Query 048427
Match_columns 261
No_of_seqs 125 out of 1402
Neff 9.6
Searched_HMMs 46136
Date Fri Mar 29 09:25:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048427.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048427hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14227 UBN2_2: gag-polypepti 99.9 1.3E-22 2.9E-27 148.9 12.6 113 69-181 1-115 (119)
2 PF14223 UBN2: gag-polypeptide 99.9 1.7E-21 3.7E-26 143.0 12.6 112 70-181 1-117 (119)
3 PF14244 UBN2_3: gag-polypepti 99.8 2E-18 4.4E-23 131.9 9.9 122 4-126 1-140 (152)
4 PF00098 zf-CCHC: Zinc knuckle 98.7 6.4E-09 1.4E-13 48.9 1.3 18 235-252 1-18 (18)
5 PF13961 DUF4219: Domain of un 98.5 5.4E-08 1.2E-12 51.0 2.3 24 16-39 1-24 (27)
6 PF03564 DUF1759: Protein of u 98.3 2.1E-05 4.6E-10 59.4 11.3 130 16-150 1-136 (145)
7 PF13696 zf-CCHC_2: Zinc knuck 97.9 6.9E-06 1.5E-10 44.1 2.1 23 231-253 5-27 (32)
8 PF03732 Retrotrans_gag: Retro 97.8 4.7E-05 1E-09 52.9 4.9 66 76-145 29-96 (96)
9 PF13917 zf-CCHC_3: Zinc knuck 97.2 0.00016 3.6E-09 41.7 1.2 20 233-252 3-22 (42)
10 smart00343 ZnF_C2HC zinc finge 97.0 0.00029 6.4E-09 36.4 0.9 18 236-253 1-18 (26)
11 PF14787 zf-CCHC_5: GAG-polypr 96.6 0.00087 1.9E-08 36.8 0.8 19 235-253 3-21 (36)
12 PF14392 zf-CCHC_4: Zinc knuck 96.2 0.0017 3.6E-08 39.3 0.5 21 232-252 29-49 (49)
13 PF15288 zf-CCHC_6: Zinc knuck 95.9 0.0052 1.1E-07 34.9 1.6 20 235-254 2-23 (40)
14 COG5082 AIR1 Arginine methyltr 95.5 0.0067 1.5E-07 47.1 1.3 17 235-251 98-114 (190)
15 COG5082 AIR1 Arginine methyltr 95.2 0.009 1.9E-07 46.4 1.2 21 231-251 57-77 (190)
16 COG5222 Uncharacterized conser 95.2 0.019 4.1E-07 47.4 3.1 28 231-258 173-200 (427)
17 KOG0109 RNA-binding protein LA 95.1 0.0092 2E-07 49.1 1.0 23 231-253 157-179 (346)
18 PTZ00368 universal minicircle 95.0 0.014 3E-07 44.2 1.7 18 235-252 130-147 (148)
19 PTZ00368 universal minicircle 92.0 0.1 2.2E-06 39.5 1.9 20 234-253 52-71 (148)
20 KOG4400 E3 ubiquitin ligase in 89.6 0.16 3.4E-06 42.3 1.1 19 235-253 144-162 (261)
21 PF02023 SCAN: SCAN domain; I 88.3 3.2 6.8E-05 28.8 6.7 73 94-170 5-81 (95)
22 KOG0341 DEAD-box protein abstr 86.7 0.31 6.8E-06 42.3 1.1 22 232-253 568-589 (610)
23 KOG2044 5'-3' exonuclease HKE1 81.8 0.71 1.5E-05 43.6 1.3 25 231-255 257-281 (931)
24 PF12353 eIF3g: Eukaryotic tra 81.1 0.84 1.8E-05 33.6 1.3 22 231-253 103-124 (128)
25 KOG2673 Uncharacterized conser 77.8 1 2.2E-05 39.8 1.0 20 234-253 128-147 (485)
26 KOG4400 E3 ubiquitin ligase in 77.2 1.3 2.9E-05 36.8 1.4 23 233-255 163-185 (261)
27 KOG2560 RNA splicing factor - 74.2 0.76 1.7E-05 40.6 -0.7 23 231-253 109-131 (529)
28 KOG3926 F-box proteins [Amino 74.1 7 0.00015 32.5 4.7 82 18-105 167-253 (332)
29 KOG0119 Splicing factor 1/bran 74.0 1.5 3.2E-05 39.3 0.9 19 235-253 286-304 (554)
30 COG5179 TAF1 Transcription ini 70.7 2.3 5.1E-05 39.2 1.4 24 231-254 934-959 (968)
31 KOG3794 CBF1-interacting corep 66.2 2.5 5.5E-05 36.6 0.7 23 231-253 121-145 (453)
32 KOG0107 Alternative splicing f 65.1 3 6.4E-05 32.2 0.8 17 236-252 102-118 (195)
33 KOG0314 Predicted E3 ubiquitin 57.8 6.6 0.00014 35.1 1.8 24 231-254 155-178 (448)
34 PF13797 Post_transc_reg: Post 57.3 19 0.0004 24.5 3.6 61 20-103 1-62 (87)
35 PF00607 Gag_p24: gag gene pro 56.9 31 0.00068 27.6 5.4 82 71-170 107-193 (206)
36 smart00431 SCAN leucine rich r 56.6 45 0.00098 23.9 5.5 73 94-170 4-80 (113)
37 PRK09335 30S ribosomal protein 51.2 11 0.00024 25.9 1.6 13 231-243 17-29 (95)
38 PRK11582 flagella biosynthesis 50.8 72 0.0016 24.2 5.9 54 101-155 100-157 (169)
39 PF14893 PNMA: PNMA 48.6 1.8E+02 0.0039 25.2 10.6 122 20-146 181-308 (331)
40 TIGR03823 FliZ flagellar regul 47.9 77 0.0017 24.0 5.7 54 101-155 100-157 (168)
41 PF05741 zf-nanos: Nanos RNA b 46.4 7.5 0.00016 23.9 0.2 21 233-253 32-55 (55)
42 PRK11032 hypothetical protein; 45.8 1.2E+02 0.0026 23.3 6.7 27 234-260 124-155 (160)
43 PF07571 DUF1546: Protein of u 45.8 95 0.0021 21.2 6.3 52 70-121 24-75 (92)
44 PTZ00172 40S ribosomal protein 44.5 15 0.00033 25.8 1.6 13 231-243 17-29 (108)
45 KOG0119 Splicing factor 1/bran 43.9 12 0.00027 33.7 1.3 21 233-253 260-280 (554)
46 PLN00186 ribosomal protein S26 42.9 17 0.00038 25.6 1.6 13 231-243 17-29 (109)
47 PF05310 Tenui_NS3: Tenuivirus 41.6 8.7 0.00019 29.7 0.0 18 233-250 97-114 (186)
48 COG1644 RPB10 DNA-directed RNA 40.9 12 0.00025 23.5 0.5 10 234-243 4-13 (63)
49 PF02315 MDH: Methanol dehydro 40.0 15 0.00032 24.8 0.9 19 238-261 26-44 (93)
50 KOG3497 DNA-directed RNA polym 36.9 13 0.00028 23.1 0.3 9 235-243 5-13 (69)
51 COG4830 RPS26B Ribosomal prote 36.5 22 0.00047 24.6 1.3 13 231-243 17-29 (108)
52 COG4416 Com Mu-like prophage p 35.6 9.5 0.00021 23.1 -0.5 19 234-252 4-29 (60)
53 PF08891 YfcL: YfcL protein; 35.1 1.4E+02 0.0031 20.2 6.9 59 109-173 1-59 (85)
54 PHA00689 hypothetical protein 33.8 15 0.00033 21.8 0.2 14 232-245 15-28 (62)
55 PLN00032 DNA-directed RNA poly 33.1 18 0.00039 23.4 0.5 10 234-243 4-13 (71)
56 PF05634 APO_RNA-bind: APO RNA 33.0 25 0.00054 27.9 1.3 26 235-260 99-135 (204)
57 PF11848 DUF3368: Domain of un 32.6 75 0.0016 18.7 3.1 27 113-139 18-44 (48)
58 PF13821 DUF4187: Domain of un 31.8 24 0.00051 21.7 0.8 18 236-253 29-50 (55)
59 PF01194 RNA_pol_N: RNA polyme 31.7 21 0.00045 22.4 0.6 10 234-243 4-13 (60)
60 COG1198 PriA Primosomal protei 31.0 27 0.00058 33.7 1.4 23 231-253 459-481 (730)
61 KOG4602 Nanos and related prot 30.5 23 0.0005 29.1 0.8 20 234-253 268-290 (318)
62 PRK04016 DNA-directed RNA poly 30.3 21 0.00046 22.5 0.4 10 234-243 4-13 (62)
63 TIGR02606 antidote_CC2985 puta 30.1 1.1E+02 0.0024 19.6 3.8 34 142-175 5-38 (69)
64 PF07583 PSCyt2: Protein of un 30.0 1.6E+02 0.0034 23.7 5.5 54 120-174 8-68 (208)
65 COG2406 Protein distantly rela 28.6 2.6E+02 0.0056 21.1 6.2 31 115-145 65-95 (172)
66 PF07904 Eaf7: Chromatin modif 28.3 55 0.0012 22.4 2.2 20 66-85 40-59 (91)
67 PLN00111 accumulation of photo 28.2 32 0.00069 30.2 1.3 24 237-260 293-327 (399)
68 PF06689 zf-C4_ClpX: ClpX C4-t 27.8 20 0.00044 20.4 0.0 10 235-244 2-11 (41)
69 PF11248 DUF3046: Protein of u 27.5 49 0.0011 21.0 1.7 21 66-86 40-60 (63)
70 PRK09499 sifB secreted effecto 26.8 1.8E+02 0.0038 24.2 5.1 30 73-102 27-56 (316)
71 TIGR03859 PQQ_PqqD coenzyme PQ 26.7 1.1E+02 0.0023 20.3 3.4 29 57-85 31-59 (81)
72 KOG0377 Protein serine/threoni 26.4 2.3E+02 0.0051 25.6 6.2 50 70-119 567-616 (631)
73 KOG2183 Prolylcarboxypeptidase 26.1 5E+02 0.011 23.5 9.0 92 70-170 231-322 (492)
74 PRK10280 dipeptidyl carboxypep 25.7 1.9E+02 0.004 28.0 6.0 62 68-129 105-171 (681)
75 PF13395 HNH_4: HNH endonuclea 25.2 29 0.00063 21.0 0.4 7 237-243 1-7 (54)
76 KOG2985 Uncharacterized conser 25.0 21 0.00046 29.2 -0.3 23 231-253 78-100 (306)
77 PHA03230 nuclear protein UL55; 24.7 16 0.00035 28.3 -0.9 22 232-253 133-154 (180)
78 smart00647 IBR In Between Ring 24.4 39 0.00085 20.7 0.9 17 234-250 48-64 (64)
79 PF13248 zf-ribbon_3: zinc-rib 24.0 43 0.00093 16.8 0.8 7 236-242 18-24 (26)
80 PF13132 DUF3950: Domain of un 24.0 41 0.0009 17.7 0.8 11 17-27 12-23 (30)
81 PF10122 Mu-like_Com: Mu-like 23.8 38 0.00082 20.4 0.7 22 233-254 23-44 (51)
82 PRK09498 sifA secreted effecto 23.1 2.8E+02 0.0061 23.5 5.7 32 70-101 25-56 (336)
83 PF10798 YmgB: Biofilm develop 23.0 1.3E+02 0.0028 18.9 3.0 31 115-145 6-36 (61)
84 KOG4098 Molecular chaperone Pr 22.6 3.2E+02 0.007 20.2 6.1 41 111-151 26-66 (140)
85 PF09180 ProRS-C_1: Prolyl-tRN 22.4 33 0.00072 22.0 0.3 15 231-245 45-59 (68)
86 cd08767 Cdt1_c The C-terminal 21.8 2.6E+02 0.0055 20.4 4.9 45 128-172 28-73 (126)
87 PF01475 FUR: Ferric uptake re 21.5 1.7E+02 0.0036 20.7 3.9 34 68-101 22-55 (120)
88 PF03693 RHH_2: Uncharacterise 21.0 1.8E+02 0.004 19.3 3.7 30 142-171 8-37 (80)
89 PRK14063 exodeoxyribonuclease 20.8 1.9E+02 0.0041 19.0 3.6 28 105-132 3-30 (76)
90 PF08429 PLU-1: PLU-1-like pro 20.8 2.7E+02 0.0059 23.9 5.7 33 110-142 82-114 (335)
91 PF11859 DUF3379: Protein of u 20.7 1.9E+02 0.0041 23.7 4.3 36 107-142 29-65 (232)
92 PF05605 zf-Di19: Drought indu 20.2 39 0.00084 20.4 0.2 12 234-246 2-13 (54)
93 smart00583 SPK domain in SET a 20.1 3.4E+02 0.0073 19.4 6.2 68 74-141 4-75 (114)
94 PRK10911 oligopeptidase A; Pro 20.0 2.7E+02 0.0059 26.9 5.9 62 68-129 99-165 (680)
No 1
>PF14227 UBN2_2: gag-polypeptide of LTR copia-type
Probab=99.89 E-value=1.3e-22 Score=148.91 Aligned_cols=113 Identities=30% Similarity=0.431 Sum_probs=106.8
Q ss_pred cccHHHHHHHHHHhhccccHHHHHHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHhCCCCCChHHHHHHHHHhCCCchH
Q 048427 69 CDKAKDYLAAVGRTFKKIDKAEKGNYLRLLANTQYDGVSGVREHILKMTSYHKKLKEMDVDLPDDYLVFQNLESLPPQFG 148 (261)
Q Consensus 69 ~~~a~~lW~~L~~~y~~~~~~~~~~l~~~l~~~~~~~~~~v~~~~~~l~~l~~~L~~~g~~~~d~~~~~~lL~~Lp~~~~ 148 (261)
|++|+++|++|+..|+..+.+++..++++|+.+++.++.+|.+|+.+|+.++++|..+|.+++|++++.+||.+||++|+
T Consensus 1 ~~ta~~~W~~L~~~y~~~~~~~~~~l~~kl~~~k~~~~~~v~~hi~~~~~l~~~L~~~g~~i~d~~~~~~lL~sLP~sy~ 80 (119)
T PF14227_consen 1 CKTAKEMWDKLKKKYEKKSFANKIYLLRKLYSLKMDEGGSVRDHINEFRSLVNQLKSLGVPIDDEDKVIILLSSLPPSYD 80 (119)
T ss_pred CCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhHhccchhHHHHHHHHHHHHHhhccccccchHHHHHHHHHHcCCHhHH
Confidence 67999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcCC--CCCCHHHHHHHHHHHHHHhhhCC
Q 048427 149 NLRSQYNTQR--DTWNITELTAYVVQEEESLKKGK 181 (261)
Q Consensus 149 ~~~~~~~~~~--~~~t~~~l~~~l~~~e~~~~~~~ 181 (261)
+|+.++.... ..+++++|+++|..+|.+++...
T Consensus 81 ~~~~~l~~~~~~~~~tl~~v~~~L~~ee~~~~~~~ 115 (119)
T PF14227_consen 81 SFVTALLYSKPEDELTLEEVKSKLLQEEERRKKSK 115 (119)
T ss_pred HHHHHHHccCCCCCcCHHHHHHHHHHHHHHHHhcc
Confidence 9999988754 78999999999999988876553
No 2
>PF14223 UBN2: gag-polypeptide of LTR copia-type
Probab=99.87 E-value=1.7e-21 Score=143.02 Aligned_cols=112 Identities=23% Similarity=0.328 Sum_probs=106.0
Q ss_pred ccHHHHHHHHHHhhccccH---HHHHHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHhCCCCCChHHHHHHHHHhCCCc
Q 048427 70 DKAKDYLAAVGRTFKKIDK---AEKGNYLRLLANTQYDGVSGVREHILKMTSYHKKLKEMDVDLPDDYLVFQNLESLPPQ 146 (261)
Q Consensus 70 ~~a~~lW~~L~~~y~~~~~---~~~~~l~~~l~~~~~~~~~~v~~~~~~l~~l~~~L~~~g~~~~d~~~~~~lL~~Lp~~ 146 (261)
+||+++|++|+..|.+.+. +++..|..+|.++++.++.+|.+|+.+|..|+++|..+|.+++|.+++..||.|||++
T Consensus 1 ~tA~e~W~~L~~~y~~~~~~~~~~~~~L~~~l~~~k~~~~~sv~~y~~~~~~i~~~L~~~g~~i~d~~~v~~iL~~Lp~~ 80 (119)
T PF14223_consen 1 KTAKEAWDALKKRYEGQSKVKQARVQQLKSQLENLKMKDGESVDEYISRLKEIVDELRAIGKPISDEDLVSKILRSLPPS 80 (119)
T ss_pred ChHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHhhhhhhhcCCcccchhHHHHHHhcCCch
Confidence 4899999999999999999 9999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHhcCCCCC--CHHHHHHHHHHHHHHhhhCC
Q 048427 147 FGNLRSQYNTQRDTW--NITELTAYVVQEEESLKKGK 181 (261)
Q Consensus 147 ~~~~~~~~~~~~~~~--t~~~l~~~l~~~e~~~~~~~ 181 (261)
|++++..+....+.. |+++|+++|+.+|.+++...
T Consensus 81 y~~~~~~i~~~~~~~~~t~~el~~~L~~~E~~~~~~~ 117 (119)
T PF14223_consen 81 YDTFVTAIRNSKDLPKMTLEELISRLLAEEMRLKSKE 117 (119)
T ss_pred hHHHHHHHHhcCCCCcCCHHHHHHHHHHHHHHHHHcc
Confidence 999999999876655 99999999999999877553
No 3
>PF14244 UBN2_3: gag-polypeptide of LTR copia-type
Probab=99.77 E-value=2e-18 Score=131.95 Aligned_cols=122 Identities=16% Similarity=0.113 Sum_probs=99.2
Q ss_pred cccccCcccccccCCCChHHHHHHHHHHhhhcCc-ceeecc-CCCCCC----CCCChHHHHH---------hhccccCCC
Q 048427 4 SYIVTGSLTYCVAIGENFEDRRDSILFYLSTLNR-DLALRV-DEPAKP----TDKSTAVEKA---------ETTRDNIPA 68 (261)
Q Consensus 4 s~~~~~~~~i~kl~G~Ny~~Wk~~~~~~L~~~~~-~~~~~~-~~p~~~----~~~~~~~~~~---------~~i~~~i~~ 68 (261)
|.+....+.+++|||+||..|+..|+.+|..+++ +++.+. +.|... ..|...+.++ ++|+..|..
T Consensus 1 ~~~~~~~i~~~kL~g~NY~~W~~~~~~~L~~~~l~~~i~g~~~~P~~~~~~~~~W~~~d~~v~swl~~sis~~i~~~i~~ 80 (152)
T PF14244_consen 1 SDNPSQPITSIKLNGSNYLSWSQQMEMALRGKGLWGFIDGTIPKPPETDPAYEKWERKDQLVLSWLLNSISPDILSTIIF 80 (152)
T ss_pred CCCCCCcccccCCCCccHHHHHHHHHHHHHhCCCcccccCccccccccchhhhhHHHhhhHHHHHHHHhhcHHHHhhhHh
Confidence 4455666777999999999999999999999998 555553 233221 2455666555 778888899
Q ss_pred cccHHHHHHHHHHhhcccc-HHHHHHHHHHHHhcccCCCCCHHHHHHHHHHHH--HHHHhC
Q 048427 69 CDKAKDYLAAVGRTFKKID-KAEKGNYLRLLANTQYDGVSGVREHILKMTSYH--KKLKEM 126 (261)
Q Consensus 69 ~~~a~~lW~~L~~~y~~~~-~~~~~~l~~~l~~~~~~~~~~v~~~~~~l~~l~--~~L~~~ 126 (261)
+++|+++|++|+++|...+ .++.+.|..+|..++.. +.+|.+|+.+|+.++ .+|...
T Consensus 81 ~~tak~~W~~L~~~f~~~~~~~r~~~L~~~l~~~kq~-~~sv~ey~~~lk~l~~~~el~~~ 140 (152)
T PF14244_consen 81 CETAKEIWDALKERFSQKSNASRVFQLRNELHSLKQG-DKSVTEYFNKLKSLWQEDELDEY 140 (152)
T ss_pred hhhHHHHHHHHHHHhhcccHHHHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHhHHHHHhCc
Confidence 9999999999999999999 89999999999999954 677999999999999 556554
No 4
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=98.70 E-value=6.4e-09 Score=48.93 Aligned_cols=18 Identities=33% Similarity=0.541 Sum_probs=16.4
Q ss_pred ccceeccccCcccccCCC
Q 048427 235 RKCHFCKKLGHKRELNAG 252 (261)
Q Consensus 235 ~~C~~C~~~GH~~~~C~~ 252 (261)
..||+||++||++++||+
T Consensus 1 ~~C~~C~~~GH~~~~Cp~ 18 (18)
T PF00098_consen 1 RKCFNCGEPGHIARDCPK 18 (18)
T ss_dssp SBCTTTSCSSSCGCTSSS
T ss_pred CcCcCCCCcCcccccCcc
Confidence 369999999999999995
No 5
>PF13961 DUF4219: Domain of unknown function (DUF4219)
Probab=98.54 E-value=5.4e-08 Score=50.97 Aligned_cols=24 Identities=17% Similarity=0.120 Sum_probs=22.2
Q ss_pred cCCCChHHHHHHHHHHhhhcCcce
Q 048427 16 AIGENFEDRRDSILFYLSTLNRDL 39 (261)
Q Consensus 16 l~G~Ny~~Wk~~~~~~L~~~~~~~ 39 (261)
|||+||..|+.+|+++|+.+++.-
T Consensus 1 l~g~NY~~W~~~M~~~L~~~~lW~ 24 (27)
T PF13961_consen 1 LDGTNYSTWKIRMKAYLESQDLWD 24 (27)
T ss_pred CCccCHHHHHHHHHHHHHHcchhh
Confidence 799999999999999999999843
No 6
>PF03564 DUF1759: Protein of unknown function (DUF1759); InterPro: IPR005312 This is a small family of proteins of unknown function.
Probab=98.25 E-value=2.1e-05 Score=59.43 Aligned_cols=130 Identities=15% Similarity=0.153 Sum_probs=86.5
Q ss_pred cCCC--ChHHHHHHHHHHhhh-cCcceeeccCCCCCCCCCChHHHHHhhccccCCCcccHHHHHHHHHHhhccccHHHHH
Q 048427 16 AIGE--NFEDRRDSILFYLST-LNRDLALRVDEPAKPTDKSTAVEKAETTRDNIPACDKAKDYLAAVGRTFKKIDKAEKG 92 (261)
Q Consensus 16 l~G~--Ny~~Wk~~~~~~L~~-~~~~~~~~~~~p~~~~~~~~~~~~~~~i~~~i~~~~~a~~lW~~L~~~y~~~~~~~~~ 92 (261)
|+|+ +|..|.......+.. ..+.-+.-..- -.......-.+.|...-....+-..+|+.|+++|+.+... ..
T Consensus 1 F~G~~~~~~~F~~~F~~~v~~n~~~~d~~K~~~----L~~~L~G~A~~~i~~~~~~~~~Y~~a~~~L~~~yg~~~~i-~~ 75 (145)
T PF03564_consen 1 FDGDPSEWPEFIDQFDSLVHENPDLSDIEKLNY----LRSCLKGEAKELIRGLPLSEENYEEAWELLEERYGNPRRI-IQ 75 (145)
T ss_pred CCCCHHHHHHHHHHHHHHHhcccCCCHHHHHHH----HHHHhcchHHHHHHcccccchhhHHHHHHHHHHhCCchHH-HH
Confidence 6887 788888888877766 33311000000 0000000000223333334566789999999999987653 34
Q ss_pred HHHHHHHhcc---cCCCCCHHHHHHHHHHHHHHHHhCCCCCChHHHHHHHHHhCCCchHHH
Q 048427 93 NYLRLLANTQ---YDGVSGVREHILKMTSYHKKLKEMDVDLPDDYLVFQNLESLPPQFGNL 150 (261)
Q Consensus 93 ~l~~~l~~~~---~~~~~~v~~~~~~l~~l~~~L~~~g~~~~d~~~~~~lL~~Lp~~~~~~ 150 (261)
.+..+|.++. ..+...+..++.++..++..|..+|..+.+..++..|+..||+....-
T Consensus 76 ~~~~~l~~l~~~~~~d~~~L~~~~~~v~~~i~~L~~lg~~~~~~~l~~~i~~KLp~~~~~~ 136 (145)
T PF03564_consen 76 ALLEELRNLPPISNDDPEALRSLVDKVNNCIRALKALGVNVDDPLLISIILSKLPPEIREK 136 (145)
T ss_pred HHHHHHhccccccchhHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHCCHHHHHH
Confidence 5566666665 356677899999999999999999999999999999999999986543
No 7
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=97.94 E-value=6.9e-06 Score=44.13 Aligned_cols=23 Identities=22% Similarity=0.286 Sum_probs=20.1
Q ss_pred CCCCccceeccccCcccccCCCC
Q 048427 231 ESFKRKCHFCKKLGHKRELNAGD 253 (261)
Q Consensus 231 ~~~~~~C~~C~~~GH~~~~C~~~ 253 (261)
+-....|+.|+++|||..+||..
T Consensus 5 pP~~Y~C~~C~~~GH~i~dCP~~ 27 (32)
T PF13696_consen 5 PPPGYVCHRCGQKGHWIQDCPTN 27 (32)
T ss_pred CCCCCEeecCCCCCccHhHCCCC
Confidence 45567899999999999999984
No 8
>PF03732 Retrotrans_gag: Retrotransposon gag protein ; InterPro: IPR005162 Transposable elements (TEs) promote various chromosomal rearrangements more efficiently, and often more specifically, than other cellular processes. Retrotransposons are structurally similar to retroviruses and are bounded by long terminal repeats. This entry represents eukaryotic Gag or capsid-related retrotranspon-related proteins. There is a central motif QGXXEXXXXXFXXLXXH that is common to Retroviridae gag-proteins, but is poorly conserved.
Probab=97.78 E-value=4.7e-05 Score=52.90 Aligned_cols=66 Identities=18% Similarity=0.234 Sum_probs=51.9
Q ss_pred HHHHHHhhccccH--HHHHHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHhCCCCCChHHHHHHHHHhCCC
Q 048427 76 LAAVGRTFKKIDK--AEKGNYLRLLANTQYDGVSGVREHILKMTSYHKKLKEMDVDLPDDYLVFQNLESLPP 145 (261)
Q Consensus 76 W~~L~~~y~~~~~--~~~~~l~~~l~~~~~~~~~~v~~~~~~l~~l~~~L~~~g~~~~d~~~~~~lL~~Lp~ 145 (261)
|+.|+..|...-. .....+..+|.++++ ++.+|.+|+.+|..++..+.. +++|+.++..|+.||.+
T Consensus 29 W~~~~~~~~~~f~~~~~~~~~~~~l~~l~Q-~~esv~~y~~rf~~l~~~~~~---~~~e~~~v~~f~~GL~~ 96 (96)
T PF03732_consen 29 WEEFKDAFRKRFFPPDRKEQARQELNSLRQ-GNESVREYVNRFRELARRAPP---PMDEEMLVERFIRGLRP 96 (96)
T ss_pred HHHHHHHHHHHHhhhhccccchhhhhhhhc-cCCcHHHHHHHHHHHHHHCCC---CcCHHHHHHHHHHCCCC
Confidence 5555444443322 256678888999999 899999999999999998754 78999999999999965
No 9
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=97.19 E-value=0.00016 Score=41.71 Aligned_cols=20 Identities=20% Similarity=0.378 Sum_probs=17.5
Q ss_pred CCccceeccccCcccccCCC
Q 048427 233 FKRKCHFCKKLGHKRELNAG 252 (261)
Q Consensus 233 ~~~~C~~C~~~GH~~~~C~~ 252 (261)
....|.+|++.|||..+|+.
T Consensus 3 ~~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 3 ARVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCCcCcccCCCCcchhhCCC
Confidence 34679999999999999993
No 10
>smart00343 ZnF_C2HC zinc finger.
Probab=96.99 E-value=0.00029 Score=36.45 Aligned_cols=18 Identities=33% Similarity=0.453 Sum_probs=16.2
Q ss_pred cceeccccCcccccCCCC
Q 048427 236 KCHFCKKLGHKRELNAGD 253 (261)
Q Consensus 236 ~C~~C~~~GH~~~~C~~~ 253 (261)
.|++|++.||++++|+..
T Consensus 1 ~C~~CG~~GH~~~~C~~~ 18 (26)
T smart00343 1 KCYNCGKEGHIARDCPKX 18 (26)
T ss_pred CCccCCCCCcchhhCCcc
Confidence 499999999999999854
No 11
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=96.58 E-value=0.00087 Score=36.78 Aligned_cols=19 Identities=21% Similarity=0.106 Sum_probs=12.3
Q ss_pred ccceeccccCcccccCCCC
Q 048427 235 RKCHFCKKLGHKRELNAGD 253 (261)
Q Consensus 235 ~~C~~C~~~GH~~~~C~~~ 253 (261)
..|+.|++-.||+.+|+.+
T Consensus 3 ~~CprC~kg~Hwa~~C~sk 21 (36)
T PF14787_consen 3 GLCPRCGKGFHWASECRSK 21 (36)
T ss_dssp -C-TTTSSSCS-TTT---T
T ss_pred ccCcccCCCcchhhhhhhh
Confidence 4699999999999999877
No 12
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=96.19 E-value=0.0017 Score=39.27 Aligned_cols=21 Identities=24% Similarity=0.604 Sum_probs=17.9
Q ss_pred CCCccceeccccCcccccCCC
Q 048427 232 SFKRKCHFCKKLGHKRELNAG 252 (261)
Q Consensus 232 ~~~~~C~~C~~~GH~~~~C~~ 252 (261)
+-...|++||..||...+||+
T Consensus 29 ~lp~~C~~C~~~gH~~~~C~k 49 (49)
T PF14392_consen 29 RLPRFCFHCGRIGHSDKECPK 49 (49)
T ss_pred CcChhhcCCCCcCcCHhHcCC
Confidence 344579999999999999985
No 13
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=95.89 E-value=0.0052 Score=34.87 Aligned_cols=20 Identities=30% Similarity=0.491 Sum_probs=17.6
Q ss_pred ccceeccccCccc--ccCCCCc
Q 048427 235 RKCHFCKKLGHKR--ELNAGDS 254 (261)
Q Consensus 235 ~~C~~C~~~GH~~--~~C~~~~ 254 (261)
++|..||..||.+ +.||-+.
T Consensus 2 ~kC~~CG~~GH~~t~k~CP~~~ 23 (40)
T PF15288_consen 2 VKCKNCGAFGHMRTNKRCPMYC 23 (40)
T ss_pred ccccccccccccccCccCCCCC
Confidence 5799999999999 7899873
No 14
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=95.47 E-value=0.0067 Score=47.05 Aligned_cols=17 Identities=29% Similarity=0.530 Sum_probs=13.5
Q ss_pred ccceeccccCcccccCC
Q 048427 235 RKCHFCKKLGHKRELNA 251 (261)
Q Consensus 235 ~~C~~C~~~GH~~~~C~ 251 (261)
.+|++||..||++++|.
T Consensus 98 ~~C~~Cg~~GH~~~dC~ 114 (190)
T COG5082 98 KKCYNCGETGHLSRDCN 114 (190)
T ss_pred cccccccccCccccccC
Confidence 67888888888888884
No 15
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=95.17 E-value=0.009 Score=46.37 Aligned_cols=21 Identities=24% Similarity=0.354 Sum_probs=18.8
Q ss_pred CCCCccceeccccCcccccCC
Q 048427 231 ESFKRKCHFCKKLGHKRELNA 251 (261)
Q Consensus 231 ~~~~~~C~~C~~~GH~~~~C~ 251 (261)
......||+||..||.++|||
T Consensus 57 ~~~~~~C~nCg~~GH~~~DCP 77 (190)
T COG5082 57 REENPVCFNCGQNGHLRRDCP 77 (190)
T ss_pred cccccccchhcccCcccccCC
Confidence 456678999999999999999
No 16
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=95.16 E-value=0.019 Score=47.41 Aligned_cols=28 Identities=14% Similarity=0.192 Sum_probs=22.9
Q ss_pred CCCCccceeccccCcccccCCCCccccc
Q 048427 231 ESFKRKCHFCKKLGHKRELNAGDSKHGW 258 (261)
Q Consensus 231 ~~~~~~C~~C~~~GH~~~~C~~~~~~~~ 258 (261)
+.....||.||..|||..+||.-+-+.|
T Consensus 173 pPpgY~CyRCGqkgHwIqnCpTN~Dpnf 200 (427)
T COG5222 173 PPPGYVCYRCGQKGHWIQNCPTNQDPNF 200 (427)
T ss_pred CCCceeEEecCCCCchhhcCCCCCCCCc
Confidence 4556789999999999999998755544
No 17
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=95.05 E-value=0.0092 Score=49.15 Aligned_cols=23 Identities=26% Similarity=0.266 Sum_probs=19.6
Q ss_pred CCCCccceeccccCcccccCCCC
Q 048427 231 ESFKRKCHFCKKLGHKRELNAGD 253 (261)
Q Consensus 231 ~~~~~~C~~C~~~GH~~~~C~~~ 253 (261)
-...-.|+.||+.|||.++||..
T Consensus 157 mgDq~~cyrcGkeghwskEcP~~ 179 (346)
T KOG0109|consen 157 MGDQSGCYRCGKEGHWSKECPVD 179 (346)
T ss_pred CCCHHHheeccccccccccCCcc
Confidence 34455799999999999999987
No 18
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=94.95 E-value=0.014 Score=44.23 Aligned_cols=18 Identities=22% Similarity=0.462 Sum_probs=10.2
Q ss_pred ccceeccccCcccccCCC
Q 048427 235 RKCHFCKKLGHKRELNAG 252 (261)
Q Consensus 235 ~~C~~C~~~GH~~~~C~~ 252 (261)
..|++|+..||++++||+
T Consensus 130 ~~C~~Cg~~gH~~~dCp~ 147 (148)
T PTZ00368 130 KTCYNCGQTGHLSRDCPD 147 (148)
T ss_pred CccccCCCcCcccccCCC
Confidence 455555555555555554
No 19
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=91.97 E-value=0.1 Score=39.48 Aligned_cols=20 Identities=30% Similarity=0.498 Sum_probs=16.2
Q ss_pred CccceeccccCcccccCCCC
Q 048427 234 KRKCHFCKKLGHKRELNAGD 253 (261)
Q Consensus 234 ~~~C~~C~~~GH~~~~C~~~ 253 (261)
...|++|+..||++++||..
T Consensus 52 ~~~C~~Cg~~GH~~~~Cp~~ 71 (148)
T PTZ00368 52 ERSCYNCGKTGHLSRECPEA 71 (148)
T ss_pred CcccCCCCCcCcCcccCCCc
Confidence 45788888888888888876
No 20
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=89.58 E-value=0.16 Score=42.32 Aligned_cols=19 Identities=26% Similarity=0.492 Sum_probs=17.5
Q ss_pred ccceeccccCcccccCCCC
Q 048427 235 RKCHFCKKLGHKRELNAGD 253 (261)
Q Consensus 235 ~~C~~C~~~GH~~~~C~~~ 253 (261)
..||.||..||+..+|+..
T Consensus 144 ~~Cy~Cg~~GH~s~~C~~~ 162 (261)
T KOG4400|consen 144 AKCYSCGEQGHISDDCPEN 162 (261)
T ss_pred CccCCCCcCCcchhhCCCC
Confidence 7899999999999999954
No 21
>PF02023 SCAN: SCAN domain; InterPro: IPR003309 A number of C2H2-zinc finger proteins contain a highly conserved N-terminal motif termed the SCAN domain. The SCAN domain may play an important role in the assembly and function of this newly defined subclass of transcriptional regulators [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3LHR_B 4E6S_A 2FI2_A 1Y7Q_A.
Probab=88.31 E-value=3.2 Score=28.80 Aligned_cols=73 Identities=21% Similarity=0.293 Sum_probs=51.9
Q ss_pred HHHHHHhcccCCCCCHHHHHHHHHHHHHHHHhCCC----CCChHHHHHHHHHhCCCchHHHHHHHhcCCCCCCHHHHHHH
Q 048427 94 YLRLLANTQYDGVSGVREHILKMTSYHKKLKEMDV----DLPDDYLVFQNLESLPPQFGNLRSQYNTQRDTWNITELTAY 169 (261)
Q Consensus 94 l~~~l~~~~~~~~~~v~~~~~~l~~l~~~L~~~g~----~~~d~~~~~~lL~~Lp~~~~~~~~~~~~~~~~~t~~~l~~~ 169 (261)
...+|.++++.++.+..+++.+|..++.+=-.... .|-|-+++..||..||++....+.. ..+-|.+++...
T Consensus 5 ~r~~FR~~~~~~~~~p~e~~~rL~~l~~~WL~pe~~tkeqi~ellvlEQFL~~lP~e~~~wV~e----~~p~s~~ea~~L 80 (95)
T PF02023_consen 5 YRQRFRSFQYQEGEGPREFLSRLRELCDRWLQPEVHTKEQILELLVLEQFLNILPPEVQTWVRE----RKPESAEEAVAL 80 (95)
T ss_dssp HHHHHHT--CCTTTSHHHHHHHHHHHHHHHH-TTTS-HHHHHHHHHHHHHHHHS-HHHHHHHHT----CS-SSHHHHHHH
T ss_pred HHHHHhCCCCCCCCCHHHHHHHHHHHHHHhCccccCcHHHHHHHHHHHHHHHHCCHHHHHHHHh----cCCCCHHHHHHH
Confidence 45679999999999999999999999987644333 2446678889999999988776653 234477777776
Q ss_pred H
Q 048427 170 V 170 (261)
Q Consensus 170 l 170 (261)
+
T Consensus 81 a 81 (95)
T PF02023_consen 81 A 81 (95)
T ss_dssp H
T ss_pred H
Confidence 6
No 22
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=86.69 E-value=0.31 Score=42.34 Aligned_cols=22 Identities=23% Similarity=0.445 Sum_probs=19.3
Q ss_pred CCCccceeccccCcccccCCCC
Q 048427 232 SFKRKCHFCKKLGHKRELNAGD 253 (261)
Q Consensus 232 ~~~~~C~~C~~~GH~~~~C~~~ 253 (261)
.....|.|||..||...+||+.
T Consensus 568 ~~~kGCayCgGLGHRItdCPKl 589 (610)
T KOG0341|consen 568 GGEKGCAYCGGLGHRITDCPKL 589 (610)
T ss_pred CCccccccccCCCcccccCchh
Confidence 3445799999999999999998
No 23
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=81.82 E-value=0.71 Score=43.58 Aligned_cols=25 Identities=24% Similarity=0.623 Sum_probs=20.6
Q ss_pred CCCCccceeccccCcccccCCCCcc
Q 048427 231 ESFKRKCHFCKKLGHKRELNAGDSK 255 (261)
Q Consensus 231 ~~~~~~C~~C~~~GH~~~~C~~~~~ 255 (261)
+.+..+|+.||..||.+++|.-+.+
T Consensus 257 P~~~~~C~~cgq~gh~~~dc~g~~~ 281 (931)
T KOG2044|consen 257 PNKPRRCFLCGQTGHEAKDCEGKPR 281 (931)
T ss_pred CCCcccchhhcccCCcHhhcCCcCC
Confidence 4556679999999999999987733
No 24
>PF12353 eIF3g: Eukaryotic translation initiation factor 3 subunit G ; InterPro: IPR024675 At least eleven different protein factors are involved in initiation of protein synthesis in eukaryotes. Binding of initiator tRNA and mRNA to the 40S subunit requires the presence of the translation initiation factors eIF-2 and eIF-3, with eIF-3 being particularly important for 80S ribosome dissociation and mRNA binding []. eIF-3 is the most complex translation inititation factor, consisting of about 13 putative subunits and having a molecular weight of between 550 - 700 kDa in mammalian cells. Subunits are designated eIF-3a - eIF-3m; the large number of subunits means that the interactions between the individual subunits that make up the eIF-3 complex are complex and varied. Subunit G is required for eIF3 integrity. This entry represents a domain of approximately 130 amino acids in length found at the N terminus of eukaryotic translation initiation factor 3 subunit G. This domain is commonly found in association with the RNA recognition domain PF00076 from PFAM.
Probab=81.09 E-value=0.84 Score=33.56 Aligned_cols=22 Identities=27% Similarity=0.302 Sum_probs=19.3
Q ss_pred CCCCccceeccccCcccccCCCC
Q 048427 231 ESFKRKCHFCKKLGHKRELNAGD 253 (261)
Q Consensus 231 ~~~~~~C~~C~~~GH~~~~C~~~ 253 (261)
....+.|.+|+ -.||...||-+
T Consensus 103 ~~~~v~CR~Ck-GdH~T~~CPyK 124 (128)
T PF12353_consen 103 GKSKVKCRICK-GDHWTSKCPYK 124 (128)
T ss_pred CCceEEeCCCC-CCcccccCCcc
Confidence 56778999997 68999999976
No 25
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=77.79 E-value=1 Score=39.76 Aligned_cols=20 Identities=15% Similarity=0.137 Sum_probs=17.7
Q ss_pred CccceeccccCcccccCCCC
Q 048427 234 KRKCHFCKKLGHKRELNAGD 253 (261)
Q Consensus 234 ~~~C~~C~~~GH~~~~C~~~ 253 (261)
...||+|+..-|.-++||+.
T Consensus 128 ~~~CFNC~g~~hsLrdC~rp 147 (485)
T KOG2673|consen 128 CDPCFNCGGTPHSLRDCPRP 147 (485)
T ss_pred CccccccCCCCCccccCCCc
Confidence 34499999999999999987
No 26
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=77.16 E-value=1.3 Score=36.81 Aligned_cols=23 Identities=26% Similarity=0.418 Sum_probs=20.5
Q ss_pred CCccceeccccCcccccCCCCcc
Q 048427 233 FKRKCHFCKKLGHKRELNAGDSK 255 (261)
Q Consensus 233 ~~~~C~~C~~~GH~~~~C~~~~~ 255 (261)
..+.|+.|++.||..++||...+
T Consensus 163 ~~~~c~~c~~~~h~~~~C~~~~~ 185 (261)
T KOG4400|consen 163 KGGTCFRCGKVGHGSRDCPSKQK 185 (261)
T ss_pred CCCccccCCCcceecccCCcccc
Confidence 47899999999999999998854
No 27
>KOG2560 consensus RNA splicing factor - Slu7p [RNA processing and modification]
Probab=74.23 E-value=0.76 Score=40.56 Aligned_cols=23 Identities=22% Similarity=0.280 Sum_probs=19.8
Q ss_pred CCCCccceeccccCcccccCCCC
Q 048427 231 ESFKRKCHFCKKLGHKRELNAGD 253 (261)
Q Consensus 231 ~~~~~~C~~C~~~GH~~~~C~~~ 253 (261)
.-..+-|-+||..||..++|..+
T Consensus 109 kyRKGACeNCGAmtHk~KDCmER 131 (529)
T KOG2560|consen 109 KYRKGACENCGAMTHKVKDCMER 131 (529)
T ss_pred HHhhhhhhhhhhhhcchHHHhhc
Confidence 34567899999999999999877
No 28
>KOG3926 consensus F-box proteins [Amino acid transport and metabolism]
Probab=74.15 E-value=7 Score=32.45 Aligned_cols=82 Identities=9% Similarity=0.065 Sum_probs=51.8
Q ss_pred CCChHHHHHHHHHHhhhcCc--ceeeccCCCCCCCCCChHHHHHhhccccCCC---cccHHHHHHHHHHhhccccHHHHH
Q 048427 18 GENFEDRRDSILFYLSTLNR--DLALRVDEPAKPTDKSTAVEKAETTRDNIPA---CDKAKDYLAAVGRTFKKIDKAEKG 92 (261)
Q Consensus 18 G~Ny~~Wk~~~~~~L~~~~~--~~~~~~~~p~~~~~~~~~~~~~~~i~~~i~~---~~~a~~lW~~L~~~y~~~~~~~~~ 92 (261)
++|-..|+.+|+..|.-+.. ..-++++.|..++--....+.+..|+..+++ ..++.++|++|..+-+ -.
T Consensus 167 vsn~~~w~~~m~til~~qqv~~~iqi~~~~~~~ltl~dLP~e~vl~Il~rlsDh~dL~s~aqa~etl~~l~~------e~ 240 (332)
T KOG3926|consen 167 VSNINLWKERMETILRWQQVLSQIQITEPDPAGLTLHDLPLECVLNILLRLSDHRDLESLAQAWETLAKLSE------ER 240 (332)
T ss_pred cchHHHHHHHHHHHHHHHHHHHhhcccCCCcCCCCcccchHHHHHHHHHHccCcchHHHHHHhhHHHHHHHH------HH
Confidence 56888999999999987765 2333344554444333344445556555553 4678888888877653 34
Q ss_pred HHHHHHHhcccCC
Q 048427 93 NYLRLLANTQYDG 105 (261)
Q Consensus 93 ~l~~~l~~~~~~~ 105 (261)
.++++|..+.+.+
T Consensus 241 ~iWkkLcqfHF~e 253 (332)
T KOG3926|consen 241 RIWKKLCQFHFNE 253 (332)
T ss_pred HHHHHHHHHHhhH
Confidence 5666666665544
No 29
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=74.05 E-value=1.5 Score=39.26 Aligned_cols=19 Identities=26% Similarity=0.454 Sum_probs=17.3
Q ss_pred ccceeccccCcccccCCCC
Q 048427 235 RKCHFCKKLGHKRELNAGD 253 (261)
Q Consensus 235 ~~C~~C~~~GH~~~~C~~~ 253 (261)
..|++||-.||+..+|.-.
T Consensus 286 n~c~~cg~~gH~~~dc~~~ 304 (554)
T KOG0119|consen 286 NVCKICGPLGHISIDCKVN 304 (554)
T ss_pred ccccccCCcccccccCCCc
Confidence 3899999999999999866
No 30
>COG5179 TAF1 Transcription initiation factor TFIID, subunit TAF1 [Transcription]
Probab=70.66 E-value=2.3 Score=39.20 Aligned_cols=24 Identities=25% Similarity=0.462 Sum_probs=19.2
Q ss_pred CCCCccceeccccCcccc--cCCCCc
Q 048427 231 ESFKRKCHFCKKLGHKRE--LNAGDS 254 (261)
Q Consensus 231 ~~~~~~C~~C~~~GH~~~--~C~~~~ 254 (261)
.....+|-+||..||++. -||...
T Consensus 934 K~Ttr~C~nCGQvGHmkTNK~CP~f~ 959 (968)
T COG5179 934 KNTTRTCGNCGQVGHMKTNKACPKFS 959 (968)
T ss_pred CCcceecccccccccccccccCcccc
Confidence 445678999999999875 599874
No 31
>KOG3794 consensus CBF1-interacting corepressor CIR and related proteins [Transcription]
Probab=66.20 E-value=2.5 Score=36.63 Aligned_cols=23 Identities=22% Similarity=0.261 Sum_probs=18.7
Q ss_pred CCCCccceeccccCccc--ccCCCC
Q 048427 231 ESFKRKCHFCKKLGHKR--ELNAGD 253 (261)
Q Consensus 231 ~~~~~~C~~C~~~GH~~--~~C~~~ 253 (261)
.-..++|+.|++.||+. ++||-.
T Consensus 121 qVRNVrC~kChkwGH~n~DreCplf 145 (453)
T KOG3794|consen 121 QVRNVRCLKCHKWGHINTDRECPLF 145 (453)
T ss_pred EeeeeeEEeecccccccCCccCcch
Confidence 34568999999999985 679865
No 32
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=65.10 E-value=3 Score=32.23 Aligned_cols=17 Identities=24% Similarity=0.335 Sum_probs=15.5
Q ss_pred cceeccccCcccccCCC
Q 048427 236 KCHFCKKLGHKRELNAG 252 (261)
Q Consensus 236 ~C~~C~~~GH~~~~C~~ 252 (261)
.|++||..||+.++|..
T Consensus 102 ~~~r~G~rg~~~r~~~~ 118 (195)
T KOG0107|consen 102 FCYRCGERGHIGRNCKD 118 (195)
T ss_pred ccccCCCcccccccccc
Confidence 39999999999999976
No 33
>KOG0314 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=57.81 E-value=6.6 Score=35.11 Aligned_cols=24 Identities=21% Similarity=0.124 Sum_probs=21.4
Q ss_pred CCCCccceeccccCcccccCCCCc
Q 048427 231 ESFKRKCHFCKKLGHKRELNAGDS 254 (261)
Q Consensus 231 ~~~~~~C~~C~~~GH~~~~C~~~~ 254 (261)
+-....|..|+.+|||...||.-+
T Consensus 155 Pppsy~c~rc~~~g~wikacptv~ 178 (448)
T KOG0314|consen 155 PPPSYKCVKCPTPGPWIKACPTVS 178 (448)
T ss_pred CCCCcceecCCCCCccceeccccC
Confidence 667789999999999999999874
No 34
>PF13797 Post_transc_reg: Post-transcriptional regulator
Probab=57.34 E-value=19 Score=24.53 Aligned_cols=61 Identities=8% Similarity=0.060 Sum_probs=39.7
Q ss_pred ChHHHHHHHHHHhhhcCcceeeccCCCCCCCCCChHHHHHhhccccCCCcccHHHHHHHHHHhhcccc-HHHHHHHHHHH
Q 048427 20 NFEDRRDSILFYLSTLNRDLALRVDEPAKPTDKSTAVEKAETTRDNIPACDKAKDYLAAVGRTFKKID-KAEKGNYLRLL 98 (261)
Q Consensus 20 Ny~~Wk~~~~~~L~~~~~~~~~~~~~p~~~~~~~~~~~~~~~i~~~i~~~~~a~~lW~~L~~~y~~~~-~~~~~~l~~~l 98 (261)
||..|...++.+|..+--++.+. + -..-|..+||+.|...+=... ..+...+...+
T Consensus 1 ~~~~~~~~v~p~l~sK~eEf~~l-G----------------------Y~~vt~~dlw~yl~~~~WK~~~~~~l~e~V~DI 57 (87)
T PF13797_consen 1 QYDEWREQVEPALQSKAEEFHLL-G----------------------YESVTEEDLWSYLTEKKWKKKKPPRLHELVNDI 57 (87)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHh-C----------------------cCcCCHHHHHHHHHHHHhccCCCcCHHHHHHHH
Confidence 57888998888887642111110 0 023567899999988765443 45777788888
Q ss_pred Hhccc
Q 048427 99 ANTQY 103 (261)
Q Consensus 99 ~~~~~ 103 (261)
++++.
T Consensus 58 lsl~~ 62 (87)
T PF13797_consen 58 LSLKP 62 (87)
T ss_pred HcCCH
Confidence 87663
No 35
>PF00607 Gag_p24: gag gene protein p24 (core nucleocapsid protein); InterPro: IPR000721 The Gag protein from retroviruses, also known as p24, forms the inner protein layer of the nucleocapsid. This protein performs highly complex orchestrated tasks during the assembly, budding, maturation and infection stages of the viral replication cycle. During viral assembly, the proteins form membrane associations and self-associations that ultimately result in budding of an immature virion from the infected cell. Gag precursors also function during viral assembly to selectively bind and package two plus strands of genomic RNA. ELISA tests for p24 is the most commonly used method to demonstrate virus replication both in vivo and in vitro.; GO: 0016032 viral reproduction; PDB: 1BMX_A 1SJH_C 1SJE_C 1U57_A 1FGL_B 1G03_A 2XT1_A 2JO0_A 2L6E_A 2HJL_C ....
Probab=56.92 E-value=31 Score=27.57 Aligned_cols=82 Identities=6% Similarity=-0.014 Sum_probs=50.8
Q ss_pred cHHHHHHHHHHhhccccHHHHHHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHhCCCCCChHHHHHHHHHhC-----CC
Q 048427 71 KAKDYLAAVGRTFKKIDKAEKGNYLRLLANTQYDGVSGVREHILKMTSYHKKLKEMDVDLPDDYLVFQNLESL-----PP 145 (261)
Q Consensus 71 ~a~~lW~~L~~~y~~~~~~~~~~l~~~l~~~~~~~~~~v~~~~~~l~~l~~~L~~~g~~~~d~~~~~~lL~~L-----p~ 145 (261)
-+-..|..|...+..... |..+++...+++.+|+++|...+. ..+.+......++..| .+
T Consensus 107 ~ai~Aw~~l~~~~~~~~~---------~~~I~QGp~Epf~dFv~rl~~a~~------~~~~~~~~~~~~~~~L~~eNAN~ 171 (206)
T PF00607_consen 107 WAIKAWRKLPRKGSPGES---------FTKIKQGPKEPFADFVDRLQKAIR------REQGENEVKNILIRQLAYENANP 171 (206)
T ss_dssp HHHHHHHHHHHHHSSSST---------GGGH-S-TTSHHHHHHHHHHHHHH------CSSSTHHHHHHHHHHHHHHTS-H
T ss_pred HHHHhhhccccccccccc---------HHHhhhccccchHHHHHHHHHHHh------hcccccchhhHHHHHhhhccchH
Confidence 456789999888887754 677889999999999999987655 3445555555555554 22
Q ss_pred chHHHHHHHhcCCCCCCHHHHHHHH
Q 048427 146 QFGNLRSQYNTQRDTWNITELTAYV 170 (261)
Q Consensus 146 ~~~~~~~~~~~~~~~~t~~~l~~~l 170 (261)
.=. ..+......-+++|.+...
T Consensus 172 ~C~---~~~~~l~~~~~lee~~~~C 193 (206)
T PF00607_consen 172 DCR---RIIRPLGKDAPLEEMIRAC 193 (206)
T ss_dssp HHH---HHHHHH-TTSTHHHHHHHT
T ss_pred HHH---HHHHccCCCCCHHHHHHHh
Confidence 222 2222223444776666554
No 36
>smart00431 SCAN leucine rich region.
Probab=56.59 E-value=45 Score=23.89 Aligned_cols=73 Identities=14% Similarity=0.182 Sum_probs=51.0
Q ss_pred HHHHHHhcccCCCCCHHHHHHHHHHHHHHHHhC----CCCCChHHHHHHHHHhCCCchHHHHHHHhcCCCCCCHHHHHHH
Q 048427 94 YLRLLANTQYDGVSGVREHILKMTSYHKKLKEM----DVDLPDDYLVFQNLESLPPQFGNLRSQYNTQRDTWNITELTAY 169 (261)
Q Consensus 94 l~~~l~~~~~~~~~~v~~~~~~l~~l~~~L~~~----g~~~~d~~~~~~lL~~Lp~~~~~~~~~~~~~~~~~t~~~l~~~ 169 (261)
....|.++.+.+..+..+.+.+++.|+.+=-.. ...+-+-.....||.-||.++...+.. ...-+-+++...
T Consensus 4 ~r~~FR~f~y~e~~gp~eaL~~L~eLc~~WLrPe~~tKeqilElLVlEQFL~ilP~e~q~wv~~----~~p~sgeeav~l 79 (113)
T smart00431 4 FRQRFRQFRYQETSGPREALSRLRELCRQWLRPELHTKEQILELLVLEQFLTILPGELQAWVRE----HHPESGEEAVTL 79 (113)
T ss_pred HHHHhhccccCCCCChHHHHHHHHHHHHhhcChhhhhHHHHHHHHHHHHHhccCcHHHHHHHHh----cCCCCHHHHHHH
Confidence 356788899999999999999998887764221 112345556777888899988776542 233377777777
Q ss_pred H
Q 048427 170 V 170 (261)
Q Consensus 170 l 170 (261)
+
T Consensus 80 ~ 80 (113)
T smart00431 80 L 80 (113)
T ss_pred H
Confidence 6
No 37
>PRK09335 30S ribosomal protein S26e; Provisional
Probab=51.19 E-value=11 Score=25.95 Aligned_cols=13 Identities=15% Similarity=0.291 Sum_probs=9.9
Q ss_pred CCCCccceecccc
Q 048427 231 ESFKRKCHFCKKL 243 (261)
Q Consensus 231 ~~~~~~C~~C~~~ 243 (261)
-...+.|.+||+-
T Consensus 17 hv~~V~C~nCgr~ 29 (95)
T PRK09335 17 HVGYVQCDNCGRR 29 (95)
T ss_pred CCccEEeCCCCCc
Confidence 4566889999973
No 38
>PRK11582 flagella biosynthesis protein FliZ; Provisional
Probab=50.78 E-value=72 Score=24.23 Aligned_cols=54 Identities=24% Similarity=0.340 Sum_probs=38.2
Q ss_pred cccCCCCCHHHHHHHHHHHHHHHHhCCCC---CChHHHHHHHHHhCCCc-hHHHHHHHh
Q 048427 101 TQYDGVSGVREHILKMTSYHKKLKEMDVD---LPDDYLVFQNLESLPPQ-FGNLRSQYN 155 (261)
Q Consensus 101 ~~~~~~~~v~~~~~~l~~l~~~L~~~g~~---~~d~~~~~~lL~~Lp~~-~~~~~~~~~ 155 (261)
..|..+ +|.||+-+++.|=+-|.+-.++ +.+..+-..+...||.. +.++..++.
T Consensus 100 TeMshS-TvrEYVVRLRRLd~lL~~~n~p~~~~~~~~~~~~~~~~Lp~~~~nNyriALR 157 (169)
T PRK11582 100 TEMSHS-TVREYVVRLRRLDEHLHEQNIPLDLLQDGFLDERLAPWLPDTSTNNYRIALR 157 (169)
T ss_pred cccccc-cHHHHHHHHHHHHHHHhhccCCHHHhcchhHHHHHHhhcchhhhhHHHHHHH
Confidence 344444 5999999999998888877665 44556677778888874 555555543
No 39
>PF14893 PNMA: PNMA
Probab=48.59 E-value=1.8e+02 Score=25.22 Aligned_cols=122 Identities=14% Similarity=0.120 Sum_probs=73.3
Q ss_pred ChHHHHHHHHHHhhhcCcceeeccCCCCCCCCCChHHHHHhhccccC--CCcccHHHHHHHHHHhhccccHHHHHHHHHH
Q 048427 20 NFEDRRDSILFYLSTLNRDLALRVDEPAKPTDKSTAVEKAETTRDNI--PACDKAKDYLAAVGRTFKKIDKAEKGNYLRL 97 (261)
Q Consensus 20 Ny~~Wk~~~~~~L~~~~~~~~~~~~~p~~~~~~~~~~~~~~~i~~~i--~~~~~a~~lW~~L~~~y~~~~~~~~~~l~~~ 97 (261)
.|..|.......+.. +..+-..+.+..+.+. ......+.+.... ....++.+.-++|...|+.+.. ...+.-+
T Consensus 181 ~fe~Wl~~a~~~v~~--W~~~~e~ekrrrlle~-L~GpA~~~~r~l~~~nP~~t~~~~l~aL~~~Fg~~es--~~~~~~k 255 (331)
T PF14893_consen 181 SFESWLEHANEMVKK--WNDVSEEEKRRRLLES-LRGPALDSRRKLQKKNPKQTAQDCLKALGQVFGSSES--RETLEAK 255 (331)
T ss_pred cHHHHHHHHHHHHHh--ccCCchhhchhhhHHh-cccHHHHHHHHHHhcCCCCCHHHHHHHHHHhcCCccc--HHHHHHH
Confidence 799999888877665 2111112222221110 0000001111111 2356788999999999987664 6778888
Q ss_pred HHhcccCCCCCHHHHHHHHHHHHHHHHhCC-CC--CChHHHHHHHH-HhCCCc
Q 048427 98 LANTQYDGVSGVREHILKMTSYHKKLKEMD-VD--LPDDYLVFQNL-ESLPPQ 146 (261)
Q Consensus 98 l~~~~~~~~~~v~~~~~~l~~l~~~L~~~g-~~--~~d~~~~~~lL-~~Lp~~ 146 (261)
|.++.+..+..+.+|+.++..+..+.-..+ +. -.|......++ .+++.+
T Consensus 256 f~~~~Q~~~E~ls~yv~RlE~lLqkav~k~a~~p~~adq~rl~q~l~~a~~~e 308 (331)
T PF14893_consen 256 FLNTFQEPGEKLSAYVKRLESLLQKAVEKGAIKPSEADQVRLRQVLSGAVLSE 308 (331)
T ss_pred HHHhhccCCCCHHHHHHHHHHHHHHHHHhcCCCccccCHHHHHHHHccCCCCH
Confidence 999999999999999999999999864332 22 23455444444 334443
No 40
>TIGR03823 FliZ flagellar regulatory protein FliZ. FliZ is involved in the regulation of flagellar assembly and possibly also the down-regulation of the motile phenotype. FliZ interacts with the flagellar translational activator FlhCD complex.
Probab=47.92 E-value=77 Score=24.04 Aligned_cols=54 Identities=20% Similarity=0.284 Sum_probs=37.9
Q ss_pred cccCCCCCHHHHHHHHHHHHHHHHhCCCC---CChHHHHHHHHHhCCCc-hHHHHHHHh
Q 048427 101 TQYDGVSGVREHILKMTSYHKKLKEMDVD---LPDDYLVFQNLESLPPQ-FGNLRSQYN 155 (261)
Q Consensus 101 ~~~~~~~~v~~~~~~l~~l~~~L~~~g~~---~~d~~~~~~lL~~Lp~~-~~~~~~~~~ 155 (261)
..|..+ +|.||+-+++.|=+-|.+-.++ +.+..+-..+...||.. +.++..++.
T Consensus 100 TeMshS-tvrEYVVRLRRLd~lL~~~n~p~~~~~~~~~~~~~~~~Lp~~~~nNyriALR 157 (168)
T TIGR03823 100 TEMSHS-TVREYVVRLRRLDELLVAQNYPAEQFQDGFLQERLADWLPSTATNNYRIALR 157 (168)
T ss_pred hccccc-cHHHHHHHHHHHHHHHhhccCCHHHhccchHHHHHHhhCchhhhhHHHHHHH
Confidence 344444 5999999999998888877666 34456677777888874 555555543
No 41
>PF05741 zf-nanos: Nanos RNA binding domain; InterPro: IPR024161 Nanos is a highly conserved RNA-binding protein in higher eukaryotes and functions as a key regulatory protein in translational control using a 3' untranslated region during the development and maintenance of germ cells. Nanos comprises a non-conserved amino-terminus and highly conserved carboxy- terminal regions. The C-terminal region has two conserved Cys-Cys-His-Cys (CCHC)-type zinc-finger motifs that are indispensable for nanos function [, , ]. The structure of the nanos-type zinc finger is composed of two independent zinc-finger (ZF) lobes, the N-terminal ZF1 and the C-terminal ZF2, which are connected by a linker helix []. These lobes create a large cleft. Zinc ions in ZF1 and ZF2 are bound to the CCHC motif by tetrahedral coordination.; PDB: 3ALR_B.
Probab=46.36 E-value=7.5 Score=23.90 Aligned_cols=21 Identities=19% Similarity=0.290 Sum_probs=8.5
Q ss_pred CCccceeccc---cCcccccCCCC
Q 048427 233 FKRKCHFCKK---LGHKRELNAGD 253 (261)
Q Consensus 233 ~~~~C~~C~~---~GH~~~~C~~~ 253 (261)
....|..||. ..|..+.||.+
T Consensus 32 r~y~Cp~CgAtGd~AHT~~yCP~k 55 (55)
T PF05741_consen 32 RKYVCPICGATGDNAHTIKYCPKK 55 (55)
T ss_dssp GG---TTT---GGG---GGG-TT-
T ss_pred hcCcCCCCcCcCccccccccCcCC
Confidence 3467889987 56899999963
No 42
>PRK11032 hypothetical protein; Provisional
Probab=45.79 E-value=1.2e+02 Score=23.27 Aligned_cols=27 Identities=15% Similarity=0.178 Sum_probs=16.2
Q ss_pred CccceeccccCcccc-----cCCCCccccccc
Q 048427 234 KRKCHFCKKLGHKRE-----LNAGDSKHGWKR 260 (261)
Q Consensus 234 ~~~C~~C~~~GH~~~-----~C~~~~~~~~~~ 260 (261)
...|-.||..-|+.. .||+=..+.|.|
T Consensus 124 ~LvC~~Cg~~~~~~~p~~i~pCp~C~~~~F~R 155 (160)
T PRK11032 124 NLVCEKCHHHLAFYTPEVLPLCPKCGHDQFQR 155 (160)
T ss_pred eEEecCCCCEEEecCCCcCCCCCCCCCCeeee
Confidence 456888876655543 566655555554
No 43
>PF07571 DUF1546: Protein of unknown function (DUF1546); InterPro: IPR011442 These proteins are associated with IPR004823 from INTERPRO in transcription initiation factor TFIID subunit 6 (TAF6).; GO: 0051090 regulation of sequence-specific DNA binding transcription factor activity, 0005634 nucleus
Probab=45.78 E-value=95 Score=21.17 Aligned_cols=52 Identities=19% Similarity=0.152 Sum_probs=43.8
Q ss_pred ccHHHHHHHHHHhhccccHHHHHHHHHHHHhcccCCCCCHHHHHHHHHHHHH
Q 048427 70 DKAKDYLAAVGRTFKKIDKAEKGNYLRLLANTQYDGVSGVREHILKMTSYHK 121 (261)
Q Consensus 70 ~~a~~lW~~L~~~y~~~~~~~~~~l~~~l~~~~~~~~~~v~~~~~~l~~l~~ 121 (261)
+.|..+-..|...|+.....-+..+.+.|...-+++..++..+..-+..+..
T Consensus 24 d~AA~lL~~I~~~~~~~~~~L~~Ri~~tl~k~l~d~~~~~~t~YGAi~gL~~ 75 (92)
T PF07571_consen 24 DFAASLLAQICRKFSSSYPTLQPRITRTLLKALLDPKKPLGTHYGAIVGLSA 75 (92)
T ss_pred HHHHHHHHHHHHHhccccchHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence 5688889999999999888778888888888778888899999998887644
No 44
>PTZ00172 40S ribosomal protein S26; Provisional
Probab=44.53 E-value=15 Score=25.82 Aligned_cols=13 Identities=15% Similarity=0.411 Sum_probs=9.9
Q ss_pred CCCCccceecccc
Q 048427 231 ESFKRKCHFCKKL 243 (261)
Q Consensus 231 ~~~~~~C~~C~~~ 243 (261)
--..+.|.+||+-
T Consensus 17 hv~~V~C~nCgr~ 29 (108)
T PTZ00172 17 HVKPVRCSNCGRC 29 (108)
T ss_pred CCccEEeCCcccc
Confidence 4556889999973
No 45
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=43.94 E-value=12 Score=33.67 Aligned_cols=21 Identities=33% Similarity=0.544 Sum_probs=18.7
Q ss_pred CCccceeccccCcccccCCCC
Q 048427 233 FKRKCHFCKKLGHKRELNAGD 253 (261)
Q Consensus 233 ~~~~C~~C~~~GH~~~~C~~~ 253 (261)
....|..||-.||...+||.+
T Consensus 260 d~~~c~~cg~~~H~q~~cp~r 280 (554)
T KOG0119|consen 260 DNRACRNCGSTGHKQYDCPGR 280 (554)
T ss_pred ccccccccCCCccccccCCcc
Confidence 335799999999999999988
No 46
>PLN00186 ribosomal protein S26; Provisional
Probab=42.92 E-value=17 Score=25.58 Aligned_cols=13 Identities=23% Similarity=0.498 Sum_probs=9.7
Q ss_pred CCCCccceecccc
Q 048427 231 ESFKRKCHFCKKL 243 (261)
Q Consensus 231 ~~~~~~C~~C~~~ 243 (261)
--..+.|.+||+-
T Consensus 17 hv~~V~C~nCgr~ 29 (109)
T PLN00186 17 HVKRIRCSNCGKC 29 (109)
T ss_pred CCcceeeCCCccc
Confidence 4456889999973
No 47
>PF05310 Tenui_NS3: Tenuivirus movement protein; InterPro: IPR007974 This family of ssRNA negative-strand crop plant tenuivirus proteins appears to combine PV2 [], NS2 [], NS3, and PV3 proteins. Plant viruses encode specific proteins known as movement proteins (MPs) to control their spread through plasmodesmata (PD) in walls between cells as well as from leaf to leaf via vascular-dependent transport. During this movement process, the virally encoded MPs interact with viral genomes for transport from the viral replication sites to the PDs in the walls of infected cells along the cytoskeleton and/or endoplasmic reticulum (ER) network. The virus is then thought to move through the PDs in the form of MP-associated ribonucleoprotein complexes or as virions []. The NS3 protein appears to function as an RNA silencing suppressor [].; PDB: 3AJF_A.
Probab=41.61 E-value=8.7 Score=29.68 Aligned_cols=18 Identities=33% Similarity=0.516 Sum_probs=0.0
Q ss_pred CCccceeccccCcccccC
Q 048427 233 FKRKCHFCKKLGHKRELN 250 (261)
Q Consensus 233 ~~~~C~~C~~~GH~~~~C 250 (261)
++.+||.|.|+.|.+.+=
T Consensus 97 ~~tKCWlCdk~~~~~t~~ 114 (186)
T PF05310_consen 97 PKTKCWLCDKPSYQETDN 114 (186)
T ss_dssp ------------------
T ss_pred CccceEEecchhhhccCC
Confidence 456799999999988764
No 48
>COG1644 RPB10 DNA-directed RNA polymerase, subunit N (RpoN/RPB10) [Transcription]
Probab=40.90 E-value=12 Score=23.50 Aligned_cols=10 Identities=30% Similarity=0.803 Sum_probs=8.3
Q ss_pred Cccceecccc
Q 048427 234 KRKCHFCKKL 243 (261)
Q Consensus 234 ~~~C~~C~~~ 243 (261)
.++||-||++
T Consensus 4 PiRCFsCGkv 13 (63)
T COG1644 4 PVRCFSCGKV 13 (63)
T ss_pred ceEeecCCCC
Confidence 4689999986
No 49
>PF02315 MDH: Methanol dehydrogenase beta subunit; InterPro: IPR003420 Methanol dehydrogenase (MDH) (1.1.99.8 from EC), found in Gram-negative bacteria, is a pyrroloquinoline quinone (PQQ)-containing enzyme which oxidises methanol to formaldehyde. It is located in the periplasmic space and passes electrons derived from the oxidation of methanol to the soluble cytochrome cL []. The enzyme is a tetramer composed of two large alpha subunits and two smaller beta subunits. The alpha subunit binds the PQQ cofactor and contains the active site, while the function of the beta subunit is currently unknown []. The alpha subunit forms an eight-bladed propeller structure, with several novel tryptophan-docking motifs linking the individual blades together. This entry represents the beta subunit of methanol dehydrogenase.; GO: 0004022 alcohol dehydrogenase (NAD) activity, 0015946 methanol oxidation, 0055114 oxidation-reduction process; PDB: 1LRW_B 2D0V_J 2AD6_B 1G72_B 4AAH_D 2AD8_D 2AD7_D 1H4J_D 1H4I_B 1W6S_B ....
Probab=39.98 E-value=15 Score=24.79 Aligned_cols=19 Identities=32% Similarity=0.371 Sum_probs=7.2
Q ss_pred eeccccCcccccCCCCcccccccC
Q 048427 238 HFCKKLGHKRELNAGDSKHGWKRK 261 (261)
Q Consensus 238 ~~C~~~GH~~~~C~~~~~~~~~~~ 261 (261)
.+|+.|| +||.. ++||++|
T Consensus 26 t~CkapG----~CWEp-kPGyPek 44 (93)
T PF02315_consen 26 TNCKAPG----NCWEP-KPGYPEK 44 (93)
T ss_dssp ---SBTT----B------TTS-SS
T ss_pred cccCCCc----cccCC-CCCCccc
Confidence 5788887 68876 6777654
No 50
>KOG3497 consensus DNA-directed RNA polymerase, subunit RPB10 [Transcription]
Probab=36.86 E-value=13 Score=23.12 Aligned_cols=9 Identities=33% Similarity=0.921 Sum_probs=7.7
Q ss_pred ccceecccc
Q 048427 235 RKCHFCKKL 243 (261)
Q Consensus 235 ~~C~~C~~~ 243 (261)
++||-|||.
T Consensus 5 iRCFtCGKv 13 (69)
T KOG3497|consen 5 IRCFTCGKV 13 (69)
T ss_pred eEeeecccc
Confidence 579999985
No 51
>COG4830 RPS26B Ribosomal protein S26 [Translation, ribosomal structure and biogenesis]
Probab=36.51 E-value=22 Score=24.60 Aligned_cols=13 Identities=23% Similarity=0.409 Sum_probs=9.7
Q ss_pred CCCCccceecccc
Q 048427 231 ESFKRKCHFCKKL 243 (261)
Q Consensus 231 ~~~~~~C~~C~~~ 243 (261)
.-+-+.|-+||+.
T Consensus 17 hv~~v~CdnCg~~ 29 (108)
T COG4830 17 HVKYVRCDNCGKA 29 (108)
T ss_pred Cccceeecccccc
Confidence 3456789999974
No 52
>COG4416 Com Mu-like prophage protein Com [General function prediction only]
Probab=35.57 E-value=9.5 Score=23.13 Aligned_cols=19 Identities=16% Similarity=0.263 Sum_probs=12.7
Q ss_pred Cccceeccc-------cCcccccCCC
Q 048427 234 KRKCHFCKK-------LGHKRELNAG 252 (261)
Q Consensus 234 ~~~C~~C~~-------~GH~~~~C~~ 252 (261)
..+|.+|+| .||....||.
T Consensus 4 tiRC~~CnKlLa~a~~~~yle~KCPr 29 (60)
T COG4416 4 TIRCAKCNKLLAEAEGQAYLEKKCPR 29 (60)
T ss_pred eeehHHHhHHHHhcccceeeeecCCc
Confidence 356777765 4677777775
No 53
>PF08891 YfcL: YfcL protein; InterPro: IPR014987 This group of proteins are functionally uncharacterised. They are related to the short YfcL protein from Escherichia coli.
Probab=35.10 E-value=1.4e+02 Score=20.15 Aligned_cols=59 Identities=15% Similarity=0.192 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCChHHHHHHHHHhCCCchHHHHHHHhcCCCCCCHHHHHHHHHHH
Q 048427 109 VREHILKMTSYHKKLKEMDVDLPDDYLVFQNLESLPPQFGNLRSQYNTQRDTWNITELTAYVVQE 173 (261)
Q Consensus 109 v~~~~~~l~~l~~~L~~~g~~~~d~~~~~~lL~~Lp~~~~~~~~~~~~~~~~~t~~~l~~~l~~~ 173 (261)
|.+|..++..+++.+-.-+.+ |+.++.--|+|. |.-.+..+... ...++++|..++...
T Consensus 1 i~efe~~l~~~iD~~V~~asD--DeLFA~GYLrGH---~~lava~~E~~-~~~~~~~l~~~v~~s 59 (85)
T PF08891_consen 1 IEEFEERLLALIDDMVEHASD--DELFASGYLRGH---FTLAVAELEQE-GEHSLEALKARVEAS 59 (85)
T ss_pred ChHHHHHHHHHHHHHHhcCCh--HHHHHHHHHhHH---HHHHHHHHhhc-CCCCHHHHHHHHHHH
Confidence 467889999999988776655 888999999985 22222333333 444888888887433
No 54
>PHA00689 hypothetical protein
Probab=33.75 E-value=15 Score=21.76 Aligned_cols=14 Identities=29% Similarity=0.496 Sum_probs=10.9
Q ss_pred CCCccceeccccCc
Q 048427 232 SFKRKCHFCKKLGH 245 (261)
Q Consensus 232 ~~~~~C~~C~~~GH 245 (261)
...+.|-.||+.|-
T Consensus 15 pravtckrcgktgl 28 (62)
T PHA00689 15 PRAVTCKRCGKTGL 28 (62)
T ss_pred cceeehhhccccCc
Confidence 44578999999873
No 55
>PLN00032 DNA-directed RNA polymerase; Provisional
Probab=33.08 E-value=18 Score=23.42 Aligned_cols=10 Identities=30% Similarity=0.823 Sum_probs=8.2
Q ss_pred Cccceecccc
Q 048427 234 KRKCHFCKKL 243 (261)
Q Consensus 234 ~~~C~~C~~~ 243 (261)
.++||-||+.
T Consensus 4 PVRCFTCGkv 13 (71)
T PLN00032 4 PVRCFTCGKV 13 (71)
T ss_pred ceeecCCCCC
Confidence 3679999986
No 56
>PF05634 APO_RNA-bind: APO RNA-binding; InterPro: IPR008512 This family consists of plant APO (accumulation of photosystem 1) proteins.
Probab=33.02 E-value=25 Score=27.86 Aligned_cols=26 Identities=31% Similarity=0.870 Sum_probs=19.4
Q ss_pred ccceec-----cccCcccccCCCC------ccccccc
Q 048427 235 RKCHFC-----KKLGHKRELNAGD------SKHGWKR 260 (261)
Q Consensus 235 ~~C~~C-----~~~GH~~~~C~~~------~~~~~~~ 260 (261)
..|-+| |..||-.+.|.-. ..|+|..
T Consensus 99 ~~C~~C~EVHVG~~GH~irtC~g~k~~~R~g~H~W~~ 135 (204)
T PF05634_consen 99 KACGYCPEVHVGPVGHKIRTCGGFKHQSRNGQHEWQK 135 (204)
T ss_pred eecCCCCCeEECCCcccccccCCCCccccCCccccee
Confidence 359888 5689999999554 5677753
No 57
>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised. This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.
Probab=32.59 E-value=75 Score=18.69 Aligned_cols=27 Identities=7% Similarity=0.101 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHhCCCCCChHHHHHHH
Q 048427 113 ILKMTSYHKKLKEMDVDLPDDYLVFQN 139 (261)
Q Consensus 113 ~~~l~~l~~~L~~~g~~~~d~~~~~~l 139 (261)
+.++..+.++|...|+-++++.+-.++
T Consensus 18 I~~~~~~l~~l~~~g~~is~~l~~~~L 44 (48)
T PF11848_consen 18 ISEVKPLLDRLQQAGFRISPKLIEEIL 44 (48)
T ss_pred hhhHHHHHHHHHHcCcccCHHHHHHHH
Confidence 347778888888999999887665544
No 58
>PF13821 DUF4187: Domain of unknown function (DUF4187)
Probab=31.83 E-value=24 Score=21.71 Aligned_cols=18 Identities=17% Similarity=0.379 Sum_probs=12.1
Q ss_pred cceeccccCccc----ccCCCC
Q 048427 236 KCHFCKKLGHKR----ELNAGD 253 (261)
Q Consensus 236 ~C~~C~~~GH~~----~~C~~~ 253 (261)
-|++||..=-.. .+||..
T Consensus 29 YC~~Cg~~Y~d~~dL~~~CPG~ 50 (55)
T PF13821_consen 29 YCFWCGTKYDDEEDLERNCPGP 50 (55)
T ss_pred eeeeeCCccCCHHHHHhCCCCC
Confidence 499999854433 558764
No 59
>PF01194 RNA_pol_N: RNA polymerases N / 8 kDa subunit; InterPro: IPR000268 In eukaryotes, there are three different forms of DNA-dependent RNA polymerases (2.7.7.6 from EC) transcribing different sets of genes. Each class of RNA polymerase is an assemblage of ten to twelve different polypeptides. In archaebacteria, there is generally a single form of RNA polymerase which also consists of an oligomeric assemblage of 10 to 13 polypeptides. Archaebacterial subunit N (gene rpoN) [] is a small protein of about 8 kDa, it is evolutionary related [] to a 8.3 kDa component shared by all three forms of eukaryotic RNA polymerases (gene RPB10 in yeast and POLR2J in mammals) as well as to African swine fever virus (ASFV) protein CP80R []. There is a conserved region which is located at the N-terminal extremity of these polymerase subunits; this region contains two cysteines that binds a zinc ion [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_N 3HKZ_N 1EF4_A 3H0G_V 2Y0S_N 2R92_J 3M4O_J 3S2D_J 1R9S_J 1Y1W_J ....
Probab=31.71 E-value=21 Score=22.38 Aligned_cols=10 Identities=30% Similarity=0.823 Sum_probs=7.2
Q ss_pred Cccceecccc
Q 048427 234 KRKCHFCKKL 243 (261)
Q Consensus 234 ~~~C~~C~~~ 243 (261)
.++||-||++
T Consensus 4 PVRCFTCGkv 13 (60)
T PF01194_consen 4 PVRCFTCGKV 13 (60)
T ss_dssp SSS-STTTSB
T ss_pred ceecCCCCCC
Confidence 3679999986
No 60
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=31.01 E-value=27 Score=33.70 Aligned_cols=23 Identities=13% Similarity=0.245 Sum_probs=20.0
Q ss_pred CCCCccceeccccCcccccCCCC
Q 048427 231 ESFKRKCHFCKKLGHKRELNAGD 253 (261)
Q Consensus 231 ~~~~~~C~~C~~~GH~~~~C~~~ 253 (261)
......|++||.....-..||+=
T Consensus 459 ~~~~L~CH~Cg~~~~~p~~Cp~C 481 (730)
T COG1198 459 ATGQLRCHYCGYQEPIPQSCPEC 481 (730)
T ss_pred CCCeeEeCCCCCCCCCCCCCCCC
Confidence 45678999999999999999975
No 61
>KOG4602 consensus Nanos and related proteins [General function prediction only]
Probab=30.53 E-value=23 Score=29.07 Aligned_cols=20 Identities=20% Similarity=0.368 Sum_probs=16.3
Q ss_pred CccceeccccC---cccccCCCC
Q 048427 234 KRKCHFCKKLG---HKRELNAGD 253 (261)
Q Consensus 234 ~~~C~~C~~~G---H~~~~C~~~ 253 (261)
...|-.||..| |+.+.||..
T Consensus 268 ~YVCPiCGATgDnAHTiKyCPl~ 290 (318)
T KOG4602|consen 268 SYVCPICGATGDNAHTIKYCPLA 290 (318)
T ss_pred hhcCccccccCCcccceeccccc
Confidence 44788898876 999999876
No 62
>PRK04016 DNA-directed RNA polymerase subunit N; Provisional
Probab=30.25 E-value=21 Score=22.48 Aligned_cols=10 Identities=30% Similarity=0.823 Sum_probs=8.3
Q ss_pred Cccceecccc
Q 048427 234 KRKCHFCKKL 243 (261)
Q Consensus 234 ~~~C~~C~~~ 243 (261)
.++||-||+.
T Consensus 4 PvRCFTCGkv 13 (62)
T PRK04016 4 PVRCFTCGKV 13 (62)
T ss_pred CeEecCCCCC
Confidence 4679999986
No 63
>TIGR02606 antidote_CC2985 putative addiction module antidote protein, CC2985 family. This bacterial protein family has a very similar seed alignment to that of Pfam model pfam03693 but is a more stringent model with higher cutoff scores. Proteins that score above the trusted cutoff to this model almost invariably are found adjacent to a ParE family protein (pfam05016), where ParE is the killing partner of an addiction module for plasmid stabilization. Members of this family, therefore, are putative addiction module antidote proteins. Some are encoded on plasmids or in prophage regions, but others appear chromosomal. A genome may contain several identical copies, such as the four in Magnetococcus sp. MC-1. This family is named for one member, CC2985 of Caulobacter crescentus CB15.
Probab=30.09 E-value=1.1e+02 Score=19.59 Aligned_cols=34 Identities=12% Similarity=0.019 Sum_probs=25.5
Q ss_pred hCCCchHHHHHHHhcCCCCCCHHHHHHHHHHHHH
Q 048427 142 SLPPQFGNLRSQYNTQRDTWNITELTAYVVQEEE 175 (261)
Q Consensus 142 ~Lp~~~~~~~~~~~~~~~~~t~~~l~~~l~~~e~ 175 (261)
+||+.++.|+.....++.--+..+|+..++....
T Consensus 5 sL~~~~~~~i~~~V~sG~Y~s~SEVir~aLR~le 38 (69)
T TIGR02606 5 SLGEHLESFIRSQVQSGRYGSASEVVRAALRLLE 38 (69)
T ss_pred ecCHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Confidence 5889999999887777676788888876654443
No 64
>PF07583 PSCyt2: Protein of unknown function (DUF1549); InterPro: IPR011444 The function is not known. It is found associated with IPR022655 from INTERPRO. It is also found associated with the Planctomycete cytochrome C domain IPR011429 from INTERPRO.
Probab=29.97 E-value=1.6e+02 Score=23.67 Aligned_cols=54 Identities=19% Similarity=0.265 Sum_probs=33.8
Q ss_pred HHHHHhCCCCC----ChHH---HHHHHHHhCCCchHHHHHHHhcCCCCCCHHHHHHHHHHHH
Q 048427 120 HKKLKEMDVDL----PDDY---LVFQNLESLPPQFGNLRSQYNTQRDTWNITELTAYVVQEE 174 (261)
Q Consensus 120 ~~~L~~~g~~~----~d~~---~~~~lL~~Lp~~~~~~~~~~~~~~~~~t~~~l~~~l~~~e 174 (261)
..+|+..|++. +|.. -+.+=|.||||+.+.+..-+... ..-..+.++.+|+..+
T Consensus 8 ~~~l~~~gl~ps~~add~~~lRRv~LDL~G~~PT~eEv~~Fl~d~-~~~kr~~lVd~LL~sp 68 (208)
T PF07583_consen 8 LAKLEKLGLTPSPPADDATFLRRVYLDLTGLPPTPEEVRAFLADP-SPDKREKLVDRLLASP 68 (208)
T ss_pred HHHHHHcCCCCCCCCCHHHHHHHHHHHHhCCCcCHHHHHHHHhCC-ChhHHHHHHHHHHCCc
Confidence 46677777653 3333 35566778888888866655533 3336777887776443
No 65
>COG2406 Protein distantly related to bacterial ferritins [General function prediction only]
Probab=28.62 E-value=2.6e+02 Score=21.13 Aligned_cols=31 Identities=19% Similarity=0.383 Sum_probs=23.5
Q ss_pred HHHHHHHHHHhCCCCCChHHHHHHHHHhCCC
Q 048427 115 KMTSYHKKLKEMDVDLPDDYLVFQNLESLPP 145 (261)
Q Consensus 115 ~l~~l~~~L~~~g~~~~d~~~~~~lL~~Lp~ 145 (261)
.++.|..+|..+|..+|.++.-..=+++-|+
T Consensus 65 H~e~i~~Ri~elg~~~Prd~~~l~dISgC~~ 95 (172)
T COG2406 65 HFELIAPRIYELGGDLPRDMKKLHDISGCKP 95 (172)
T ss_pred HHHHHHHHHHHhCCCCchhHHHHHhhcCCCC
Confidence 3566788888889999888887777776443
No 66
>PF07904 Eaf7: Chromatin modification-related protein EAF7; InterPro: IPR012423 The Saccharomyces cerevisiae (Baker's yeast) member of this family P53911 from SWISSPROT is part of NuA4, the only essential histone acetyltransferase complex in S. cerevisiae involved in global histone acetylation []. ; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus, 0043189 H4/H2A histone acetyltransferase complex
Probab=28.28 E-value=55 Score=22.42 Aligned_cols=20 Identities=5% Similarity=0.016 Sum_probs=16.6
Q ss_pred CCCcccHHHHHHHHHHhhcc
Q 048427 66 IPACDKAKDYLAAVGRTFKK 85 (261)
Q Consensus 66 i~~~~~a~~lW~~L~~~y~~ 85 (261)
+....++.++|+.|...|.-
T Consensus 40 ~~~~~t~~~IW~kL~~~YdL 59 (91)
T PF07904_consen 40 LNKHFTIDDIWKKLRTLYDL 59 (91)
T ss_pred cCCcCCHHHHHHHHHHhcCH
Confidence 44578899999999999963
No 67
>PLN00111 accumulation of photosystem one; Provisional
Probab=28.18 E-value=32 Score=30.16 Aligned_cols=24 Identities=38% Similarity=0.922 Sum_probs=0.0
Q ss_pred ceec-----cccCcccccCCCC------ccccccc
Q 048427 237 CHFC-----KKLGHKRELNAGD------SKHGWKR 260 (261)
Q Consensus 237 C~~C-----~~~GH~~~~C~~~------~~~~~~~ 260 (261)
|-|| |..||.++.|... ..|+|.+
T Consensus 293 C~yC~EVhVGp~GHk~r~C~~~k~q~r~g~H~Wq~ 327 (399)
T PLN00111 293 CGYCPEVHVGPSGHKVRLCGAFKHQQRDGQHGWQE 327 (399)
T ss_pred cCCCCceeECCCCceeeecCCchhcccCCcccccc
No 68
>PF06689 zf-C4_ClpX: ClpX C4-type zinc finger; InterPro: IPR010603 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The ClpX heat shock protein of Escherichia coli is a member of the universally conserved Hsp100 family of proteins, and possesses a putative zinc finger motif of the C4 type []. This presumed zinc binding domain (ZBD) is found at the N terminus of the ClpX protein. ClpX is an ATPase which functions both as a substrate specificity component of the ClpXP protease and as a molecular chaperone. ZBD is a member of the treble clef zinc finger family, a motif known to facilitate protein-ligand, protein-DNA, and protein-protein interactions and forms a constitutive dimer that is essential for the degradation of some, but not all, ClpX substrates []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0016887 ATPase activity, 0046983 protein dimerization activity, 0006200 ATP catabolic process, 0019538 protein metabolic process; PDB: 2DS8_B 2DS6_B 2DS5_A 1OVX_A 2DS7_A.
Probab=27.84 E-value=20 Score=20.41 Aligned_cols=10 Identities=30% Similarity=1.122 Sum_probs=4.8
Q ss_pred ccceeccccC
Q 048427 235 RKCHFCKKLG 244 (261)
Q Consensus 235 ~~C~~C~~~G 244 (261)
..|.+||++.
T Consensus 2 ~~CSFCgr~~ 11 (41)
T PF06689_consen 2 KRCSFCGRPE 11 (41)
T ss_dssp -B-TTT--BT
T ss_pred CCccCCCCCH
Confidence 4699999974
No 69
>PF11248 DUF3046: Protein of unknown function (DUF3046); InterPro: IPR021408 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=27.47 E-value=49 Score=21.00 Aligned_cols=21 Identities=19% Similarity=0.181 Sum_probs=16.9
Q ss_pred CCCcccHHHHHHHHHHhhccc
Q 048427 66 IPACDKAKDYLAAVGRTFKKI 86 (261)
Q Consensus 66 i~~~~~a~~lW~~L~~~y~~~ 86 (261)
|..-..++++|.+|+.-|..+
T Consensus 40 L~~G~dpr~VW~AlC~~~dVP 60 (63)
T PF11248_consen 40 LEAGVDPRDVWRALCDAFDVP 60 (63)
T ss_pred HHcCCCHHHHHHHHHHHcCCC
Confidence 445678999999999998754
No 70
>PRK09499 sifB secreted effector protein SifB; Provisional
Probab=26.81 E-value=1.8e+02 Score=24.22 Aligned_cols=30 Identities=10% Similarity=0.231 Sum_probs=24.0
Q ss_pred HHHHHHHHHhhccccHHHHHHHHHHHHhcc
Q 048427 73 KDYLAAVGRTFKKIDKAEKGNYLRLLANTQ 102 (261)
Q Consensus 73 ~~lW~~L~~~y~~~~~~~~~~l~~~l~~~~ 102 (261)
+-+|++++..|=+.+.+.....++++....
T Consensus 27 ~~LWEkiKdfFfsTgrakAD~yihEm~f~~ 56 (316)
T PRK09499 27 TLLWEKIKDFFCDTQRSTADQYIKELCDVA 56 (316)
T ss_pred HHHHHHHHHHhhccCcccHHHHHHHHHcCC
Confidence 678999999999888888777777776543
No 71
>TIGR03859 PQQ_PqqD coenzyme PQQ biosynthesis protein PqqD. This model identifies PqqD, a protein involved in the final steps of the biosynthesis of pyrroloquinoline quinone, coenzyme PQQ.
Probab=26.65 E-value=1.1e+02 Score=20.31 Aligned_cols=29 Identities=7% Similarity=0.111 Sum_probs=22.8
Q ss_pred HHHhhccccCCCcccHHHHHHHHHHhhcc
Q 048427 57 EKAETTRDNIPACDKAKDYLAAVGRTFKK 85 (261)
Q Consensus 57 ~~~~~i~~~i~~~~~a~~lW~~L~~~y~~ 85 (261)
.-...|...+....|..+||+.|.+.|..
T Consensus 31 ~~g~~Iw~lldg~~tv~eI~~~L~~~Y~~ 59 (81)
T TIGR03859 31 DSAGEILELCDGKRSLAEIIQELAQRFPA 59 (81)
T ss_pred hHHHHHHHHccCCCcHHHHHHHHHHHcCC
Confidence 33366777788888888999999999976
No 72
>KOG0377 consensus Protein serine/threonine phosphatase RDGC/PPEF, contains STphosphatase and EF-hand domains [Signal transduction mechanisms]
Probab=26.40 E-value=2.3e+02 Score=25.64 Aligned_cols=50 Identities=10% Similarity=0.022 Sum_probs=39.5
Q ss_pred ccHHHHHHHHHHhhccccHHHHHHHHHHHHhcccCCCCCHHHHHHHHHHH
Q 048427 70 DKAKDYLAAVGRTFKKIDKAEKGNYLRLLANTQYDGVSGVREHILKMTSY 119 (261)
Q Consensus 70 ~~a~~lW~~L~~~y~~~~~~~~~~l~~~l~~~~~~~~~~v~~~~~~l~~l 119 (261)
+.-.++|+.|...+...-....+.-..+..++..++.=++.||+..|+-.
T Consensus 567 dEF~~a~~l~~sh~~~~i~~~~i~~la~~mD~NkDG~IDlNEfLeAFrlv 616 (631)
T KOG0377|consen 567 DEFRTAWKLLSSHMNGAISDDEILELARSMDLNKDGKIDLNEFLEAFRLV 616 (631)
T ss_pred HHHHHHHHHHHhhcCCCcCHHHHHHHHHhhccCCCCcccHHHHHHHHhhh
Confidence 44688999999998877666666777778888888888899998887643
No 73
>KOG2183 consensus Prolylcarboxypeptidase (angiotensinase C) [Posttranslational modification, protein turnover, chaperones; General function prediction only]
Probab=26.07 E-value=5e+02 Score=23.55 Aligned_cols=92 Identities=13% Similarity=0.053 Sum_probs=57.5
Q ss_pred ccHHHHHHHHHHhhccccHHHHHHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHhCCCCCChHHHHHHHHHhCCCchHH
Q 048427 70 DKAKDYLAAVGRTFKKIDKAEKGNYLRLLANTQYDGVSGVREHILKMTSYHKKLKEMDVDLPDDYLVFQNLESLPPQFGN 149 (261)
Q Consensus 70 ~~a~~lW~~L~~~y~~~~~~~~~~l~~~l~~~~~~~~~~v~~~~~~l~~l~~~L~~~g~~~~d~~~~~~lL~~Lp~~~~~ 149 (261)
.+-+..|++|.+.....+. +..|...|..++.-. +++....+-+...+.-|+.+++|.+.+ ||.-||.-.-.
T Consensus 231 ~~I~~sW~ai~~l~~~~nG--~q~Ls~~f~lc~~ln-~d~~~l~d~l~ea~~ylAMVdYPy~t~-----Fl~pLPa~PV~ 302 (492)
T KOG2183|consen 231 NTIRKSWDAIDRLAAKDNG--LQILSKAFKLCKPLN-DDIGDLKDYLREAYEYLAMVDYPYPTS-----FLAPLPAWPVK 302 (492)
T ss_pred HHHHHHHHHHHHHhcCcch--HHHHHHHhhhccccc-ccHHHHHHHHHHHHHHHHHhcCCCCcc-----ccCcCCCCcHH
Confidence 4468899999999876544 444556665555433 367777777777778888889988753 55667766544
Q ss_pred HHHHHhcCCCCCCHHHHHHHH
Q 048427 150 LRSQYNTQRDTWNITELTAYV 170 (261)
Q Consensus 150 ~~~~~~~~~~~~t~~~l~~~l 170 (261)
.+-.+... ...+-.+++.+|
T Consensus 303 ~~C~~i~~-~~~~~~~ll~~i 322 (492)
T KOG2183|consen 303 VVCKYINA-PGPNDSDLLDRI 322 (492)
T ss_pred HHHHHhcc-CCCChHHHHHHH
Confidence 44443333 222335555555
No 74
>PRK10280 dipeptidyl carboxypeptidase II; Provisional
Probab=25.66 E-value=1.9e+02 Score=27.95 Aligned_cols=62 Identities=6% Similarity=0.022 Sum_probs=38.0
Q ss_pred CcccHHHHHHHHHHhhcccc-----HHHHHHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHhCCCC
Q 048427 68 ACDKAKDYLAAVGRTFKKID-----KAEKGNYLRLLANTQYDGVSGVREHILKMTSYHKKLKEMDVD 129 (261)
Q Consensus 68 ~~~~a~~lW~~L~~~y~~~~-----~~~~~~l~~~l~~~~~~~~~~v~~~~~~l~~l~~~L~~~g~~ 129 (261)
....-.+|++.|+..|.... ...+..+.+-+.+++..+-.=-.+--.++..|..+|..++..
T Consensus 105 ~l~~~~~Ly~~l~~~~~~~~~~~l~~e~~r~l~~~l~dF~~sG~~L~~~~r~r~~~l~~~l~~L~~~ 171 (681)
T PRK10280 105 DIYLNGELFARVDAVWQQRESLGLDSESIRLVEVIHQRFVLAGAKLAQADKAKLKVLNTEAATLTSQ 171 (681)
T ss_pred HhhCCHHHHHHHHHHHcCccccCCCHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 34556788999998886532 344555666667777655443345555666666666555433
No 75
>PF13395 HNH_4: HNH endonuclease
Probab=25.22 E-value=29 Score=21.02 Aligned_cols=7 Identities=43% Similarity=1.274 Sum_probs=5.8
Q ss_pred ceecccc
Q 048427 237 CHFCKKL 243 (261)
Q Consensus 237 C~~C~~~ 243 (261)
|+|||++
T Consensus 1 C~Y~g~~ 7 (54)
T PF13395_consen 1 CPYCGKP 7 (54)
T ss_pred CCCCCCC
Confidence 8899875
No 76
>KOG2985 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.98 E-value=21 Score=29.24 Aligned_cols=23 Identities=22% Similarity=0.332 Sum_probs=19.2
Q ss_pred CCCCccceeccccCcccccCCCC
Q 048427 231 ESFKRKCHFCKKLGHKRELNAGD 253 (261)
Q Consensus 231 ~~~~~~C~~C~~~GH~~~~C~~~ 253 (261)
+...+-|-.||.+||....|+..
T Consensus 78 ~arsg~ckRcg~~ghl~fqcRn~ 100 (306)
T KOG2985|consen 78 EARSGSCKRCGRVGHLTFQCRNF 100 (306)
T ss_pred hhcccchhhccccchhhHHHhhh
Confidence 34456799999999999999876
No 77
>PHA03230 nuclear protein UL55; Provisional
Probab=24.74 E-value=16 Score=28.31 Aligned_cols=22 Identities=9% Similarity=0.010 Sum_probs=18.7
Q ss_pred CCCccceeccccCcccccCCCC
Q 048427 232 SFKRKCHFCKKLGHKRELNAGD 253 (261)
Q Consensus 232 ~~~~~C~~C~~~GH~~~~C~~~ 253 (261)
.=.+.||+|+...=+..+||+-
T Consensus 133 ~I~Gl~yHCHCk~PFS~eCW~g 154 (180)
T PHA03230 133 TINGLCYHCHCKNPFSLECWQG 154 (180)
T ss_pred EEeEEEEeeccCCCCCHHHHHH
Confidence 3457899999999999999974
No 78
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=24.42 E-value=39 Score=20.73 Aligned_cols=17 Identities=24% Similarity=0.149 Sum_probs=13.2
Q ss_pred CccceeccccCcccccC
Q 048427 234 KRKCHFCKKLGHKRELN 250 (261)
Q Consensus 234 ~~~C~~C~~~GH~~~~C 250 (261)
..-|+.|+.+.|.-..|
T Consensus 48 ~~fC~~C~~~~H~~~~C 64 (64)
T smart00647 48 FSFCFRCKVPWHSPVSC 64 (64)
T ss_pred CeECCCCCCcCCCCCCC
Confidence 45689999999976655
No 79
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=24.03 E-value=43 Score=16.82 Aligned_cols=7 Identities=29% Similarity=0.667 Sum_probs=3.2
Q ss_pred cceeccc
Q 048427 236 KCHFCKK 242 (261)
Q Consensus 236 ~C~~C~~ 242 (261)
-|.+||.
T Consensus 18 fC~~CG~ 24 (26)
T PF13248_consen 18 FCPNCGA 24 (26)
T ss_pred cChhhCC
Confidence 3444443
No 80
>PF13132 DUF3950: Domain of unknown function (DUF3950)
Probab=24.02 E-value=41 Score=17.69 Aligned_cols=11 Identities=27% Similarity=0.371 Sum_probs=7.7
Q ss_pred CCC-ChHHHHHH
Q 048427 17 IGE-NFEDRRDS 27 (261)
Q Consensus 17 ~G~-Ny~~Wk~~ 27 (261)
.|+ ||..|-..
T Consensus 12 ~~~~NFSaWV~d 23 (30)
T PF13132_consen 12 EGSGNFSAWVKD 23 (30)
T ss_pred ccCcChHHHHHH
Confidence 345 99999654
No 81
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=23.79 E-value=38 Score=20.43 Aligned_cols=22 Identities=27% Similarity=0.558 Sum_probs=17.6
Q ss_pred CCccceeccccCcccccCCCCc
Q 048427 233 FKRKCHFCKKLGHKRELNAGDS 254 (261)
Q Consensus 233 ~~~~C~~C~~~GH~~~~C~~~~ 254 (261)
-.++|..||...|....=|...
T Consensus 23 leIKCpRC~tiN~~~a~~~~~~ 44 (51)
T PF10122_consen 23 LEIKCPRCKTINHVRATSPEPE 44 (51)
T ss_pred EEEECCCCCccceEeccCCCCC
Confidence 4678999999999988766553
No 82
>PRK09498 sifA secreted effector protein SifA; Reviewed
Probab=23.10 E-value=2.8e+02 Score=23.52 Aligned_cols=32 Identities=16% Similarity=0.021 Sum_probs=25.4
Q ss_pred ccHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Q 048427 70 DKAKDYLAAVGRTFKKIDKAEKGNYLRLLANT 101 (261)
Q Consensus 70 ~~a~~lW~~L~~~y~~~~~~~~~~l~~~l~~~ 101 (261)
.....+|++++..|-....+...+.+.++.+.
T Consensus 25 a~~~~LWEKIKdFFcSThqaeA~~CI~eLchp 56 (336)
T PRK09498 25 AWWKVLWEKIKDFFFSTGKAKADRCLHEMLFA 56 (336)
T ss_pred chHHHHHHHHHHHhhcccHHHHHHHHHHHhCC
Confidence 34588999999999888877777777777654
No 83
>PF10798 YmgB: Biofilm development protein YmgB/AriR; InterPro: IPR024753 YmgB is part of the three gene cluster ymgABC which has a role in biofilm development and stability. YmgB represses biofilm formation in rich medium containing glucose, decreases cellular motility and also protects the cell from acid, which indicates that YmgB has an important function in acid-resistance []. YmgB binds as a dimer to genes which are important for biofilm formation via a ligand. Due to its important function in acid resistance it is also known as AriR (regulator of acid resistance influenced by indole) [].; GO: 0042710 biofilm formation, 0071229 cellular response to acid; PDB: 2OXL_B.
Probab=23.03 E-value=1.3e+02 Score=18.88 Aligned_cols=31 Identities=6% Similarity=0.174 Sum_probs=23.2
Q ss_pred HHHHHHHHHHhCCCCCChHHHHHHHHHhCCC
Q 048427 115 KMTSYHKKLKEMDVDLPDDYLVFQNLESLPP 145 (261)
Q Consensus 115 ~l~~l~~~L~~~g~~~~d~~~~~~lL~~Lp~ 145 (261)
-|-.++.+|-..|.+++...++..++..|-.
T Consensus 6 vL~~iv~ell~~g~~vsnKaII~~LI~~LE~ 36 (61)
T PF10798_consen 6 VLGAIVRELLASGGHVSNKAIILKLIHRLES 36 (61)
T ss_dssp HHHHHHHHHHHTT---SHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Confidence 4567888898999999999999999998843
No 84
>KOG4098 consensus Molecular chaperone Prefoldin, subunit 2 [Posttranslational modification, protein turnover, chaperones]
Probab=22.60 E-value=3.2e+02 Score=20.15 Aligned_cols=41 Identities=22% Similarity=0.399 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHhCCCCCChHHHHHHHHHhCCCchHHHH
Q 048427 111 EHILKMTSYHKKLKEMDVDLPDDYLVFQNLESLPPQFGNLR 151 (261)
Q Consensus 111 ~~~~~l~~l~~~L~~~g~~~~d~~~~~~lL~~Lp~~~~~~~ 151 (261)
.|=++++.|++++..++.++.|--++.-.|..|.++=..|+
T Consensus 26 ~~r~el~~ia~ki~~LE~d~~EH~lVi~tlk~~dp~RKCfR 66 (140)
T KOG4098|consen 26 ALRSELQQIASKITDLEMDLREHKLVIETLKDLDPTRKCFR 66 (140)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcChhhHHHH
Confidence 34455666667777777777777777777777777644443
No 85
>PF09180 ProRS-C_1: Prolyl-tRNA synthetase, C-terminal; InterPro: IPR016061 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Prolyl tRNA synthetase (6.1.1.15 from EC) exists in two forms, which are loosely related. The first form is present in the majority of eubacteria species. The second one, present in some eubacteria, is essentially present in archaea and eukaryota. Prolyl-tRNA synthetase belongs to class IIa. This domain is found at the C-terminal in archaeal and eukaryotic enzymes, as well as in certain bacterial ones.; GO: 0000166 nucleotide binding, 0004827 proline-tRNA ligase activity, 0005524 ATP binding, 0006433 prolyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1NJ6_A 1NJ2_A 1NJ5_A 1NJ1_A 1H4T_C 1H4S_A 1HC7_C 1H4Q_B 3IAL_B.
Probab=22.40 E-value=33 Score=21.98 Aligned_cols=15 Identities=33% Similarity=0.512 Sum_probs=7.8
Q ss_pred CCCCccceeccccCc
Q 048427 231 ESFKRKCHFCKKLGH 245 (261)
Q Consensus 231 ~~~~~~C~~C~~~GH 245 (261)
.....+|.+||++.-
T Consensus 45 ~~~~~~Ci~cgk~a~ 59 (68)
T PF09180_consen 45 EPEGGKCIVCGKPAK 59 (68)
T ss_dssp EBTT-B-TTT-SB-S
T ss_pred CCCCCeeecCCChhh
Confidence 345567999999754
No 86
>cd08767 Cdt1_c The C-terminal fold of replication licensing factor Cdt1 is essential for Cdt1 activity and directly interacts with MCM2-7 helicase. Cdt1 is a replication licensing factor in eukaryotes that recruits the Minichromosome Maintenance Complex (MCM2-7) to the Origin Recognition Complex (ORC). The Cdt1 protein is divided into three regions based on sequence comparison and biochemical analyses: the N-terminal region (Cdt1_n) binds DNA in a sequence-, strand-, and conformation-independent manner; the middle winged helix fold (Cdt1_m) binds geminin to inhibit both binding of the MCM complex to origins of replication and DNA; and the C-terminal region (Cdt1_c) is essential for Cdt1 activity and directly interacts with the MCM2-7 helicase. Precise duplication of chromosomal DNA is required for genomic stability during replication. Assembly of replication factors to start DNA replication in eukaryotes must occur only once per cell cycle. To form a pre-replicative complex on replicat
Probab=21.85 E-value=2.6e+02 Score=20.37 Aligned_cols=45 Identities=16% Similarity=0.166 Sum_probs=34.5
Q ss_pred CCCChHHHHHHHHHhCCCchHHHHHHHhcC-CCCCCHHHHHHHHHH
Q 048427 128 VDLPDDYLVFQNLESLPPQFGNLRSQYNTQ-RDTWNITELTAYVVQ 172 (261)
Q Consensus 128 ~~~~d~~~~~~lL~~Lp~~~~~~~~~~~~~-~~~~t~~~l~~~l~~ 172 (261)
...+++..-..++..||.=++.+...+... ...+++++|+..|..
T Consensus 28 t~~~~~~kr~~~~~rLP~la~~v~~if~s~~k~~l~~e~l~~kl~~ 73 (126)
T cd08767 28 TRRPEQEKRRRMYARLPELARILRNIFVSEKKTVLPLEELVYKLQA 73 (126)
T ss_pred CCChHHHHHHHHHHhHHHHHHHHHHHHHhcccccccHHHHHHHHHH
Confidence 346678888899999999888777665543 667899999888853
No 87
>PF01475 FUR: Ferric uptake regulator family; InterPro: IPR002481 The Ferric uptake regulator (FUR) family includes metal ion uptake regulator proteins. These are responsible for controlling the intracellular concentration of iron in many bacteria. Although iron is essential for most organisms, high concentrations can be toxic because of the formation of hydroxyl radicals []. FURs can also control zinc homeostasis [] and is the subject of research on the pathogenesis of mycobacteria.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1MZB_A 2RGV_B 2FE3_B 3F8N_B 3EYY_B 2W57_A 2FU4_A 2O03_A 3MWM_B 2XIG_B ....
Probab=21.47 E-value=1.7e+02 Score=20.72 Aligned_cols=34 Identities=18% Similarity=0.108 Sum_probs=25.2
Q ss_pred CcccHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Q 048427 68 ACDKAKDYLAAVGRTFKKIDKAEKGNYLRLLANT 101 (261)
Q Consensus 68 ~~~~a~~lW~~L~~~y~~~~~~~~~~l~~~l~~~ 101 (261)
..-||.++|+.|......-+.++++..+..|...
T Consensus 22 ~~~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~ 55 (120)
T PF01475_consen 22 EHLTAEEIYDKLRKKGPRISLATVYRTLDLLEEA 55 (120)
T ss_dssp SSEEHHHHHHHHHHTTTT--HHHHHHHHHHHHHT
T ss_pred CCCCHHHHHHHhhhccCCcCHHHHHHHHHHHHHC
Confidence 4678999999999888777777777777776554
No 88
>PF03693 RHH_2: Uncharacterised protein family (UPF0156); InterPro: IPR022789 This family of proteins are about 80 amino acids in length and their function is unknown. The proteins contain a conserved GRY motif. This family appears to be related to ribbon-helix-helix DNA-binding proteins. ; PDB: 3KXE_C.
Probab=21.02 E-value=1.8e+02 Score=19.26 Aligned_cols=30 Identities=13% Similarity=0.157 Sum_probs=20.1
Q ss_pred hCCCchHHHHHHHhcCCCCCCHHHHHHHHH
Q 048427 142 SLPPQFGNLRSQYNTQRDTWNITELTAYVV 171 (261)
Q Consensus 142 ~Lp~~~~~~~~~~~~~~~~~t~~~l~~~l~ 171 (261)
+||+.++.|+.....++.--+..+|+..++
T Consensus 8 sL~~~~~~~i~~~V~sG~Y~s~SEvvR~aL 37 (80)
T PF03693_consen 8 SLTPELEAFIEEQVASGRYSSASEVVREAL 37 (80)
T ss_dssp ---HHHHHHHHHHHCTTS-SSHHHHHHHHH
T ss_pred ecCHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence 588899999988887777668888875443
No 89
>PRK14063 exodeoxyribonuclease VII small subunit; Provisional
Probab=20.81 E-value=1.9e+02 Score=19.02 Aligned_cols=28 Identities=25% Similarity=0.293 Sum_probs=23.1
Q ss_pred CCCCHHHHHHHHHHHHHHHHhCCCCCCh
Q 048427 105 GVSGVREHILKMTSYHKKLKEMDVDLPD 132 (261)
Q Consensus 105 ~~~~v~~~~~~l~~l~~~L~~~g~~~~d 132 (261)
...++.+-+.++..|+.+|..-.+++.+
T Consensus 3 ~~~sfEeal~~LE~Iv~~LE~~~l~Lee 30 (76)
T PRK14063 3 NKLSFEEAISQLEHLVSKLEQGDVPLEE 30 (76)
T ss_pred cccCHHHHHHHHHHHHHHHHCCCCCHHH
Confidence 3457889999999999999987777754
No 90
>PF08429 PLU-1: PLU-1-like protein; InterPro: IPR013637 This domain is found in the central region of lysine-specific demethylases, which are nuclear proteins that may have a role in DNA-binding and transcription, and are associated with malignant cancer phenotypes []. The domain is also found in various other Jumonji/ARID domain-containing proteins (see IPR013129 from INTERPRO, IPR001606 from INTERPRO). ; GO: 0016706 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors, 0055114 oxidation-reduction process
Probab=20.78 E-value=2.7e+02 Score=23.85 Aligned_cols=33 Identities=12% Similarity=0.222 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHhCCCCCChHHHHHHHHHh
Q 048427 110 REHILKMTSYHKKLKEMDVDLPDDYLVFQNLES 142 (261)
Q Consensus 110 ~~~~~~l~~l~~~L~~~g~~~~d~~~~~~lL~~ 142 (261)
.--+.++..+..++..+++.+|+-..+..++..
T Consensus 82 ~~~l~~l~~Ll~e~~~L~~~~pEi~~L~~l~~~ 114 (335)
T PF08429_consen 82 KLTLEELEALLEEIESLPFDCPEIDQLKELLEE 114 (335)
T ss_pred cCCHHHHHHHHHHHhcCCeeCchHHHHHHHHHH
Confidence 345667788888888888888876555555544
No 91
>PF11859 DUF3379: Protein of unknown function (DUF3379); InterPro: IPR021806 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 234 to 251 amino acids in length.
Probab=20.74 E-value=1.9e+02 Score=23.71 Aligned_cols=36 Identities=19% Similarity=0.325 Sum_probs=29.8
Q ss_pred CCHHHHHHHHHHHHHHHHh-CCCCCChHHHHHHHHHh
Q 048427 107 SGVREHILKMTSYHKKLKE-MDVDLPDDYLVFQNLES 142 (261)
Q Consensus 107 ~~v~~~~~~l~~l~~~L~~-~g~~~~d~~~~~~lL~~ 142 (261)
..=.+|+++++.+=.+|+. +.+++||+..-.+||+.
T Consensus 29 ~~~~~F~~d~~~lD~~l~~Al~VdVPddLAdkiLl~Q 65 (232)
T PF11859_consen 29 PANQKFVDDLKQLDAQLEQALKVDVPDDLADKILLRQ 65 (232)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCCCccHHHHHHhhc
Confidence 3467899999999999955 89999998877777776
No 92
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=20.24 E-value=39 Score=20.39 Aligned_cols=12 Identities=33% Similarity=0.908 Sum_probs=9.1
Q ss_pred CccceeccccCcc
Q 048427 234 KRKCHFCKKLGHK 246 (261)
Q Consensus 234 ~~~C~~C~~~GH~ 246 (261)
...|.+|++ +..
T Consensus 2 ~f~CP~C~~-~~~ 13 (54)
T PF05605_consen 2 SFTCPYCGK-GFS 13 (54)
T ss_pred CcCCCCCCC-ccC
Confidence 357999999 754
No 93
>smart00583 SPK domain in SET and PHD domain containing proteins and protein kinases.
Probab=20.09 E-value=3.4e+02 Score=19.39 Aligned_cols=68 Identities=3% Similarity=0.021 Sum_probs=39.6
Q ss_pred HHHHHHHHhhcccc-HHHH-HHHHHHHHhcccCCCCCHHHHHHHHH-HHHHHHHhC-CCCCChHHHHHHHHH
Q 048427 74 DYLAAVGRTFKKID-KAEK-GNYLRLLANTQYDGVSGVREHILKMT-SYHKKLKEM-DVDLPDDYLVFQNLE 141 (261)
Q Consensus 74 ~lW~~L~~~y~~~~-~~~~-~~l~~~l~~~~~~~~~~v~~~~~~l~-~l~~~L~~~-g~~~~d~~~~~~lL~ 141 (261)
.+|+-|.+.-.... +... ..+...|-.+......+...|..++. .+...|..+ ++.+.+...+.+.|.
T Consensus 4 ~~m~FL~ektk~~i~P~~~~~~~~~~F~~~~~~~~~s~~~~~~rf~~~Lap~i~~~~~y~~~~kirm~Fals 75 (114)
T smart00583 4 RFMDFLVEKTKDAIEPLVVPLKVFEEFSKLEGNSLLSYETYYKRFHNKLAPNMIKLNNYSIEERIRMMFALS 75 (114)
T ss_pred HHHHHHHHHhhCCccCccchHHHHHHHHHhccCCcccHHHHHHHHHHHHHhhHhhccCCCHHHHHHHHHhcC
Confidence 57888888776632 2212 24555555544434557888988887 555657663 566644444444443
No 94
>PRK10911 oligopeptidase A; Provisional
Probab=20.01 E-value=2.7e+02 Score=26.85 Aligned_cols=62 Identities=13% Similarity=0.089 Sum_probs=37.7
Q ss_pred CcccHHHHHHHHHHhhccc-----cHHHHHHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHhCCCC
Q 048427 68 ACDKAKDYLAAVGRTFKKI-----DKAEKGNYLRLLANTQYDGVSGVREHILKMTSYHKKLKEMDVD 129 (261)
Q Consensus 68 ~~~~a~~lW~~L~~~y~~~-----~~~~~~~l~~~l~~~~~~~~~~v~~~~~~l~~l~~~L~~~g~~ 129 (261)
....-..|++.|+..+... +...+..+.+-+.++...+-.=-.+--.++..|..+|..++..
T Consensus 99 ~~~~~~~Ly~~~~~~~~~~~~~~l~~e~~r~l~~~~~~F~~sG~~L~~~~r~~~~~i~~~l~~l~~~ 165 (680)
T PRK10911 99 WVGQHEGLYQAYRDLRDGDHYATLNTAQKKAVDNALRDFELSGIGLPKEKQQRYGEIAARLSELGNQ 165 (680)
T ss_pred HHhCCHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 3445578899999887432 3445555666677777655443345556666666666655443
Done!