Query 028144
Match_columns 213
No_of_seqs 123 out of 183
Neff 3.2
Searched_HMMs 46136
Date Fri Mar 29 06:55:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028144.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028144hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF04690 YABBY: YABBY protein; 100.0 3.1E-83 6.8E-88 536.4 13.4 167 10-176 1-170 (170)
2 PF09011 HMG_box_2: HMG-box do 98.2 2.3E-06 5E-11 61.2 4.4 45 125-169 1-46 (73)
3 cd01390 HMGB-UBF_HMG-box HMGB- 97.8 5.7E-05 1.2E-09 51.4 4.8 42 129-170 2-43 (66)
4 cd00084 HMG-box High Mobility 97.7 7.9E-05 1.7E-09 50.1 4.8 42 129-170 2-43 (66)
5 cd01388 SOX-TCF_HMG-box SOX-TC 97.7 7.7E-05 1.7E-09 53.2 4.8 42 129-170 3-44 (72)
6 PF00505 HMG_box: HMG (high mo 97.7 7.1E-05 1.5E-09 51.5 4.2 41 129-169 2-42 (69)
7 smart00398 HMG high mobility g 97.6 0.00017 3.7E-09 49.0 5.0 42 129-170 3-44 (70)
8 cd01389 MATA_HMG-box MATA_HMG- 97.5 0.0002 4.4E-09 51.5 5.1 42 129-170 3-44 (77)
9 PTZ00199 high mobility group p 97.4 0.00036 7.8E-09 52.9 5.5 48 123-170 18-67 (94)
10 PF06244 DUF1014: Protein of u 96.7 0.0021 4.7E-08 52.3 3.9 50 120-171 67-116 (122)
11 KOG0381 HMG box-containing pro 96.4 0.0072 1.6E-07 44.4 4.9 43 127-169 22-64 (96)
12 PF11331 DUF3133: Protein of u 93.6 0.033 7.3E-07 38.8 1.2 38 21-60 6-46 (46)
13 KOG3223 Uncharacterized conser 93.5 0.041 8.9E-07 48.9 1.8 50 122-173 161-210 (221)
14 KOG4684 Uncharacterized conser 83.3 1.2 2.6E-05 40.7 3.3 17 43-59 168-184 (275)
15 PRK14892 putative transcriptio 82.3 1.9 4E-05 34.1 3.6 44 20-66 20-63 (99)
16 TIGR02098 MJ0042_CXXC MJ0042 f 81.1 1.7 3.6E-05 27.6 2.5 35 21-57 2-37 (38)
17 PF13719 zinc_ribbon_5: zinc-r 79.9 1.3 2.8E-05 28.8 1.7 34 22-57 3-37 (37)
18 PF05129 Elf1: Transcription e 77.4 1.2 2.7E-05 33.6 1.2 44 21-64 22-65 (81)
19 TIGR01562 FdhE formate dehydro 74.4 1.8 3.9E-05 40.0 1.7 28 16-53 205-232 (305)
20 PF10122 Mu-like_Com: Mu-like 68.8 2.6 5.7E-05 30.2 1.1 32 22-57 5-36 (51)
21 PRK03954 ribonuclease P protei 67.5 3.1 6.7E-05 34.0 1.4 32 24-55 67-103 (121)
22 COG3058 FdhE Uncharacterized p 66.5 0.93 2E-05 42.3 -2.0 44 7-60 196-240 (308)
23 PF13717 zinc_ribbon_4: zinc-r 65.9 7.5 0.00016 25.2 2.7 30 22-55 3-35 (36)
24 PRK03564 formate dehydrogenase 64.7 5.2 0.00011 37.2 2.5 28 16-53 207-234 (309)
25 PF09788 Tmemb_55A: Transmembr 63.9 5.7 0.00012 36.4 2.5 39 17-59 153-191 (256)
26 KOG4684 Uncharacterized conser 62.9 3.3 7.1E-05 37.9 0.8 34 18-59 167-203 (275)
27 PF04032 Rpr2: RNAse P Rpr2/Rp 61.7 3.7 8E-05 29.5 0.8 31 23-53 48-85 (85)
28 KOG4715 SWI/SNF-related matrix 57.1 28 0.00061 33.6 5.9 46 122-170 62-107 (410)
29 PF04216 FdhE: Protein involve 53.4 4.6 9.9E-05 35.9 0.1 33 19-61 195-227 (290)
30 PF08073 CHDNT: CHDNT (NUC034) 51.3 24 0.00052 25.6 3.5 33 134-169 18-50 (55)
31 COG5648 NHP6B Chromatin-associ 42.8 41 0.00088 30.2 4.3 41 129-169 72-112 (211)
32 PF06382 DUF1074: Protein of u 42.8 32 0.0007 30.3 3.6 34 133-170 84-117 (183)
33 TIGR01053 LSD1 zinc finger dom 42.2 21 0.00047 22.8 1.9 25 22-52 2-26 (31)
34 PF12876 Cellulase-like: Sugar 37.8 45 0.00098 24.4 3.3 31 124-154 29-59 (88)
35 PF11331 DUF3133: Protein of u 36.8 50 0.0011 23.1 3.1 20 17-36 27-46 (46)
36 PF04420 CHD5: CHD5-like prote 35.7 19 0.00041 29.9 1.1 37 130-166 36-72 (161)
37 COG4888 Uncharacterized Zn rib 35.3 41 0.00089 27.3 2.9 45 21-65 22-66 (104)
38 PF03811 Zn_Tnp_IS1: InsA N-te 35.2 27 0.00058 23.0 1.5 18 41-58 1-18 (36)
39 PF14599 zinc_ribbon_6: Zinc-r 34.5 31 0.00067 25.2 1.9 31 17-53 26-56 (61)
40 PF05047 L51_S25_CI-B8: Mitoch 34.1 29 0.00063 23.1 1.6 19 136-154 2-20 (52)
41 COG4416 Com Mu-like prophage p 32.6 11 0.00023 27.9 -0.7 14 43-56 2-15 (60)
42 COG3712 FecR Fe2+-dicitrate se 30.4 44 0.00096 31.4 2.7 30 139-170 33-62 (322)
43 PRK12336 translation initiatio 28.8 74 0.0016 27.5 3.6 36 21-62 98-136 (201)
44 PF02892 zf-BED: BED zinc fing 28.8 29 0.00064 22.2 0.9 18 17-34 12-29 (45)
45 PF10238 Eapp_C: E2F-associate 28.0 34 0.00075 28.5 1.4 17 17-33 105-121 (136)
46 PF05180 zf-DNL: DNL zinc fing 27.6 32 0.0007 25.6 1.1 32 23-54 6-38 (66)
47 PF04769 MAT_Alpha1: Mating-ty 26.7 1.6E+02 0.0035 25.9 5.4 47 122-172 38-84 (201)
48 PF00527 E7: E7 protein, Early 26.1 33 0.00072 26.4 1.0 31 22-52 53-92 (92)
49 KOG3404 G10 protein/predicted 26.0 53 0.0012 27.9 2.2 36 16-52 97-138 (145)
50 TIGR02147 Fsuc_second hypothet 25.8 64 0.0014 29.3 2.9 25 133-157 8-32 (271)
51 COG5509 Uncharacterized small 25.6 61 0.0013 24.4 2.2 13 138-150 36-48 (65)
52 smart00614 ZnF_BED BED zinc fi 25.2 48 0.001 22.2 1.5 14 20-33 17-30 (50)
53 PF01020 Ribosomal_L40e: Ribos 24.7 26 0.00056 25.3 0.1 9 47-55 38-46 (52)
54 TIGR00311 aIF-2beta translatio 24.6 95 0.0021 25.6 3.4 33 20-58 96-131 (133)
55 PF13408 Zn_ribbon_recom: Reco 24.5 33 0.00072 22.6 0.6 14 45-58 5-18 (58)
56 KOG4520 Predicted coiled-coil 24.3 81 0.0018 28.6 3.1 15 136-150 62-76 (238)
57 PF14722 KRAP_IP3R_bind: Ki-ra 23.8 78 0.0017 27.4 2.8 27 135-161 71-97 (160)
58 PF02723 NS3_envE: Non-structu 23.6 13 0.00027 28.9 -1.8 15 18-32 38-52 (82)
59 KOG0493 Transcription factor E 23.5 37 0.0008 32.1 0.9 32 126-162 246-280 (342)
60 PF05164 ZapA: Cell division p 23.1 1.2E+02 0.0027 21.5 3.4 32 137-168 28-59 (89)
61 KOG4253 Tryptophan-rich basic 22.5 95 0.0021 27.3 3.1 36 133-168 43-78 (175)
62 PRK09774 fec operon regulator 22.2 66 0.0014 29.0 2.2 29 140-170 33-61 (319)
63 COG4357 Zinc finger domain con 22.0 24 0.00052 28.7 -0.6 43 17-59 22-76 (105)
64 PF13565 HTH_32: Homeodomain-l 21.6 2.7E+02 0.0059 19.1 4.8 30 136-165 32-61 (77)
65 PF01667 Ribosomal_S27e: Ribos 20.9 63 0.0014 23.3 1.5 12 22-33 27-38 (55)
66 PRK00398 rpoP DNA-directed RNA 20.2 1.6E+02 0.0034 19.4 3.2 34 22-61 4-37 (46)
67 PF04690 YABBY: YABBY protein; 20.2 57 0.0012 28.2 1.3 19 21-39 36-54 (170)
No 1
>PF04690 YABBY: YABBY protein; InterPro: IPR006780 YABBY proteins are a group of plant-specific transcription factors involved in the specification of abaxial polarity in lateral organs such as leaves and floral organs [, ].
Probab=100.00 E-value=3.1e-83 Score=536.44 Aligned_cols=167 Identities=62% Similarity=1.023 Sum_probs=130.2
Q ss_pred CCCCCCCCceeEEeCCCcceeEEecccCCCCcceeeeecCCcCCCcccccccCCCCCCccccccCcccCCCCcccccCCC
Q 028144 10 LDQFPTSEQLCYVHCNLCDTVLAVSVPCTSLFKTVTVRCGHCTNLLPVNMRGLLLPSANQFHLGHNFFSPSHNLREEIPN 89 (213)
Q Consensus 10 ~d~~~~~E~lCYV~CnfCnTILaVsVPcssL~~~VTVRCGHCtnLlSVNm~~ll~p~~~q~~~~~~~~~~~~~~~~~~~~ 89 (213)
||+++++|||||||||||||||||||||+|||+|||||||||+|||||||++++++++.|++++++++.+.....+....
T Consensus 1 ~~~~~~sE~lCYVhCnFC~TiLaVsVP~ssL~~~VTVRCGHCtNLLSVNm~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 80 (170)
T PF04690_consen 1 MDLFSPSEQLCYVHCNFCNTILAVSVPCSSLLKTVTVRCGHCTNLLSVNMRALLQPLPSQDHLQHSLLPPQSQELQFQPE 80 (170)
T ss_pred CCccCCCCcEEEEEcCCcCeEEEEecchhhhhhhhceeccCccceeeeeccccccCCCcccchhcccccccccccccccc
Confidence 67788899999999999999999999999999999999999999999999999988888777655544221110000000
Q ss_pred CCcccccccCCCCCc-cc--cCCCCCCCCCCCCCCCCCCcccCCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q 028144 90 PSPNFLINQTNTNDF-IV--PTRGVVDELPRPPATSRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNW 166 (213)
Q Consensus 90 ~~~~~~~~~~~~~~~-~~--~~~~~~~~~p~~~~v~KPPEKRQR~psayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW 166 (213)
.......+....+.+ .. ...+.+++.|+.++|+||||||||+|||||+||||||||||++||||+|||||++|||||
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pr~~~v~kPPEKRqR~psaYn~f~k~ei~rik~~~p~ishkeaFs~aAknW 160 (170)
T PF04690_consen 81 NFGSNSSSSSSSSSSSSSSSMSFSEEEEIPRAPPVNKPPEKRQRVPSAYNRFMKEEIQRIKAENPDISHKEAFSAAAKNW 160 (170)
T ss_pred ccccccccCCCccccccccccCccccccccccccccCCccccCCCchhHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhh
Confidence 000000111111111 11 123445788998889999999999999999999999999999999999999999999999
Q ss_pred ccCCcccccc
Q 028144 167 AHFPHIHFGL 176 (213)
Q Consensus 167 ~~~PhihfGL 176 (213)
||+|||||||
T Consensus 161 ~h~phihfgl 170 (170)
T PF04690_consen 161 AHFPHIHFGL 170 (170)
T ss_pred hhCcccccCC
Confidence 9999999998
No 2
>PF09011 HMG_box_2: HMG-box domain; InterPro: IPR015101 This domain is predominantly found in Maelstrom homologue proteins. It has no known function. ; GO: 0005634 nucleus; PDB: 2EQZ_A 1V64_A 2CTO_A 1H5P_A 3TQ6_A 3FGH_A 3TMM_A 1J3X_A 2YRQ_A 1AAB_A ....
Probab=98.18 E-value=2.3e-06 Score=61.17 Aligned_cols=45 Identities=33% Similarity=0.622 Sum_probs=38.4
Q ss_pred CcccCCCchhhhHHHHHHHHHHHhc-CCCCCHHHHHHHHHHhhccC
Q 028144 125 PEKRQRVPSAYNRFIKDEIQRIKAG-NPDISHREAFSAAAKNWAHF 169 (213)
Q Consensus 125 PEKRQR~psayN~fmK~ei~riK~~-~P~i~HkEaFs~aAknW~~~ 169 (213)
|.|-.|.+|||+.||++.+.++|+. .+.++.+|++..++..|+..
T Consensus 1 p~kpK~~~say~lF~~~~~~~~k~~G~~~~~~~e~~k~~~~~Wk~L 46 (73)
T PF09011_consen 1 PKKPKRPPSAYNLFMKEMRKEVKEEGGQKQSFREVMKEISERWKSL 46 (73)
T ss_dssp SSS--SSSSHHHHHHHHHHHHHHHHT-T-SSHHHHHHHHHHHHHHS
T ss_pred CcCCCCCCCHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHhc
Confidence 5666899999999999999999999 88899999999999999975
No 3
>cd01390 HMGB-UBF_HMG-box HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III members include nucleolar and mitochondrial transcription factors, UBF and mtTF1, which bind four-way DNA junctions.
Probab=97.75 E-value=5.7e-05 Score=51.43 Aligned_cols=42 Identities=29% Similarity=0.471 Sum_probs=38.9
Q ss_pred CCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCC
Q 028144 129 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 170 (213)
Q Consensus 129 QR~psayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~P 170 (213)
.|-+|+|..|+++....+++++|+++..|....++..|+..+
T Consensus 2 krp~saf~~f~~~~r~~~~~~~p~~~~~~i~~~~~~~W~~ls 43 (66)
T cd01390 2 KRPLSAYFLFSQEQRPKLKKENPDASVTEVTKILGEKWKELS 43 (66)
T ss_pred CCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCC
Confidence 367899999999999999999999999999999999999753
No 4
>cd00084 HMG-box High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I proteins bind DNA in a sequence specific fashion and contain a single HMG box. One group (SOX-TCF) includes transcription factors, TCF-1, -3, -4; and also SRY and LEF-1, which bind four-way DNA junctions and duplex DNA targets. The second group (MATA) includes fungal mating type gene products MC, MATA1 and Ste11. Class II and III proteins (HMGB-UBF) bind DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III member
Probab=97.70 E-value=7.9e-05 Score=50.11 Aligned_cols=42 Identities=29% Similarity=0.412 Sum_probs=39.1
Q ss_pred CCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCC
Q 028144 129 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 170 (213)
Q Consensus 129 QR~psayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~P 170 (213)
.|-+++|..|++++...+++.+|+++..|....+++.|+..+
T Consensus 2 krp~~af~~f~~~~~~~~~~~~~~~~~~~i~~~~~~~W~~l~ 43 (66)
T cd00084 2 KRPLSAYFLFSQEHRAEVKAENPGLSVGEISKILGEMWKSLS 43 (66)
T ss_pred CCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCC
Confidence 467899999999999999999999999999999999999754
No 5
>cd01388 SOX-TCF_HMG-box SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and transcription factor-like proteins, TCF-1, -3, -4, and LEF-1. They appear to bind the minor groove of the A/T C A A A G/C-motif.
Probab=97.68 E-value=7.7e-05 Score=53.19 Aligned_cols=42 Identities=17% Similarity=0.269 Sum_probs=38.9
Q ss_pred CCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCC
Q 028144 129 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 170 (213)
Q Consensus 129 QR~psayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~P 170 (213)
.|-++||..|+++.-.+|++++|+++..|.-+.++..|+..+
T Consensus 3 KrP~naf~~F~~~~r~~~~~~~p~~~~~eisk~l~~~Wk~ls 44 (72)
T cd01388 3 KRPMNAFMLFSKRHRRKVLQEYPLKENRAISKILGDRWKALS 44 (72)
T ss_pred CCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCC
Confidence 467899999999999999999999999999999999998753
No 6
>PF00505 HMG_box: HMG (high mobility group) box; InterPro: IPR000910 High mobility group (HMG or HMGB) proteins are a family of relatively low molecular weight non-histone components in chromatin. HMG1 (also called HMG-T in fish) and HMG2 are two highly related proteins that bind single-stranded DNA preferentially and unwind double-stranded DNA. Although they have no sequence specificity, they have a high affinity for bent or distorted DNA, and bend linear DNA. HMG1 and HMG2 contain two DNA-binding HMG-box domains (A and B) that show structural and functional differences, and have a long acidic C-terminal domain rich in aspartic and glutamic acid residues. The acidic tail modulates the affinity of the tandem HMG boxes in HMG1 and 2 for a variety of DNA targets. HMG1 and 2 appear to play important architectural roles in the assembly of nucleoprotein complexes in a variety of biological processes, for example V(D)J recombination, the initiation of transcription, and DNA repair []. The profile in this entry describing the HMG-domains is much more general than the signature. In addition to the HMG1 and HMG2 proteins, HMG-domains occur in single or multiple copies in the following protein classes; the SOX family of transcription factors; SRY sex determining region Y protein and related proteins []; LEF1 lymphoid enhancer binding factor 1 []; SSRP recombination signal recognition protein; MTF1 mitochondrial transcription factor 1; UBF1/2 nucleolar transcription factors; Abf2 yeast ARS-binding factor []; and Saccharomyces cerevisiae transcription factors Ixr1, Rox1, Nhp6a, Nhp6b and Spp41.; GO: 0003677 DNA binding; PDB: 1I11_A 1J3C_A 1J3D_A 1WZ6_A 1WGF_A 2D7L_A 1GT0_D 3U2B_C 2CRJ_A 2CS1_A ....
Probab=97.66 E-value=7.1e-05 Score=51.49 Aligned_cols=41 Identities=32% Similarity=0.619 Sum_probs=36.9
Q ss_pred CCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccC
Q 028144 129 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHF 169 (213)
Q Consensus 129 QR~psayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ 169 (213)
.|-++||..|+++....||+++|+++..|.-+.+++.|+..
T Consensus 2 krP~~af~lf~~~~~~~~k~~~p~~~~~~i~~~~~~~W~~l 42 (69)
T PF00505_consen 2 KRPPNAFMLFCKEKRAKLKEENPDLSNKEISKILAQMWKNL 42 (69)
T ss_dssp SSS--HHHHHHHHHHHHHHHHSTTSTHHHHHHHHHHHHHCS
T ss_pred cCCCCHHHHHHHHHHHHHHHHhcccccccchhhHHHHHhcC
Confidence 47889999999999999999999999999999999999974
No 7
>smart00398 HMG high mobility group.
Probab=97.56 E-value=0.00017 Score=49.01 Aligned_cols=42 Identities=31% Similarity=0.501 Sum_probs=39.1
Q ss_pred CCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCC
Q 028144 129 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 170 (213)
Q Consensus 129 QR~psayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~P 170 (213)
.|-+++|..|+++....+++++|+++..|....++..|+..+
T Consensus 3 krp~~~y~~f~~~~r~~~~~~~~~~~~~~i~~~~~~~W~~l~ 44 (70)
T smart00398 3 KRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLS 44 (70)
T ss_pred CCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHcCC
Confidence 467899999999999999999999999999999999999753
No 8
>cd01389 MATA_HMG-box MATA_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include the fungal mating type gene products MC, MATA1 and Ste11.
Probab=97.51 E-value=0.0002 Score=51.50 Aligned_cols=42 Identities=19% Similarity=0.371 Sum_probs=39.5
Q ss_pred CCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCC
Q 028144 129 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 170 (213)
Q Consensus 129 QR~psayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~P 170 (213)
.|-++||-.|+++....|+++||++++.|.-+.++..|+..+
T Consensus 3 kRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~~g~~Wk~ls 44 (77)
T cd01389 3 PRPRNAFILYRQDKHAQLKTENPGLTNNEISRIIGRMWRSES 44 (77)
T ss_pred CCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCC
Confidence 578999999999999999999999999999999999999754
No 9
>PTZ00199 high mobility group protein; Provisional
Probab=97.41 E-value=0.00036 Score=52.94 Aligned_cols=48 Identities=25% Similarity=0.438 Sum_probs=41.8
Q ss_pred CCCcccCCCchhhhHHHHHHHHHHHhcCCCCC--HHHHHHHHHHhhccCC
Q 028144 123 RPPEKRQRVPSAYNRFIKDEIQRIKAGNPDIS--HREAFSAAAKNWAHFP 170 (213)
Q Consensus 123 KPPEKRQR~psayN~fmK~ei~riK~~~P~i~--HkEaFs~aAknW~~~P 170 (213)
+.|.+-.|-+|||..|+++.-..|+++||+++ -.|.-+.++..|+..+
T Consensus 18 kdp~~PKrP~sAY~~F~~~~R~~i~~~~P~~~~~~~evsk~ige~Wk~ls 67 (94)
T PTZ00199 18 KDPNAPKRALSAYMFFAKEKRAEIIAENPELAKDVAAVGKMVGEAWNKLS 67 (94)
T ss_pred CCCCCCCCCCcHHHHHHHHHHHHHHHHCcCCcccHHHHHHHHHHHHHcCC
Confidence 55666678899999999999999999999986 5788889999999764
No 10
>PF06244 DUF1014: Protein of unknown function (DUF1014); InterPro: IPR010422 This family consists of several hypothetical eukaryotic proteins of unknown function.
Probab=96.65 E-value=0.0021 Score=52.32 Aligned_cols=50 Identities=26% Similarity=0.509 Sum_probs=44.8
Q ss_pred CCCCCCcccCCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCCc
Q 028144 120 ATSRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPH 171 (213)
Q Consensus 120 ~v~KPPEKRQR~psayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~Ph 171 (213)
.+-|.||||-+ -||..|--.+|.+||++||++.+-+-=-..=|.|..+|.
T Consensus 67 ~~drHPErR~K--AAy~afeE~~Lp~lK~E~PgLrlsQ~kq~l~K~w~KSPe 116 (122)
T PF06244_consen 67 PIDRHPERRMK--AAYKAFEERRLPELKEENPGLRLSQYKQMLWKEWQKSPE 116 (122)
T ss_pred CCCCCcchhHH--HHHHHHHHHHhHHHHhhCCCchHHHHHHHHHHHHhcCCC
Confidence 45689999875 599999999999999999999999988888999999874
No 11
>KOG0381 consensus HMG box-containing protein [General function prediction only]
Probab=96.38 E-value=0.0072 Score=44.44 Aligned_cols=43 Identities=30% Similarity=0.442 Sum_probs=39.3
Q ss_pred ccCCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccC
Q 028144 127 KRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHF 169 (213)
Q Consensus 127 KRQR~psayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ 169 (213)
.-+|-+|||..|+.+.-.+||++||+++..|.=+.+..+|...
T Consensus 22 ~pkrp~sa~~~f~~~~~~~~k~~~p~~~~~~v~k~~g~~W~~l 64 (96)
T KOG0381|consen 22 APKRPLSAFFLFSSEQRSKIKAENPGLSVGEVAKALGEMWKNL 64 (96)
T ss_pred CCCCCCcHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcC
Confidence 4567888999999999999999999999999999999999875
No 12
>PF11331 DUF3133: Protein of unknown function (DUF3133); InterPro: IPR021480 This eukaryotic family of proteins has no known function.
Probab=93.64 E-value=0.033 Score=38.79 Aligned_cols=38 Identities=26% Similarity=0.718 Sum_probs=29.5
Q ss_pred EEeCCCcceeEEecccCCCCcc---eeeeecCCcCCCcccccc
Q 028144 21 YVHCNLCDTVLAVSVPCTSLFK---TVTVRCGHCTNLLPVNMR 60 (213)
Q Consensus 21 YV~CnfCnTILaVsVPcssL~~---~VTVRCGHCtnLlSVNm~ 60 (213)
||-|.-|...|- +|-+.+.. .-.+|||.|+.++++.++
T Consensus 6 Fv~C~~C~~lLq--lP~~~~~~~k~~~klrCGaCs~vl~~s~~ 46 (46)
T PF11331_consen 6 FVVCSSCFELLQ--LPAKFSLSKKNQQKLRCGACSEVLSFSLP 46 (46)
T ss_pred EeECccHHHHHc--CCCccCCCccceeEEeCCCCceeEEEecC
Confidence 789999977765 47775443 568999999999988753
No 13
>KOG3223 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.51 E-value=0.041 Score=48.85 Aligned_cols=50 Identities=30% Similarity=0.521 Sum_probs=43.8
Q ss_pred CCCCcccCCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCCccc
Q 028144 122 SRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHIH 173 (213)
Q Consensus 122 ~KPPEKRQR~psayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~Phih 173 (213)
-|-||||=|. ||--|=..++-|||.++|+++|-+-=-..-|.|...|.=-
T Consensus 161 drHPEkRmrA--A~~afEe~~LPrLK~e~P~lrlsQ~Kqll~Kew~KsPDNP 210 (221)
T KOG3223|consen 161 DRHPEKRMRA--AFKAFEEARLPRLKKENPGLRLSQYKQLLKKEWQKSPDNP 210 (221)
T ss_pred ccChHHHHHH--HHHHHHHhhchhhhhcCCCccHHHHHHHHHHHHhhCCCCh
Confidence 4899999885 8999999999999999999999987777888999887533
No 14
>KOG4684 consensus Uncharacterized conserved protein, contains C4-type Zn-finger [General function prediction only]
Probab=83.27 E-value=1.2 Score=40.67 Aligned_cols=17 Identities=35% Similarity=0.852 Sum_probs=12.3
Q ss_pred eeeeecCCcCCCccccc
Q 028144 43 TVTVRCGHCTNLLPVNM 59 (213)
Q Consensus 43 ~VTVRCGHCtnLlSVNm 59 (213)
.+-|+||||.+..--|.
T Consensus 168 gcRV~CgHC~~tFLfnt 184 (275)
T KOG4684|consen 168 GCRVKCGHCNETFLFNT 184 (275)
T ss_pred ceEEEecCccceeehhh
Confidence 47888999988655543
No 15
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=82.26 E-value=1.9 Score=34.14 Aligned_cols=44 Identities=16% Similarity=0.403 Sum_probs=36.0
Q ss_pred eEEeCCCcceeEEecccCCCCcceeeeecCCcCCCcccccccCCCCC
Q 028144 20 CYVHCNLCDTVLAVSVPCTSLFKTVTVRCGHCTNLLPVNMRGLLLPS 66 (213)
Q Consensus 20 CYV~CnfCnTILaVsVPcssL~~~VTVRCGHCtnLlSVNm~~ll~p~ 66 (213)
=++.|.||+. ..|+||... ++..+.|..|.---.-.+..|.+|.
T Consensus 20 t~f~CP~Cge-~~v~v~~~k--~~~h~~C~~CG~y~~~~V~~l~epI 63 (99)
T PRK14892 20 KIFECPRCGK-VSISVKIKK--NIAIITCGNCGLYTEFEVPSVYDEV 63 (99)
T ss_pred cEeECCCCCC-eEeeeecCC--CcceEECCCCCCccCEECCccccch
Confidence 3789999995 789999988 7999999999987776666666663
No 16
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=81.10 E-value=1.7 Score=27.57 Aligned_cols=35 Identities=29% Similarity=0.553 Sum_probs=24.4
Q ss_pred EEeCCCcceeEEecccCCCCc-ceeeeecCCcCCCccc
Q 028144 21 YVHCNLCDTVLAVSVPCTSLF-KTVTVRCGHCTNLLPV 57 (213)
Q Consensus 21 YV~CnfCnTILaVsVPcssL~-~~VTVRCGHCtnLlSV 57 (213)
.+.|..|.+..-|.. +.+- +...|+|++|.+.+.+
T Consensus 2 ~~~CP~C~~~~~v~~--~~~~~~~~~v~C~~C~~~~~~ 37 (38)
T TIGR02098 2 RIQCPNCKTSFRVVD--SQLGANGGKVRCGKCGHVWYA 37 (38)
T ss_pred EEECCCCCCEEEeCH--HHcCCCCCEEECCCCCCEEEe
Confidence 378999999877653 2221 3347999999987654
No 17
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=79.91 E-value=1.3 Score=28.78 Aligned_cols=34 Identities=32% Similarity=0.654 Sum_probs=25.2
Q ss_pred EeCCCcceeEEecccCCCC-cceeeeecCCcCCCccc
Q 028144 22 VHCNLCDTVLAVSVPCTSL-FKTVTVRCGHCTNLLPV 57 (213)
Q Consensus 22 V~CnfCnTILaVsVPcssL-~~~VTVRCGHCtnLlSV 57 (213)
++|--|.|..-| |-+.| -....|||++|.+...|
T Consensus 3 i~CP~C~~~f~v--~~~~l~~~~~~vrC~~C~~~f~v 37 (37)
T PF13719_consen 3 ITCPNCQTRFRV--PDDKLPAGGRKVRCPKCGHVFRV 37 (37)
T ss_pred EECCCCCceEEc--CHHHcccCCcEEECCCCCcEeeC
Confidence 789999998865 44443 34679999999987654
No 18
>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines.; PDB: 1WII_A.
Probab=77.40 E-value=1.2 Score=33.60 Aligned_cols=44 Identities=18% Similarity=0.308 Sum_probs=26.5
Q ss_pred EEeCCCcceeEEecccCCCCcceeeeecCCcCCCcccccccCCC
Q 028144 21 YVHCNLCDTVLAVSVPCTSLFKTVTVRCGHCTNLLPVNMRGLLL 64 (213)
Q Consensus 21 YV~CnfCnTILaVsVPcssL~~~VTVRCGHCtnLlSVNm~~ll~ 64 (213)
+-.|-|||.--+|+|=.+.-..+-++.||-|.---..++..|..
T Consensus 22 ~F~CPfC~~~~sV~v~idkk~~~~~~~C~~Cg~~~~~~i~~L~e 65 (81)
T PF05129_consen 22 VFDCPFCNHEKSVSVKIDKKEGIGILSCRVCGESFQTKINPLSE 65 (81)
T ss_dssp ----TTT--SS-EEEEEETTTTEEEEEESSS--EEEEE--SS--
T ss_pred eEcCCcCCCCCeEEEEEEccCCEEEEEecCCCCeEEEccCccCc
Confidence 45799999999999999999999999999995444444444433
No 19
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=74.42 E-value=1.8 Score=40.01 Aligned_cols=28 Identities=39% Similarity=0.945 Sum_probs=24.0
Q ss_pred CCceeEEeCCCcceeEEecccCCCCcceeeeecCCcCC
Q 028144 16 SEQLCYVHCNLCDTVLAVSVPCTSLFKTVTVRCGHCTN 53 (213)
Q Consensus 16 ~E~lCYV~CnfCnTILaVsVPcssL~~~VTVRCGHCtn 53 (213)
.+..=|.||++|.| -...|-++|.+|.|
T Consensus 205 ~~G~RyL~CslC~t----------eW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 205 ETGLRYLSCSLCAT----------EWHYVRVKCSHCEE 232 (305)
T ss_pred CCCceEEEcCCCCC----------cccccCccCCCCCC
Confidence 35677999999987 57889999999998
No 20
>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=68.83 E-value=2.6 Score=30.21 Aligned_cols=32 Identities=22% Similarity=0.616 Sum_probs=24.1
Q ss_pred EeCCCcceeEEecccCCCCcceeeeecCCcCCCccc
Q 028144 22 VHCNLCDTVLAVSVPCTSLFKTVTVRCGHCTNLLPV 57 (213)
Q Consensus 22 V~CnfCnTILaVsVPcssL~~~VTVRCGHCtnLlSV 57 (213)
+||..||..||-+- -+..+.++|..|..+-.|
T Consensus 5 iRC~~CnklLa~~g----~~~~leIKCpRC~tiN~~ 36 (51)
T PF10122_consen 5 IRCGHCNKLLAKAG----EVIELEIKCPRCKTINHV 36 (51)
T ss_pred eeccchhHHHhhhc----CccEEEEECCCCCccceE
Confidence 68999998888642 344788888888877665
No 21
>PRK03954 ribonuclease P protein component 4; Validated
Probab=67.47 E-value=3.1 Score=34.01 Aligned_cols=32 Identities=25% Similarity=0.637 Sum_probs=23.9
Q ss_pred CCCcceeEEecccCCC-Ccc----eeeeecCCcCCCc
Q 028144 24 CNLCDTVLAVSVPCTS-LFK----TVTVRCGHCTNLL 55 (213)
Q Consensus 24 CnfCnTILaVsVPcss-L~~----~VTVRCGHCtnLl 55 (213)
|-.|+|.|.-||-|.- +-+ -|.|+|..|...-
T Consensus 67 CK~C~t~LiPG~n~~vRi~~~~~~~vvitCl~CG~~k 103 (121)
T PRK03954 67 CKRCHSFLVPGVNARVRLRQKRMPHVVITCLECGHIM 103 (121)
T ss_pred hhcCCCeeecCCceEEEEecCCcceEEEECccCCCEE
Confidence 8899999988876551 222 4899999998753
No 22
>COG3058 FdhE Uncharacterized protein involved in formate dehydrogenase formation [Posttranslational modification, protein turnover, chaperones]
Probab=66.48 E-value=0.93 Score=42.32 Aligned_cols=44 Identities=32% Similarity=0.662 Sum_probs=33.0
Q ss_pred cccCCCCC-CCCceeEEeCCCcceeEEecccCCCCcceeeeecCCcCCCcccccc
Q 028144 7 TLSLDQFP-TSEQLCYVHCNLCDTVLAVSVPCTSLFKTVTVRCGHCTNLLPVNMR 60 (213)
Q Consensus 7 ~~~~d~~~-~~E~lCYV~CnfCnTILaVsVPcssL~~~VTVRCGHCtnLlSVNm~ 60 (213)
+-||=+.. ..|-+=|.|||.|-| ..+.|-|+|-+|.+---+++-
T Consensus 196 vaSmV~~g~~~~GlRYL~CslC~t----------eW~~VR~KC~nC~~t~~l~y~ 240 (308)
T COG3058 196 VASMVQIGETEQGLRYLHCSLCET----------EWHYVRVKCSNCEQSKKLHYW 240 (308)
T ss_pred cceeeeecCccccchhhhhhhHHH----------HHHHHHHHhccccccCCccce
Confidence 44555554 457889999999977 678899999999986555543
No 23
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=65.89 E-value=7.5 Score=25.19 Aligned_cols=30 Identities=27% Similarity=0.760 Sum_probs=23.2
Q ss_pred EeCCCcceeEEec---ccCCCCcceeeeecCCcCCCc
Q 028144 22 VHCNLCDTVLAVS---VPCTSLFKTVTVRCGHCTNLL 55 (213)
Q Consensus 22 V~CnfCnTILaVs---VPcssL~~~VTVRCGHCtnLl 55 (213)
+.|.-|.+...|. || =+.+.|||+.|.+++
T Consensus 3 i~Cp~C~~~y~i~d~~ip----~~g~~v~C~~C~~~f 35 (36)
T PF13717_consen 3 ITCPNCQAKYEIDDEKIP----PKGRKVRCSKCGHVF 35 (36)
T ss_pred EECCCCCCEEeCCHHHCC----CCCcEEECCCCCCEe
Confidence 6899999988765 44 245799999998764
No 24
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=64.74 E-value=5.2 Score=37.20 Aligned_cols=28 Identities=39% Similarity=1.076 Sum_probs=24.2
Q ss_pred CCceeEEeCCCcceeEEecccCCCCcceeeeecCCcCC
Q 028144 16 SEQLCYVHCNLCDTVLAVSVPCTSLFKTVTVRCGHCTN 53 (213)
Q Consensus 16 ~E~lCYV~CnfCnTILaVsVPcssL~~~VTVRCGHCtn 53 (213)
.+-.=|.||++|.| ....|-++|.+|.|
T Consensus 207 ~~G~RyL~CslC~t----------eW~~~R~~C~~Cg~ 234 (309)
T PRK03564 207 TQGLRYLHCNLCES----------EWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCceEEEcCCCCC----------cccccCccCCCCCC
Confidence 46678999999987 57889999999997
No 25
>PF09788 Tmemb_55A: Transmembrane protein 55A; InterPro: IPR019178 Members of this family catalyse the hydrolysis of the 4-position phosphate of phosphatidylinositol 4,5-bisphosphate, in the reaction: 1-phosphatidyl-myo-inositol 4,5-bisphosphate + H(2)O = 1-phosphatidyl-1D-myo-inositol 5-phosphate + phosphate.
Probab=63.93 E-value=5.7 Score=36.43 Aligned_cols=39 Identities=23% Similarity=0.538 Sum_probs=30.4
Q ss_pred CceeEEeCCCcceeEEecccCCCCcceeeeecCCcCCCccccc
Q 028144 17 EQLCYVHCNLCDTVLAVSVPCTSLFKTVTVRCGHCTNLLPVNM 59 (213)
Q Consensus 17 E~lCYV~CnfCnTILaVsVPcssL~~~VTVRCGHCtnLlSVNm 59 (213)
..-|=|.|+.|+.+.+...+-++- -.||-||-.++||.-
T Consensus 153 p~~~rv~CghC~~~Fl~~~~~~~t----lARCPHCrKvSSVG~ 191 (256)
T PF09788_consen 153 PGSCRVICGHCSNTFLFNTLTSNT----LARCPHCRKVSSVGP 191 (256)
T ss_pred CCceeEECCCCCCcEeccCCCCCc----cccCCCCceeccccc
Confidence 467889999999888777666332 279999999999964
No 26
>KOG4684 consensus Uncharacterized conserved protein, contains C4-type Zn-finger [General function prediction only]
Probab=62.91 E-value=3.3 Score=37.92 Aligned_cols=34 Identities=35% Similarity=0.819 Sum_probs=27.5
Q ss_pred ceeEEeCCCcceeEEecccCCCCcceee---eecCCcCCCccccc
Q 028144 18 QLCYVHCNLCDTVLAVSVPCTSLFKTVT---VRCGHCTNLLPVNM 59 (213)
Q Consensus 18 ~lCYV~CnfCnTILaVsVPcssL~~~VT---VRCGHCtnLlSVNm 59 (213)
--|-|-|+.|+.+.+ |++.| -||-||...+||--
T Consensus 167 ~gcRV~CgHC~~tFL--------fnt~tnaLArCPHCrKvSsvGs 203 (275)
T KOG4684|consen 167 TGCRVKCGHCNETFL--------FNTLTNALARCPHCRKVSSVGS 203 (275)
T ss_pred cceEEEecCccceee--------hhhHHHHHhcCCcccchhhhhh
Confidence 359999999998874 55544 69999999999854
No 27
>PF04032 Rpr2: RNAse P Rpr2/Rpp21/SNM1 subunit domain; InterPro: IPR007175 This family contains a ribonuclease P subunit of human and yeast. Other members of the family include the probable archaeal homologues. This subunit possibly binds the precursor tRNA [].; PDB: 2K3R_A 2KI7_B 2ZAE_B 1X0T_A.
Probab=61.68 E-value=3.7 Score=29.55 Aligned_cols=31 Identities=23% Similarity=0.568 Sum_probs=19.5
Q ss_pred eCCCcceeEEecccCCC-------CcceeeeecCCcCC
Q 028144 23 HCNLCDTVLAVSVPCTS-------LFKTVTVRCGHCTN 53 (213)
Q Consensus 23 ~CnfCnTILaVsVPcss-------L~~~VTVRCGHCtn 53 (213)
-|.-|.++|.-|+-|+- .-+.|.++|..|.+
T Consensus 48 ~Ck~C~~~liPG~~~~vri~~~~~~~~~l~~~C~~C~~ 85 (85)
T PF04032_consen 48 ICKKCGSLLIPGVNCSVRIRKKKKKKNFLVYTCLNCGH 85 (85)
T ss_dssp B-TTT--B--CTTTEEEEEE---SSS-EEEEEETTTTE
T ss_pred cccCCCCEEeCCCccEEEEEecCCCCCEEEEEccccCC
Confidence 58999999998887763 24688999999963
No 28
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=57.05 E-value=28 Score=33.61 Aligned_cols=46 Identities=28% Similarity=0.546 Sum_probs=40.1
Q ss_pred CCCCcccCCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCC
Q 028144 122 SRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 170 (213)
Q Consensus 122 ~KPPEKRQR~psayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~P 170 (213)
-|||||- .-.|-+|-+.=-..+||.||++---|.=+.+.+.|.+.|
T Consensus 62 Pkppekp---l~pymrySrkvWd~VkA~nPe~kLWeiGK~Ig~mW~dLp 107 (410)
T KOG4715|consen 62 PKPPEKP---LMPYMRYSRKVWDQVKASNPELKLWEIGKIIGGMWLDLP 107 (410)
T ss_pred CCCCCcc---cchhhHHhhhhhhhhhccCcchHHHHHHHHHHHHHhhCc
Confidence 3788874 557999999999999999999999999999999999876
No 29
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=53.36 E-value=4.6 Score=35.93 Aligned_cols=33 Identities=30% Similarity=0.673 Sum_probs=17.8
Q ss_pred eeEEeCCCcceeEEecccCCCCcceeeeecCCcCCCccccccc
Q 028144 19 LCYVHCNLCDTVLAVSVPCTSLFKTVTVRCGHCTNLLPVNMRG 61 (213)
Q Consensus 19 lCYV~CnfCnTILaVsVPcssL~~~VTVRCGHCtnLlSVNm~~ 61 (213)
.=|-+|.+|.|- ...+-++|.+|.|---..+..
T Consensus 195 ~R~L~Cs~C~t~----------W~~~R~~Cp~Cg~~~~~~l~~ 227 (290)
T PF04216_consen 195 KRYLHCSLCGTE----------WRFVRIKCPYCGNTDHEKLEY 227 (290)
T ss_dssp EEEEEETTT--E----------EE--TTS-TTT---SS-EEE-
T ss_pred cEEEEcCCCCCe----------eeecCCCCcCCCCCCCcceee
Confidence 468999999884 567888999999876655543
No 30
>PF08073 CHDNT: CHDNT (NUC034) domain; InterPro: IPR012958 The CHD N-terminal domain is found in PHD/RING fingers and chromo domain-associated helicases [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=51.33 E-value=24 Score=25.57 Aligned_cols=33 Identities=15% Similarity=0.441 Sum_probs=26.5
Q ss_pred hhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccC
Q 028144 134 AYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHF 169 (213)
Q Consensus 134 ayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ 169 (213)
+|..+|+-- |-+.||++.+-.-+...+..|+.|
T Consensus 18 ~Fsq~vRP~---l~~~NPk~~~sKl~~l~~AKwrEF 50 (55)
T PF08073_consen 18 AFSQHVRPL---LAKANPKAPMSKLMMLLQAKWREF 50 (55)
T ss_pred HHHHHHHHH---HHHHCCCCcHHHHHHHHHHHHHHH
Confidence 455555544 457899999999999999999986
No 31
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=42.82 E-value=41 Score=30.25 Aligned_cols=41 Identities=22% Similarity=0.413 Sum_probs=37.5
Q ss_pred CCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccC
Q 028144 129 QRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHF 169 (213)
Q Consensus 129 QR~psayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~ 169 (213)
.|--|||-.|..+-=.+|+..+|+++--|.=+.+.+.|+.+
T Consensus 72 KRp~sayf~y~~~~R~ei~~~~p~l~~~e~~k~~~e~WK~L 112 (211)
T COG5648 72 KRPLSAYFLYSAENRDEIRKENPKLTFGEVGKLLSEKWKEL 112 (211)
T ss_pred CCchhHHHHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHhc
Confidence 46679999999999999999999999999999999999975
No 32
>PF06382 DUF1074: Protein of unknown function (DUF1074); InterPro: IPR024460 This family consists of several proteins which appear to be specific to Insecta. The function of this family is unknown.
Probab=42.80 E-value=32 Score=30.32 Aligned_cols=34 Identities=21% Similarity=0.552 Sum_probs=29.4
Q ss_pred hhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCC
Q 028144 133 SAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 170 (213)
Q Consensus 133 sayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~P 170 (213)
++|=.||.+ .+..|.++..+|.-..||+-|...+
T Consensus 84 naYLNFLRe----FRrkh~~L~p~dlI~~AAraW~rLS 117 (183)
T PF06382_consen 84 NAYLNFLRE----FRRKHCGLSPQDLIQRAARAWCRLS 117 (183)
T ss_pred hHHHHHHHH----HHHHccCCCHHHHHHHHHHHHHhCC
Confidence 688888764 7778999999999999999998753
No 33
>TIGR01053 LSD1 zinc finger domain, LSD1 subclass. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC
Probab=42.22 E-value=21 Score=22.81 Aligned_cols=25 Identities=36% Similarity=0.713 Sum_probs=13.6
Q ss_pred EeCCCcceeEEecccCCCCcceeeeecCCcC
Q 028144 22 VHCNLCDTVLAVSVPCTSLFKTVTVRCGHCT 52 (213)
Q Consensus 22 V~CnfCnTILaVsVPcssL~~~VTVRCGHCt 52 (213)
|.|+-|.|+|+.- ...-.|||--|.
T Consensus 2 ~~C~~C~t~L~yP------~gA~~vrCs~C~ 26 (31)
T TIGR01053 2 VVCGGCRTLLMYP------RGASSVRCALCQ 26 (31)
T ss_pred cCcCCCCcEeecC------CCCCeEECCCCC
Confidence 3566666666542 233456666664
No 34
>PF12876 Cellulase-like: Sugar-binding cellulase-like; InterPro: IPR024778 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This entry represents a family of putative cellulase enzymes.; PDB: 3GYC_B.
Probab=37.82 E-value=45 Score=24.44 Aligned_cols=31 Identities=26% Similarity=0.473 Sum_probs=23.0
Q ss_pred CCcccCCCchhhhHHHHHHHHHHHhcCCCCC
Q 028144 124 PPEKRQRVPSAYNRFIKDEIQRIKAGNPDIS 154 (213)
Q Consensus 124 PPEKRQR~psayN~fmK~ei~riK~~~P~i~ 154 (213)
|.+..+....+|..++++-++.||+.+|+.+
T Consensus 29 ~~~~~~~~~~~~~~~l~~~~~~iR~~dP~~p 59 (88)
T PF12876_consen 29 PAEWGDPKAEAYAEWLKEAFRWIRAVDPSQP 59 (88)
T ss_dssp TT-TT-TTSHHHHHHHHHHHHHHHTT-TTS-
T ss_pred cccccchhHHHHHHHHHHHHHHHHHhCCCCc
Confidence 3455555788999999999999999999743
No 35
>PF11331 DUF3133: Protein of unknown function (DUF3133); InterPro: IPR021480 This eukaryotic family of proteins has no known function.
Probab=36.77 E-value=50 Score=23.09 Aligned_cols=20 Identities=30% Similarity=0.684 Sum_probs=17.2
Q ss_pred CceeEEeCCCcceeEEeccc
Q 028144 17 EQLCYVHCNLCDTVLAVSVP 36 (213)
Q Consensus 17 E~lCYV~CnfCnTILaVsVP 36 (213)
...-=+||+-|.+||-+++|
T Consensus 27 k~~~klrCGaCs~vl~~s~~ 46 (46)
T PF11331_consen 27 KNQQKLRCGACSEVLSFSLP 46 (46)
T ss_pred cceeEEeCCCCceeEEEecC
Confidence 44667899999999999987
No 36
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=35.70 E-value=19 Score=29.92 Aligned_cols=37 Identities=27% Similarity=0.245 Sum_probs=31.1
Q ss_pred CCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhh
Q 028144 130 RVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNW 166 (213)
Q Consensus 130 R~psayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW 166 (213)
...+.-.+=++.||+++|+|.-.|+.+|-|...||+=
T Consensus 36 ~~~~~~~~~l~~Ei~~l~~E~~~iS~qDeFAkwaKl~ 72 (161)
T PF04420_consen 36 SKSSKEQRQLRKEILQLKRELNAISAQDEFAKWAKLN 72 (161)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHTTS-TTTSHHHHHHHH
T ss_pred ccccHHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHH
Confidence 4566777889999999999999999999999999863
No 37
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=35.35 E-value=41 Score=27.34 Aligned_cols=45 Identities=20% Similarity=0.335 Sum_probs=34.8
Q ss_pred EEeCCCcceeEEecccCCCCcceeeeecCCcCCCcccccccCCCC
Q 028144 21 YVHCNLCDTVLAVSVPCTSLFKTVTVRCGHCTNLLPVNMRGLLLP 65 (213)
Q Consensus 21 YV~CnfCnTILaVsVPcssL~~~VTVRCGHCtnLlSVNm~~ll~p 65 (213)
|--|-||+-...|+--.+--.++-|+-||-|.--.-+-..+++.|
T Consensus 22 ~FtCp~Cghe~vs~ctvkk~~~~g~~~Cg~CGls~e~ev~~l~~~ 66 (104)
T COG4888 22 TFTCPRCGHEKVSSCTVKKTVNIGTAVCGNCGLSFECEVPELSEP 66 (104)
T ss_pred eEecCccCCeeeeEEEEEecCceeEEEcccCcceEEEeccccccc
Confidence 678999999999987777788889999999975444444555555
No 38
>PF03811 Zn_Tnp_IS1: InsA N-terminal domain; InterPro: IPR003220 Insertion elements are mobile elements in DNA, usually encoding proteins required for transposition, for example transposases. Protein InsA is absolutely required for transposition of insertion element 1. This entry represents a short zinc binding domain found in IS1 InsA family protein. It is found at the N terminus of the protein and may be a DNA-binding domain.; GO: 0006313 transposition, DNA-mediated
Probab=35.18 E-value=27 Score=22.99 Aligned_cols=18 Identities=22% Similarity=0.552 Sum_probs=14.5
Q ss_pred cceeeeecCCcCCCcccc
Q 028144 41 FKTVTVRCGHCTNLLPVN 58 (213)
Q Consensus 41 ~~~VTVRCGHCtnLlSVN 58 (213)
+.+|+|.|-+|.+-.+|.
T Consensus 1 Ma~i~v~CP~C~s~~~v~ 18 (36)
T PF03811_consen 1 MAKIDVHCPRCQSTEGVK 18 (36)
T ss_pred CCcEeeeCCCCCCCCcce
Confidence 457999999999877663
No 39
>PF14599 zinc_ribbon_6: Zinc-ribbon; PDB: 2K2D_A.
Probab=34.51 E-value=31 Score=25.19 Aligned_cols=31 Identities=29% Similarity=0.800 Sum_probs=16.1
Q ss_pred CceeEEeCCCcceeEEecccCCCCcceeeeecCCcCC
Q 028144 17 EQLCYVHCNLCDTVLAVSVPCTSLFKTVTVRCGHCTN 53 (213)
Q Consensus 17 E~lCYV~CnfCnTILaVsVPcssL~~~VTVRCGHCtn 53 (213)
...+.|.||=|+.-=- || |-++-.||+||.+
T Consensus 26 ~~~v~IlCNDC~~~s~--v~----fH~lg~KC~~C~S 56 (61)
T PF14599_consen 26 NKKVWILCNDCNAKSE--VP----FHFLGHKCSHCGS 56 (61)
T ss_dssp --EEEEEESSS--EEE--EE------TT----TTTS-
T ss_pred CCEEEEECCCCCCccc--ee----eeHhhhcCCCCCC
Confidence 3679999999987543 33 7788899999975
No 40
>PF05047 L51_S25_CI-B8: Mitochondrial ribosomal protein L51 / S25 / CI-B8 domain ; InterPro: IPR007741 Proteins containing this domain are located in the mitochondrion and include ribosomal protein L51, and S25. This domain is also found in mitochondrial NADH-ubiquinone oxidoreductase B8 subunit (CI-B8) 1.6.5.3 from EC. It is not known whether all members of this family form part of the NADH-ubiquinone oxidoreductase and whether they are also all ribosomal proteins.; PDB: 1S3A_A.
Probab=34.08 E-value=29 Score=23.14 Aligned_cols=19 Identities=26% Similarity=0.641 Sum_probs=15.3
Q ss_pred hHHHHHHHHHHHhcCCCCC
Q 028144 136 NRFIKDEIQRIKAGNPDIS 154 (213)
Q Consensus 136 N~fmK~ei~riK~~~P~i~ 154 (213)
..|+++-+..||..||++.
T Consensus 2 R~F~~~~lp~l~~~NP~v~ 20 (52)
T PF05047_consen 2 RDFLKNNLPTLKYHNPQVQ 20 (52)
T ss_dssp HHHHHHTHHHHHHHSTT--
T ss_pred HhHHHHhHHHHHHHCCCcE
Confidence 3699999999999999863
No 41
>COG4416 Com Mu-like prophage protein Com [General function prediction only]
Probab=32.55 E-value=11 Score=27.90 Aligned_cols=14 Identities=43% Similarity=0.997 Sum_probs=11.5
Q ss_pred eeeeecCCcCCCcc
Q 028144 43 TVTVRCGHCTNLLP 56 (213)
Q Consensus 43 ~VTVRCGHCtnLlS 56 (213)
+-|.||-||+-||-
T Consensus 2 ~~tiRC~~CnKlLa 15 (60)
T COG4416 2 MQTIRCAKCNKLLA 15 (60)
T ss_pred ceeeehHHHhHHHH
Confidence 45899999998874
No 42
>COG3712 FecR Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]
Probab=30.38 E-value=44 Score=31.44 Aligned_cols=30 Identities=23% Similarity=0.535 Sum_probs=27.6
Q ss_pred HHHHHHHHHhcCCCCCHHHHHHHHHHhhccCC
Q 028144 139 IKDEIQRIKAGNPDISHREAFSAAAKNWAHFP 170 (213)
Q Consensus 139 mK~ei~riK~~~P~i~HkEaFs~aAknW~~~P 170 (213)
.++|.+||++..|+ |.+||..+..-|+...
T Consensus 33 ~r~af~~W~~~~p~--H~~A~~~~e~lw~~l~ 62 (322)
T COG3712 33 DRAAFERWRAASPE--HARAWERAERLWQALG 62 (322)
T ss_pred HHHHHHHHHhcCHH--HHHHHHHHHHHHhhhc
Confidence 56899999999997 9999999999999875
No 43
>PRK12336 translation initiation factor IF-2 subunit beta; Provisional
Probab=28.82 E-value=74 Score=27.51 Aligned_cols=36 Identities=36% Similarity=0.721 Sum_probs=28.7
Q ss_pred EEeCCCc---ceeEEecccCCCCcceeeeecCCcCCCcccccccC
Q 028144 21 YVHCNLC---DTVLAVSVPCTSLFKTVTVRCGHCTNLLPVNMRGL 62 (213)
Q Consensus 21 YV~CnfC---nTILaVsVPcssL~~~VTVRCGHCtnLlSVNm~~l 62 (213)
||.|.-| +|.|.+. . .+...+|.-|..-.+|.-...
T Consensus 98 yV~C~~C~~pdT~l~k~---~---~~~~l~C~aCGa~~~v~~~~~ 136 (201)
T PRK12336 98 YVICSECGLPDTRLVKE---D---RVLMLRCDACGAHRPVKKRKA 136 (201)
T ss_pred eEECCCCCCCCcEEEEc---C---CeEEEEcccCCCCcccccccc
Confidence 9999999 5788764 2 566789999999999976543
No 44
>PF02892 zf-BED: BED zinc finger; InterPro: IPR003656 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 predicted BED-type zinc finger domains. The BED finger which was named after the Drosophila proteins BEAF and DREF, is found in one or more copies in cellular regulatory factors and transposases from plants, animals and fungi. The BED finger is an about 50 to 60 amino acid residues domain that contains a characteristic motif with two highly conserved aromatic positions, as well as a shared pattern of cysteines and histidines that is predicted to form a zinc finger. As diverse BED fingers are able to bind DNA, it has been suggested that DNA-binding is the general function of this domain []. Some proteins known to contain a BED domain include animal, plant and fungi AC1 and Hobo-like transposases; Caenorhabditis elegans Dpy-20 protein, a predicted cuticular gene transcriptional regulator; Drosophila BEAF (boundary element-associated factor), thought to be involved in chromatin insulation; Drosophila DREF, a transcriptional regulator for S-phase genes; and tobacco 3AF1 and tomato E4/E8-BP1, light- and ethylene-regulated DNA binding proteins that contain two BED fingers. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding; PDB: 2DJR_A 2CT5_A.
Probab=28.77 E-value=29 Score=22.23 Aligned_cols=18 Identities=22% Similarity=0.458 Sum_probs=10.9
Q ss_pred CceeEEeCCCcceeEEec
Q 028144 17 EQLCYVHCNLCDTVLAVS 34 (213)
Q Consensus 17 E~lCYV~CnfCnTILaVs 34 (213)
...-++.|++|+.++..+
T Consensus 12 ~~~~~a~C~~C~~~~~~~ 29 (45)
T PF02892_consen 12 GDKKKAKCKYCGKVIKYS 29 (45)
T ss_dssp GCSS-EEETTTTEE----
T ss_pred CCcCeEEeCCCCeEEeeC
Confidence 456789999999988765
No 45
>PF10238 Eapp_C: E2F-associated phosphoprotein; InterPro: IPR019370 This entry represents E2F binding proteins. E2F transcription factors play an essential role in cell proliferation and apoptosis and their activity is frequently deregulated in human cancers. E2F activity is regulated by a variety of mechanisms, frequently mediated by proteins binding to individual members or a subgroup of the family. E2F-associated phosphoprotein (EAPP)interacts with a subset of E2F factors and influences E2F-dependent promoter activity. EAPP is present throughout the cell cycle but disappears during mitosis [].
Probab=28.01 E-value=34 Score=28.46 Aligned_cols=17 Identities=41% Similarity=0.647 Sum_probs=13.6
Q ss_pred CceeEEeCCCcceeEEe
Q 028144 17 EQLCYVHCNLCDTVLAV 33 (213)
Q Consensus 17 E~lCYV~CnfCnTILaV 33 (213)
|-.==|+|.-|+|.+||
T Consensus 105 e~yhPV~Cs~C~TeVaV 121 (136)
T PF10238_consen 105 ETYHPVKCSECSTEVAV 121 (136)
T ss_pred ccEeceecccCCCEEEE
Confidence 33334999999999998
No 46
>PF05180 zf-DNL: DNL zinc finger; InterPro: IPR007853 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 DNL-type zinc finger is found in Tim15, a zinc finger protein essential for protein import into mitochondria. Mitochondrial functions rely on the correct transport of resident proteins synthesized in the cytosol to mitochondria. Protein import into mitochondria is mediated by membrane protein complexes, protein translocators, in the outer and inner mitochondrial membranes, in cooperation with their assistant proteins in the cytosol, intermembrane space and matrix. Proteins destined to the mitochondrial matrix cross the outer membrane with the aid of the outer membrane translocator, the tOM40 complex, and then the inner membrane with the aid of the inner membrane translocator, the TIM23 complex, and mitochondrial motor and chaperone (MMC) proteins including mitochondrial heat- shock protein 70 (mtHsp70), and translocase in the inner mitochondrial membrane (Tim)15. Tim15 is also known as zinc finger motif (Zim)17 or mtHsp70 escort protein (Hep)1. Tim15 contains a zinc-finger motif (CXXC and CXXC) of ~100 residues, which has been named DNL after a short C-terminal motif of D(N/H)L [, , ]. The DNL-type zinc finger is an L-shaped molecule. The two CXXC motifs are located at the end of the L, and are sandwiched by two- stranded antiparallel beta-sheets. Two short alpha-helices constitute another leg of the L. The outer (convex) face of the L has a large acidic groove, which is lined with five acidic residues, whereas the inner (concave) face of the L has two positively charged residues, next to the CXXC motifs []. This entry represents the DNL-type zinc finger.; GO: 0008270 zinc ion binding; PDB: 2E2Z_A.
Probab=27.61 E-value=32 Score=25.60 Aligned_cols=32 Identities=31% Similarity=0.460 Sum_probs=16.6
Q ss_pred eCCCcceeEEecccCCC-CcceeeeecCCcCCC
Q 028144 23 HCNLCDTVLAVSVPCTS-LFKTVTVRCGHCTNL 54 (213)
Q Consensus 23 ~CnfCnTILaVsVPcss-L~~~VTVRCGHCtnL 54 (213)
-|+-|+|-=+-.+==.+ =--+|-|||+.|.|.
T Consensus 6 TC~~C~~Rs~~~~sk~aY~~GvViv~C~gC~~~ 38 (66)
T PF05180_consen 6 TCNKCGTRSAKMFSKQAYHKGVVIVQCPGCKNR 38 (66)
T ss_dssp EETTTTEEEEEEEEHHHHHTSEEEEE-TTS--E
T ss_pred EcCCCCCccceeeCHHHHhCCeEEEECCCCcce
Confidence 47777765543221110 124799999999985
No 47
>PF04769 MAT_Alpha1: Mating-type protein MAT alpha 1; InterPro: IPR006856 This family includes Saccharomyces cerevisiae (Baker's yeast) mating type protein alpha 1 (P01365 from SWISSPROT). MAT alpha 1 is a transcription activator that activates mating-type alpha-specific genes with the help of the MADS-box containing MCM1 transcription factor, which together bind cooperatively to PQ elements upstream of alpha-specific genes. The MCM1-MATalpha1 complex is required for the proper DNA-bending that is needed for transcriptional activation []. Alpha 1 interacts in vivo with STE12, linking expression of alpha-specific genes to the alpha-pheromone (IPR006742 from INTERPRO) response pathway [].; GO: 0000772 mating pheromone activity, 0003677 DNA binding, 0045895 positive regulation of transcription, mating-type specific, 0005634 nucleus
Probab=26.67 E-value=1.6e+02 Score=25.87 Aligned_cols=47 Identities=23% Similarity=0.337 Sum_probs=38.4
Q ss_pred CCCCcccCCCchhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhccCCcc
Q 028144 122 SRPPEKRQRVPSAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAHFPHI 172 (213)
Q Consensus 122 ~KPPEKRQR~psayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~~Phi 172 (213)
.+.++++.|.-.+|+.|+-= .+...|+++.|++=...++-|...|+-
T Consensus 38 ~~~~~~~kr~lN~Fm~FRsy----y~~~~~~~~Qk~~S~~l~~lW~~dp~k 84 (201)
T PF04769_consen 38 KRSPEKAKRPLNGFMAFRSY----YSPIFPPLPQKELSGILTKLWEKDPFK 84 (201)
T ss_pred cccccccccchhHHHHHHHH----HHhhcCCcCHHHHHHHHHHHHhCCccH
Confidence 45678888888899988764 336678899999999999999988863
No 48
>PF00527 E7: E7 protein, Early protein; InterPro: IPR000148 This family includes the E7 oncoprotein from various papillomaviruses []. Along with E5 and E6 their activities seem to be especially important for viral oncogenesis. E5 is located at the cell surface and reduces cell gap-gap junction communication. In cervical cancer E5 is expressed in earlier stages of neoplastic transformation of the cervical epithelium during viral infection. The role of E7 is less well understood but it has been shown to impede growth arrest signals in both NIH 3T3 cells and HFKs and that this correlates with elevated cdc25A gene expression. This deregulation of cdc25A is linked to disruption of cell cycle arrest [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2F8B_A 2EWL_A 2B9D_A.
Probab=26.08 E-value=33 Score=26.42 Aligned_cols=31 Identities=23% Similarity=0.588 Sum_probs=15.7
Q ss_pred EeCCCcceeEEecccCCC---------CcceeeeecCCcC
Q 028144 22 VHCNLCDTVLAVSVPCTS---------LFKTVTVRCGHCT 52 (213)
Q Consensus 22 V~CnfCnTILaVsVPcss---------L~~~VTVRCGHCt 52 (213)
+.|.+|++.|-+.|=++. |+..+..-|..|+
T Consensus 53 t~C~~C~~~lrl~V~as~~~Ir~lq~LLl~~L~lvCp~Ca 92 (92)
T PF00527_consen 53 TCCGRCGKRLRLVVVASHEGIRTLQQLLLGDLSLVCPPCA 92 (92)
T ss_dssp EEBTTT--EEEEEEEC-HHHHHHHHHHHHCT-EE--CCCH
T ss_pred eECCCCCCEEEEEEEeChhhHHHHHHHhhcCceEeCCCCC
Confidence 467777777776665552 4556666666663
No 49
>KOG3404 consensus G10 protein/predicted nuclear transcription regulator [Transcription]
Probab=25.99 E-value=53 Score=27.92 Aligned_cols=36 Identities=36% Similarity=0.634 Sum_probs=29.2
Q ss_pred CCceeEEeC------CCcceeEEecccCCCCcceeeeecCCcC
Q 028144 16 SEQLCYVHC------NLCDTVLAVSVPCTSLFKTVTVRCGHCT 52 (213)
Q Consensus 16 ~E~lCYV~C------nfCnTILaVsVPcssL~~~VTVRCGHCt 52 (213)
-|.||.++| ||=+| -.--||-+.|=.--.|+|-||.
T Consensus 97 YE~LCClRCIq~~dsn~Gt~-CICRVPk~~ld~~~~~~C~hCG 138 (145)
T KOG3404|consen 97 YENLCCLRCIQTRDSNFGTT-CICRVPKSKLDVERIVECVHCG 138 (145)
T ss_pred ccceeeeeeccccccCCCce-EEEeCChhhcChhheeeeeccC
Confidence 489999999 56444 3467999999888889999996
No 50
>TIGR02147 Fsuc_second hypothetical protein, TIGR02147. This family consists of the 40 members of a paralogous protein family in the rumen anaerobe Fibrobacter succinogenes S85. Member proteins are about 270 residues long and appear to lack signal sequences and transmembrane helices. The only perfectly conserved residue is a glycine in an otherwise poorly conserved region, suggesting members are not enzymes. The family is not characterized.
Probab=25.82 E-value=64 Score=29.27 Aligned_cols=25 Identities=24% Similarity=0.507 Sum_probs=23.4
Q ss_pred hhhhHHHHHHHHHHHhcCCCCCHHH
Q 028144 133 SAYNRFIKDEIQRIKAGNPDISHRE 157 (213)
Q Consensus 133 sayN~fmK~ei~riK~~~P~i~HkE 157 (213)
..|..||++...+-|+.+|.+|.|+
T Consensus 8 ~dYR~fl~d~ye~rk~~~p~fS~R~ 32 (271)
T TIGR02147 8 TDYRKYLRDYYEERKKTDPAFSWRF 32 (271)
T ss_pred hhHHHHHHHHHHHHhccCcCcCHHH
Confidence 3699999999999999999999998
No 51
>COG5509 Uncharacterized small protein containing a coiled-coil domain [Function unknown]
Probab=25.63 E-value=61 Score=24.37 Aligned_cols=13 Identities=38% Similarity=0.631 Sum_probs=10.8
Q ss_pred HHHHHHHHHHhcC
Q 028144 138 FIKDEIQRIKAGN 150 (213)
Q Consensus 138 fmK~ei~riK~~~ 150 (213)
-..+||.|+|++-
T Consensus 36 lLq~EIeRlkAe~ 48 (65)
T COG5509 36 LLQAEIERLKAEL 48 (65)
T ss_pred HHHHHHHHHHHHH
Confidence 5789999999874
No 52
>smart00614 ZnF_BED BED zinc finger. DNA-binding domain in chromatin-boundary-element-binding proteins and transposases
Probab=25.20 E-value=48 Score=22.20 Aligned_cols=14 Identities=21% Similarity=0.522 Sum_probs=11.8
Q ss_pred eEEeCCCcceeEEe
Q 028144 20 CYVHCNLCDTVLAV 33 (213)
Q Consensus 20 CYV~CnfCnTILaV 33 (213)
-++.|++|..+|..
T Consensus 17 ~~a~C~~C~~~l~~ 30 (50)
T smart00614 17 QRAKCKYCGKKLSR 30 (50)
T ss_pred eEEEecCCCCEeee
Confidence 58999999999863
No 53
>PF01020 Ribosomal_L40e: Ribosomal L40e family; InterPro: IPR001975 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the L40 ribosomal protein from both archaea and eukaryotes. Bovine ribosomal protein L40 has been identified as a secondary RNA binding protein []. L40 is fused to a ubiquitin protein [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3IZS_p 3IZR_p 2AYJ_A 4A1B_K 4A19_K 4A18_K 4A1D_K.
Probab=24.71 E-value=26 Score=25.31 Aligned_cols=9 Identities=56% Similarity=1.220 Sum_probs=5.3
Q ss_pred ecCCcCCCc
Q 028144 47 RCGHCTNLL 55 (213)
Q Consensus 47 RCGHCtnLl 55 (213)
+|||++||-
T Consensus 38 kCGhsn~LR 46 (52)
T PF01020_consen 38 KCGHSNNLR 46 (52)
T ss_dssp SCTS-S-EE
T ss_pred cCCCCcccC
Confidence 399999874
No 54
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=24.56 E-value=95 Score=25.58 Aligned_cols=33 Identities=27% Similarity=0.604 Sum_probs=24.9
Q ss_pred eEEeCCCc---ceeEEecccCCCCcceeeeecCCcCCCcccc
Q 028144 20 CYVHCNLC---DTVLAVSVPCTSLFKTVTVRCGHCTNLLPVN 58 (213)
Q Consensus 20 CYV~CnfC---nTILaVsVPcssL~~~VTVRCGHCtnLlSVN 58 (213)
=||-|.-| +|.|... ++ +-..+|--|..-.+|.
T Consensus 96 ~yVlC~~C~sPdT~l~k~---~r---~~~l~C~ACGa~~~v~ 131 (133)
T TIGR00311 96 KYVICRECNRPDTRIIKE---GR---VSLLKCEACGAKAPLR 131 (133)
T ss_pred heEECCCCCCCCcEEEEe---CC---eEEEecccCCCCCccC
Confidence 49999999 4777763 33 3467999999888774
No 55
>PF13408 Zn_ribbon_recom: Recombinase zinc beta ribbon domain
Probab=24.49 E-value=33 Score=22.58 Aligned_cols=14 Identities=36% Similarity=0.945 Sum_probs=11.2
Q ss_pred eeecCCcCCCcccc
Q 028144 45 TVRCGHCTNLLPVN 58 (213)
Q Consensus 45 TVRCGHCtnLlSVN 58 (213)
.|+||+|..-+...
T Consensus 5 ~l~C~~CG~~m~~~ 18 (58)
T PF13408_consen 5 LLRCGHCGSKMTRR 18 (58)
T ss_pred cEEcccCCcEeEEE
Confidence 47999999887763
No 56
>KOG4520 consensus Predicted coiled-coil protein [General function prediction only]
Probab=24.25 E-value=81 Score=28.63 Aligned_cols=15 Identities=27% Similarity=0.350 Sum_probs=12.0
Q ss_pred hHHHHHHHHHHHhcC
Q 028144 136 NRFIKDEIQRIKAGN 150 (213)
Q Consensus 136 N~fmK~ei~riK~~~ 150 (213)
---|||||++||+..
T Consensus 62 ~~~~keEi~~vkE~E 76 (238)
T KOG4520|consen 62 KEKYKEEILEVKERE 76 (238)
T ss_pred hHHHHHHHHHHHHHH
Confidence 345899999999864
No 57
>PF14722 KRAP_IP3R_bind: Ki-ras-induced actin-interacting protein-IP3R-interacting domain
Probab=23.80 E-value=78 Score=27.44 Aligned_cols=27 Identities=22% Similarity=0.469 Sum_probs=22.1
Q ss_pred hhHHHHHHHHHHHhcCCCCCHHHHHHH
Q 028144 135 YNRFIKDEIQRIKAGNPDISHREAFSA 161 (213)
Q Consensus 135 yN~fmK~ei~riK~~~P~i~HkEaFs~ 161 (213)
...|++.++|||..|||.+.---+|.+
T Consensus 71 ~~~FL~aQ~qrm~~E~p~~~l~~RFRQ 97 (160)
T PF14722_consen 71 IRVFLEAQKQRMDIENPNLALASRFRQ 97 (160)
T ss_pred HHHHHHHHHHHHHhhCccHHHHHHHHH
Confidence 568999999999999999665555554
No 58
>PF02723 NS3_envE: Non-structural protein NS3/Small envelope protein E; InterPro: IPR003873 This is a family of small nonstructural proteins, well conserved among Coronavirus strains. This protein is also found in Murine hepatitis virus as small envelope protein E.; GO: 0016020 membrane
Probab=23.61 E-value=13 Score=28.92 Aligned_cols=15 Identities=47% Similarity=1.156 Sum_probs=12.3
Q ss_pred ceeEEeCCCcceeEE
Q 028144 18 QLCYVHCNLCDTVLA 32 (213)
Q Consensus 18 ~lCYV~CnfCnTILa 32 (213)
|+|..=|++|||++.
T Consensus 38 qLC~~cc~~~n~~v~ 52 (82)
T PF02723_consen 38 QLCFQCCRLCNTTVY 52 (82)
T ss_pred HHHHHHhhhhcceEe
Confidence 688888999988765
No 59
>KOG0493 consensus Transcription factor Engrailed, contains HOX domain [General function prediction only]
Probab=23.51 E-value=37 Score=32.08 Aligned_cols=32 Identities=31% Similarity=0.499 Sum_probs=21.4
Q ss_pred cccCCCchhhhHHHHHHHHHHHhcCCC---CCHHHHHHHH
Q 028144 126 EKRQRVPSAYNRFIKDEIQRIKAGNPD---ISHREAFSAA 162 (213)
Q Consensus 126 EKRQR~psayN~fmK~ei~riK~~~P~---i~HkEaFs~a 162 (213)
|||.|+ -|--|+|+|||+|.-+ |+-+-+=.+|
T Consensus 246 eKRPRT-----AFtaeQL~RLK~EF~enRYlTEqRRQ~La 280 (342)
T KOG0493|consen 246 EKRPRT-----AFTAEQLQRLKAEFQENRYLTEQRRQELA 280 (342)
T ss_pred hcCccc-----cccHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence 566664 4778999999998653 4444444444
No 60
>PF05164 ZapA: Cell division protein ZapA; InterPro: IPR007838 This entry a structural domain found in the cell division protein ZapA, as well as in related proteins. This domain has a core structure consisting of two layers alpha/beta, and has a long C-terminal helix that forms dimeric parallel and tetrameric antiparallel coiled coils []. ZapA interacts with FtsZ, where FtsZ is part of a mid-cell cytokinetic structure termed the Z-ring that recruits a hierarchy of fission related proteins early in the bacterial cell cycle. ZapA drives the polymerisation and filament bundling of FtsZ, thereby contributing to the spatio-temporal tuning of the Z-ring.; PDB: 1T3U_B 1W2E_B 3HNW_A.
Probab=23.15 E-value=1.2e+02 Score=21.54 Aligned_cols=32 Identities=31% Similarity=0.378 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHhcCCCCCHHHHHHHHHHhhcc
Q 028144 137 RFIKDEIQRIKAGNPDISHREAFSAAAKNWAH 168 (213)
Q Consensus 137 ~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~ 168 (213)
.++.+.|..++..+|.++-..+...||-|-++
T Consensus 28 ~~i~~~i~~~~~~~~~~~~~~~~vlaaLnla~ 59 (89)
T PF05164_consen 28 ELINEKINEIKKKYPKLSPERLAVLAALNLAD 59 (89)
T ss_dssp HHHHHHHHHHCTTCCTSSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence 57889999999999999999999999988765
No 61
>KOG4253 consensus Tryptophan-rich basic nuclear protein [General function prediction only]
Probab=22.54 E-value=95 Score=27.26 Aligned_cols=36 Identities=19% Similarity=0.128 Sum_probs=30.0
Q ss_pred hhhhHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhcc
Q 028144 133 SAYNRFIKDEIQRIKAGNPDISHREAFSAAAKNWAH 168 (213)
Q Consensus 133 sayN~fmK~ei~riK~~~P~i~HkEaFs~aAknW~~ 168 (213)
+-=|.=|++||+.+|+++-.++-.+-|..-|++=+.
T Consensus 43 akk~~q~~~ei~dmKqelnavs~qD~fAkwaRlnRK 78 (175)
T KOG4253|consen 43 AKKESQKVAEIQDMKQELNAVSMQDNFAKWARLNRK 78 (175)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHH
Confidence 334667999999999999999999999887776554
No 62
>PRK09774 fec operon regulator FecR; Reviewed
Probab=22.22 E-value=66 Score=29.04 Aligned_cols=29 Identities=10% Similarity=0.084 Sum_probs=25.1
Q ss_pred HHHHHHHHhcCCCCCHHHHHHHHHHhhccCC
Q 028144 140 KDEIQRIKAGNPDISHREAFSAAAKNWAHFP 170 (213)
Q Consensus 140 K~ei~riK~~~P~i~HkEaFs~aAknW~~~P 170 (213)
.++.++|.+++|+ |++||..+..-|....
T Consensus 33 ~~~f~~Wl~a~p~--H~~A~~~~~~lw~~~~ 61 (319)
T PRK09774 33 EARWQQWYEQDQD--NQWAWQQVENLRNQMG 61 (319)
T ss_pred HHHHHHHHhCCHH--HHHHHHHHHHHHHHhh
Confidence 3678999999997 9999999999997753
No 63
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=21.97 E-value=24 Score=28.67 Aligned_cols=43 Identities=23% Similarity=0.518 Sum_probs=30.4
Q ss_pred CceeEEeCCCcceeEEe--------cccCC----CCcceeeeecCCcCCCccccc
Q 028144 17 EQLCYVHCNLCDTVLAV--------SVPCT----SLFKTVTVRCGHCTNLLPVNM 59 (213)
Q Consensus 17 E~lCYV~CnfCnTILaV--------sVPcs----sL~~~VTVRCGHCtnLlSVNm 59 (213)
+-|==.+|.-|++--|- .-|.. ..++.-.|-||+|-++|+++=
T Consensus 22 ~Diialkc~~C~kyYaCy~CHdel~~Hpf~p~~~~~~~~~~iiCGvC~~~LT~~E 76 (105)
T COG4357 22 LDIIALKCKCCQKYYACYHCHDELEDHPFEPWGLQEFNPKAIICGVCRKLLTRAE 76 (105)
T ss_pred cceEeeeechhhhhhhHHHHHhHHhcCCCccCChhhcCCccEEhhhhhhhhhHHH
Confidence 33444678888877662 22332 578888899999999999864
No 64
>PF13565 HTH_32: Homeodomain-like domain
Probab=21.62 E-value=2.7e+02 Score=19.14 Aligned_cols=30 Identities=13% Similarity=0.157 Sum_probs=25.0
Q ss_pred hHHHHHHHHHHHhcCCCCCHHHHHHHHHHh
Q 028144 136 NRFIKDEIQRIKAGNPDISHREAFSAAAKN 165 (213)
Q Consensus 136 N~fmK~ei~riK~~~P~i~HkEaFs~aAkn 165 (213)
..-++++|..+..++|+.+-++.--..+..
T Consensus 32 ~~e~~~~i~~~~~~~p~wt~~~i~~~L~~~ 61 (77)
T PF13565_consen 32 DPEQRERIIALIEEHPRWTPREIAEYLEEE 61 (77)
T ss_pred cHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence 566789999999999999999987776664
No 65
>PF01667 Ribosomal_S27e: Ribosomal protein S27; InterPro: IPR000592 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic and archaeal ribosomal proteins can be grouped on the basis of sequence similarities. One of these families include mammalian, yeast, Chlamydomonas reinhardtii and Entamoeba histolytica S27, and Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0250 []. These proteins have from 62 to 87 amino acids. They contain, in their central section, a putative zinc-finger region of the type C-x(2)-C-x(14)-C-x(2)-C.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1QXF_A 3IZ6_X 2XZN_6 2XZM_6 3U5G_b 3IZB_X 3U5C_b.
Probab=20.91 E-value=63 Score=23.32 Aligned_cols=12 Identities=58% Similarity=1.041 Sum_probs=9.4
Q ss_pred EeCCCcceeEEe
Q 028144 22 VHCNLCDTVLAV 33 (213)
Q Consensus 22 V~CnfCnTILaV 33 (213)
|.|..|.|+|+=
T Consensus 27 V~C~~Cg~~L~~ 38 (55)
T PF01667_consen 27 VKCVVCGTVLAQ 38 (55)
T ss_dssp EE-SSSTSEEEE
T ss_pred EEcccCCCEecC
Confidence 889999999973
No 66
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=20.23 E-value=1.6e+02 Score=19.39 Aligned_cols=34 Identities=21% Similarity=0.419 Sum_probs=21.3
Q ss_pred EeCCCcceeEEecccCCCCcceeeeecCCcCCCccccccc
Q 028144 22 VHCNLCDTVLAVSVPCTSLFKTVTVRCGHCTNLLPVNMRG 61 (213)
Q Consensus 22 V~CnfCnTILaVsVPcssL~~~VTVRCGHCtnLlSVNm~~ 61 (213)
.+|.-|.+.+-+.- -. ..++|-+|.+-+...-++
T Consensus 4 y~C~~CG~~~~~~~-~~-----~~~~Cp~CG~~~~~~~~~ 37 (46)
T PRK00398 4 YKCARCGREVELDE-YG-----TGVRCPYCGYRILFKERP 37 (46)
T ss_pred EECCCCCCEEEECC-CC-----CceECCCCCCeEEEccCC
Confidence 46888888776531 11 167888888766555443
No 67
>PF04690 YABBY: YABBY protein; InterPro: IPR006780 YABBY proteins are a group of plant-specific transcription factors involved in the specification of abaxial polarity in lateral organs such as leaves and floral organs [, ].
Probab=20.19 E-value=57 Score=28.23 Aligned_cols=19 Identities=26% Similarity=0.581 Sum_probs=16.0
Q ss_pred EEeCCCcceeEEecccCCC
Q 028144 21 YVHCNLCDTVLAVSVPCTS 39 (213)
Q Consensus 21 YV~CnfCnTILaVsVPcss 39 (213)
=|+|+-|+.+|-|++....
T Consensus 36 TVRCGHCtNLLSVNm~~~~ 54 (170)
T PF04690_consen 36 TVRCGHCTNLLSVNMRALL 54 (170)
T ss_pred ceeccCccceeeeeccccc
Confidence 3999999999999986544
Done!