron microscopy the SSU processome may correspond to the terminal knobs visualized at the 5' ends of nascent 18S rRNA. This entry contains Utp14, a large ribonuclear protein associated with snoRNA U3 [].; GO: 0006364 rRNA processing, 0032040 small-subunit processome
Probab=24.60 E-value=33 Score=33.59 Aligned_cols=18 Identities=28% Similarity=0.410 Sum_probs=7.4
Q ss_pred eEEEEeeCCeEEEEeCCCE
Q 030403 137 AFAVVQIGSHQFKVSNGDS 155 (178)
Q Consensus 137 MYAIVeiGGKQYKV~eGD~ 155 (178)
-|++...++.. +|..+|.
T Consensus 55 ef~~~~~~~~~-kl~l~dL 72 (735)
T PF04615_consen 55 EFNLSSSGADD-KLSLSDL 72 (735)
T ss_pred cccCCccCccC-cccHHHH
Confidence 45554433222 4444443
No 85
>PF04347 FliO: Flagellar biosynthesis protein, FliO; InterPro: IPR022781 FliO is an essential component of the flagellum-specific protein export apparatus []. It is an integral membrane protein. Its precise molecular function is unknown. FliO is a short protein found in flagellar biosynthesis operons, and which contains a highly hydrophobic N-terminal sequence followed generally by two basic amino acids. This region is reminiscent of but distinct from the twin-arginine translocation signal sequence. Some instances of this gene have been names "FliZ" but phylogenetic tree building supports a single FliO family.; GO: 0043064 flagellum organization, 0016021 integral to membrane, 0019861 flagellum
Probab=24.23 E-value=80 Score=22.02 Aligned_cols=26 Identities=15% Similarity=0.318 Sum_probs=18.7
Q ss_pred ceEEEEeeCCeEEEEeCCC--EEEeccc
Q 030403 136 PAFAVVQIGSHQFKVSNGD--SIFTERL 161 (178)
Q Consensus 136 ~MYAIVeiGGKQYKV~eGD--~I~VErL 161 (178)
..=.||++||++|.|-.++ +-.+..+
T Consensus 30 ~~l~lV~v~~~~~Llgvt~~~i~~L~~l 57 (84)
T PF04347_consen 30 KSLVLVEVGGRYLLLGVTDGGITLLAEL 57 (84)
T ss_pred CEEEEEEECCEEEEEEECCCCCEEEEEe
Confidence 3567999999999986664 4444455
No 86
>smart00835 Cupin_1 Cupin. This family represents the conserved barrel domain of the 'cupin' superfamily ('cupa' is the Latin term for a small barrel). This family contains 11S and 7S plant seed storage proteins, and germins. Plant seed storage proteins provide the major nitrogen source for the developing plant.
Probab=24.13 E-value=86 Score=23.92 Aligned_cols=14 Identities=14% Similarity=0.387 Sum_probs=12.6
Q ss_pred EEEEeCCCEEEecc
Q 030403 147 QFKVSNGDSIFTER 160 (178)
Q Consensus 147 QYKV~eGD~I~VEr 160 (178)
.+.+++||.++|+.
T Consensus 76 ~~~l~~GD~~~ip~ 89 (146)
T smart00835 76 DARLREGDVFVVPQ 89 (146)
T ss_pred EEEecCCCEEEECC
Confidence 89999999999875
No 87
>PF10165 Ric8: Guanine nucleotide exchange factor synembryn; InterPro: IPR019318 Ric8 is involved in the EGL-30 neurotransmitter signalling pathway []. It is a guanine nucleotide exchange factor [] that regulates neurotransmitter secretion.
Probab=24.11 E-value=97 Score=28.73 Aligned_cols=19 Identities=42% Similarity=0.282 Sum_probs=15.0
Q ss_pred CCCCCCCHHHHHHHHHHhC
Q 030403 99 DLGREYTLEEKEAEAAEIG 117 (178)
Q Consensus 99 ~~~~~~~~ee~~~ea~~ig 117 (178)
.+--++|+||||.||+.+-
T Consensus 402 ~~~~~mt~eeke~ea~~l~ 420 (446)
T PF10165_consen 402 NPMPEMTEEEKEREAERLF 420 (446)
T ss_pred CCccccchhHHHHHHHHHH
Confidence 3445699999999999753
No 88
>KOG0795 consensus Chorismate mutase [Amino acid transport and metabolism]
Probab=23.92 E-value=43 Score=30.06 Aligned_cols=11 Identities=45% Similarity=0.739 Sum_probs=9.7
Q ss_pred hhHHHHHHHhh
Q 030403 4 RRCLHVLSRHA 14 (178)
Q Consensus 4 rrcl~~ltr~~ 14 (178)
-+|||.||||+
T Consensus 149 ~~CLQ~LSrRI 159 (262)
T KOG0795|consen 149 IECLQSLSRRI 159 (262)
T ss_pred HHHHHHHHHHh
Confidence 48999999986
No 89
>PRK09681 putative type II secretion protein GspC; Provisional
Probab=23.52 E-value=82 Score=28.24 Aligned_cols=35 Identities=17% Similarity=0.140 Sum_probs=28.4
Q ss_pred hCcEEecccccCccccccCCceEEEEeeCCeEEEEeCCCEEEe
Q 030403 116 IGYKVLGPLRKSDRVFKKYEPAFAVVQIGSHQFKVSNGDSIFT 158 (178)
Q Consensus 116 igykvvg~~~~~~~~~k~~~~MYAIVeiGGKQYKV~eGD~I~V 158 (178)
++-+..|.+..++. -|||+.+|+|--...||.|--
T Consensus 82 LnL~L~GVvass~~--------~AII~~~G~Q~tY~iGd~i~g 116 (276)
T PRK09681 82 LNVVLRGIAFGARP--------GAVIEEGGKQQVYLQGETLGS 116 (276)
T ss_pred cceEEEEEEecCCc--------eEEEecCCcEeEEeCCcccCC
Confidence 45677888876653 399999999999999999943
No 90
>PHA02885 putative interleukin binding protein; Provisional
Probab=23.41 E-value=44 Score=27.20 Aligned_cols=29 Identities=24% Similarity=0.355 Sum_probs=23.0
Q ss_pred CeEEEE-----eCCCEEEecccCCCCCCCeEEec
Q 030403 145 SHQFKV-----SNGDSIFTERLKFCEVNDKLSFE 173 (178)
Q Consensus 145 GKQYKV-----~eGD~I~VErL~~aEvGdkI~Ld 173 (178)
|.-||+ ++|.+|+++.+.++..|+..+|.
T Consensus 61 gyiywi~pnntspgeyif~enl~g~~egqd~t~a 94 (135)
T PHA02885 61 GYIYWIGPNNTSPGEYIFIENLEGANEGQDNTFA 94 (135)
T ss_pred ceEEEEeCCCCCCcceeeeecccccccCccchhh
Confidence 445554 67899999999999999987763
No 91
>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains. The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.
Probab=23.34 E-value=40 Score=34.38 Aligned_cols=17 Identities=29% Similarity=0.472 Sum_probs=11.9
Q ss_pred CCHHHHHHHHHHhCcEE
Q 030403 104 YTLEEKEAEAAEIGYKV 120 (178)
Q Consensus 104 ~~~ee~~~ea~~igykv 120 (178)
||.|++.+-.++.-|++
T Consensus 424 l~k~q~k~y~de~dyr~ 440 (763)
T TIGR00993 424 LSKEQRKAYLEEYDYRV 440 (763)
T ss_pred HhHHHHHHHHHHHHHHH
Confidence 56777777777777765
No 92
>PRK09685 DNA-binding transcriptional activator FeaR; Provisional
Probab=23.30 E-value=1.1e+02 Score=25.44 Aligned_cols=22 Identities=18% Similarity=0.439 Sum_probs=18.7
Q ss_pred EEEeeCCeEEEEeCCCEEEecc
Q 030403 139 AVVQIGSHQFKVSNGDSIFTER 160 (178)
Q Consensus 139 AIVeiGGKQYKV~eGD~I~VEr 160 (178)
+.+..+|++|.|.+|+++.++.
T Consensus 82 ~~~~~~g~~~~l~~G~~~l~~~ 103 (302)
T PRK09685 82 AIIEQDDRQVQLAAGDITLIDA 103 (302)
T ss_pred EEEEECCeEEEEcCCCEEEEEC
Confidence 4467899999999999999865
No 93
>TIGR01802 CM_pl-yst monofunctional chorismate mutase, eukaryotic type. This model represents the plant and yeast (plastidic) chorismate mutase. These CM's are distinct from other forms by the presence of an extended regulatory domain.
Probab=23.12 E-value=44 Score=29.89 Aligned_cols=10 Identities=50% Similarity=0.893 Sum_probs=8.5
Q ss_pred hHHHHHHHhh
Q 030403 5 RCLHVLSRHA 14 (178)
Q Consensus 5 rcl~~ltr~~ 14 (178)
-|||+||||+
T Consensus 139 ~cLQALSrRI 148 (246)
T TIGR01802 139 ECLQSLSRRI 148 (246)
T ss_pred HHHHHHHHHh
Confidence 5999999986
No 94
>PF05899 Cupin_3: Protein of unknown function (DUF861); InterPro: IPR008579 The function of the proteins in this entry are unknown. They contain the conserved barrel domain of the 'cupin' superfamily and members are specific to plants and bacteria.; PDB: 1RC6_A 3MYX_A 1O5U_A 2K9Z_A 1LKN_A 3ES4_A 1SFN_B 3BCW_A.
Probab=23.08 E-value=1.3e+02 Score=21.02 Aligned_cols=17 Identities=18% Similarity=0.438 Sum_probs=14.6
Q ss_pred CCeEEEEeCCCEEEecc
Q 030403 144 GSHQFKVSNGDSIFTER 160 (178)
Q Consensus 144 GGKQYKV~eGD~I~VEr 160 (178)
+|.++.+.+||.+++++
T Consensus 42 ~G~~~~~~aGD~~~~p~ 58 (74)
T PF05899_consen 42 DGETVTFKAGDAFFLPK 58 (74)
T ss_dssp TTEEEEEETTEEEEE-T
T ss_pred CCCEEEEcCCcEEEECC
Confidence 89999999999999764
No 95
>PF14525 AraC_binding_2: AraC-binding-like domain
Probab=22.77 E-value=1.2e+02 Score=22.16 Aligned_cols=22 Identities=18% Similarity=0.483 Sum_probs=18.3
Q ss_pred EEEeeCCeEEEEeCCCEEEecc
Q 030403 139 AVVQIGSHQFKVSNGDSIFTER 160 (178)
Q Consensus 139 AIVeiGGKQYKV~eGD~I~VEr 160 (178)
+.++.||.++.+.+|+.+.++-
T Consensus 66 ~~~~~~g~~~~~~pg~~~l~d~ 87 (172)
T PF14525_consen 66 ARIEQGGREVELAPGDVVLLDP 87 (172)
T ss_pred EEEEECCEEEEEcCCeEEEEcC
Confidence 4578899999999999888764
No 96
>COG0681 LepB Signal peptidase I [Intracellular trafficking and secretion]
Probab=22.36 E-value=1.3e+02 Score=22.63 Aligned_cols=24 Identities=25% Similarity=0.461 Sum_probs=16.9
Q ss_pred EEEeeCCeEEEEeCCCEEEecccC
Q 030403 139 AVVQIGSHQFKVSNGDSIFTERLK 162 (178)
Q Consensus 139 AIVeiGGKQYKV~eGD~I~VErL~ 162 (178)
.+|.-++=+=-...||.|.|+++.
T Consensus 34 ~~V~s~SM~Ptl~~GD~v~v~k~~ 57 (166)
T COG0681 34 VVVPSGSMEPTLNVGDRVLVKKFS 57 (166)
T ss_pred EEECCCccccccccCCEEEEEecc
Confidence 345555556666689999999865
No 97
>PF14290 DUF4370: Domain of unknown function (DUF4370)
Probab=22.14 E-value=63 Score=28.78 Aligned_cols=12 Identities=33% Similarity=0.778 Sum_probs=9.7
Q ss_pred cccccccccCCC
Q 030403 55 WSHYRHFSSNKN 66 (178)
Q Consensus 55 ~~~~r~fss~~~ 66 (178)
|-.+|+||++-+
T Consensus 65 ~~~~R~fS~d~~ 76 (239)
T PF14290_consen 65 WGSRRFFSEDVS 76 (239)
T ss_pred cchhhhcccccc
Confidence 779999999643
No 98
>PF11213 DUF3006: Protein of unknown function (DUF3006); InterPro: IPR021377 This family of proteins has no known function.
Probab=21.66 E-value=1.6e+02 Score=20.73 Aligned_cols=32 Identities=25% Similarity=0.313 Sum_probs=18.6
Q ss_pred CceEEEEeeCCeEEEEeCCCEEEec--ccC-CCCCCCeEEe
Q 030403 135 EPAFAVVQIGSHQFKVSNGDSIFTE--RLK-FCEVNDKLSF 172 (178)
Q Consensus 135 ~~MYAIVeiGGKQYKV~eGD~I~VE--rL~-~aEvGdkI~L 172 (178)
+.=|||+.+.+.+ ..+.|+ +|. ++..||.|.+
T Consensus 8 E~~~AVl~~~~~~------~~~~vp~~~LP~~~keGDvl~i 42 (71)
T PF11213_consen 8 EGDYAVLELEDGE------KEIDVPRSRLPEGAKEGDVLEI 42 (71)
T ss_pred eCCEEEEEECCCe------EEEEEEHHHCCCCCCcccEEEE
Confidence 3568999998877 122332 232 3556666555
No 99
>COG1917 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=21.59 E-value=1.1e+02 Score=22.65 Aligned_cols=21 Identities=24% Similarity=0.370 Sum_probs=17.7
Q ss_pred EEeeCCeEEEEeCCCEEEecc
Q 030403 140 VVQIGSHQFKVSNGDSIFTER 160 (178)
Q Consensus 140 IVeiGGKQYKV~eGD~I~VEr 160 (178)
.++++|.=+.+.+||+|+++.
T Consensus 76 ~~~~~g~~~~l~~Gd~i~ip~ 96 (131)
T COG1917 76 TVQLEGEKKELKAGDVIIIPP 96 (131)
T ss_pred EEEecCCceEecCCCEEEECC
Confidence 356778899999999999886
No 100
>PF12518 DUF3721: Protein of unknown function; InterPro: IPR022196 This domain family is found in bacteria and eukaryotes, and is approximately 30 amino acids in length. There is a conserved WMPC sequence motif. There are two completely conserved residues (A and C) that may be functionally important.
Probab=21.52 E-value=80 Score=20.44 Aligned_cols=18 Identities=39% Similarity=0.322 Sum_probs=14.4
Q ss_pred CCHHHHHHHHHHhCcEEe
Q 030403 104 YTLEEKEAEAAEIGYKVL 121 (178)
Q Consensus 104 ~~~ee~~~ea~~igykvv 121 (178)
.|.+|-++.|.++|++=+
T Consensus 2 ~tk~eAe~~A~~~GC~G~ 19 (34)
T PF12518_consen 2 PTKAEAEKRAKELGCKGA 19 (34)
T ss_pred CcHHHHHHHHHHcCCcch
Confidence 377888999999998743
No 101
>PRK13503 transcriptional activator RhaS; Provisional
Probab=21.34 E-value=66 Score=26.15 Aligned_cols=22 Identities=14% Similarity=0.366 Sum_probs=19.2
Q ss_pred EEEeeCCeEEEEeCCCEEEecc
Q 030403 139 AVVQIGSHQFKVSNGDSIFTER 160 (178)
Q Consensus 139 AIVeiGGKQYKV~eGD~I~VEr 160 (178)
+.+.++|++|.+.+|+.+.|..
T Consensus 46 ~~~~i~~~~~~l~~g~~~~i~~ 67 (278)
T PRK13503 46 GIHVFNGQPYTLSGGTVCFVRD 67 (278)
T ss_pred eeeEecCCcccccCCcEEEECC
Confidence 4578899999999999999964
No 102
>TIGR00092 GTP-binding protein YchF. This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.
Probab=21.27 E-value=60 Score=30.00 Aligned_cols=20 Identities=20% Similarity=0.569 Sum_probs=17.5
Q ss_pred EEEeeCCeEEEEeCCCEEEe
Q 030403 139 AVVQIGSHQFKVSNGDSIFT 158 (178)
Q Consensus 139 AIVeiGGKQYKV~eGD~I~V 158 (178)
..++..||.|-|+-||+|++
T Consensus 345 Gk~r~eGK~YivqDGDIi~f 364 (368)
T TIGR00092 345 GLMRLEGKYYVVDDGDVLFF 364 (368)
T ss_pred CchhhcCCeEEeeCCeEEEE
Confidence 45778999999999999986
No 103
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=21.02 E-value=1.3e+02 Score=22.11 Aligned_cols=34 Identities=26% Similarity=0.269 Sum_probs=25.3
Q ss_pred HHHHHHHHHhCcEEecccccCccccccCCceEEE
Q 030403 107 EEKEAEAAEIGYKVLGPLRKSDRVFKKYEPAFAV 140 (178)
Q Consensus 107 ee~~~ea~~igykvvg~~~~~~~~~k~~~~MYAI 140 (178)
++.+++-+++||.|.--...-.+.++....||-|
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~v 35 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEV 35 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEE
Confidence 4678889999999987766666666655667654
No 104
>PRK11171 hypothetical protein; Provisional
Probab=20.87 E-value=1.3e+02 Score=25.90 Aligned_cols=22 Identities=9% Similarity=0.226 Sum_probs=19.1
Q ss_pred EEEeeCCeEEEEeCCCEEEecc
Q 030403 139 AVVQIGSHQFKVSNGDSIFTER 160 (178)
Q Consensus 139 AIVeiGGKQYKV~eGD~I~VEr 160 (178)
+.+.++|+.|.+.+||.+++..
T Consensus 94 l~v~~~g~~~~L~~GDsi~~p~ 115 (266)
T PRK11171 94 ITLTLEGKTHALSEGGYAYLPP 115 (266)
T ss_pred EEEEECCEEEEECCCCEEEECC
Confidence 4577899999999999999874
No 105
>PF07530 PRE_C2HC: Associated with zinc fingers; InterPro: IPR006579 This domain is present in proteins found exclusively in the arthropods, including a number of Drosophila species, the silk moth and the gypsy moth. These proteins are possibly involved in RNA binding or single strand DNA binding.
Probab=20.81 E-value=1.5e+02 Score=21.08 Aligned_cols=33 Identities=27% Similarity=0.134 Sum_probs=23.0
Q ss_pred HHHHHHHHHhCcEEecccccCccccccCCceEE
Q 030403 107 EEKEAEAAEIGYKVLGPLRKSDRVFKKYEPAFA 139 (178)
Q Consensus 107 ee~~~ea~~igykvvg~~~~~~~~~k~~~~MYA 139 (178)
++..++..++||+|.--...-.+..+....||=
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~ 34 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFF 34 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEE
Confidence 466788899999999766666664444455554
No 106
>smart00481 POLIIIAc DNA polymerase alpha chain like domain. DNA polymerase alpha chain like domain, incl. family of hypothetical proteins
Probab=20.49 E-value=1.1e+02 Score=20.18 Aligned_cols=27 Identities=22% Similarity=0.247 Sum_probs=21.7
Q ss_pred CCCCCHHHHHHHHHHhCcEEecccccC
Q 030403 101 GREYTLEEKEAEAAEIGYKVLGPLRKS 127 (178)
Q Consensus 101 ~~~~~~ee~~~ea~~igykvvg~~~~~ 127 (178)
....++++-.+.|++.|++.+|--.-+
T Consensus 12 ~~~~~~~~~~~~a~~~g~~~v~iTDh~ 38 (67)
T smart00481 12 DGALSPEELVKRAKELGLKAIAITDHG 38 (67)
T ss_pred cccCCHHHHHHHHHHcCCCEEEEeeCC
Confidence 345789999999999999999854443
No 107
>KOG1819 consensus FYVE finger-containing proteins [General function prediction only]
Probab=20.35 E-value=1.5e+02 Score=30.03 Aligned_cols=9 Identities=22% Similarity=0.357 Sum_probs=4.0
Q ss_pred CCCCCCCCC
Q 030403 64 NKNDDEGED 72 (178)
Q Consensus 64 ~~~~d~~~~ 72 (178)
+..-|.+|+
T Consensus 419 nppad~~dg 427 (990)
T KOG1819|consen 419 NPPADNEDG 427 (990)
T ss_pred CCccccccC
Confidence 444444444
No 108
>KOG0262 consensus RNA polymerase I, large subunit [Transcription]
Probab=20.26 E-value=45 Score=36.41 Aligned_cols=16 Identities=19% Similarity=0.100 Sum_probs=12.0
Q ss_pred CeEEEEeCCCEEEecc
Q 030403 145 SHQFKVSNGDSIFTER 160 (178)
Q Consensus 145 GKQYKV~eGD~I~VEr 160 (178)
..+|-.+.|.+..|+.
T Consensus 1432 ~y~fd~~~~~wcev~~ 1447 (1640)
T KOG0262|consen 1432 RYTFDKESGKWCEVEL 1447 (1640)
T ss_pred hhccccccCcEEEEEE
Confidence 5678888888877753
No 109
>PF04712 Radial_spoke: Radial spokehead-like protein
Probab=20.24 E-value=63 Score=30.76 Aligned_cols=7 Identities=57% Similarity=1.284 Sum_probs=4.6
Q ss_pred Ccccccc
Q 030403 53 TNWSHYR 59 (178)
Q Consensus 53 ~~~~~~r 59 (178)
..|=|++
T Consensus 334 ~~WvH~~ 340 (491)
T PF04712_consen 334 SNWVHHR 340 (491)
T ss_pred ccccccc
Confidence 4677766
No 110
>KOG1824 consensus TATA-binding protein-interacting protein [General function prediction only]
Probab=20.21 E-value=47 Score=35.33 Aligned_cols=8 Identities=25% Similarity=0.929 Sum_probs=3.6
Q ss_pred cCC-CCccc
Q 030403 86 ESY-EGEEI 93 (178)
Q Consensus 86 ~~~-d~e~~ 93 (178)
+++ ||||+
T Consensus 336 deYsDDeD~ 344 (1233)
T KOG1824|consen 336 DEYSDDEDM 344 (1233)
T ss_pred cccccccch
Confidence 444 44554
Done!