Query 001920
Match_columns 996
No_of_seqs 378 out of 541
Neff 4.4
Searched_HMMs 46136
Date Thu Mar 28 12:24:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001920.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001920hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04096 Nucleoporin2: Nucleop 100.0 2.6E-50 5.6E-55 396.6 15.0 137 833-973 1-141 (141)
2 KOG0845 Nuclear pore complex, 99.9 6.1E-18 1.3E-22 208.3 53.8 283 605-976 618-903 (903)
3 KOG0845 Nuclear pore complex, 99.3 1.2E-07 2.5E-12 118.2 44.9 153 832-986 653-807 (903)
4 KOG3091 Nuclear pore complex, 96.8 0.022 4.8E-07 66.9 14.8 29 828-859 401-429 (508)
5 KOG3091 Nuclear pore complex, 95.3 0.32 6.9E-06 57.6 14.8 25 138-162 32-56 (508)
6 PF13634 Nucleoporin_FG: Nucle 91.1 1.1 2.4E-05 43.6 8.5 8 477-484 54-61 (113)
7 PF13634 Nucleoporin_FG: Nucle 90.9 1.3 2.8E-05 43.2 8.7 10 548-557 86-95 (113)
8 cd03420 SirA_RHOD_Pry_redox Si 70.0 7 0.00015 34.7 4.3 31 941-971 38-68 (69)
9 PRK11018 hypothetical protein; 68.8 7.7 0.00017 35.4 4.4 32 941-972 47-78 (78)
10 TIGR01659 sex-lethal sex-letha 63.5 9.7 0.00021 43.9 4.9 32 865-897 149-182 (346)
11 cd03423 SirA SirA (also known 57.0 16 0.00036 32.3 4.2 31 941-971 38-68 (69)
12 cd03422 YedF YedF is a bacteri 54.9 20 0.00042 31.9 4.3 31 941-971 38-68 (69)
13 KOG1428 Inhibitor of type V ad 54.2 4.2 9.2E-05 53.5 0.0 32 355-386 2064-2095(3738)
14 PRK00299 sulfur transfer prote 53.3 21 0.00045 32.9 4.4 31 941-971 48-78 (81)
15 cd00291 SirA_YedF_YeeD SirA, Y 50.7 25 0.00053 30.4 4.2 32 941-972 38-69 (69)
16 KOG2932 E3 ubiquitin ligase in 49.2 11 0.00025 42.9 2.3 90 854-960 56-149 (389)
17 KOG4211 Splicing factor hnRNP- 47.3 31 0.00067 41.6 5.5 119 837-961 21-178 (510)
18 PF03154 Atrophin-1: Atrophin- 45.1 9 0.00019 49.1 0.9 33 681-731 544-578 (982)
19 cd01827 sialate_O-acetylestera 37.8 45 0.00098 33.5 4.5 48 913-960 108-155 (188)
20 PF01206 TusA: Sulfurtransfera 35.3 32 0.00069 30.1 2.5 31 941-971 39-69 (70)
21 cd01832 SGNH_hydrolase_like_1 35.2 34 0.00073 34.3 3.0 25 936-960 128-152 (185)
22 cd01841 NnaC_like NnaC (CMP-Ne 33.0 68 0.0015 31.9 4.8 26 936-961 113-138 (174)
23 KOG3895 Synaptic vesicle prote 32.9 9.5 0.00021 44.2 -1.4 127 857-985 243-378 (488)
24 PRK13278 purP 5-formaminoimida 30.0 1.3E+02 0.0027 35.3 6.9 39 831-870 162-208 (358)
25 TIGR01642 U2AF_lg U2 snRNP aux 29.9 92 0.002 36.9 5.9 55 933-994 424-484 (509)
26 cd03421 SirA_like_N SirA_like_ 29.0 83 0.0018 27.4 4.1 30 941-971 37-66 (67)
27 KOG1901 Uncharacterized high-g 28.0 80 0.0017 38.4 4.9 91 852-965 343-445 (487)
28 cd01828 sialate_O-acetylestera 25.9 1.1E+02 0.0023 30.4 4.8 24 936-959 107-130 (169)
29 cd01825 SGNH_hydrolase_peri1 S 25.9 1.1E+02 0.0024 30.5 5.0 51 911-961 94-145 (189)
30 COG4359 Uncharacterized conser 25.9 71 0.0015 34.7 3.6 71 886-960 127-202 (220)
31 PRK13796 GTPase YqeH; Provisio 25.5 58 0.0013 37.7 3.2 45 830-884 16-60 (365)
32 KOG3630 Nuclear pore complex, 25.3 2.8E+02 0.006 37.3 9.0 13 103-115 503-515 (1405)
33 cd01255 PH_TIAM TIAM Pleckstri 24.5 57 0.0012 33.9 2.5 58 841-901 6-68 (160)
34 PF04970 LRAT: Lecithin retino 22.6 18 0.0004 35.2 -1.3 32 940-976 87-118 (125)
35 TIGR01648 hnRNP-R-Q heterogene 22.6 96 0.0021 38.6 4.4 22 973-994 268-289 (578)
36 PRK14343 lipoate-protein ligas 22.5 2.5E+02 0.0055 31.3 7.1 30 938-967 108-141 (235)
37 PF14111 DUF4283: Domain of un 21.8 2.1E+02 0.0045 28.2 5.9 112 837-964 28-140 (153)
38 smart00874 B5 tRNA synthetase 21.3 2E+02 0.0043 25.1 5.1 50 939-996 22-71 (71)
39 COG5266 CbiK ABC-type Co2+ tra 21.3 6.5E+02 0.014 28.7 9.9 28 945-973 214-241 (264)
40 PRK03298 hypothetical protein; 21.2 1.6E+02 0.0036 32.5 5.3 58 832-893 97-155 (224)
No 1
>PF04096 Nucleoporin2: Nucleoporin autopeptidase; InterPro: IPR007230 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) [, ]. This group of autocatalytic serine endopeptidases belong to MEROPS peptidase family S59 (clan SP). The nuclear pore complex protein plays a role in bidirectional transport across the nucleoporin complex in nucleocytoplasmic transport. The mammalian nuclear pore complex (NPC) is comprised of approximately 50 unique proteins, collectively known as nucleoporins. A number of the peptides are synthesised as precursors and undergo self-catalyzed cleavage. The proteolytic cleavage site of yeast Nup145p has been mapped upstream of an evolutionary conserved serine residue. Cleavage occurs at the same site when a precursor is artificially expressed in Escherichia coli. A hydroxyl-containing residue is critical for the reaction, although a thiol-containing residue offers an acceptable replacement. In vitro kinetics experiments using a purified precursor molecule demonstrate that the cleavage is self-catalyzed and that the catalytic domain lies within the N-terminal moiety. Taken altogether, the data are consistent with a proteolytic mechanism involving an N>O acyl rearrangement and a subsequent ester intermediate uncovered in other self-processing proteins []. Nup98 is a component of the nuclear pore that plays its primary role in the export of RNAs. Nup98 is expressed in two forms, derived from alternate mRNA splicing. Both forms are processed into two peptides through autoproteolysis mediated by the C-terminal domain of hNup98. The three-dimensional structure of the C-terminal domain reveals a novel protein fold, and thus a new class of autocatalytic proteases. The structure further reveals that the suggested nucleoporin RNA binding motif is unlikely to bind to RNA []. The following nucleoporins share an ~150-residue C-terminal domain responsible for NPC targeting [, ]: Vertebrate Nup98, a component of the nuclear pore that plays its primary role in the export of RNAs. Yeast Nup100, plays an important role in several nuclear export and import pathways including poly(A)+ RNA and protein transport. Yeast Nup116, involved in mRNA export and protein transport. Yeast Nup145, involved in nuclear poly(A)+ RNA and tRNA export. The NUP C-terminal domains of Nup98 and Nup145 possess peptidase S59 autoproteolytic activity. The autoproteolytic sites of Nup98 and Nup145 each occur immediately C-terminal to the NUP C-terminal domain. Thus, although this domain occurs in the middle of each precursor polypeptide, it winds up at the C-terminal end of the N-terminal cleavage product. Cleavage of the peptide chains are necessary for the proper targeting to the nuclear pore [, ]. The NUP C-terminal domain adopts a predominantly beta-strand structure. The molecule consists of a six-stranded beta-sheet sandwiched against a two-stranded beta-sheet and flanked by alpha-helical regions. The N-terminal helical region consists of two short helices, whereas the stretch on the opposite side of molecule consists of a single, longer helix [, ].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 3PBP_E 2AIV_A 1KO6_A 2Q5X_A 2Q5Y_C 3KEP_A 3KES_A 3NF5_B 3TKN_I.
Probab=100.00 E-value=2.6e-50 Score=396.60 Aligned_cols=137 Identities=50% Similarity=0.847 Sum_probs=121.6
Q ss_pred CceeccCHHHHHHhhhcCCCccccccCeEEeeeeeEEEEeCccccccCCCCC----ceEEEccceEEEccCCCCCCCCCc
Q 001920 833 DYYTEPRIQELAAKERAEPGFCRRVKDFVVGRHGYGSIKFLGETDVRRLDLE----SLVQFNNREVIVYMDDSKKPPVGQ 908 (996)
Q Consensus 833 gYyt~PSieeL~~ms~~e~g~L~~V~nFtVGR~GyG~I~FlgpVDL~~lDLD----~IV~f~~r~V~VYpdd~~KPpvGe 908 (996)
||||+|||+||++|+++| |++|+||+|||+|||+|+|++||||++|||| +||+|++++|+||||+..|||+|+
T Consensus 1 ~Y~~~Psl~eL~~m~~~~---l~~V~~F~Vgr~g~G~I~f~~pVDl~~ldld~~~~~iV~~~~~~v~VYpd~~~kPp~G~ 77 (141)
T PF04096_consen 1 GYWTSPSLEELQKMSDEE---LKRVENFTVGREGYGSIEFLGPVDLSGLDLDDIFGKIVIFEPKEVTVYPDESEKPPVGE 77 (141)
T ss_dssp TEEEES-HHHHHHSSCTT---CCSBESEEEEETTTEEEEESSEBE-TTSBCGCTBTTTEEEETTEEEESSSSSS--STTS
T ss_pred CceEcCCHHHHHhcCHHh---hCccCCeEEEeccEEEEEECCceecccccchhccCCEEEEecCEEEEECCCCCCCCCCC
Confidence 799999999999999887 9999999999999999999999999999999 999999999999999999999999
Q ss_pred cCccceEEEEecceecCCCCCcccCCCchHHHHHHHHHHHhhhCCCeEEEEeCCCcEEEEEECcc
Q 001920 909 GLNKPAEVTLLNIKCFDKKTGVQYKEGPKIEKYKEMLKRKAEDQGAEFISYDPIKGEWKFSVNHF 973 (996)
Q Consensus 909 GLNkpA~ITL~n~~p~dk~t~~~i~d~~~~~k~~~~Lkk~te~~Ga~FvsYD~~tGtW~F~V~HF 973 (996)
||||||+|||+||||+||+++++|+|+.+ .+|+++|+|+|+++|++||+||+++|+|+|+|+||
T Consensus 78 GLN~~A~ItL~~~~p~~~~~~~~i~d~~~-~~~~~~l~~~~~~~~~~FvsYd~~tG~W~F~V~HF 141 (141)
T PF04096_consen 78 GLNVPAIITLENCWPKDKSTREPIKDPSK-PRFEKKLKRLTEKMGAEFVSYDPETGTWVFRVEHF 141 (141)
T ss_dssp TTCS-EEEEESS---BBTTTTCB--STTC-HHHHHHHHHHHHCTTSEEEEEETTTTEEEEEESS-
T ss_pred CcCCCEEEEEEeeEecCCCCCccccCccH-HHHHHHHHHHHhcCCCEEEEEeCCCcEEEEEEecC
Confidence 99999999999999999999999998654 34999999999999999999999999999999998
No 2
>KOG0845 consensus Nuclear pore complex, Nup98 component (sc Nup145/Nup100/Nup116) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.88 E-value=6.1e-18 Score=208.33 Aligned_cols=283 Identities=20% Similarity=0.252 Sum_probs=171.1
Q ss_pred CCCCCccCCCCCcCCCCCCCCCceec-ccccCCCCCCCCccchhhhhccCCCCCcccCCCccccccCC-ccchhcc-ccc
Q 001920 605 NFGGTLGTFGQSNFGQLSATPSSVTV-PVPVTNPFGTLPAMPQMSIARAGTAPSIQYGISSMPVVEKS-APVRISS-LLT 681 (996)
Q Consensus 605 ~~~g~~~~~~q~~~g~~~~~~~~~~~-~~~~~np~g~~pa~~q~~~~~~~~~~s~~yg~s~lpv~~kp-~p~~~~~-~~~ 681 (996)
...+..++..+..+.+.........+ ++.+.+-+..+..++++.+-......-+++-....++.+|. .|++... ...
T Consensus 618 ~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~s~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~ 697 (903)
T KOG0845|consen 618 HRLGAEGTLEQSNFPKEPVPSNSASSQPAGSVSSPTLPFDLPRISTTKGITSEDSLDNVSSTTILDKSKGPLSFKFFISP 697 (903)
T ss_pred hhcccccccccCCCccccccccccccCccccccccccccchhhhHHHHhhhcccccccccCcchhhccccccceecccCc
Confidence 44445566666666644444444444 56666677777777877777766667777777777777776 5666554 444
Q ss_pred cccccccccccCccccCCCCCCCCCCccCCCCCCCCCCCCCccccccCCCCceeecCCCCCCCccccccccccCCCCccc
Q 001920 682 SRHLSQRRIRLPARKYNPKNDNMRVPFFSDDEETPSTPKADALFIPRENPRALIIRPTEQWPLGASAMKTSSIKDTSTRA 761 (996)
Q Consensus 682 ~r~~~~~rirl~~~~~~~~~dg~~~~~~~~d~e~~~tpk~~~~f~pre~~~~L~i~p~~~~~~~~~~~~~~~~~~~~~~~ 761 (996)
.||+.+.+++++.+++....+.+..++..++.+..+.+..+..-...++.+.|++++......
T Consensus 698 ~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------- 760 (903)
T KOG0845|consen 698 TNLLLKAIVSIPSEILKTELDEPTTPLPSEGLESVLSPDADSASPSLKNTISLIGKPSTESTS----------------- 760 (903)
T ss_pred ccchhhcccccchhcccccccccccccccccccccccccccccCcccccchhccccccceecc-----------------
Confidence 566666666666666655555555555555555444333333333333333333321111000
Q ss_pred ccCCCCccCCcccccccCccccCCCCCccCCCCCcccccceeecCCCCCcceeeccCcCcccccCCCcCCCCceeccCHH
Q 001920 762 RENESPVENGTVKEKVQPVKVNHKPNGVHDDHSNQKDESYVTLNGHRAGEAAIVYEHGANIEALMPKLRRSDYYTEPRIQ 841 (996)
Q Consensus 762 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~~~~~~~i~~~~PkL~~~gYyt~PSie 841 (996)
+.++.... . ++....|+.+|.++
T Consensus 761 -----------------------------------------------------~~~~~~~~---~-s~~~~~~~~~~~~~ 783 (903)
T KOG0845|consen 761 -----------------------------------------------------GLESTLEG---I-SRPLEASTKILRIS 783 (903)
T ss_pred -----------------------------------------------------cccccccc---c-cccccccccccccc
Confidence 00000000 0 11223344444321
Q ss_pred HHHHhhhcCCCccccccCeEEeeeeeEEEEeCccccccCCCCCceEEEccceEEEccCCCCCCCCCccCccceEEEEecc
Q 001920 842 ELAAKERAEPGFCRRVKDFVVGRHGYGSIKFLGETDVRRLDLESLVQFNNREVIVYMDDSKKPPVGQGLNKPAEVTLLNI 921 (996)
Q Consensus 842 eL~~ms~~e~g~L~~V~nFtVGR~GyG~I~FlgpVDL~~lDLD~IV~f~~r~V~VYpdd~~KPpvGeGLNkpA~ITL~n~ 921 (996)
-. .....+..+..|++..|.+.+-+..+-.+.++.....++.+|.++.+...-| .+|+.|+++||.|
T Consensus 784 ~~------------~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~ 850 (903)
T KOG0845|consen 784 NK------------SLLGVNPGTSKFGETKSPGERELAPSKVSTKKPFTSNAVKLSTTEPEYSNDG-PSNRDAGVTLEQV 850 (903)
T ss_pred cc------------ccccccccceeecccccccceeccccccccccccccccccccccccccCCcc-ccccccceeeeee
Confidence 11 1122333445566777777777766666666555566666665554433333 9999999999999
Q ss_pred eecCCCCCcccCCCchHHHHHHHHHHHhhhCCCeEEEEeCCCcEEEEEECccccc
Q 001920 922 KCFDKKTGVQYKEGPKIEKYKEMLKRKAEDQGAEFISYDPIKGEWKFSVNHFSEY 976 (996)
Q Consensus 922 ~p~dk~t~~~i~d~~~~~k~~~~Lkk~te~~Ga~FvsYD~~tGtW~F~V~HFS~Y 976 (996)
|.+||.+.++|+|-.+++ .+..+++.+ ++...|+.|+.+++.|+|+|+|++.|
T Consensus 851 ~~~~~~~~~~~~d~~~~~-~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 903 (903)
T KOG0845|consen 851 SNLDKSTKEEIRDLMKLE-TEFSIRSVV-RPSEGFAPFRAETGSWSFRLDSESSY 903 (903)
T ss_pred eccccccchhhHHHHHHh-hccchhhhc-cccccccccccccceEEEeecccccC
Confidence 999999999999865555 777778888 99999999999999999999999987
No 3
>KOG0845 consensus Nuclear pore complex, Nup98 component (sc Nup145/Nup100/Nup116) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=99.25 E-value=1.2e-07 Score=118.25 Aligned_cols=153 Identities=12% Similarity=0.018 Sum_probs=100.8
Q ss_pred CCceeccCHHHHHHhhhcCCCccccccCeEEeeeeeEEEEeCccccccCCCCCceEEEccceEEEccCCCCCCCCCccCc
Q 001920 832 SDYYTEPRIQELAAKERAEPGFCRRVKDFVVGRHGYGSIKFLGETDVRRLDLESLVQFNNREVIVYMDDSKKPPVGQGLN 911 (996)
Q Consensus 832 ~gYyt~PSieeL~~ms~~e~g~L~~V~nFtVGR~GyG~I~FlgpVDL~~lDLD~IV~f~~r~V~VYpdd~~KPpvGeGLN 911 (996)
..++..|.|+++....+++ .+..|...++..+.+..+.|..++-...+.++.||.+..+.+..|.++...+...+++.
T Consensus 653 ~~~~~l~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~ 730 (903)
T KOG0845|consen 653 TLPFDLPRISTTKGITSED--SLDNVSSTTILDKSKGPLSFKFFISPTNLLLKAIVSIPSEILKTELDEPTTPLPSEGLE 730 (903)
T ss_pred ccccchhhhHHHHhhhccc--ccccccCcchhhccccccceecccCcccchhhcccccchhccccccccccccccccccc
Confidence 3444455555444433322 34578888888888988888875555667778888899999999999888888888888
Q ss_pred cceEEEEecceecCCCCCcccCCC--chHHHHHHHHHHHhhhCCCeEEEEeCCCcEEEEEECcccccCCCCCCCccc
Q 001920 912 KPAEVTLLNIKCFDKKTGVQYKEG--PKIEKYKEMLKRKAEDQGAEFISYDPIKGEWKFSVNHFSEYKLGDEDKQDD 986 (996)
Q Consensus 912 kpA~ITL~n~~p~dk~t~~~i~d~--~~~~k~~~~Lkk~te~~Ga~FvsYD~~tGtW~F~V~HFS~YGl~dddded~ 986 (996)
.........++.........+... +...+++.++....+++......++.....|.-.+.|.++|.....+.+.+
T Consensus 731 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e 807 (903)
T KOG0845|consen 731 SVLSPDADSASPSLKNTISLIGKPSTESTSGLESTLEGISRPLEASTKILRISNKSLLGVNPGTSKFGETKSPGERE 807 (903)
T ss_pred ccccccccccCcccccchhccccccceecccccccccccccccccccccccccccccccccccceeeccccccccee
Confidence 888877777765544444333221 111222223333322344567777888889999999999999886665443
No 4
>KOG3091 consensus Nuclear pore complex, p54 component (sc Nup57) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=96.79 E-value=0.022 Score=66.86 Aligned_cols=29 Identities=28% Similarity=0.331 Sum_probs=22.2
Q ss_pred CcCCCCceeccCHHHHHHhhhcCCCccccccC
Q 001920 828 KLRRSDYYTEPRIQELAAKERAEPGFCRRVKD 859 (996)
Q Consensus 828 kL~~~gYyt~PSieeL~~ms~~e~g~L~~V~n 859 (996)
+|++.||-+.|.-|||+++-+.- |++|++
T Consensus 401 ilr~~G~~L~~~EE~Lr~Kldtl---l~~ln~ 429 (508)
T KOG3091|consen 401 ILRKRGYALTPDEEELRAKLDTL---LAQLNA 429 (508)
T ss_pred HHhccCCcCCccHHHHHHHHHHH---HHHhcC
Confidence 57899999999999999865432 555554
No 5
>KOG3091 consensus Nuclear pore complex, p54 component (sc Nup57) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=95.33 E-value=0.32 Score=57.58 Aligned_cols=25 Identities=36% Similarity=0.583 Sum_probs=16.3
Q ss_pred CCcccCCCCCCCCCCCCCCCCCCCC
Q 001920 138 PAFGSSLFGSSTPFGASSQPAFGAT 162 (996)
Q Consensus 138 paFG~s~FGs~t~fG~s~~paFG~~ 162 (996)
.++|.+.||+.+.+|...+.+||+.
T Consensus 32 sa~~g~~fgs~p~~~taTt~~fG~~ 56 (508)
T KOG3091|consen 32 SASGGGAFGSQPTTGTATTGLFGAN 56 (508)
T ss_pred ccccccccccCCCCCCccccccccc
Confidence 4566677777666666666666654
No 6
>PF13634 Nucleoporin_FG: Nucleoporin FG repeat region
Probab=91.07 E-value=1.1 Score=43.62 Aligned_cols=8 Identities=25% Similarity=0.588 Sum_probs=3.7
Q ss_pred CCCCCCCC
Q 001920 477 SPSLFSNT 484 (996)
Q Consensus 477 ~~slFg~t 484 (996)
+++|||+.
T Consensus 54 ~~~LFG~~ 61 (113)
T PF13634_consen 54 TGGLFGSS 61 (113)
T ss_pred CCcccCCC
Confidence 34455543
No 7
>PF13634 Nucleoporin_FG: Nucleoporin FG repeat region
Probab=90.89 E-value=1.3 Score=43.20 Aligned_cols=10 Identities=40% Similarity=0.916 Sum_probs=6.2
Q ss_pred cCcccCCCCC
Q 001920 548 SGGIFSSTPS 557 (996)
Q Consensus 548 ~gglf~s~~~ 557 (996)
.++||+....
T Consensus 86 ~~~lFG~~~~ 95 (113)
T PF13634_consen 86 SGGLFGQSQP 95 (113)
T ss_pred CCcccCCCCC
Confidence 4666666655
No 8
>cd03420 SirA_RHOD_Pry_redox SirA_RHOD_Pry_redox. SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that corresponds to COG2210. This fold is referred to as a two-layered alpha/beta sandwich, structurally similar to that of translation initiation factor 3.
Probab=69.96 E-value=7 Score=34.66 Aligned_cols=31 Identities=19% Similarity=0.295 Sum_probs=27.5
Q ss_pred HHHHHHHHhhhCCCeEEEEeCCCcEEEEEEC
Q 001920 941 YKEMLKRKAEDQGAEFISYDPIKGEWKFSVN 971 (996)
Q Consensus 941 ~~~~Lkk~te~~Ga~FvsYD~~tGtW~F~V~ 971 (996)
.++-|.+.|+++|.++++++.+.|.|+|.++
T Consensus 38 a~~di~~~~~~~G~~~~~~~~~~~~~~~~I~ 68 (69)
T cd03420 38 FARDAQAWCKSTGNTLISLETEKGKVKAVIE 68 (69)
T ss_pred HHHHHHHHHHHcCCEEEEEEecCCEEEEEEE
Confidence 5577888999999999999999999999875
No 9
>PRK11018 hypothetical protein; Provisional
Probab=68.82 E-value=7.7 Score=35.40 Aligned_cols=32 Identities=6% Similarity=0.115 Sum_probs=27.0
Q ss_pred HHHHHHHHhhhCCCeEEEEeCCCcEEEEEECc
Q 001920 941 YKEMLKRKAEDQGAEFISYDPIKGEWKFSVNH 972 (996)
Q Consensus 941 ~~~~Lkk~te~~Ga~FvsYD~~tGtW~F~V~H 972 (996)
-++.|.+.++++|.++++++.+.|.|+|.|.+
T Consensus 47 a~~di~~~~~~~G~~v~~~~~~~g~~~~~I~k 78 (78)
T PRK11018 47 SINNIPLDARNHGYTVLDIQQDGPTIRYLIQK 78 (78)
T ss_pred HHHHHHHHHHHcCCEEEEEEecCCeEEEEEEC
Confidence 44677788888999999999889999999863
No 10
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=63.54 E-value=9.7 Score=43.90 Aligned_cols=32 Identities=28% Similarity=0.566 Sum_probs=20.4
Q ss_pred eeeEEEEeCccccccC-C-CCCceEEEccceEEEc
Q 001920 865 HGYGSIKFLGETDVRR-L-DLESLVQFNNREVIVY 897 (996)
Q Consensus 865 ~GyG~I~FlgpVDL~~-l-DLD~IV~f~~r~V~VY 897 (996)
++|+-|+|..+-|... | .|+.++ |..+.|.|.
T Consensus 149 rGyaFVeF~~~e~A~~Ai~~LnG~~-l~gr~i~V~ 182 (346)
T TIGR01659 149 FGYAFVDFGSEADSQRAIKNLNGIT-VRNKRLKVS 182 (346)
T ss_pred CcEEEEEEccHHHHHHHHHHcCCCc-cCCceeeee
Confidence 3899999988777653 2 355433 345566664
No 11
>cd03423 SirA SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is thought to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=56.98 E-value=16 Score=32.27 Aligned_cols=31 Identities=6% Similarity=0.191 Sum_probs=26.3
Q ss_pred HHHHHHHHhhhCCCeEEEEeCCCcEEEEEEC
Q 001920 941 YKEMLKRKAEDQGAEFISYDPIKGEWKFSVN 971 (996)
Q Consensus 941 ~~~~Lkk~te~~Ga~FvsYD~~tGtW~F~V~ 971 (996)
-.+.|.+.++++|.++++.+.+.|.|+|.|.
T Consensus 38 s~~di~~~~~~~g~~~~~~~~~~~~~~~~I~ 68 (69)
T cd03423 38 TTRDIPKFCTFLGHELLAQETEDEPYRYLIR 68 (69)
T ss_pred hHHHHHHHHHHcCCEEEEEEEcCCEEEEEEE
Confidence 4467778888899999998889999999985
No 12
>cd03422 YedF YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=54.92 E-value=20 Score=31.90 Aligned_cols=31 Identities=6% Similarity=0.171 Sum_probs=26.6
Q ss_pred HHHHHHHHhhhCCCeEEEEeCCCcEEEEEEC
Q 001920 941 YKEMLKRKAEDQGAEFISYDPIKGEWKFSVN 971 (996)
Q Consensus 941 ~~~~Lkk~te~~Ga~FvsYD~~tGtW~F~V~ 971 (996)
-.+.|.+.++++|.+++..+.+.|+|+|.|.
T Consensus 38 s~~ni~~~~~~~g~~v~~~~~~~~~~~~~i~ 68 (69)
T cd03422 38 SINNIPIDARNHGYKVLAIEQSGPTIRYLIQ 68 (69)
T ss_pred HHHHHHHHHHHcCCEEEEEEecCCEEEEEEE
Confidence 4577888888999999998888899999985
No 13
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=54.17 E-value=4.2 Score=53.46 Aligned_cols=32 Identities=28% Similarity=0.387 Sum_probs=26.7
Q ss_pred CcceeeeeccccccCCChhhhhhhhhcCCCCC
Q 001920 355 AGKLESISSMPVYKDKSHEELRWEDYQLGDKG 386 (996)
Q Consensus 355 ~~k~qSIsam~~Y~~kS~EELRweDYQ~Grk~ 386 (996)
.++|..|..|+.|+++|+||||+.----.|.-
T Consensus 2064 ~aRYiaIt~M~vYeNYS~EElRf~~~~~k~~s 2095 (3738)
T KOG1428|consen 2064 EARYIAITMMKVYENYSFEELRFASPTPKRPS 2095 (3738)
T ss_pred chhhhhhhhhhhhhcccHhhhcccCCCccccc
Confidence 46899999999999999999999765555543
No 14
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=53.35 E-value=21 Score=32.86 Aligned_cols=31 Identities=3% Similarity=0.074 Sum_probs=27.1
Q ss_pred HHHHHHHHhhhCCCeEEEEeCCCcEEEEEEC
Q 001920 941 YKEMLKRKAEDQGAEFISYDPIKGEWKFSVN 971 (996)
Q Consensus 941 ~~~~Lkk~te~~Ga~FvsYD~~tGtW~F~V~ 971 (996)
.++-|.++|+++|.++++.+.+.|+|+|.|.
T Consensus 48 ~~~di~~~~~~~G~~~~~~~~~~g~~~~~I~ 78 (81)
T PRK00299 48 TTRDIPSFCRFMDHELLAQETEQLPYRYLIR 78 (81)
T ss_pred HHHHHHHHHHHcCCEEEEEEecCCEEEEEEE
Confidence 5577788888999999999999999999985
No 15
>cd00291 SirA_YedF_YeeD SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=50.74 E-value=25 Score=30.42 Aligned_cols=32 Identities=16% Similarity=0.265 Sum_probs=26.7
Q ss_pred HHHHHHHHhhhCCCeEEEEeCCCcEEEEEECc
Q 001920 941 YKEMLKRKAEDQGAEFISYDPIKGEWKFSVNH 972 (996)
Q Consensus 941 ~~~~Lkk~te~~Ga~FvsYD~~tGtW~F~V~H 972 (996)
-.+.|.+.++++|.+++..+.+.+.|++.|++
T Consensus 38 ~~~~i~~~~~~~g~~~~~~~~~~~~~~i~i~k 69 (69)
T cd00291 38 AVEDIPAWAKETGHEVLEVEEEGGVYRILIRK 69 (69)
T ss_pred HHHHHHHHHHHcCCEEEEEEEeCCEEEEEEEC
Confidence 35677778888999999999888999999864
No 16
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=49.18 E-value=11 Score=42.89 Aligned_cols=90 Identities=13% Similarity=0.150 Sum_probs=55.9
Q ss_pred cccccCeEEeeeeeEEEEeCccccccC-CCCCceEEEccc---eEEEccCCCCCCCCCccCccceEEEEecceecCCCCC
Q 001920 854 CRRVKDFVVGRHGYGSIKFLGETDVRR-LDLESLVQFNNR---EVIVYMDDSKKPPVGQGLNKPAEVTLLNIKCFDKKTG 929 (996)
Q Consensus 854 L~~V~nFtVGR~GyG~I~FlgpVDL~~-lDLD~IV~f~~r---~V~VYpdd~~KPpvGeGLNkpA~ITL~n~~p~dk~t~ 929 (996)
|+...-|+--|+.=+.+.|..+|.+++ -+|...|+|.+| -|.||.- .|-...|+|+|=.--
T Consensus 56 ~~~~p~f~~~~r~pphl~w~~~V~~~gek~l~p~VHfCd~Cd~PI~IYGR---------------mIPCkHvFCl~CAr~ 120 (389)
T KOG2932|consen 56 LADLPVFKGIGRVPPHLTWIKPVGRRGEKQLGPRVHFCDRCDFPIAIYGR---------------MIPCKHVFCLECARS 120 (389)
T ss_pred hcCCchhcccccCCCceeeeeecccccccccCcceEeecccCCcceeeec---------------ccccchhhhhhhhhc
Confidence 334455554445678999999999986 478888999866 4778843 233445666654333
Q ss_pred cccCCCchHHHHHHHHHHHhhhCCCeEEEEe
Q 001920 930 VQYKEGPKIEKYKEMLKRKAEDQGAEFISYD 960 (996)
Q Consensus 930 ~~i~d~~~~~k~~~~Lkk~te~~Ga~FvsYD 960 (996)
+.+|-=++...-+.||++. .+|.-|+.--
T Consensus 121 ~~dK~Cp~C~d~VqrIeq~--~~g~iFmC~~ 149 (389)
T KOG2932|consen 121 DSDKICPLCDDRVQRIEQI--MMGGIFMCAA 149 (389)
T ss_pred CccccCcCcccHHHHHHHh--cccceEEeec
Confidence 3333223334444566665 5788888763
No 17
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=47.35 E-value=31 Score=41.58 Aligned_cols=119 Identities=18% Similarity=0.248 Sum_probs=68.1
Q ss_pred ccCHHHHHHhhhcCCCccccccCeEEeee-----eeEEEEeCccccccC-CCCCceEEEccceEEEccC------CCCCC
Q 001920 837 EPRIQELAAKERAEPGFCRRVKDFVVGRH-----GYGSIKFLGETDVRR-LDLESLVQFNNREVIVYMD------DSKKP 904 (996)
Q Consensus 837 ~PSieeL~~ms~~e~g~L~~V~nFtVGR~-----GyG~I~FlgpVDL~~-lDLD~IV~f~~r~V~VYpd------d~~KP 904 (996)
+=+.+||...- .+ | .|+||++-|+ |--.|+|..+=|+.. |-+| -..+..|.|+||+- ...||
T Consensus 21 sat~~ei~~Ff-~~---~-~I~~~~~~r~~Gr~sGeA~Ve~~seedv~~Alkkd-R~~mg~RYIEVf~~~~~e~d~~~~~ 94 (510)
T KOG4211|consen 21 SATEKEILDFF-SN---C-GIENLEIPRRNGRPSGEAYVEFTSEEDVEKALKKD-RESMGHRYIEVFTAGGAEADWVMRP 94 (510)
T ss_pred cccHHHHHHHH-hc---C-ceeEEEEeccCCCcCcceEEEeechHHHHHHHHhh-HHHhCCceEEEEccCCccccccccC
Confidence 34678887643 22 6 7999999988 456799988888753 3333 34567889999974 12333
Q ss_pred CCCccCccceEEEEecc---------------------------eecCCCCCcccCCCchHHHHHHHHHHHhhhCCCeEE
Q 001920 905 PVGQGLNKPAEVTLLNI---------------------------KCFDKKTGVQYKEGPKIEKYKEMLKRKAEDQGAEFI 957 (996)
Q Consensus 905 pvGeGLNkpA~ITL~n~---------------------------~p~dk~t~~~i~d~~~~~k~~~~Lkk~te~~Ga~Fv 957 (996)
--...-=.--+|.|.++ -+.-|.++|-.-.=+..+..++.|+|..+++|-++|
T Consensus 95 ~g~~s~~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~rhre~iGhRYI 174 (510)
T KOG4211|consen 95 GGPNSSANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGRHRENIGHRYI 174 (510)
T ss_pred CCCCCCCCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHHHHHHhhccceE
Confidence 22111112233444222 011123333211113346677888888888999988
Q ss_pred EEeC
Q 001920 958 SYDP 961 (996)
Q Consensus 958 sYD~ 961 (996)
+-+.
T Consensus 175 EvF~ 178 (510)
T KOG4211|consen 175 EVFR 178 (510)
T ss_pred Eeeh
Confidence 7543
No 18
>PF03154 Atrophin-1: Atrophin-1 family; InterPro: IPR002951 Atrophin-1 is the protein product of the dentatorubral-pallidoluysian atrophy (DRPLA) gene. DRPLA (OMIM:125370) is a progressive neurodegenerative disorder. It is caused by the expansion of a CAG repeat in the DRPLA gene on chromosome 12p. This results in an extended polyglutamine region in atrophin-1, that is thought to confer toxicity to the protein, possibly through altering its interactions with other proteins [, ]. The expansion of a CAG repeat is also the underlying defect in six other neurodegenerative disorders, including Huntington's disease. One interaction of expanded polyglutamine repeats that is thought to be pathogenic is that with the short glutamine repeat in the transcriptional coactivator CREB binding protein, CBP. This interaction draws CBP away from its usual nuclear location to the expanded polyglutamine repeat protein aggregates that are characteristic of the polyglutamine neurodegenerative disorders. This interferes with CBP-mediated transcription and causes cytotoxicity [].. This entry includes Atrophin-1 and related proteins.
Probab=45.10 E-value=9 Score=49.11 Aligned_cols=33 Identities=33% Similarity=0.419 Sum_probs=27.4
Q ss_pred ccccccc--cccccCccccCCCCCCCCCCccCCCCCCCCCCCCCccccccCCC
Q 001920 681 TSRHLSQ--RRIRLPARKYNPKNDNMRVPFFSDDEETPSTPKADALFIPRENP 731 (996)
Q Consensus 681 ~~r~~~~--~rirl~~~~~~~~~dg~~~~~~~~d~e~~~tpk~~~~f~pre~~ 731 (996)
++.|-+| |=||-..|.||.|-- .|..|+|.+.-
T Consensus 544 tp~HaSQSArF~kHldRG~NSCaR------------------TDL~F~Pl~gS 578 (982)
T PF03154_consen 544 TPSHASQSARFNKHLDRGYNSCAR------------------TDLYFVPLPGS 578 (982)
T ss_pred chhhhhHHHHHHHHhhcccccccc------------------cceeeeecCcc
Confidence 8899998 788888999986644 68889999885
No 19
>cd01827 sialate_O-acetylesterase_like1 sialate O-acetylesterase_like family of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=37.82 E-value=45 Score=33.55 Aligned_cols=48 Identities=8% Similarity=0.028 Sum_probs=29.7
Q ss_pred ceEEEEecceecCCCCCcccCCCchHHHHHHHHHHHhhhCCCeEEEEe
Q 001920 913 PAEVTLLNIKCFDKKTGVQYKEGPKIEKYKEMLKRKAEDQGAEFISYD 960 (996)
Q Consensus 913 pA~ITL~n~~p~dk~t~~~i~d~~~~~k~~~~Lkk~te~~Ga~FvsYD 960 (996)
.++|-|....|+.......+.+...+++|.+.|++.+++.++.||++.
T Consensus 108 ~~~iil~t~~p~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~vD~~ 155 (188)
T cd01827 108 KPKIYICYPIPAYYGDGGFINDNIIKKEIQPMIDKIAKKLNLKLIDLH 155 (188)
T ss_pred CCeEEEEeCCcccccCCCccchHHHHHHHHHHHHHHHHHcCCcEEEcc
Confidence 344545444444332211122234457889999999999999999864
No 20
>PF01206 TusA: Sulfurtransferase TusA; InterPro: IPR001455 SirA functions as a response regulator as part of a two-component system, where BarA is the sensor kinase. This system increases the expression of virulence genes and decreases the expression of motility genes []. BarA phosphorylates SirA, thereby activating the protein. Phosphorylated SirA directly activates virulence expression by interacting with hilA and hilC promoters, while repressing the flagellar regulon indirectly by binding to the csrB promoter, which in turn affects flagellar gene expression. Orthologues of SirA from Salmonella spp. can be found throughout proteobacteria, such as GacA in Psuedomonas spp., VarA in Vibrio cholerae, ExpA in Erwinia carotovora, LetA in Legionella pneumophila, and UvrY in Escherichia coli []. A sensor kinase for SirA is present in each of these organisms as well; the sensor kinase is known as BarA in E. coli and Salmonella spp., but has different names in other genera. In different species, SirA/BarA orthologues are required for virulence gene expression, exoenzyme and antibiotic production, motility, and biofilm formation. The structure of SirA consists of an alpha/beta sandwich with a beta-alpha-beta-alpha-beta(2) fold, comprising a mixed four-stranded beta-sheet stacked against two alpha-helices, both of which are nearly parallel to the strands of the beta-sheet []. Several uncharacterised bacterial proteins (73 to 81 amino-acid residues in length) that contain a well-conserved region in their N-terminal region show structural similarity to the SirA protein, including the E. coli protein YedF (P0AA31 from SWISSPROT), and other members of the UPF0033 family.; GO: 0016783 sulfurtransferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 3LVJ_D 3LVK_B 1DCJ_A 3HZ7_A 1JDQ_A 1JE3_A 1PAV_A.
Probab=35.33 E-value=32 Score=30.06 Aligned_cols=31 Identities=23% Similarity=0.384 Sum_probs=26.5
Q ss_pred HHHHHHHHhhhCCCeEEEEeCCCcEEEEEEC
Q 001920 941 YKEMLKRKAEDQGAEFISYDPIKGEWKFSVN 971 (996)
Q Consensus 941 ~~~~Lkk~te~~Ga~FvsYD~~tGtW~F~V~ 971 (996)
..+.|++.++++|.++++...+.|.|++.|.
T Consensus 39 ~~~di~~~~~~~g~~~~~~~~~~~~~~i~I~ 69 (70)
T PF01206_consen 39 AVEDIPRWCEENGYEVVEVEEEGGEYRILIR 69 (70)
T ss_dssp HHHHHHHHHHHHTEEEEEEEESSSSEEEEEE
T ss_pred HHHHHHHHHHHCCCEEEEEEEeCCEEEEEEE
Confidence 4467788888899999999889999999884
No 21
>cd01832 SGNH_hydrolase_like_1 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxlic acid. Myxobacterial members of this subfamily have been reported to be involved in adventurous gliding motility.
Probab=35.21 E-value=34 Score=34.32 Aligned_cols=25 Identities=16% Similarity=0.329 Sum_probs=21.8
Q ss_pred chHHHHHHHHHHHhhhCCCeEEEEe
Q 001920 936 PKIEKYKEMLKRKAEDQGAEFISYD 960 (996)
Q Consensus 936 ~~~~k~~~~Lkk~te~~Ga~FvsYD 960 (996)
+++++|.+.||++|++.++.||++.
T Consensus 128 ~~~~~~n~~l~~~a~~~~v~~vd~~ 152 (185)
T cd01832 128 ARLAAYNAVIRAVAARYGAVHVDLW 152 (185)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEecc
Confidence 3578899999999999999999964
No 22
>cd01841 NnaC_like NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles two of the three components of typical Ser-His-Asp(Glu) triad from other serine hydrolases. E. coli NnaC appears to be involved in polysaccharide synthesis.
Probab=33.03 E-value=68 Score=31.94 Aligned_cols=26 Identities=23% Similarity=0.525 Sum_probs=22.9
Q ss_pred chHHHHHHHHHHHhhhCCCeEEEEeC
Q 001920 936 PKIEKYKEMLKRKAEDQGAEFISYDP 961 (996)
Q Consensus 936 ~~~~k~~~~Lkk~te~~Ga~FvsYD~ 961 (996)
+++++|.+.|++.|++.++.||+++.
T Consensus 113 ~~~~~~n~~l~~~a~~~~~~~id~~~ 138 (174)
T cd01841 113 TRIQRLNDAIKELAPELGVTFIDLND 138 (174)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEcHH
Confidence 56789999999999999999998754
No 23
>KOG3895 consensus Synaptic vesicle protein Synapsin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=32.92 E-value=9.5 Score=44.21 Aligned_cols=127 Identities=20% Similarity=0.173 Sum_probs=76.0
Q ss_pred ccCeEEeeeeeEEEEeCccccccCCCCCceEEEccceEEEccCCCCCCCC---CccCccceEEEEecceecCCCCCcccC
Q 001920 857 VKDFVVGRHGYGSIKFLGETDVRRLDLESLVQFNNREVIVYMDDSKKPPV---GQGLNKPAEVTLLNIKCFDKKTGVQYK 933 (996)
Q Consensus 857 V~nFtVGR~GyG~I~FlgpVDL~~lDLD~IV~f~~r~V~VYpdd~~KPpv---GeGLNkpA~ITL~n~~p~dk~t~~~i~ 933 (996)
|...--++.|.|+|+-+.--|+. ||+.+|.|.+-++++-|-.+.|=.+ =-|-|-+|-|.--=|.-|.-.+|.-..
T Consensus 243 VVkvghahsGmGKiKV~Nh~dfq--Di~svval~~Tyat~epFiDaKYDiriQKIG~nYKaymRtsIsgnWKtNtGSamL 320 (488)
T KOG3895|consen 243 VVKVGHAHSGMGKIKVENHEDFQ--DIASVVALTKTYATAEPFIDAKYDIRIQKIGHNYKAYMRTSISGNWKTNTGSAML 320 (488)
T ss_pred EEEecccccccceeeecchhhhH--hHHHHHHHHhhhhhccccccccceeehhhhhhhHHHHhhhhhccCcccCchHHHH
Confidence 33333357889999999888876 6778888888888776643333221 113344554443222222223443222
Q ss_pred CC-chHHHHHHHHHHHhhhCC-CeEEEEeC----CCcEEEEEECcccccCCCCCCCcc
Q 001920 934 EG-PKIEKYKEMLKRKAEDQG-AEFISYDP----IKGEWKFSVNHFSEYKLGDEDKQD 985 (996)
Q Consensus 934 d~-~~~~k~~~~Lkk~te~~G-a~FvsYD~----~tGtW~F~V~HFS~YGl~dddded 985 (996)
|. .-.+||+.+|+.++|.-| .+.+..|. +--.|+++|..-+.==+.|..|||
T Consensus 321 EQIamseRyklwvdtcse~fGgldICav~alhsKdGrd~i~eV~d~smpliGeh~eeD 378 (488)
T KOG3895|consen 321 EQIAMSERYKLWVDTCSEMFGGLDICAVKALHSKDGRDYIIEVMDSSMPLIGEHQEED 378 (488)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCcceEEeeeeecccchhheeeeccccccccccchhHH
Confidence 21 224799999999999755 45555554 344799999886665555555554
No 24
>PRK13278 purP 5-formaminoimidazole-4-carboxamide-1-(beta)-D-ribofuranosyl 5'-monophosphate synthetase; Provisional
Probab=29.96 E-value=1.3e+02 Score=35.31 Aligned_cols=39 Identities=21% Similarity=0.259 Sum_probs=24.9
Q ss_pred CCCceeccCHHHHHHhhhc--------CCCccccccCeEEeeeeeEEE
Q 001920 831 RSDYYTEPRIQELAAKERA--------EPGFCRRVKDFVVGRHGYGSI 870 (996)
Q Consensus 831 ~~gYyt~PSieeL~~ms~~--------e~g~L~~V~nFtVGR~GyG~I 870 (996)
..|+|+.=+.+||.+.-+. +...+ .|+.|.+|.+=+=.+
T Consensus 162 gkGv~i~~s~~El~~~~~~l~~~~~~~~~~~~-iIEEfI~G~e~sv~~ 208 (358)
T PRK13278 162 GRGYFIAKSPEEFKEKIDKLIERGLITEVEEA-IIQEYVVGVPYYFHY 208 (358)
T ss_pred CCCeEEeCCHHHHHHHHHHHHhccccCCCCeE-EEEecCCCcEEEEEE
Confidence 4688999999998754322 11223 688899997644443
No 25
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=29.88 E-value=92 Score=36.86 Aligned_cols=55 Identities=9% Similarity=0.002 Sum_probs=28.6
Q ss_pred CCCchHHHHHHHHHHHhhhCCCeEEEEeCCCcEEEEE--ECccc----ccCCCCCCCccchhhhhhhc
Q 001920 933 KEGPKIEKYKEMLKRKAEDQGAEFISYDPIKGEWKFS--VNHFS----EYKLGDEDKQDDQDDCAAAL 994 (996)
Q Consensus 933 ~d~~~~~k~~~~Lkk~te~~Ga~FvsYD~~tGtW~F~--V~HFS----~YGl~dddded~~~~~~~~~ 994 (996)
.|++.++..++.|++.|++-|. +.-+++.+ ++|=+ .|.+++-+++|+++.|..+|
T Consensus 424 ~~d~~~~~~~edl~~~f~~~G~-------v~~v~i~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~l 484 (509)
T TIGR01642 424 MDDEEYEEIYEDVKTEFSKYGP-------LINIVIPRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGM 484 (509)
T ss_pred cCcchHHHHHHHHHHHHHhcCC-------eeEEEeeccCcCCCcCCCcceEEEEECCHHHHHHHHHHc
Confidence 3444556666778887776552 11112111 12221 23456667777777776665
No 26
>cd03421 SirA_like_N SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=28.99 E-value=83 Score=27.39 Aligned_cols=30 Identities=33% Similarity=0.479 Sum_probs=23.3
Q ss_pred HHHHHHHHhhhCCCeEEEEeCCCcEEEEEEC
Q 001920 941 YKEMLKRKAEDQGAEFISYDPIKGEWKFSVN 971 (996)
Q Consensus 941 ~~~~Lkk~te~~Ga~FvsYD~~tGtW~F~V~ 971 (996)
.++.|.+.++++|.++ +...+.+.|+++|.
T Consensus 37 s~~~i~~~~~~~G~~~-~~~~~~~~~~i~I~ 66 (67)
T cd03421 37 AKENVSRFAESRGYEV-SVEEKGGEFEITIT 66 (67)
T ss_pred HHHHHHHHHHHcCCEE-EEEecCCEEEEEEE
Confidence 4467788888899999 56666679999874
No 27
>KOG1901 consensus Uncharacterized high-glucose-regulated protein [General function prediction only]
Probab=28.00 E-value=80 Score=38.41 Aligned_cols=91 Identities=21% Similarity=0.201 Sum_probs=55.3
Q ss_pred CccccccCeEEe--eeeeEEEEeCcccccc-CCCC---Cc-eEEEccceEEEccCCCCCCCCCccCccceEEEEecceec
Q 001920 852 GFCRRVKDFVVG--RHGYGSIKFLGETDVR-RLDL---ES-LVQFNNREVIVYMDDSKKPPVGQGLNKPAEVTLLNIKCF 924 (996)
Q Consensus 852 g~L~~V~nFtVG--R~GyG~I~FlgpVDL~-~lDL---D~-IV~f~~r~V~VYpdd~~KPpvGeGLNkpA~ITL~n~~p~ 924 (996)
+.|...=.|.|= .+-+|-++-.+|||+. .+++ |+ ...|..|+++|=+-- +. .=.-|.|+|-
T Consensus 343 ~~cPvfLfFSVNaSGqFCGvAEMvgPVdfn~~~~~WqQDKW~G~FpVKWhiVKDVP--Ns-------~lrHI~LeNN--- 410 (487)
T KOG1901|consen 343 GKCPVFLFFSVNASGQFCGVAEMVGPVDFNKDMEYWQQDKWSGSFPVKWHIVKDVP--NS-------QLRHIILENN--- 410 (487)
T ss_pred CCCCceEEEEEcCCccccceeeeccceecccccchhhhcccceecceeeEEEeeCC--cc-------ceeEEEeecC---
Confidence 458888889885 3357999999999985 3444 33 678888999885211 11 1134777752
Q ss_pred CCCCCcccCC-----CchHHHHHHHHHHHhhhCCCeEEEEeCCCcE
Q 001920 925 DKKTGVQYKE-----GPKIEKYKEMLKRKAEDQGAEFISYDPIKGE 965 (996)
Q Consensus 925 dk~t~~~i~d-----~~~~~k~~~~Lkk~te~~Ga~FvsYD~~tGt 965 (996)
..++|++ ...+++=+|+||- |.+|+..|-+
T Consensus 411 ---eNKPVTnSRDTQEV~leqGievlkI--------fk~y~~~TSi 445 (487)
T KOG1901|consen 411 ---ENKPVTNSRDTQEVPLEQGIEVLKI--------FKSYAAKTSI 445 (487)
T ss_pred ---CCCCcccccccceecHHHHHHHHHH--------HHhhcceeee
Confidence 2233432 2335666666665 5666665543
No 28
>cd01828 sialate_O-acetylesterase_like2 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=25.90 E-value=1.1e+02 Score=30.45 Aligned_cols=24 Identities=25% Similarity=0.509 Sum_probs=21.3
Q ss_pred chHHHHHHHHHHHhhhCCCeEEEE
Q 001920 936 PKIEKYKEMLKRKAEDQGAEFISY 959 (996)
Q Consensus 936 ~~~~k~~~~Lkk~te~~Ga~FvsY 959 (996)
+.+.+|.+.|++.|++.++.||+-
T Consensus 107 ~~~~~~n~~l~~~a~~~~~~~id~ 130 (169)
T cd01828 107 EQIEELNRQLAQLAQQEGVTFLDL 130 (169)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEec
Confidence 567899999999999999999974
No 29
>cd01825 SGNH_hydrolase_peri1 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=25.89 E-value=1.1e+02 Score=30.54 Aligned_cols=51 Identities=20% Similarity=0.255 Sum_probs=31.3
Q ss_pred ccceEEEEecceecCCCCC-cccCCCchHHHHHHHHHHHhhhCCCeEEEEeC
Q 001920 911 NKPAEVTLLNIKCFDKKTG-VQYKEGPKIEKYKEMLKRKAEDQGAEFISYDP 961 (996)
Q Consensus 911 NkpA~ITL~n~~p~dk~t~-~~i~d~~~~~k~~~~Lkk~te~~Ga~FvsYD~ 961 (996)
|..+.|-|..+.+...... ......+.++++.+.+++.|++.++.||+...
T Consensus 94 ~~~~~iv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~v~~vd~~~ 145 (189)
T cd01825 94 LPNASILLVGPPDSLQKTGAGRWRTPPGLDAVIAAQRRVAKEEGIAFWDLYA 145 (189)
T ss_pred CCCCeEEEEcCCchhccCCCCCcccCCcHHHHHHHHHHHHHHcCCeEEeHHH
Confidence 3455555555433322111 11112345788999999999999999998543
No 30
>COG4359 Uncharacterized conserved protein [Function unknown]
Probab=25.86 E-value=71 Score=34.66 Aligned_cols=71 Identities=24% Similarity=0.388 Sum_probs=46.2
Q ss_pred eEEEccceEEEccCCC----CCCCCCccCccceEEEEecceecCCCCCc-ccCCCchHHHHHHHHHHHhhhCCCeEEEEe
Q 001920 886 LVQFNNREVIVYMDDS----KKPPVGQGLNKPAEVTLLNIKCFDKKTGV-QYKEGPKIEKYKEMLKRKAEDQGAEFISYD 960 (996)
Q Consensus 886 IV~f~~r~V~VYpdd~----~KPpvGeGLNkpA~ITL~n~~p~dk~t~~-~i~d~~~~~k~~~~Lkk~te~~Ga~FvsYD 960 (996)
.|+++..+-++|+|++ .|+.|-..|-++-+--+ +|-|--+-. .-++ -.+---++.|-+.|++++.+|++|+
T Consensus 127 ~ih~dg~h~i~~~~ds~fG~dK~~vI~~l~e~~e~~f---y~GDsvsDlsaakl-sDllFAK~~L~nyc~eqn~~f~~fe 202 (220)
T COG4359 127 YIHIDGQHSIKYTDDSQFGHDKSSVIHELSEPNESIF---YCGDSVSDLSAAKL-SDLLFAKDDLLNYCREQNLNFLEFE 202 (220)
T ss_pred eEcCCCceeeecCCccccCCCcchhHHHhhcCCceEE---EecCCcccccHhhh-hhhHhhHHHHHHHHHHcCCCCcccc
Confidence 5677888889999885 68888877777666543 354432110 0010 0112234589999999999999996
No 31
>PRK13796 GTPase YqeH; Provisional
Probab=25.53 E-value=58 Score=37.74 Aligned_cols=45 Identities=20% Similarity=0.413 Sum_probs=21.6
Q ss_pred CCCCceeccCHHHHHHhhhcCCCccccccCeEEeeeeeEEEEeCccccccCCCCC
Q 001920 830 RRSDYYTEPRIQELAAKERAEPGFCRRVKDFVVGRHGYGSIKFLGETDVRRLDLE 884 (996)
Q Consensus 830 ~~~gYyt~PSieeL~~ms~~e~g~L~~V~nFtVGR~GyG~I~FlgpVDL~~lDLD 884 (996)
.+.|| .|. ++|.+....++-.|+|=.++ - .|++|. ++.+..-|+.
T Consensus 16 ~~~Gy--~p~-~~~~~~~~~~~~~C~RC~~l--~--hy~~~~---~~~~~~~~~~ 60 (365)
T PRK13796 16 NKPGY--APA-SALKKGLETEEVYCQRCFRL--K--HYNEIQ---DVSLTDDDFL 60 (365)
T ss_pred CCCCC--CCH-HHhhcccccCCeEchhhhhh--h--ccCccc---CCCCCHHHHH
Confidence 35788 675 55643222223456654433 2 366654 3444443443
No 32
>KOG3630 consensus Nuclear pore complex, Nup214/CAN component [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=25.25 E-value=2.8e+02 Score=37.31 Aligned_cols=13 Identities=23% Similarity=0.151 Sum_probs=8.5
Q ss_pred CCCCCCCcCCCCC
Q 001920 103 SSFGGSSIFGQKP 115 (996)
Q Consensus 103 ~~FGgss~fGq~~ 115 (996)
+-++.+..+++||
T Consensus 503 s~~~tp~~~~~kP 515 (1405)
T KOG3630|consen 503 SEQDTPDPASAKP 515 (1405)
T ss_pred ccCCCCCccccCC
Confidence 4466666777777
No 33
>cd01255 PH_TIAM TIAM Pleckstrin homology (PH) domain. TIAM Pleckstrin homology (PH) domain. TIAM (T-cell invasion and metastasis) is a guanine nucleotide exchange factor specific for RAC1. It consists of an N-terminal PH domain followed by Raf-like ras binding domain(RDB), a PDZ domain, a RhoGEF (DH) domain and a PH domain. PH domains share little sequence conservation, but all have a common fold, which is electrostatically polarized. PH domains also have diverse functions. They are often involved in targeting proteins to the plasma membrane, but few display strong specificity in lipid binding. Any specificity is usually determined by loop regions or insertions in the N-terminus of the domain, which are not conserved across all PH domains. This subfamily contains the alignment of the PH domain that follows the DH domain.
Probab=24.53 E-value=57 Score=33.87 Aligned_cols=58 Identities=22% Similarity=0.338 Sum_probs=43.7
Q ss_pred HHHHHhhhcCCCccccccCeEEe-eeeeEEEEeCccccccC---CCCCc-eEEEccceEEEccCCC
Q 001920 841 QELAAKERAEPGFCRRVKDFVVG-RHGYGSIKFLGETDVRR---LDLES-LVQFNNREVIVYMDDS 901 (996)
Q Consensus 841 eeL~~ms~~e~g~L~~V~nFtVG-R~GyG~I~FlgpVDL~~---lDLD~-IV~f~~r~V~VYpdd~ 901 (996)
|+|.+ ++.+.++.|.++..| ---|+.|.|+.|-|-.+ -+++- +-.|..-.|.||+|..
T Consensus 6 dqL~~---eq~~~~Kev~~lsmgdLL~h~~v~WLNp~~slgk~kKe~e~~~FVFK~AVVlv~ke~~ 68 (160)
T cd01255 6 DQLFR---EHQKSCKQPIDLSPGDLLYHGGVEWLNPSDSLGKIKKELELMCFVFKSAVVLVYKERL 68 (160)
T ss_pred HHHHH---hcccccccccccCHHHhhhhcceeeecCChhhccccCCceEEEEEecceEEEEEcCcc
Confidence 45554 566789999999999 33479999999988765 35553 4577888899999874
No 34
>PF04970 LRAT: Lecithin retinol acyltransferase; InterPro: IPR007053 This entry represents a conserved sequence region found in proteins from viruses, bacteria and eukaryotes. It contains a well-conserved NCEHF motif, though its function in these proteins is unknown.; PDB: 2KYT_A 4DOT_A 4FA0_A.
Probab=22.64 E-value=18 Score=35.18 Aligned_cols=32 Identities=25% Similarity=0.560 Sum_probs=17.3
Q ss_pred HHHHHHHHHhhhCCCeEEEEeCCCcEEEEEECccccc
Q 001920 940 KYKEMLKRKAEDQGAEFISYDPIKGEWKFSVNHFSEY 976 (996)
Q Consensus 940 k~~~~Lkk~te~~Ga~FvsYD~~tGtW~F~V~HFS~Y 976 (996)
.-.+.|+|..+++|-++ .||...=- -|||..|
T Consensus 87 ~~~~iv~rA~~~lg~~~-~Y~l~~nN----CEhFa~~ 118 (125)
T PF04970_consen 87 PPEEIVERAESRLGKEF-EYNLLFNN----CEHFATW 118 (125)
T ss_dssp -HHHHHHHHHHTTT-EE-SS---HHH----HHHHHHH
T ss_pred CHHHHHHHHHHHHcCCC-ccCCCcCC----HHHHHHH
Confidence 34566667666777677 88864332 5677655
No 35
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=22.59 E-value=96 Score=38.56 Aligned_cols=22 Identities=14% Similarity=0.291 Sum_probs=15.5
Q ss_pred ccccCCCCCCCccchhhhhhhc
Q 001920 973 FSEYKLGDEDKQDDQDDCAAAL 994 (996)
Q Consensus 973 FS~YGl~dddded~~~~~~~~~ 994 (996)
...|++++-++.||.+.|-++|
T Consensus 268 ~rgfAFVeF~s~e~A~kAi~~l 289 (578)
T TIGR01648 268 IRDYAFVHFEDREDAVKAMDEL 289 (578)
T ss_pred ecCeEEEEeCCHHHHHHHHHHh
Confidence 3458888888877777666554
No 36
>PRK14343 lipoate-protein ligase B; Provisional
Probab=22.53 E-value=2.5e+02 Score=31.28 Aligned_cols=30 Identities=3% Similarity=-0.020 Sum_probs=19.5
Q ss_pred HHHHHHHHHH----HhhhCCCeEEEEeCCCcEEE
Q 001920 938 IEKYKEMLKR----KAEDQGAEFISYDPIKGEWK 967 (996)
Q Consensus 938 ~~k~~~~Lkk----~te~~Ga~FvsYD~~tGtW~ 967 (996)
+.+|+++|++ ..++.|.+=..-+..+|+|+
T Consensus 108 v~~yv~~lE~~vI~~l~~~gi~~~~~~~~~GVwv 141 (235)
T PRK14343 108 VRELVTRIEQAVIDTLAAYNLASERKAGAPGIYV 141 (235)
T ss_pred HHHHHHHHHHHHHHHHHHcCCceeecCCCCeEEE
Confidence 4556665544 55566666455566799998
No 37
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=21.80 E-value=2.1e+02 Score=28.17 Aligned_cols=112 Identities=20% Similarity=0.076 Sum_probs=56.1
Q ss_pred ccCHHHHHHhhhcCCCccccccCeEEeeeeeEEEEeCccccccCCCCCceEEEccceEEEccCC-CCCCCCCccCccceE
Q 001920 837 EPRIQELAAKERAEPGFCRRVKDFVVGRHGYGSIKFLGETDVRRLDLESLVQFNNREVIVYMDD-SKKPPVGQGLNKPAE 915 (996)
Q Consensus 837 ~PSieeL~~ms~~e~g~L~~V~nFtVGR~GyG~I~FlgpVDL~~lDLD~IV~f~~r~V~VYpdd-~~KPpvGeGLNkpA~ 915 (996)
.++++.|...-...=+.-..|+=..++ +++--++|..+-|+..+--..=..|+...+.|..=+ ..+|..=.-...+.=
T Consensus 28 ~~~~~~l~~~l~~~W~~~~~~~i~~l~-~~~fl~~F~~~~d~~~vl~~~p~~~~~~~~~l~~W~~~~~~~~~~~~~~~vW 106 (153)
T PF14111_consen 28 PISLSALEQELAKIWKLKGGVKIRDLG-DNLFLFQFESEEDRQRVLKGGPWNFNGHFLILQRWSPDFNPSEVKFEHIPVW 106 (153)
T ss_pred CCCHHHHHHHHHHHhCCCCcEEEEEeC-CCeEEEEEEeccceeEEEecccccccccchhhhhhcccccccccceeccchh
Confidence 355666664322110001123333445 478889999998887653222233444444444321 122322222234444
Q ss_pred EEEecceecCCCCCcccCCCchHHHHHHHHHHHhhhCCCeEEEEeCCCc
Q 001920 916 VTLLNIKCFDKKTGVQYKEGPKIEKYKEMLKRKAEDQGAEFISYDPIKG 964 (996)
Q Consensus 916 ITL~n~~p~dk~t~~~i~d~~~~~k~~~~Lkk~te~~Ga~FvsYD~~tG 964 (996)
|.|+++ |..-..++.|++.....| +++++|.++-
T Consensus 107 Vri~gl--------------P~~~~~~~~~~~i~~~iG-~~i~vD~~t~ 140 (153)
T PF14111_consen 107 VRIYGL--------------PLHLWSEEILKAIGSKIG-EPIEVDENTL 140 (153)
T ss_pred hhhccC--------------CHHHhhhHHHHHHHHhcC-CeEEEEcCCC
Confidence 555554 223344466677666655 6899988753
No 38
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=21.30 E-value=2e+02 Score=25.13 Aligned_cols=50 Identities=24% Similarity=0.274 Sum_probs=30.7
Q ss_pred HHHHHHHHHHhhhCCCeEEEEeCCCcEEEEEECcccccCCCCCCCccchhhhhhhcCC
Q 001920 939 EKYKEMLKRKAEDQGAEFISYDPIKGEWKFSVNHFSEYKLGDEDKQDDQDDCAAALGC 996 (996)
Q Consensus 939 ~k~~~~Lkk~te~~Ga~FvsYD~~tGtW~F~V~HFS~YGl~dddded~~~~~~~~~~~ 996 (996)
++.++.|++ +|.++.. +.+.+.|.+.|. .|..+=..+.|-.+++|-..|+
T Consensus 22 ~ei~~~L~~----lg~~~~~-~~~~~~~~v~~P---~~R~Di~~~~DliEei~r~~Gy 71 (71)
T smart00874 22 EEIEEILKR----LGFEVEV-SGDDDTLEVTVP---SYRFDILIEADLIEEVARIYGY 71 (71)
T ss_pred HHHHHHHHH----CCCeEEe-cCCCCeEEEECC---CCccccCcccHHHHHHHHHhCC
Confidence 345556655 5777643 444678999999 3444333445667777777664
No 39
>COG5266 CbiK ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=21.25 E-value=6.5e+02 Score=28.70 Aligned_cols=28 Identities=32% Similarity=0.502 Sum_probs=16.9
Q ss_pred HHHHhhhCCCeEEEEeCCCcEEEEEECcc
Q 001920 945 LKRKAEDQGAEFISYDPIKGEWKFSVNHF 973 (996)
Q Consensus 945 Lkk~te~~Ga~FvsYD~~tGtW~F~V~HF 973 (996)
|++.+..+| +|-=.=...|.|.|+|.|=
T Consensus 214 ~~~~TD~kG-~~~fip~r~G~W~~~~~~~ 241 (264)
T COG5266 214 LVQFTDDKG-EVSFIPLRAGVWGFAVEHK 241 (264)
T ss_pred eEEEcCCCc-eEEEEEccCceEEEEeecc
Confidence 444554444 2322234689999999993
No 40
>PRK03298 hypothetical protein; Provisional
Probab=21.18 E-value=1.6e+02 Score=32.54 Aligned_cols=58 Identities=12% Similarity=0.104 Sum_probs=35.9
Q ss_pred CCceeccCHHHHHHhhhcCCCccccccCeEEeeeeeEEEEeCccccccCCCCC-ceEEEccce
Q 001920 832 SDYYTEPRIQELAAKERAEPGFCRRVKDFVVGRHGYGSIKFLGETDVRRLDLE-SLVQFNNRE 893 (996)
Q Consensus 832 ~gYyt~PSieeL~~ms~~e~g~L~~V~nFtVGR~GyG~I~FlgpVDL~~lDLD-~IV~f~~r~ 893 (996)
+++...=.-++|+.|-.+++.-+ =++|++-|+.| .+ =.|||||-..|=| .+|.+|-|.
T Consensus 97 ~~L~~~G~Ea~Lq~~lae~p~~i--~~G~~lv~rE~-~t-~~G~IDil~rD~~G~~V~vEvKR 155 (224)
T PRK03298 97 PGLVKDGVEAHLQELLAEHIETL--GEGYTLVRREY-PT-AIGPVDLLCRDADGGTVAVEIKR 155 (224)
T ss_pred CCcEEeeeHHHHHHHHHhCHHHh--cCCCEEEEEEe-cC-CCCceeEEEEcCCCCEEEEEEEe
Confidence 44444445677777655554333 47888887767 22 3468999888866 355555443
Done!