Query 035736
Match_columns 101
No_of_seqs 125 out of 788
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 05:55:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035736.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035736hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1724 SCF ubiquitin ligase, 100.0 7.7E-31 1.7E-35 178.1 9.9 100 1-101 2-105 (162)
2 smart00512 Skp1 Found in Skp1 100.0 2.3E-30 5E-35 164.4 9.8 92 5-101 2-97 (104)
3 PF03931 Skp1_POZ: Skp1 family 99.9 2.1E-25 4.4E-30 130.1 5.9 60 6-65 2-62 (62)
4 COG5201 SKP1 SCF ubiquitin lig 99.9 2.8E-23 6E-28 135.8 8.3 96 6-101 3-100 (158)
5 KOG3473 RNA polymerase II tran 99.7 2.1E-16 4.6E-21 98.8 6.0 65 4-68 16-85 (112)
6 PF00651 BTB: BTB/POZ domain; 97.4 0.0014 3E-08 40.5 7.3 59 5-63 11-74 (111)
7 smart00225 BTB Broad-Complex, 96.8 0.0028 6.1E-08 36.8 4.0 54 11-64 5-62 (90)
8 PHA02713 hypothetical protein; 94.7 0.083 1.8E-06 42.2 5.5 59 6-64 27-90 (557)
9 PHA03098 kelch-like protein; P 93.0 0.39 8.5E-06 37.6 6.4 57 7-64 12-70 (534)
10 PHA02790 Kelch-like protein; P 83.5 1.8 4E-05 33.8 4.0 56 8-63 24-84 (480)
11 KOG4441 Proteins containing BT 81.3 3.5 7.6E-05 33.3 4.9 59 7-66 39-101 (571)
12 cd00068 GGL G protein gamma su 63.3 9 0.0002 21.4 2.4 24 41-68 18-41 (57)
13 PF11543 UN_NPL4: Nuclear pore 63.0 5.3 0.00012 23.9 1.5 34 1-35 1-35 (80)
14 smart00224 GGL G protein gamma 52.4 16 0.00035 20.8 2.3 24 41-68 18-41 (63)
15 PF07928 Vps54: Vps54-like pro 51.4 5 0.00011 26.5 0.0 47 13-64 1-47 (135)
16 COG4565 CitB Response regulato 51.2 20 0.00043 25.8 3.0 27 40-67 146-173 (224)
17 PF10584 Proteasome_A_N: Prote 51.2 3.5 7.5E-05 19.2 -0.5 17 7-23 5-21 (23)
18 KOG4350 Uncharacterized conser 45.5 61 0.0013 26.0 5.1 61 6-67 46-110 (620)
19 PF05871 ESCRT-II: ESCRT-II co 45.4 15 0.00032 24.4 1.6 15 54-68 27-41 (139)
20 COG0499 SAM1 S-adenosylhomocys 43.7 37 0.0008 26.6 3.6 61 3-63 337-401 (420)
21 PF11338 DUF3140: Protein of u 41.6 27 0.00058 21.7 2.2 22 45-66 54-75 (92)
22 KOG0183 20S proteasome, regula 40.0 32 0.00069 24.9 2.6 19 4-22 5-23 (249)
23 PF13711 DUF4160: Domain of un 37.5 39 0.00085 19.1 2.4 19 47-65 41-59 (66)
24 PF11795 DUF3322: Uncharacteri 37.5 31 0.00067 23.8 2.3 47 47-99 141-187 (190)
25 COG4049 Uncharacterized protei 35.9 30 0.00065 19.7 1.6 18 5-22 5-22 (65)
26 COG5478 Predicted small integr 35.8 1.2E+02 0.0027 20.3 4.8 29 40-68 92-120 (141)
27 PF14716 HHH_8: Helix-hairpin- 34.3 55 0.0012 18.5 2.7 20 42-61 49-68 (68)
28 PF08727 P3A: Poliovirus 3A pr 32.1 36 0.00077 19.3 1.5 12 54-65 30-41 (57)
29 PRK12271 rps10p 30S ribosomal 31.3 1.1E+02 0.0025 19.1 3.9 35 6-46 5-41 (102)
30 PF01498 HTH_Tnp_Tc3_2: Transp 31.3 58 0.0013 18.3 2.4 38 28-65 33-72 (72)
31 PRK11566 hdeB acid-resistance 30.9 22 0.00048 22.5 0.6 25 41-65 62-86 (102)
32 PF02519 Auxin_inducible: Auxi 30.1 1.4E+02 0.0031 18.5 4.8 51 8-60 43-99 (100)
33 PF11165 DUF2949: Protein of u 29.3 53 0.0011 18.6 1.9 15 48-62 44-58 (58)
34 PF02214 BTB_2: BTB/POZ domain 28.4 44 0.00096 19.8 1.6 50 13-63 6-63 (94)
35 PF11197 DUF2835: Protein of u 27.9 69 0.0015 18.7 2.3 21 5-25 21-41 (68)
36 PF03474 DMA: DMRTA motif; In 27.9 61 0.0013 16.9 1.9 17 45-61 12-28 (39)
37 PF08661 Rep_fac-A_3: Replicat 26.4 87 0.0019 19.4 2.8 61 4-65 34-107 (109)
38 COG4849 Predicted nucleotidylt 26.2 64 0.0014 23.5 2.3 27 41-67 136-162 (269)
39 PRK13602 putative ribosomal pr 25.4 84 0.0018 18.7 2.5 20 45-64 34-53 (82)
40 KOG4068 Uncharacterized conser 25.3 47 0.001 22.9 1.4 16 53-68 31-46 (174)
41 TIGR01046 S10_Arc_S20_Euk ribo 25.0 1.8E+02 0.0038 18.1 3.9 35 6-46 4-40 (99)
42 PF02736 Myosin_N: Myosin N-te 24.5 67 0.0015 16.5 1.7 18 4-21 23-40 (42)
43 PF08154 NLE: NLE (NUC135) dom 24.3 1.4E+02 0.0031 16.7 3.5 29 6-34 3-39 (65)
44 TIGR01689 EcbF-BcbF capsule bi 24.2 62 0.0013 21.0 1.8 18 48-65 61-78 (126)
45 PF06540 GMAP: Galanin message 24.2 79 0.0017 18.2 2.0 18 48-65 21-38 (62)
46 cd01803 Ubiquitin Ubiquitin. U 24.2 66 0.0014 17.9 1.8 31 6-36 2-32 (76)
47 PRK13601 putative L7Ae-like ri 23.9 92 0.002 18.7 2.4 23 43-65 29-51 (82)
48 PRK15032 trimethylamine N-oxid 23.7 1.3E+02 0.0028 23.5 3.8 26 43-68 354-379 (390)
49 PF10036 RLL: Putative carniti 23.2 1.3E+02 0.0028 21.8 3.5 57 32-90 4-62 (249)
50 PF08225 Antimicrobial19: Pseu 22.9 67 0.0014 14.5 1.2 11 51-61 3-13 (23)
51 PF04700 Baculo_gp41: Structur 22.7 1.5E+02 0.0033 20.8 3.6 47 20-67 56-103 (186)
52 cd04436 DEP_fRgd2 DEP (Disheve 22.0 1.2E+02 0.0027 18.4 2.7 40 27-66 3-45 (84)
53 KOG1784 Small Nuclear ribonucl 21.3 99 0.0022 19.3 2.2 17 5-21 11-27 (96)
54 PRK11675 LexA regulated protei 20.9 98 0.0021 19.1 2.1 19 47-65 56-74 (90)
55 cd01806 Nedd8 Nebb8-like ubiq 20.7 60 0.0013 18.1 1.1 30 6-35 2-31 (76)
56 PF02084 Bindin: Bindin; Inte 20.4 2.1E+02 0.0046 20.8 4.0 49 11-66 93-143 (238)
57 PF06411 HdeA: HdeA/HdeB famil 20.4 59 0.0013 19.7 1.1 24 41-65 65-88 (94)
58 PF06613 KorB_C: KorB C-termin 20.4 1.4E+02 0.0029 17.1 2.5 20 4-23 31-51 (60)
No 1
>KOG1724 consensus SCF ubiquitin ligase, Skp1 component [Posttranslational modification, protein turnover, chaperones]
Probab=99.97 E-value=7.7e-31 Score=178.07 Aligned_cols=100 Identities=57% Similarity=0.865 Sum_probs=83.4
Q ss_pred CCCCceEEEEcCCCCeEEecHHHHHHhHHHHHHHhhCCC-CC--CcccCCCCHHHHHHHHHHHHhhcccCCCc-cccCCC
Q 035736 1 MSTSKKITLKSSDGEAFEVDEAVALESQTIKHMIEDDCA-DN--GIPLPNVTSKILSKVIEYCKKHVEASKSD-DRATSG 76 (101)
Q Consensus 1 m~~~~~v~L~S~DG~~f~v~~~~a~~S~~i~~~l~~~~~-~~--~Ipl~~v~~~~L~kIiewc~~h~~~~~~~-~~~~~~ 76 (101)
|+ ..+|+|+|+||++|+|+.++|++|.+|++++.+.+. .+ +||||+|+|.+|++||+||+||+++++.. +.....
T Consensus 2 ~~-~~~ikL~SsDG~~f~ve~~~a~~s~~i~~~~~~~~~~~~~~~IPl~nV~~~iL~kVIewC~~Hk~d~~~~~~~~~~~ 80 (162)
T KOG1724|consen 2 MS-KKKIKLESSDGEIFEVEEEVARQSQTISAHMIEDGCADENDPIPLPNVTSKILKKVIEWCKKHKDDDPANPEDKELP 80 (162)
T ss_pred CC-CCeEEEEccCCceeehhHHHHHHhHHHHHHHHHcCCCccCCccccCccCHHHHHHHHHHHHHccccccccccccccc
Confidence 44 579999999999999999999999999998877653 34 89999999999999999999999986522 110012
Q ss_pred CCCCcChhhhhhhccChhhhhhhhC
Q 035736 77 VDDDLKAWDTDFVKVDQATLFDLIL 101 (101)
Q Consensus 77 ~~~~~~~WD~~Fl~~~~~~Lf~li~ 101 (101)
....+++||++||++|++.||+||+
T Consensus 81 ~~~~i~~WD~~Flk~d~~tLfdli~ 105 (162)
T KOG1724|consen 81 EETDIPEWDAEFLKVDQGTLFDLIL 105 (162)
T ss_pred ccCCccHHHHHHHhcCHHHHHHHHH
Confidence 3455999999999999999999984
No 2
>smart00512 Skp1 Found in Skp1 protein family. Family of Skp1 (kinetochore protein required for cell cycle progression) and elongin C (subunit of RNA polymerase II transcription factor SIII) homologues.
Probab=99.97 E-value=2.3e-30 Score=164.35 Aligned_cols=92 Identities=63% Similarity=0.937 Sum_probs=81.2
Q ss_pred ceEEEEcCCCCeEEecHHHHHHhHHHHHHHhhCCCC----CCcccCCCCHHHHHHHHHHHHhhcccCCCccccCCCCCCC
Q 035736 5 KKITLKSSDGEAFEVDEAVALESQTIKHMIEDDCAD----NGIPLPNVTSKILSKVIEYCKKHVEASKSDDRATSGVDDD 80 (101)
Q Consensus 5 ~~v~L~S~DG~~f~v~~~~a~~S~~i~~~l~~~~~~----~~Ipl~~v~~~~L~kIiewc~~h~~~~~~~~~~~~~~~~~ 80 (101)
.+|+|+|+||++|.|++++|++|++|++|+++.+.. .+||||+|+|.+|++|++||+||+.++.+... ...
T Consensus 2 ~~v~L~S~Dg~~f~v~~~~a~~S~~i~~~l~~~~~~~~~~~~Ipl~~v~~~~L~~Vi~yc~~h~~~~~~~~~-----~~~ 76 (104)
T smart00512 2 KYIKLISSDGEVFEVEREVARQSKTIKAMIEDLGVDDENNNPIPLPNVTSKILSKVIEYCEHHVDDPPSVAD-----KDD 76 (104)
T ss_pred CeEEEEeCCCCEEEecHHHHHHHHHHHHHHHccCcccCCCCCccCCCcCHHHHHHHHHHHHHcccCCCCccc-----ccc
Confidence 589999999999999999999999999999987642 48999999999999999999999988653221 146
Q ss_pred cChhhhhhhccChhhhhhhhC
Q 035736 81 LKAWDTDFVKVDQATLFDLIL 101 (101)
Q Consensus 81 ~~~WD~~Fl~~~~~~Lf~li~ 101 (101)
+++||++|++++++.||+||+
T Consensus 77 ~~~wD~~F~~~d~~~l~dLl~ 97 (104)
T smart00512 77 IPTWDAEFLKIDQETLFELIL 97 (104)
T ss_pred ccHHHHHHHcCCHHHHHHHHH
Confidence 899999999999999999984
No 3
>PF03931 Skp1_POZ: Skp1 family, tetramerisation domain; InterPro: IPR016073 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a POZ domain with a core structure consisting of beta(2)/alpha(2)/beta(2)/alpha(2) in two layers, alpha/beta. This domain is found at the N-terminal of SKP1 proteins [] as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1LM8_C 2XAI_E 1VCB_E 3ZRC_K 3ZRF_E 3DCG_B 2C9W_C 1LQB_B 2IZV_C 1HV2_A ....
Probab=99.92 E-value=2.1e-25 Score=130.08 Aligned_cols=60 Identities=52% Similarity=0.814 Sum_probs=55.2
Q ss_pred eEEEEcCCCCeEEecHHHHHHhHHHHHHHhhCCCCC-CcccCCCCHHHHHHHHHHHHhhcc
Q 035736 6 KITLKSSDGEAFEVDEAVALESQTIKHMIEDDCADN-GIPLPNVTSKILSKVIEYCKKHVE 65 (101)
Q Consensus 6 ~v~L~S~DG~~f~v~~~~a~~S~~i~~~l~~~~~~~-~Ipl~~v~~~~L~kIiewc~~h~~ 65 (101)
+|+|+|+||++|.|++++|++|++|++|+++.+..+ +||||+|+|++|+||++||+||++
T Consensus 2 ~v~L~SsDg~~f~V~~~~a~~S~~i~~ml~~~~~~~~~Ipl~~v~~~~L~kViewc~~H~~ 62 (62)
T PF03931_consen 2 YVKLVSSDGQEFEVSREAAKQSKTIKNMLEDLGDEDEPIPLPNVSSRILKKVIEWCEHHKN 62 (62)
T ss_dssp EEEEEETTSEEEEEEHHHHTTSHHHHHHHHCTCCCGTEEEETTS-HHHHHHHHHHHHHHHH
T ss_pred EEEEEcCCCCEEEeeHHHHHHhHHHHHHHhhhcccccccccCccCHHHHHHHHHHHHhcCC
Confidence 699999999999999999999999999999887654 599999999999999999999974
No 4
>COG5201 SKP1 SCF ubiquitin ligase, SKP1 component [Posttranslational modification, protein turnover, chaperones]
Probab=99.89 E-value=2.8e-23 Score=135.80 Aligned_cols=96 Identities=39% Similarity=0.561 Sum_probs=83.3
Q ss_pred eEEEEcCCCCeEEecHHHHHHhHHHHHHHhhCCC-CCCcccCCCCHHHHHHHHHHHHhhcccCCCcccc-CCCCCCCcCh
Q 035736 6 KITLKSSDGEAFEVDEAVALESQTIKHMIEDDCA-DNGIPLPNVTSKILSKVIEYCKKHVEASKSDDRA-TSGVDDDLKA 83 (101)
Q Consensus 6 ~v~L~S~DG~~f~v~~~~a~~S~~i~~~l~~~~~-~~~Ipl~~v~~~~L~kIiewc~~h~~~~~~~~~~-~~~~~~~~~~ 83 (101)
++.|.|.||++|.|+..+|..|-+|++|+.+.+. .-+||+|||.|.+|.+|++||+||++...+.+.+ ..++......
T Consensus 3 ~i~l~s~dge~F~vd~~iAerSiLikN~l~d~~~~n~p~p~pnVrSsvl~kv~ew~ehh~~s~sede~d~~~rks~p~D~ 82 (158)
T COG5201 3 MIELESIDGEIFRVDENIAERSILIKNMLCDSTACNYPIPAPNVRSSVLMKVQEWMEHHTSSLSEDENDLEIRKSKPSDF 82 (158)
T ss_pred ceEEEecCCcEEEehHHHHHHHHHHHHHhccccccCCCCcccchhHHHHHHHHHHHHhccccCCCccChHhhhccCCccH
Confidence 6999999999999999999999999999988765 3478999999999999999999999865544443 2334677889
Q ss_pred hhhhhhccChhhhhhhhC
Q 035736 84 WDTDFVKVDQATLFDLIL 101 (101)
Q Consensus 84 WD~~Fl~~~~~~Lf~li~ 101 (101)
||+.|+.+|+++||++++
T Consensus 83 wdr~Fm~vDqemL~eI~l 100 (158)
T COG5201 83 WDRFFMEVDQEMLLEICL 100 (158)
T ss_pred HHHHHHHhhHHHHHHHHH
Confidence 999999999999999864
No 5
>KOG3473 consensus RNA polymerase II transcription elongation factor Elongin/SIII, subunit elongin C [Transcription]
Probab=99.66 E-value=2.1e-16 Score=98.80 Aligned_cols=65 Identities=31% Similarity=0.401 Sum_probs=59.2
Q ss_pred CceEEEEcCCCCeEEecHHHHHHhHHHHHHHhhCCC-----CCCcccCCCCHHHHHHHHHHHHhhcccCC
Q 035736 4 SKKITLKSSDGEAFEVDEAVALESQTIKHMIEDDCA-----DNGIPLPNVTSKILSKVIEYCKKHVEASK 68 (101)
Q Consensus 4 ~~~v~L~S~DG~~f~v~~~~a~~S~~i~~~l~~~~~-----~~~Ipl~~v~~~~L~kIiewc~~h~~~~~ 68 (101)
+.+|+|+|+||++|.+.+++|..|+|||.||.+.+. .+.+.++++.+.+|+||++|+.|...+..
T Consensus 16 ~~yVkLvS~Ddhefiikre~AmtSgTiraml~gpg~~se~~~n~v~f~di~shiLeKvc~Yl~Yk~rY~~ 85 (112)
T KOG3473|consen 16 SMYVKLVSSDDHEFIIKREHAMTSGTIRAMLSGPGVFSEAEKNEVYFRDIPSHILEKVCEYLAYKVRYTN 85 (112)
T ss_pred hhheEeecCCCcEEEEeehhhhhhhHHHHHHcCCccccccccceEEeccchHHHHHHHHHHhhheeeecc
Confidence 579999999999999999999999999999997653 46899999999999999999999987753
No 6
>PF00651 BTB: BTB/POZ domain; InterPro: IPR013069 The BTB (for BR-C, ttk and bab) [] or POZ (for Pox virus and Zinc finger) [] domain is present near the N terminus of a fraction of zinc finger (IPR007087 from INTERPRO) proteins and in proteins that contain the IPR006652 from INTERPRO motif such as Kelch and a family of pox virus proteins. The BTB/POZ domain mediates homomeric dimerisation and in some instances heteromeric dimerisation []. The structure of the dimerised PLZF BTB/POZ domain has been solved and consists of a tightly intertwined homodimer. The central scaffolding of the protein is made up of a cluster of alpha-helices flanked by short beta-sheets at both the top and bottom of the molecule []. POZ domains from several zinc finger proteins have been shown to mediate transcriptional repression and to interact with components of histone deacetylase co-repressor complexes including N-CoR and SMRT [, , ]. The POZ or BTB domain is also known as BR-C/Ttk or ZiN.; GO: 0005515 protein binding; PDB: 3M5B_A 1R28_B 3LBZ_A 3E4U_F 3BIM_B 1R2B_A 1R29_A 2VPK_A 2YY9_B 3GA1_A ....
Probab=97.41 E-value=0.0014 Score=40.50 Aligned_cols=59 Identities=22% Similarity=0.457 Sum_probs=47.6
Q ss_pred ceEEEEcCCCCeEEecHHHH-HHhHHHHHHHhhCC-CC---CCcccCCCCHHHHHHHHHHHHhh
Q 035736 5 KKITLKSSDGEAFEVDEAVA-LESQTIKHMIEDDC-AD---NGIPLPNVTSKILSKVIEYCKKH 63 (101)
Q Consensus 5 ~~v~L~S~DG~~f~v~~~~a-~~S~~i~~~l~~~~-~~---~~Ipl~~v~~~~L~kIiewc~~h 63 (101)
..++++..||..|.+.+.+. .+|..+++++...+ .+ ..|++++++...++.+++||+..
T Consensus 11 ~D~~i~v~d~~~~~vhk~iL~~~S~~F~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~l~~~Y~~ 74 (111)
T PF00651_consen 11 SDVTIRVGDGKTFYVHKNILAARSPYFRNLFEGSKFKESTVPEISLPDVSPEAFEAFLEYMYTG 74 (111)
T ss_dssp --EEEEETTTEEEEE-HHHHHHHBHHHHHHHTTTTSTTSSEEEEEETTSCHHHHHHHHHHHHHS
T ss_pred CCEEEEECCCEEEeechhhhhccchhhhhcccccccccccccccccccccccccccccccccCC
Confidence 45888899999999999995 57999999999873 22 25888999999999999999543
No 7
>smart00225 BTB Broad-Complex, Tramtrack and Bric a brac. Domain in Broad-Complex, Tramtrack and Bric a brac. Also known as POZ (poxvirus and zinc finger) domain. Known to be a protein-protein interaction motif found at the N-termini of several C2H2-type transcription factors as well as Shaw-type potassium channels. Known structure reveals a tightly intertwined dimer formed via interactions between N-terminal strand and helix structures. However in a subset of BTB/POZ domains, these two secondary structures appear to be missing. Be aware SMART predicts BTB/POZ domains without the beta1- and alpha1-secondary structures.
Probab=96.77 E-value=0.0028 Score=36.76 Aligned_cols=54 Identities=20% Similarity=0.296 Sum_probs=44.9
Q ss_pred cCCCCeEEecHHHHHH-hHHHHHHHhhCC---CCCCcccCCCCHHHHHHHHHHHHhhc
Q 035736 11 SSDGEAFEVDEAVALE-SQTIKHMIEDDC---ADNGIPLPNVTSKILSKVIEYCKKHV 64 (101)
Q Consensus 11 S~DG~~f~v~~~~a~~-S~~i~~~l~~~~---~~~~Ipl~~v~~~~L~kIiewc~~h~ 64 (101)
..+|+.|.+.+.++.. |..+++|+.... ....+++++++...++.+++|+..-.
T Consensus 5 ~v~~~~~~~h~~iL~~~s~~f~~~~~~~~~~~~~~~i~l~~~~~~~f~~~l~~ly~~~ 62 (90)
T smart00225 5 VVGGKKFKAHKAVLAACSPYFKALFSGDFKESKKSEIYLDDVSPEDFRALLEFLYTGK 62 (90)
T ss_pred EECCEEEehHHHHHhhcCHHHHHHHcCCCccCCCCEEEecCCCHHHHHHHHHeecCce
Confidence 4577999999998764 799999998654 24678899999999999999998653
No 8
>PHA02713 hypothetical protein; Provisional
Probab=94.68 E-value=0.083 Score=42.16 Aligned_cols=59 Identities=10% Similarity=0.253 Sum_probs=49.0
Q ss_pred eEEEEcCCCCeEEecHHHHH-HhHHHHHHHhhCC----CCCCcccCCCCHHHHHHHHHHHHhhc
Q 035736 6 KITLKSSDGEAFEVDEAVAL-ESQTIKHMIEDDC----ADNGIPLPNVTSKILSKVIEYCKKHV 64 (101)
Q Consensus 6 ~v~L~S~DG~~f~v~~~~a~-~S~~i~~~l~~~~----~~~~Ipl~~v~~~~L~kIiewc~~h~ 64 (101)
-|+|...+|+.|.+.+.+.. .|..++.|+...- ....|.|.++++.+|+.|++|++...
T Consensus 27 DV~L~v~~~~~f~~Hr~vLaa~S~YF~amF~~~~~e~~~~~~v~l~~v~~~~~~~ll~y~Yt~~ 90 (557)
T PHA02713 27 DVIITIGDGEEIKAHKTILAAGSKYFRTLFTTPMIIRDLVTRVNLQMFDKDAVKNIVQYLYNRH 90 (557)
T ss_pred CEEEEeCCCCEEeehHHHHhhcCHHHHHHhcCCchhhccCceEEeccCCHHHHHHHHHHhcCCC
Confidence 47888777999999999955 7999999997532 13568999999999999999998863
No 9
>PHA03098 kelch-like protein; Provisional
Probab=93.04 E-value=0.39 Score=37.61 Aligned_cols=57 Identities=19% Similarity=0.280 Sum_probs=46.5
Q ss_pred EEEE-cCCCCeEEecHHHHH-HhHHHHHHHhhCCCCCCcccCCCCHHHHHHHHHHHHhhc
Q 035736 7 ITLK-SSDGEAFEVDEAVAL-ESQTIKHMIEDDCADNGIPLPNVTSKILSKVIEYCKKHV 64 (101)
Q Consensus 7 v~L~-S~DG~~f~v~~~~a~-~S~~i~~~l~~~~~~~~Ipl~~v~~~~L~kIiewc~~h~ 64 (101)
++|. +.+|++|.+.+.++. .|..++.|+...-....|.|+. +..+++.|++|++.-+
T Consensus 12 v~l~~~~~~~~~~~Hk~vLaa~S~yF~~mf~~~~~~~~i~l~~-~~~~~~~~l~y~Ytg~ 70 (534)
T PHA03098 12 ESIIIVNGGGIIKVHKIILSSSSEYFKKMFKNNFKENEINLNI-DYDSFNEVIKYIYTGK 70 (534)
T ss_pred EEEEEEcCCEEEEeHHHHHHhhhHHHHHHHhCCCCCceEEecC-CHHHHHHHHHHhcCCc
Confidence 4444 478999999999955 6999999998654356789988 9999999999987764
No 10
>PHA02790 Kelch-like protein; Provisional
Probab=83.49 E-value=1.8 Score=33.83 Aligned_cols=56 Identities=11% Similarity=0.180 Sum_probs=41.2
Q ss_pred EEEcCCCCeEEecHHH-HHHhHHHHHHHhhCCC--CCCccc--CCCCHHHHHHHHHHHHhh
Q 035736 8 TLKSSDGEAFEVDEAV-ALESQTIKHMIEDDCA--DNGIPL--PNVTSKILSKVIEYCKKH 63 (101)
Q Consensus 8 ~L~S~DG~~f~v~~~~-a~~S~~i~~~l~~~~~--~~~Ipl--~~v~~~~L~kIiewc~~h 63 (101)
.+.-.-|.+|.+.+.+ |..|.-+|.|+...-. ...|.+ .+|+..+|+.||+|++--
T Consensus 24 ~~~~~~~~~~~~HR~VLAa~S~YFraMF~~~~~Es~~~v~~~~~~v~~~~l~~lldy~YTg 84 (480)
T PHA02790 24 TIIEAIGGNIIVNSTILKKLSPYFRTHLRQKYTKNKDPVTRVCLDLDIHSLTSIVIYSYTG 84 (480)
T ss_pred eEEEEcCcEEeeehhhhhhcCHHHHHHhcCCccccccceEEEecCcCHHHHHHHHHhheee
Confidence 3444568899999999 6679999999965321 223443 389999999999997443
No 11
>KOG4441 consensus Proteins containing BTB/POZ and Kelch domains, involved in regulatory/signal transduction processes [Signal transduction mechanisms; General function prediction only]
Probab=81.34 E-value=3.5 Score=33.26 Aligned_cols=59 Identities=20% Similarity=0.257 Sum_probs=46.3
Q ss_pred EEEEcCCCCeEEecHHH-HHHhHHHHHHHhhCC---CCCCcccCCCCHHHHHHHHHHHHhhccc
Q 035736 7 ITLKSSDGEAFEVDEAV-ALESQTIKHMIEDDC---ADNGIPLPNVTSKILSKVIEYCKKHVEA 66 (101)
Q Consensus 7 v~L~S~DG~~f~v~~~~-a~~S~~i~~~l~~~~---~~~~Ipl~~v~~~~L~kIiewc~~h~~~ 66 (101)
|.|.- +|+.|...+.+ |..|..++.|+...- ....|.|..|++.+|+.+++|+...+-.
T Consensus 39 v~L~v-~~~~~~aHR~VLAa~S~YFraMFt~~l~e~~~~~i~l~~v~~~~l~~ll~y~Yt~~i~ 101 (571)
T KOG4441|consen 39 VTLLV-GDREFPAHRVVLAACSPYFRAMFTSGLKESKQKEINLEGVDPETLELLLDYAYTGKLE 101 (571)
T ss_pred EEEEE-CCeeechHHHHHHhccHHHHHHhcCCcccccceEEEEecCCHHHHHHHHHHhhcceEE
Confidence 44444 44999999998 557999999997532 2468999999999999999998877653
No 12
>cd00068 GGL G protein gamma subunit-like motifs, the alpha-helical G-gamma chain dimerizes with the G-beta propeller subunit as part of the heterotrimeric G-protein complex; involved in signal transduction via G-protein-coupled receptors
Probab=63.31 E-value=9 Score=21.43 Aligned_cols=24 Identities=21% Similarity=0.582 Sum_probs=18.4
Q ss_pred CCcccCCCCHHHHHHHHHHHHhhcccCC
Q 035736 41 NGIPLPNVTSKILSKVIEYCKKHVEASK 68 (101)
Q Consensus 41 ~~Ipl~~v~~~~L~kIiewc~~h~~~~~ 68 (101)
+.|++ |.+..-+++||+.|..+.+
T Consensus 18 ~Rikv----S~a~~~l~~y~e~~~~~Dp 41 (57)
T cd00068 18 ERLKV----SKAAAELLKYCEQNAENDP 41 (57)
T ss_pred chhhH----HHHHHHHHHHHHhcCCCCC
Confidence 34555 7888999999999976544
No 13
>PF11543 UN_NPL4: Nuclear pore localisation protein NPL4; InterPro: IPR024682 Npl4, along with Ufd1, forms the heterodimer adaptor complex UN, which is involved in the recruitment of p97, an AAA ATPase, for tasks involving the ubiquitin pathway. Npl4 has a N-terminal ubiquitin-like domain which has within its structure a beta-grasp fold with a helical insert []. This entry represents the ubiquitin-like domain.; PDB: 2PJH_A 1WF9_A.
Probab=62.98 E-value=5.3 Score=23.93 Aligned_cols=34 Identities=26% Similarity=0.361 Sum_probs=16.6
Q ss_pred CCCCceEEEEcCCC-CeEEecHHHHHHhHHHHHHHh
Q 035736 1 MSTSKKITLKSSDG-EAFEVDEAVALESQTIKHMIE 35 (101)
Q Consensus 1 m~~~~~v~L~S~DG-~~f~v~~~~a~~S~~i~~~l~ 35 (101)
|+++-.++++|.|| ..++++... ..+.+...+.+
T Consensus 1 ~~~~milRvrS~dG~~Rie~~~~~-t~~~L~~kI~~ 35 (80)
T PF11543_consen 1 MASSMILRVRSKDGMKRIEVSPSS-TLSDLKEKISE 35 (80)
T ss_dssp -----EEEEE-SSEEEEEEE-TTS-BHHHHHHHHHH
T ss_pred CCccEEEEEECCCCCEEEEcCCcc-cHHHHHHHHHH
Confidence 67677899999999 667777532 23333344333
No 14
>smart00224 GGL G protein gamma subunit-like motifs.
Probab=52.41 E-value=16 Score=20.81 Aligned_cols=24 Identities=29% Similarity=0.641 Sum_probs=18.7
Q ss_pred CCcccCCCCHHHHHHHHHHHHhhcccCC
Q 035736 41 NGIPLPNVTSKILSKVIEYCKKHVEASK 68 (101)
Q Consensus 41 ~~Ipl~~v~~~~L~kIiewc~~h~~~~~ 68 (101)
+.|++ |....-+++||+.|..+.|
T Consensus 18 ~Rikv----S~a~~~li~y~e~~~~~DP 41 (63)
T smart00224 18 ERIKV----SKAAEELLAYCEQHAEEDP 41 (63)
T ss_pred ceehH----HHHHHHHHHHHHcCCCCCC
Confidence 35555 7888999999999877655
No 15
>PF07928 Vps54: Vps54-like protein; InterPro: IPR012501 This family contains various proteins that are homologues of the yeast Vps54 protein, such as the rat homologue (Q9JMK8 from SWISSPROT), the human homologue (Q86YF7 from SWISSPROT), and the mouse homologue (Q8R3X1 from SWISSPROT). In yeast, Vps54 associates with Vps52 and Vps53 proteins to form a trimolecular complex that is involved in protein transport between Golgi, endosomal, and vacuolar compartments []. All Vps54 homologues contain a coiled coil region (not found in the region featured in this family) and multiple dileucine motifs []. ; GO: 0042147 retrograde transport, endosome to Golgi; PDB: 3N1E_B 3N1B_B.
Probab=51.39 E-value=5 Score=26.49 Aligned_cols=47 Identities=23% Similarity=0.327 Sum_probs=0.0
Q ss_pred CCCeEEecHHHHHHhHHHHHHHhhCCCCCCcccCCCCHHHHHHHHHHHHhhc
Q 035736 13 DGEAFEVDEAVALESQTIKHMIEDDCADNGIPLPNVTSKILSKVIEYCKKHV 64 (101)
Q Consensus 13 DG~~f~v~~~~a~~S~~i~~~l~~~~~~~~Ipl~~v~~~~L~kIiewc~~h~ 64 (101)
||+.|.|...+...-+.|.+.+.-. .-+|...++++.++++++....
T Consensus 1 d~e~f~vv~s~l~ll~~l~~Y~~~~-----~~~P~~a~di~~~l~elLk~fN 47 (135)
T PF07928_consen 1 DNEKFVVVGSALLLLKMLSDYLQLA-----SNFPSLAPDILSRLLELLKLFN 47 (135)
T ss_dssp ----------------------------------------------------
T ss_pred CCCceecHHHHHHHHHHHHHHHHHH-----HHCchhHHHHHHHHHHHHHHHH
Confidence 6888888888888777777665432 2355677888888888876654
No 16
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=51.22 E-value=20 Score=25.83 Aligned_cols=27 Identities=26% Similarity=0.224 Sum_probs=21.9
Q ss_pred CCCcccC-CCCHHHHHHHHHHHHhhcccC
Q 035736 40 DNGIPLP-NVTSKILSKVIEYCKKHVEAS 67 (101)
Q Consensus 40 ~~~Ipl~-~v~~~~L~kIiewc~~h~~~~ 67 (101)
..+.+|| ++++.||++|.+|++ +.+.+
T Consensus 146 ~~~~~LPkGi~~~Tl~~i~~~~~-~~~~~ 173 (224)
T COG4565 146 QPPDDLPKGLDELTLQKVREALK-EPDQE 173 (224)
T ss_pred cCcccCCCCcCHHHHHHHHHHHh-CcCCc
Confidence 3577888 799999999999999 55444
No 17
>PF10584 Proteasome_A_N: Proteasome subunit A N-terminal signature; InterPro: IPR000426 The proteasome (or macropain) (3.4.25.1 from EC) [, , , , ] is a eukaryotic and archaeal multicatalytic proteinase complex that seems to be involved in an ATP/ubiquitin-dependent nonlysosomal proteolytic pathway. In eukaryotes the proteasome is composed of about 28 distinct subunits which form a highly ordered ring-shaped structure (20S ring) of about 700 kDa. Most proteasome subunits can be classified, on the basis on sequence similarities into two groups, alpha (A) and beta (B). This family contains the alpha subunit sequences which range from 210 to 290 amino acids. These sequences are classified as non-peptidase homologues in MEROPS peptidase family T1 (clan PB(T)). ; GO: 0004175 endopeptidase activity, 0006511 ubiquitin-dependent protein catabolic process, 0019773 proteasome core complex, alpha-subunit complex; PDB: 3H4P_M 1IRU_O 3UN4_U 1FNT_A 3OEV_G 3OEU_U 3SDK_U 3DY3_G 3MG7_G 3L5Q_C ....
Probab=51.15 E-value=3.5 Score=19.16 Aligned_cols=17 Identities=47% Similarity=0.610 Sum_probs=13.3
Q ss_pred EEEEcCCCCeEEecHHH
Q 035736 7 ITLKSSDGEAFEVDEAV 23 (101)
Q Consensus 7 v~L~S~DG~~f~v~~~~ 23 (101)
+++-|.||+.|+|+.+.
T Consensus 5 ~t~FSp~Grl~QVEYA~ 21 (23)
T PF10584_consen 5 ITTFSPDGRLFQVEYAM 21 (23)
T ss_dssp TTSBBTTSSBHHHHHHH
T ss_pred ceeECCCCeEEeeEeee
Confidence 45568999999998754
No 18
>KOG4350 consensus Uncharacterized conserved protein, contains BTB/POZ domain [General function prediction only]
Probab=45.49 E-value=61 Score=25.96 Aligned_cols=61 Identities=16% Similarity=0.257 Sum_probs=45.1
Q ss_pred eEEEEcCCCCeEEecHHH-HHHhHHHHHHHhhCCC---CCCcccCCCCHHHHHHHHHHHHhhcccC
Q 035736 6 KITLKSSDGEAFEVDEAV-ALESQTIKHMIEDDCA---DNGIPLPNVTSKILSKVIEYCKKHVEAS 67 (101)
Q Consensus 6 ~v~L~S~DG~~f~v~~~~-a~~S~~i~~~l~~~~~---~~~Ipl~~v~~~~L~kIiewc~~h~~~~ 67 (101)
.|+++-.| .+|...+-+ |..|...|.||-++-. ...|||..-++..++.++.|..--+-+-
T Consensus 46 DVtfvve~-~rfpAHRvILAaRs~yFRAlLYgGm~Es~q~~ipLq~t~~eAF~~lLrYiYtg~~~l 110 (620)
T KOG4350|consen 46 DVTFVVED-TRFPAHRVILAARSSYFRALLYGGMQESHQQLIPLQETNSEAFRALLRYIYTGKIDL 110 (620)
T ss_pred ceEEEEec-cccchhhhhHHHHHHHHHHHHhhhhhhhhhcccccccccHHHHHHHHHHHhhcceec
Confidence 35555555 667776666 6679999999875432 4589999888999999999987665543
No 19
>PF05871 ESCRT-II: ESCRT-II complex subunit; InterPro: IPR008570 This entry represents the vps25 subunit (vacuolar protein sorting-associated protein 25) of the endosome-associated complex ESCRT-II (Endosomal Sorting Complexes Required for Transport protein II). ESCRT (ESCRT-I, -II, -III) complexes orchestrate efficient sorting of ubiquitinated transmembrane receptors to lysosomes via multivesicular bodies (MVBs) []. ESCRT-II recruits the transport machinery for protein sorting at MVB []. In addition, the human ESCRT-II has been shown to form a complex with RNA polymerase II elongation factor ELL in order to exert transcriptional control activity. ESCRT-II transiently associates with the endosomal membrane and thereby initiates the formation of ESCRT-III, a membrane-associated protein complex that functions immediately downstream of ESCRT-II during sorting of MVB cargo. ESCRT-II in turn functions downstream of ESCRT-I, a protein complex that binds to ubiquitinated endosomal cargo []. ESCRT-II is a trilobal complex composed of two copies of vps25, one copy of vps22 and the C-terminal region of vps36. The crystal structure of vps25 revealed two winged-helix domains, the N-terminal domain of vps25 interacting with vps22 and vps35 [].; PDB: 1W7P_B 1U5T_D 1XB4_D 3HTU_E 3CUQ_C 2ZME_D.
Probab=45.42 E-value=15 Score=24.42 Aligned_cols=15 Identities=20% Similarity=0.592 Sum_probs=11.2
Q ss_pred HHHHHHHHhhcccCC
Q 035736 54 SKVIEYCKKHVEASK 68 (101)
Q Consensus 54 ~kIiewc~~h~~~~~ 68 (101)
..|++||.||+-...
T Consensus 27 ~lIl~y~~~~k~~~l 41 (139)
T PF05871_consen 27 DLILDYCRHHKIFRL 41 (139)
T ss_dssp HHHHHHHHHTT-SEE
T ss_pred HHHHHHHHHhceeee
Confidence 579999999987543
No 20
>COG0499 SAM1 S-adenosylhomocysteine hydrolase [Coenzyme metabolism]
Probab=43.72 E-value=37 Score=26.58 Aligned_cols=61 Identities=11% Similarity=0.158 Sum_probs=46.9
Q ss_pred CCceEEEEcCCCCe-EEecHHHHHHhHHHHHHHhhCCC--CCCcccC-CCCHHHHHHHHHHHHhh
Q 035736 3 TSKKITLKSSDGEA-FEVDEAVALESQTIKHMIEDDCA--DNGIPLP-NVTSKILSKVIEYCKKH 63 (101)
Q Consensus 3 ~~~~v~L~S~DG~~-f~v~~~~a~~S~~i~~~l~~~~~--~~~Ipl~-~v~~~~L~kIiewc~~h 63 (101)
+++.+.|-+.+|+- |.+|...+.|.-....+.++.+. ..+.+|| .++..+.+..++.+--+
T Consensus 337 eGRLvNLa~a~GHPs~VMd~SFanQaLa~~~L~~n~~~~~~~Vy~lP~~lD~~VArl~L~~~G~~ 401 (420)
T COG0499 337 EGRLVNLAAATGHPSEVMDMSFANQALAQIYLVKNHGKLEPGVYRLPKELDEEVARLKLEAMGIE 401 (420)
T ss_pred cceeeeeccCCCCcHHHhhhhHHHHHHHHHHHHhcccccCCceeeCcHHHHHHHHHHHHHHhCce
Confidence 47888999999975 55788888888888888877643 5688998 68888888777775433
No 21
>PF11338 DUF3140: Protein of unknown function (DUF3140); InterPro: IPR021487 Some members in this family of proteins are annotated as DNA binding proteins. No function is currently known.
Probab=41.60 E-value=27 Score=21.73 Aligned_cols=22 Identities=27% Similarity=0.505 Sum_probs=18.5
Q ss_pred cCCCCHHHHHHHHHHHHhhccc
Q 035736 45 LPNVTSKILSKVIEYCKKHVEA 66 (101)
Q Consensus 45 l~~v~~~~L~kIiewc~~h~~~ 66 (101)
|.+-+-..+++|+.||..|...
T Consensus 54 ltddD~~hMrkVV~yv~rhlaq 75 (92)
T PF11338_consen 54 LTDDDYEHMRKVVGYVKRHLAQ 75 (92)
T ss_pred CCHHHHHHHHHHHHHHHHHHhc
Confidence 5556678899999999999886
No 22
>KOG0183 consensus 20S proteasome, regulatory subunit alpha type PSMA7/PRE6 [Posttranslational modification, protein turnover, chaperones]
Probab=39.99 E-value=32 Score=24.91 Aligned_cols=19 Identities=37% Similarity=0.601 Sum_probs=16.8
Q ss_pred CceEEEEcCCCCeEEecHH
Q 035736 4 SKKITLKSSDGEAFEVDEA 22 (101)
Q Consensus 4 ~~~v~L~S~DG~~f~v~~~ 22 (101)
.+.+++-|.||+.|+|+.+
T Consensus 5 draltvFSPDGhL~QVEYA 23 (249)
T KOG0183|consen 5 DRALTVFSPDGHLFQVEYA 23 (249)
T ss_pred ccceEEECCCCCEEeeHhH
Confidence 4789999999999999865
No 23
>PF13711 DUF4160: Domain of unknown function (DUF4160)
Probab=37.47 E-value=39 Score=19.11 Aligned_cols=19 Identities=26% Similarity=0.427 Sum_probs=16.8
Q ss_pred CCCHHHHHHHHHHHHhhcc
Q 035736 47 NVTSKILSKVIEYCKKHVE 65 (101)
Q Consensus 47 ~v~~~~L~kIiewc~~h~~ 65 (101)
.++++.|++|.+|.+.|++
T Consensus 41 ~l~~k~l~~i~~~i~~~~~ 59 (66)
T PF13711_consen 41 FLPRKELRKILEWIEENQE 59 (66)
T ss_pred CCCHHHHHHHHHHHHHHHH
Confidence 3689999999999999876
No 24
>PF11795 DUF3322: Uncharacterized protein conserved in bacteria N-term (DUF3322); InterPro: IPR024537 This domain, found in various hypothetical bacterial proteins, has no known function. The family represents just the N terminus.
Probab=37.45 E-value=31 Score=23.77 Aligned_cols=47 Identities=17% Similarity=0.186 Sum_probs=30.7
Q ss_pred CCCHHHHHHHHHHHHhhcccCCCccccCCCCCCCcChhhhhhhccChhhhhhh
Q 035736 47 NVTSKILSKVIEYCKKHVEASKSDDRATSGVDDDLKAWDTDFVKVDQATLFDL 99 (101)
Q Consensus 47 ~v~~~~L~kIiewc~~h~~~~~~~~~~~~~~~~~~~~WD~~Fl~~~~~~Lf~l 99 (101)
..+..-|-+|+.|+..|-.... +.....++-.|.+||.-....|-+|
T Consensus 141 ~~d~~~l~~vl~wl~~h~~~g~------ylRqlpi~GvDTKfiE~h~~ll~~L 187 (190)
T PF11795_consen 141 DDDFERLLAVLDWLRPHPRSGL------YLRQLPIPGVDTKFIERHRGLLAAL 187 (190)
T ss_pred HhhHHHHHHHHHHHhcCCCCCC------chhhCCcCCcchHHHHHHHHHHHHH
Confidence 3445678899999988855332 1235677888999998444444343
No 25
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=35.91 E-value=30 Score=19.73 Aligned_cols=18 Identities=33% Similarity=0.455 Sum_probs=13.9
Q ss_pred ceEEEEcCCCCeEEecHH
Q 035736 5 KKITLKSSDGEAFEVDEA 22 (101)
Q Consensus 5 ~~v~L~S~DG~~f~v~~~ 22 (101)
+.+++.|.||++|.=-.+
T Consensus 5 KA~Kv~~RDGE~~lrCPR 22 (65)
T COG4049 5 KAIKVRDRDGEEFLRCPR 22 (65)
T ss_pred eeeEeeccCCceeeeCCc
Confidence 468999999999975443
No 26
>COG5478 Predicted small integral membrane protein [Function unknown]
Probab=35.84 E-value=1.2e+02 Score=20.28 Aligned_cols=29 Identities=0% Similarity=0.164 Sum_probs=24.9
Q ss_pred CCCcccCCCCHHHHHHHHHHHHhhcccCC
Q 035736 40 DNGIPLPNVTSKILSKVIEYCKKHVEASK 68 (101)
Q Consensus 40 ~~~Ipl~~v~~~~L~kIiewc~~h~~~~~ 68 (101)
++.|-|..-..+.++++++||+++.....
T Consensus 92 n~~VgIEh~~~~~i~~~~~~~e~~a~~~~ 120 (141)
T COG5478 92 NDVVGIEHLKPEEIEEIRDRLEDEAGTGD 120 (141)
T ss_pred CceeeeccCCHHHHHHHHHHHHHHhcCCC
Confidence 56788888999999999999999977554
No 27
>PF14716 HHH_8: Helix-hairpin-helix domain; PDB: 2W9M_A 1HUZ_A 1HUO_A 2BPG_B 2BPF_A 1DK3_A 1BPE_A 1BNO_A 1BNP_A 1DK2_A ....
Probab=34.33 E-value=55 Score=18.53 Aligned_cols=20 Identities=25% Similarity=0.253 Sum_probs=17.0
Q ss_pred CcccCCCCHHHHHHHHHHHH
Q 035736 42 GIPLPNVTSKILSKVIEYCK 61 (101)
Q Consensus 42 ~Ipl~~v~~~~L~kIiewc~ 61 (101)
.--||+|-..+-++|-||++
T Consensus 49 ~~~l~gIG~~ia~kI~E~le 68 (68)
T PF14716_consen 49 LKKLPGIGKSIAKKIDEILE 68 (68)
T ss_dssp HCTSTTTTHHHHHHHHHHHH
T ss_pred HhhCCCCCHHHHHHHHHHHC
Confidence 44588999999999999975
No 28
>PF08727 P3A: Poliovirus 3A protein like; InterPro: IPR014838 The 3A protein is found in positive-strand RNA viruses. It is a critical component of the poliovirus replication complex, and is also an inhibitor of host cell ER to Golgi transport. ; GO: 0003968 RNA-directed RNA polymerase activity, 0004197 cysteine-type endopeptidase activity, 0017111 nucleoside-triphosphatase activity; PDB: 1NG7_A.
Probab=32.09 E-value=36 Score=19.33 Aligned_cols=12 Identities=33% Similarity=0.598 Sum_probs=9.2
Q ss_pred HHHHHHHHhhcc
Q 035736 54 SKVIEYCKKHVE 65 (101)
Q Consensus 54 ~kIiewc~~h~~ 65 (101)
.+|++||+...=
T Consensus 30 ~eV~~YC~~~GW 41 (57)
T PF08727_consen 30 PEVREYCEEQGW 41 (57)
T ss_dssp HHHHHHHHHHT-
T ss_pred HHHHHHHHHCCc
Confidence 579999998743
No 29
>PRK12271 rps10p 30S ribosomal protein S10P; Reviewed
Probab=31.26 E-value=1.1e+02 Score=19.11 Aligned_cols=35 Identities=31% Similarity=0.477 Sum_probs=20.0
Q ss_pred eEEEEcCCCCeEEecHHHHHHhHHHHHHHhhCCC--CCCcccC
Q 035736 6 KITLKSSDGEAFEVDEAVALESQTIKHMIEDDCA--DNGIPLP 46 (101)
Q Consensus 6 ~v~L~S~DG~~f~v~~~~a~~S~~i~~~l~~~~~--~~~Ipl~ 46 (101)
.++|.|-|- ..+-..+.-|.+..+..|. .++||||
T Consensus 5 rI~L~S~d~------~~Ld~~~~~I~~~~k~~g~~~~GPipLP 41 (102)
T PRK12271 5 RIRLSSTNP------EDLDEVCDQIKEIAEKTGVDMSGPIPLP 41 (102)
T ss_pred EEEEEeCCH------HHHHHHHHHHHHHHHHcCCeEECCCcCC
Confidence 467777772 1222234555555555554 4789998
No 30
>PF01498 HTH_Tnp_Tc3_2: Transposase; InterPro: IPR002492 Transposase proteins are necessary for efficient DNA transposition. This family includes the amino-terminal region of Tc1, Tc1A, Tc1B and Tc2B transposases of Caenorhabditis elegans. The region encompasses the specific DNA binding and second DNA recognition domains as well as an amino-terminal region of the catalytic domain of Tc3 as described in []. Tc3 is a member of the Tc1/mariner family of transposable elements. This entry also includes histone-lysine N-methyltransferase SETMAR, which is a SET domain and mariner transposase fusion gene-containing protein. This histone methyltransferase has sequence-specific DNA-binding activity and recognises the 19-mer core of the 5'-terminal inverted repeats (TIRs) of the Hsmar1 element. This protein has DNA nicking activity, and has in vivo end joining activity and may mediate genomic integration of foreign DNA [, , , ]. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated, 0015074 DNA integration; PDB: 3K9K_B 3F2K_B 3K9J_B 1U78_A.
Probab=31.26 E-value=58 Score=18.28 Aligned_cols=38 Identities=21% Similarity=0.376 Sum_probs=19.1
Q ss_pred HHHHHHHhhCCCC--CCcccCCCCHHHHHHHHHHHHhhcc
Q 035736 28 QTIKHMIEDDCAD--NGIPLPNVTSKILSKVIEYCKKHVE 65 (101)
Q Consensus 28 ~~i~~~l~~~~~~--~~Ipl~~v~~~~L~kIiewc~~h~~ 65 (101)
.||+..|...|.. .+.--|-++..-.++=++||..|.+
T Consensus 33 ~TI~r~L~~~g~~~~~~~~kP~Ls~~~~~~Rl~fA~~h~~ 72 (72)
T PF01498_consen 33 STIRRRLREAGLKKRKARKKPFLSPKHKKKRLEFAKEHLD 72 (72)
T ss_dssp HHHHHHHHHT-EEEETTEEEES--HHHHHHHHHHH-----
T ss_pred HHHHHHHHHcCccccccccCCCCCHHHHHHHHHHhhhccC
Confidence 5777777666531 1222234788888888999988853
No 31
>PRK11566 hdeB acid-resistance protein; Provisional
Probab=30.91 E-value=22 Score=22.55 Aligned_cols=25 Identities=36% Similarity=0.634 Sum_probs=19.9
Q ss_pred CCcccCCCCHHHHHHHHHHHHhhcc
Q 035736 41 NGIPLPNVTSKILSKVIEYCKKHVE 65 (101)
Q Consensus 41 ~~Ipl~~v~~~~L~kIiewc~~h~~ 65 (101)
+.+.+.++.-..-.+|++||..|.+
T Consensus 62 D~vd~~e~et~~tPkvie~Ckk~P~ 86 (102)
T PRK11566 62 DYVDLNETDTTQVPKVIEYCKKNPQ 86 (102)
T ss_pred ccccccceeeeechHHHHHHHhCCc
Confidence 4577877777667899999999954
No 32
>PF02519 Auxin_inducible: Auxin responsive protein; InterPro: IPR003676 This family consists of the protein products of a gene cluster that encodes a group of auxin-regulated RNAs (small auxin up RNAs, SAURs) []. Proteins from this ARG7 auxin responsive genes family have no identified functional role [].
Probab=30.06 E-value=1.4e+02 Score=18.53 Aligned_cols=51 Identities=10% Similarity=0.198 Sum_probs=35.0
Q ss_pred EEEcCCCCeEEecHHHHHHhHHHHHHHhhC----C--CCCCcccCCCCHHHHHHHHHHH
Q 035736 8 TLKSSDGEAFEVDEAVALESQTIKHMIEDD----C--ADNGIPLPNVTSKILSKVIEYC 60 (101)
Q Consensus 8 ~L~S~DG~~f~v~~~~a~~S~~i~~~l~~~----~--~~~~Ipl~~v~~~~L~kIiewc 60 (101)
..+..+.+.|.|+...+.+ ..++.+|+.. | .+++|-|| .+...++.|+..+
T Consensus 43 VyVG~~~~Rfvvp~~~L~h-p~f~~LL~~aeeEfG~~~~G~l~iP-C~~~~Fe~~l~~l 99 (100)
T PF02519_consen 43 VYVGEERRRFVVPVSYLNH-PLFQELLEQAEEEFGFDQDGPLTIP-CDVVLFEHLLWLL 99 (100)
T ss_pred EEeCccceEEEechHHcCc-hhHHHHHHHHhhhcCcCCCCcEEee-CCHHHHHHHHHHh
Confidence 3344458999999998875 5566666542 2 24677777 7788888887654
No 33
>PF11165 DUF2949: Protein of unknown function (DUF2949); InterPro: IPR021336 This family of proteins with unknown function appear to be restricted to Cyanobacteria.
Probab=29.31 E-value=53 Score=18.64 Aligned_cols=15 Identities=13% Similarity=0.450 Sum_probs=13.5
Q ss_pred CCHHHHHHHHHHHHh
Q 035736 48 VTSKILSKVIEYCKK 62 (101)
Q Consensus 48 v~~~~L~kIiewc~~ 62 (101)
|+=..|++|.+|+++
T Consensus 44 ItL~QL~~i~DWl~~ 58 (58)
T PF11165_consen 44 ITLEQLDQIFDWLEN 58 (58)
T ss_pred ccHHHHHHHHHHHhC
Confidence 888999999999874
No 34
>PF02214 BTB_2: BTB/POZ domain; InterPro: IPR003131 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. The Kv family can be divided into several subfamilies on the basis of sequence similarity and function. Four of these subfamilies, Kv1 (Shaker), Kv2 (Shab), Kv3 (Shaw) and Kv4 (Shal), consist of pore-forming alpha subunits that associate with different types of beta subunit. Each alpha subunit comprises six hydrophobic TM domains with a P-domain between the fifth and sixth, which partially resides in the membrane. The fourth TM domain has positively charged residues at every third residue and acts as a voltage sensor, which triggers the conformational change that opens the channel pore in response to a displacement in membrane potential []. More recently, 4 new electrically-silent alpha subunits have been cloned: Kv5 (KCNF), Kv6 (KCNG), Kv8 and Kv9 (KCNS). These subunits do not themselves possess any functional activity, but appear to form heteromeric channels with Kv2 subunits, and thus modulate Shab channel activity []. When highly expressed, they inhibit channel activity, but at lower levels show more specific modulatory actions. The N-terminal, cytoplasmic tetramerization domain (T1) of voltage-gated potassium channels encodes molecular determinants for subfamily-specific assembly of alpha-subunits into functional tetrameric channels []. This domain is found in a subset of a larger group of proteins that contain the BTB/POZ domain.; GO: 0005249 voltage-gated potassium channel activity, 0006813 potassium ion transport, 0008076 voltage-gated potassium channel complex, 0016020 membrane; PDB: 1NN7_A 3KVT_A 1EXB_E 1QDV_A 1DSX_E 1QDW_F 3LUT_B 3LNM_B 2A79_B 3DRY_C ....
Probab=28.41 E-value=44 Score=19.77 Aligned_cols=50 Identities=10% Similarity=0.294 Sum_probs=34.4
Q ss_pred CCCeEEecHHHHHH--hHHHHHHHhhC------CCCCCcccCCCCHHHHHHHHHHHHhh
Q 035736 13 DGEAFEVDEAVALE--SQTIKHMIEDD------CADNGIPLPNVTSKILSKVIEYCKKH 63 (101)
Q Consensus 13 DG~~f~v~~~~a~~--S~~i~~~l~~~------~~~~~Ipl~~v~~~~L~kIiewc~~h 63 (101)
-|+.|.++++.+.. ...+..++... ..+..+=+ +-++..++.|+.|+...
T Consensus 6 GG~~f~~~~~tL~~~~~s~l~~~~~~~~~~~~~~~~~~~fi-DRdp~~F~~IL~ylr~~ 63 (94)
T PF02214_consen 6 GGTIFETSRSTLTRYPDSLLARLFSGERSDDYDDDDGEYFI-DRDPELFEYILNYLRTG 63 (94)
T ss_dssp TTEEEEEEHHHHHTSTTSTTTSHHHTGHGGGEETTTTEEEE-SS-HHHHHHHHHHHHHT
T ss_pred CCEEEEEcHHHHhhCCCChhhhHHhhccccccCCccceEEe-ccChhhhhHHHHHHhhc
Confidence 48899999998873 23456666642 11234434 67999999999999985
No 35
>PF11197 DUF2835: Protein of unknown function (DUF2835); InterPro: IPR021363 This is a bacterial family of uncharacterised proteins. One member of this family (A4VM42 from SWISSPROT) is annotated as the A subunit of Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV).
Probab=27.89 E-value=69 Score=18.68 Aligned_cols=21 Identities=19% Similarity=0.317 Sum_probs=18.0
Q ss_pred ceEEEEcCCCCeEEecHHHHH
Q 035736 5 KKITLKSSDGEAFEVDEAVAL 25 (101)
Q Consensus 5 ~~v~L~S~DG~~f~v~~~~a~ 25 (101)
..|..+|.||....++....+
T Consensus 21 ~~V~v~s~~Gr~v~~Pa~~lR 41 (68)
T PF11197_consen 21 SKVVVRSDDGRRVQFPARHLR 41 (68)
T ss_pred cEEEEEecCCcEEEEeHHHCc
Confidence 579999999999999987654
No 36
>PF03474 DMA: DMRTA motif; InterPro: IPR005173 This region is found to the C terminus of the DM DNA-binding domain IPR001275 from INTERPRO []. DM-domain proteins with this motif are known as DMRTA proteins. The function of this region is unknown.
Probab=27.88 E-value=61 Score=16.92 Aligned_cols=17 Identities=18% Similarity=0.639 Sum_probs=14.7
Q ss_pred cCCCCHHHHHHHHHHHH
Q 035736 45 LPNVTSKILSKVIEYCK 61 (101)
Q Consensus 45 l~~v~~~~L~kIiewc~ 61 (101)
+|+-...+|+.|++-|.
T Consensus 12 FP~~kr~~Le~iL~~C~ 28 (39)
T PF03474_consen 12 FPHQKRSVLELILQRCN 28 (39)
T ss_pred CCCCChHHHHHHHHHcC
Confidence 57888999999999885
No 37
>PF08661 Rep_fac-A_3: Replication factor A protein 3; InterPro: IPR013970 Replication factor A is involved in eukaryotic DNA replication, recombination and repair. ; PDB: 2PI2_H 1L1O_D 3KDF_A 2Z6K_D 1QUQ_D 2PQA_D.
Probab=26.37 E-value=87 Score=19.40 Aligned_cols=61 Identities=16% Similarity=0.206 Sum_probs=31.2
Q ss_pred CceEEEEcCCCCeEEecHHHHHHhHHHHHHHhhCC---CCC---------Cccc-CCCCHHHHHHHHHHHHhhcc
Q 035736 4 SKKITLKSSDGEAFEVDEAVALESQTIKHMIEDDC---ADN---------GIPL-PNVTSKILSKVIEYCKKHVE 65 (101)
Q Consensus 4 ~~~v~L~S~DG~~f~v~~~~a~~S~~i~~~l~~~~---~~~---------~Ipl-~~v~~~~L~kIiewc~~h~~ 65 (101)
+..+.++|+||..+.|...--. ...+..++|-.| .+. .+++ .+++-....++++.+..++.
T Consensus 34 g~~~~l~~~d~~~V~v~l~~~~-~~~~~~~vEviG~V~~~~~~~~i~~~~~~~~g~~~D~~~y~~lv~l~~~~p~ 107 (109)
T PF08661_consen 34 GGSATLSTSDGGQVTVSLNPPS-DEELSKYVEVIGKVNDDGTVLSIRYFSFTDFGDDFDMDLYNELVQLTHKFPE 107 (109)
T ss_dssp SSEEEEE-TTS-EEEEEESS---SS---SEEEEEEEE-TTS-EEEEEEEE---SSS---HHHHHHHHHHHHHSGG
T ss_pred CCEEEEEcCCCCEEEEEeCCCC-CCCCCCEEEEEEEEcCCCCceEEEEEEeccCCCCcCHHHHHHHHHHHhhCCc
Confidence 6789999999988887654211 111233333211 111 2245 37999999999999987753
No 38
>COG4849 Predicted nucleotidyltransferase [General function prediction only]
Probab=26.22 E-value=64 Score=23.52 Aligned_cols=27 Identities=11% Similarity=0.111 Sum_probs=23.3
Q ss_pred CCcccCCCCHHHHHHHHHHHHhhcccC
Q 035736 41 NGIPLPNVTSKILSKVIEYCKKHVEAS 67 (101)
Q Consensus 41 ~~Ipl~~v~~~~L~kIiewc~~h~~~~ 67 (101)
-.|||+.+++-+.-|+..|+....+++
T Consensus 136 ~~v~l~~~Pgl~~lKLhAWLDR~~~n~ 162 (269)
T COG4849 136 LTVHLPQPPGLAVLKLHAWLDRADHNY 162 (269)
T ss_pred eeeecCCCCchHHHHHHHHHhhcccCc
Confidence 478999999999999999999966554
No 39
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=25.37 E-value=84 Score=18.66 Aligned_cols=20 Identities=10% Similarity=0.154 Sum_probs=17.5
Q ss_pred cCCCCHHHHHHHHHHHHhhc
Q 035736 45 LPNVTSKILSKVIEYCKKHV 64 (101)
Q Consensus 45 l~~v~~~~L~kIiewc~~h~ 64 (101)
=.+++..+.+++..+|+++.
T Consensus 34 A~D~~~~~~~~i~~~c~~~~ 53 (82)
T PRK13602 34 AEDADPRLTEKVEALANEKG 53 (82)
T ss_pred ECCCCHHHHHHHHHHHHHcC
Confidence 35899999999999999884
No 40
>KOG4068 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.29 E-value=47 Score=22.90 Aligned_cols=16 Identities=19% Similarity=0.530 Sum_probs=13.1
Q ss_pred HHHHHHHHHhhcccCC
Q 035736 53 LSKVIEYCKKHVEASK 68 (101)
Q Consensus 53 L~kIiewc~~h~~~~~ 68 (101)
-..|++||.|++....
T Consensus 31 ~~lil~ycr~~k~~sm 46 (174)
T KOG4068|consen 31 IDLILQYCRHNKIWSM 46 (174)
T ss_pred HHHHHHHHHhcCeEEE
Confidence 3679999999998654
No 41
>TIGR01046 S10_Arc_S20_Euk ribosomal protein S10(archaeal)/S20(eukaryotic). its equivalents in eukaryotes.
Probab=24.99 E-value=1.8e+02 Score=18.10 Aligned_cols=35 Identities=26% Similarity=0.439 Sum_probs=18.3
Q ss_pred eEEEEcCCCCeEEecHHHHHHhHHHHHHHhhCCC--CCCcccC
Q 035736 6 KITLKSSDGEAFEVDEAVALESQTIKHMIEDDCA--DNGIPLP 46 (101)
Q Consensus 6 ~v~L~S~DG~~f~v~~~~a~~S~~i~~~l~~~~~--~~~Ipl~ 46 (101)
.++|.|-|-. .+-..+.-|.+..+..|. .++||||
T Consensus 4 rI~L~S~d~~------~Ld~~~~~I~~~ak~~g~~~~GPipLP 40 (99)
T TIGR01046 4 RIKLTSTNVR------SLEKVCAQIKRIAEKTGVRMSGPVPLP 40 (99)
T ss_pred EEEEEECCHH------HHHHHHHHHHHHHHHcCCEEECCccCC
Confidence 4677776621 112223444444444443 4789998
No 42
>PF02736 Myosin_N: Myosin N-terminal SH3-like domain; InterPro: IPR004009 This domain has an SH3-like fold. It is found at the N terminus of many but not all myosins. The function of this domain is unknown.; GO: 0003774 motor activity, 0005524 ATP binding, 0016459 myosin complex; PDB: 2EC6_A 2W4H_M 1O1E_P 1O1D_D 1O18_A 1O1C_P 1O1B_D 1O1F_A 2W4A_M 2W4G_M ....
Probab=24.51 E-value=67 Score=16.55 Aligned_cols=18 Identities=33% Similarity=0.630 Sum_probs=14.6
Q ss_pred CceEEEEcCCCCeEEecH
Q 035736 4 SKKITLKSSDGEAFEVDE 21 (101)
Q Consensus 4 ~~~v~L~S~DG~~f~v~~ 21 (101)
+..++++..||++..|++
T Consensus 23 g~~vtV~~~~G~~~tv~~ 40 (42)
T PF02736_consen 23 GDKVTVKTEDGKEVTVKK 40 (42)
T ss_dssp SSEEEEEETTTEEEEEEG
T ss_pred CCEEEEEECCCCEEEeCC
Confidence 567889999999888765
No 43
>PF08154 NLE: NLE (NUC135) domain; InterPro: IPR012972 This domain is located N-terminal to WD40 repeats(IPR001680 from INTERPRO). It is found in the microtubule-associated protein Q12024 from SWISSPROT [].
Probab=24.35 E-value=1.4e+02 Score=16.75 Aligned_cols=29 Identities=17% Similarity=0.415 Sum_probs=16.5
Q ss_pred eEEEEcCCCC------eEEecHHH--HHHhHHHHHHH
Q 035736 6 KITLKSSDGE------AFEVDEAV--ALESQTIKHMI 34 (101)
Q Consensus 6 ~v~L~S~DG~------~f~v~~~~--a~~S~~i~~~l 34 (101)
.|++.|++|. .|.|+..+ ...|.++++++
T Consensus 3 ~v~F~t~~~~~~~~~~~~~VP~~~t~~~Ls~LvN~LL 39 (65)
T PF08154_consen 3 QVQFVTEDGEYEVPGTPISVPSNITRKELSELVNQLL 39 (65)
T ss_pred EEEEEcCCCCccCCCCCEEEeCCCCHHHHHHHHHHHh
Confidence 3677777763 34444433 34566666666
No 44
>TIGR01689 EcbF-BcbF capsule biosynthesis phosphatase. Due to the likelihood that the substrates of these enzymes are different depending on the nature of the particular polysaccharides associated with each species, this model has been classified as a subfamily despite the close homology.
Probab=24.25 E-value=62 Score=20.98 Aligned_cols=18 Identities=17% Similarity=0.283 Sum_probs=15.7
Q ss_pred CCHHHHHHHHHHHHhhcc
Q 035736 48 VTSKILSKVIEYCKKHVE 65 (101)
Q Consensus 48 v~~~~L~kIiewc~~h~~ 65 (101)
++..++..+.+||..|.-
T Consensus 61 i~~~~~~~t~~wL~k~~i 78 (126)
T TIGR01689 61 INIHTLPIIILWLNQHNV 78 (126)
T ss_pred cchhhHHHHHHHHHHcCC
Confidence 788999999999998743
No 45
>PF06540 GMAP: Galanin message associated peptide (GMAP); InterPro: IPR013068 Galanin is a peptide hormone that controls various biological activities []. Galanin-like immuno-reactivity has been found in the central and peripheral nervous systems of mammals, with high concentrations demonstrated in discrete regions of the central nervous system, including the median eminence, hypothalamus, arcuate nucleus, septum, neuro-intermediate lobe of the pituitary, and the spinal cord. Its localisation within neurosecretory granules suggests that galanin may function as a neurotransmitter, and it has been shown to coexist with a variety of other peptide and amine neurotransmitters within individual neurons []. Although the precise physiological role of galanin is uncertain, it has a number of pharmacological properties: it stimulates food intake, when injected into the third ventricle of rats; it increases levels of plasma growth hormone and prolactin, and decreases dopamine levels in the median eminence []; and infusion into humans results in hyperglycemia and glucose intolerance, and inhibits pancreatic release of insulin, somatostatin and pancreatic peptide. Galanin also modulates smooth muscle contractility within the gastro-intestinal and genito-urinary tracts, all such activities suggesting that the hormone may play an important role in the nervous modulation of endocrine and smooth muscle function []. This domain represents the galanin message-associated peptide (GMAP) domain which is found C-terminal to the galanin domain in the preprogalanin precursor protein. GMAP sequences in different species show a high degree of homology, but the biological function of the GMAP peptide is not known [].
Probab=24.23 E-value=79 Score=18.19 Aligned_cols=18 Identities=17% Similarity=0.215 Sum_probs=15.0
Q ss_pred CCHHHHHHHHHHHHhhcc
Q 035736 48 VTSKILSKVIEYCKKHVE 65 (101)
Q Consensus 48 v~~~~L~kIiewc~~h~~ 65 (101)
-+.++++.||+|+.|-+-
T Consensus 21 ~d~nivrTiiEFLtfLhL 38 (62)
T PF06540_consen 21 ADDNIVRTIIEFLTFLHL 38 (62)
T ss_pred chhHHHHHHHHHHHHHHH
Confidence 478999999999998643
No 46
>cd01803 Ubiquitin Ubiquitin. Ubiquitin (includes Ubq/RPL40e and Ubq/RPS27a fusions as well as homopolymeric multiubiquitin protein chains)
Probab=24.15 E-value=66 Score=17.95 Aligned_cols=31 Identities=19% Similarity=0.321 Sum_probs=21.1
Q ss_pred eEEEEcCCCCeEEecHHHHHHhHHHHHHHhh
Q 035736 6 KITLKSSDGEAFEVDEAVALESQTIKHMIED 36 (101)
Q Consensus 6 ~v~L~S~DG~~f~v~~~~a~~S~~i~~~l~~ 36 (101)
.+.+++.+|+.+.++-....--..|+..+..
T Consensus 2 ~i~v~~~~g~~~~~~v~~~~tV~~lK~~i~~ 32 (76)
T cd01803 2 QIFVKTLTGKTITLEVEPSDTIENVKAKIQD 32 (76)
T ss_pred EEEEEcCCCCEEEEEECCcCcHHHHHHHHHH
Confidence 3788999999988766654444555666654
No 47
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=23.90 E-value=92 Score=18.67 Aligned_cols=23 Identities=13% Similarity=0.268 Sum_probs=18.8
Q ss_pred cccCCCCHHHHHHHHHHHHhhcc
Q 035736 43 IPLPNVTSKILSKVIEYCKKHVE 65 (101)
Q Consensus 43 Ipl~~v~~~~L~kIiewc~~h~~ 65 (101)
|-=.+++..+.+++..+|+++.-
T Consensus 29 iiA~Da~~~~~k~i~~~c~~~~V 51 (82)
T PRK13601 29 YIAKDAEEHVTKKIKELCEEKSI 51 (82)
T ss_pred EEeCCCCHHHHHHHHHHHHhCCC
Confidence 33358999999999999999853
No 48
>PRK15032 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional
Probab=23.74 E-value=1.3e+02 Score=23.47 Aligned_cols=26 Identities=8% Similarity=0.244 Sum_probs=22.0
Q ss_pred cccCCCCHHHHHHHHHHHHhhcccCC
Q 035736 43 IPLPNVTSKILSKVIEYCKKHVEASK 68 (101)
Q Consensus 43 Ipl~~v~~~~L~kIiewc~~h~~~~~ 68 (101)
+...+++.+..+.|++|+.+|..+-.
T Consensus 354 ~~~t~ld~~e~~ll~kYLQ~hAkD~~ 379 (390)
T PRK15032 354 IGFTSLDKREERTLLKYLQMNASDTA 379 (390)
T ss_pred HhccCCCHHHHHHHHHHHHHhccccc
Confidence 44668999999999999999987654
No 49
>PF10036 RLL: Putative carnitine deficiency-associated protein; InterPro: IPR019265 This family of proteins conserved from nematodes to humans is of approximately 250 amino acids. It is purported to be carnitine deficiency-associated protein but this could not be confirmed. It carries a characteristic RLL sequence-motif. The function is unknown.
Probab=23.23 E-value=1.3e+02 Score=21.77 Aligned_cols=57 Identities=9% Similarity=0.056 Sum_probs=33.5
Q ss_pred HHHhhCCCCCCcccCCCCHHHHHHHHHHHHhh--cccCCCccccCCCCCCCcChhhhhhhc
Q 035736 32 HMIEDDCADNGIPLPNVTSKILSKVIEYCKKH--VEASKSDDRATSGVDDDLKAWDTDFVK 90 (101)
Q Consensus 32 ~~l~~~~~~~~Ipl~~v~~~~L~kIiewc~~h--~~~~~~~~~~~~~~~~~~~~WD~~Fl~ 90 (101)
.-|...+....-++.--+...++.+|-|+|.. +.|+.....+ -.+..-++|...|.+
T Consensus 4 rkL~aL~Yp~~~~~n~~d~~~fr~lVvWLEDqKIR~Y~iedR~~--LR~i~s~~W~~~~~k 62 (249)
T PF10036_consen 4 RKLKALGYPKPDSFNIDDEEEFRSLVVWLEDQKIRHYKIEDREK--LRNIDSSDWPKAFEK 62 (249)
T ss_pred HHHHHcCCCCCCCCCCCCHHHHHHHHHHHhhhhhccCCHhhHHH--HhcCCcchHHHHHHH
Confidence 33444554444455557889999999999984 3344322111 123333559988875
No 50
>PF08225 Antimicrobial19: Pseudin antimicrobial peptide; InterPro: IPR013156 Pseudins are a subfamily of the FSAP family (Frog Secreted Active Peptides) extracted from the skin of the paradoxical frog Pseudis paradoxa (Paradoxical frog). The pseudins belong to the class of cationic, amphipathic-helical antimicrobial peptides [].; GO: 0006952 defense response
Probab=22.88 E-value=67 Score=14.55 Aligned_cols=11 Identities=27% Similarity=0.265 Sum_probs=7.8
Q ss_pred HHHHHHHHHHH
Q 035736 51 KILSKVIEYCK 61 (101)
Q Consensus 51 ~~L~kIiewc~ 61 (101)
.+|+||++=+.
T Consensus 3 ntlkkv~qglh 13 (23)
T PF08225_consen 3 NTLKKVFQGLH 13 (23)
T ss_pred hHHHHHHHHHH
Confidence 47888887654
No 51
>PF04700 Baculo_gp41: Structural glycoprotein p40/gp41 conserved region; InterPro: IPR006790 This is a family of viral structural glycoproteins [] from the baculoviridae.; GO: 0005198 structural molecule activity, 0019012 virion
Probab=22.67 E-value=1.5e+02 Score=20.76 Aligned_cols=47 Identities=19% Similarity=0.338 Sum_probs=26.4
Q ss_pred cHHHHHHhHHHHHHHhhCC-CCCCcccCCCCHHHHHHHHHHHHhhcccC
Q 035736 20 DEAVALESQTIKHMIEDDC-ADNGIPLPNVTSKILSKVIEYCKKHVEAS 67 (101)
Q Consensus 20 ~~~~a~~S~~i~~~l~~~~-~~~~Ipl~~v~~~~L~kIiewc~~h~~~~ 67 (101)
..++...|..++-++.+.- ...+|||| ++..+-.--+.-+.++.+-|
T Consensus 56 ~eAA~hLs~~vkYQiA~AVT~n~PiPlp-~~~~~~neYl~lL~~ka~ip 103 (186)
T PF04700_consen 56 NEAARHLSDVVKYQIAEAVTQNKPIPLP-FNQQLANEYLTLLLQKAQIP 103 (186)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCcCcc-hhhHHHHHHHHHHHHhccCC
Confidence 3455556888887776542 25678886 55555544444444444433
No 52
>cd04436 DEP_fRgd2 DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in fungal RhoGAP (GTPase-activator protein) Rgd2-like proteins. Rgd2-like proteins share a common domain architecture, containing, beside the RhoGAP domain, a DEP and a FCH (Fes/CIP4 homology) domain. Yeast Rgd2 is a GAP protein for Cdc42 and Rho5.
Probab=21.95 E-value=1.2e+02 Score=18.45 Aligned_cols=40 Identities=10% Similarity=0.249 Sum_probs=26.8
Q ss_pred hHHHHHHHhhCCC-CCCcccCCCC--HHHHHHHHHHHHhhccc
Q 035736 27 SQTIKHMIEDDCA-DNGIPLPNVT--SKILSKVIEYCKKHVEA 66 (101)
Q Consensus 27 S~~i~~~l~~~~~-~~~Ipl~~v~--~~~L~kIiewc~~h~~~ 66 (101)
..++..||+.... +-.+||++-- -.+=.-|++|+..|...
T Consensus 3 k~lL~~ml~~ip~~~~kvPilGty~nt~sG~~Iv~~L~~n~~~ 45 (84)
T cd04436 3 KELLAAMLKEIPLADYKVPILGTYQNTSSGSEIVSWLQENMPE 45 (84)
T ss_pred HHHHHHHHHhCCCccceecccccccCcccHHHHHHHHHHcCCC
Confidence 5677888887653 4568886421 22236789999999765
No 53
>KOG1784 consensus Small Nuclear ribonucleoprotein splicing factor [RNA processing and modification]
Probab=21.34 E-value=99 Score=19.25 Aligned_cols=17 Identities=12% Similarity=0.319 Sum_probs=14.0
Q ss_pred ceEEEEcCCCCeEEecH
Q 035736 5 KKITLKSSDGEAFEVDE 21 (101)
Q Consensus 5 ~~v~L~S~DG~~f~v~~ 21 (101)
+.|.+.+.||+.+.-+.
T Consensus 11 ~~V~vIt~DGr~ivgsL 27 (96)
T KOG1784|consen 11 QRVSVITNDGRVIVGSL 27 (96)
T ss_pred ceEEEEecCCeEEEEEe
Confidence 68999999999887543
No 54
>PRK11675 LexA regulated protein; Provisional
Probab=20.88 E-value=98 Score=19.15 Aligned_cols=19 Identities=5% Similarity=0.160 Sum_probs=17.0
Q ss_pred CCCHHHHHHHHHHHHhhcc
Q 035736 47 NVTSKILSKVIEYCKKHVE 65 (101)
Q Consensus 47 ~v~~~~L~kIiewc~~h~~ 65 (101)
.++....+++-+||+.|.-
T Consensus 56 Kldedl~ekL~eyAe~~ni 74 (90)
T PRK11675 56 KLNADLVDALNELAEARNI 74 (90)
T ss_pred EECHHHHHHHHHHHHHcCC
Confidence 5899999999999999854
No 55
>cd01806 Nedd8 Nebb8-like ubiquitin protein. Nedd8 (also known as Rub1) has a single conserved ubiquitin-like domain that is part of a protein modification pathway similar to that of ubiquitin. Nedd8 modifies a family of molecular scaffold proteins called cullins that are responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis.
Probab=20.74 E-value=60 Score=18.12 Aligned_cols=30 Identities=27% Similarity=0.368 Sum_probs=17.8
Q ss_pred eEEEEcCCCCeEEecHHHHHHhHHHHHHHh
Q 035736 6 KITLKSSDGEAFEVDEAVALESQTIKHMIE 35 (101)
Q Consensus 6 ~v~L~S~DG~~f~v~~~~a~~S~~i~~~l~ 35 (101)
.+++++.+|+.+.+.-....--.-|+..+.
T Consensus 2 ~i~v~~~~g~~~~~~v~~~~tv~~lK~~i~ 31 (76)
T cd01806 2 LIKVKTLTGKEIEIDIEPTDKVERIKERVE 31 (76)
T ss_pred EEEEEeCCCCEEEEEECCCCCHHHHHHHHh
Confidence 478889999988765443222334444443
No 56
>PF02084 Bindin: Bindin; InterPro: IPR000775 Bindin, the major protein component of the acrosome granule of sea urchin sperm, mediates species-specific adhesion of sperm to the egg surface during fertilisation [, ]. The protein coats the acrosomal process after externalisation by the acrosome reaction; it binds to sulphated, fucose-containing polysaccharides on the vitelline-layer receptor proteoglycans that cover the egg plasma membrane. Bindins from different genera show high levels of sequence similarity in both the mature bindin domain and in the probindin precursor region. The most highly conserved region is a 42-residue segment in the central portion of the mature bindin protein. This domain may be responsible for conserved functions of bindin, while the more highly divergent flanking regions may be responsible for its species-specific properties [].; GO: 0007342 fusion of sperm to egg plasma membrane
Probab=20.41 E-value=2.1e+02 Score=20.78 Aligned_cols=49 Identities=22% Similarity=0.323 Sum_probs=30.5
Q ss_pred cCCCCeEEecHHHHHHhHHHHHHHhhCCCCCCcccC-CC-CHHHHHHHHHHHHhhccc
Q 035736 11 SSDGEAFEVDEAVALESQTIKHMIEDDCADNGIPLP-NV-TSKILSKVIEYCKKHVEA 66 (101)
Q Consensus 11 S~DG~~f~v~~~~a~~S~~i~~~l~~~~~~~~Ipl~-~v-~~~~L~kIiewc~~h~~~ 66 (101)
|.|+..-.|+.++. .-||..|-... |-|| +| +.--|-+++..++||.+-
T Consensus 93 s~~EEetTISAKvm---~~ikavLgaTK----iDLPVDINDPYDlGLLLRhLRHHSNL 143 (238)
T PF02084_consen 93 SVDEEETTISAKVM---EDIKAVLGATK----IDLPVDINDPYDLGLLLRHLRHHSNL 143 (238)
T ss_pred cccCCCccccHHHH---HHHHHHhcccc----cccccccCChhhHHHHHHHHHHHHHH
Confidence 33555566665554 45555554322 3343 33 466799999999999874
No 57
>PF06411 HdeA: HdeA/HdeB family; InterPro: IPR010486 HNS (histone-like nucleoid structuring)-dependent expression A (HdeA) protein is a stress response protein found in highly acid resistant bacteria such as Shigella flexneri and Escherichia coli, but which is lacking in mildly acid tolerant bacteria such as Salmonella []. HdeA is one of the most abundant proteins found in the periplasmic space of E. coli, where it is one of a network of proteins that confer an acid resistance phenotype essential for the pathogenesis of enteric bacteria []. HdeA is thought to act as a chaperone, functioning to prevent the aggregation of periplasmic proteins denatured under acidic conditions. The HNS protein, a chromatin-associated protein that influences the gene expression of several environmentally-induced target genes, represses the expression of HdeA. HdeB, which is encoded within the same operon, may form heterodimers with HdeA. HdeA is a single domain protein with an overall fold that is similar to the fold of the N-terminal subdomain of the GluRS anticodon-binding domain. ; PDB: 1BG8_C 1DJ8_C 2XUV_C.
Probab=20.39 E-value=59 Score=19.69 Aligned_cols=24 Identities=29% Similarity=0.609 Sum_probs=16.4
Q ss_pred CCcccCCCCHHHHHHHHHHHHhhcc
Q 035736 41 NGIPLPNVTSKILSKVIEYCKKHVE 65 (101)
Q Consensus 41 ~~Ipl~~v~~~~L~kIiewc~~h~~ 65 (101)
..|.+..+... -.+|++||..|.+
T Consensus 65 d~vD~~~~~~~-tp~v~~~Ckk~P~ 88 (94)
T PF06411_consen 65 DYVDFDGIETV-TPKVVEYCKKNPK 88 (94)
T ss_dssp CBB-HHHHHHH-HHHHHHHHHCTTT
T ss_pred CeeeHHHHHHh-hHHHHHHHHHCcc
Confidence 34555555555 7899999998854
No 58
>PF06613 KorB_C: KorB C-terminal beta-barrel domain; InterPro: IPR010575 This domain is found in several KorB transcriptional repressor proteins. The korB gene is a major regulatory element in the replication and maintenance of broad host-range plasmid RK2. It negatively controls the replication gene trfA, the host-lethal determinants kilA and kilB, and the korA-korB operon []. This family is found in conjunction with IPR003115 from INTERPRO.; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 1IGQ_B 1IGU_A.
Probab=20.38 E-value=1.4e+02 Score=17.15 Aligned_cols=20 Identities=40% Similarity=0.456 Sum_probs=13.6
Q ss_pred CceEEEEcCC-CCeEEecHHH
Q 035736 4 SKKITLKSSD-GEAFEVDEAV 23 (101)
Q Consensus 4 ~~~v~L~S~D-G~~f~v~~~~ 23 (101)
.....|+-.| |++|+++..-
T Consensus 31 ~G~~WiKyED~G~e~E~dl~~ 51 (60)
T PF06613_consen 31 EGLAWIKYEDDGEEFEVDLGS 51 (60)
T ss_dssp TTEEEEEETTT--EEEEEGGG
T ss_pred CCeEEEEEccCCcEEEEEccc
Confidence 4578888877 9999998653
Done!