Query 030342
Match_columns 179
No_of_seqs 99 out of 129
Neff 2.6
Searched_HMMs 46136
Date Fri Mar 29 12:17:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030342.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030342hhsearch_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 3.2E-49 7E-54 321.9 6.8 136 9-152 24-170 (170)
2 PF09011 HMG_box_2: HMG-box do 98.5 1.3E-07 2.8E-12 65.3 4.6 46 101-146 1-47 (73)
3 cd01390 HMGB-UBF_HMG-box HMGB- 98.3 2.1E-06 4.6E-11 56.2 5.3 44 104-147 1-44 (66)
4 PF00505 HMG_box: HMG (high mo 98.2 2.6E-06 5.6E-11 56.5 4.2 43 104-146 1-43 (69)
5 cd00084 HMG-box High Mobility 98.2 4.6E-06 9.9E-11 54.0 5.3 44 104-147 1-44 (66)
6 smart00398 HMG high mobility g 98.2 4.6E-06 1E-10 54.5 5.1 45 103-147 1-45 (70)
7 cd01388 SOX-TCF_HMG-box SOX-TC 98.1 4.2E-06 9.1E-11 57.6 4.9 43 105-147 3-45 (72)
8 cd01389 MATA_HMG-box MATA_HMG- 98.1 4.8E-06 1E-10 57.8 5.1 45 103-147 1-45 (77)
9 PTZ00199 high mobility group p 98.0 1.3E-05 2.8E-10 58.8 5.5 48 100-147 19-68 (94)
10 KOG0381 HMG box-containing pro 97.3 0.00053 1.1E-08 48.6 5.0 46 102-147 21-66 (96)
11 PF06244 DUF1014: Protein of u 97.1 0.00063 1.4E-08 53.8 4.2 50 100-151 71-120 (122)
12 KOG3223 Uncharacterized conser 94.1 0.062 1.3E-06 46.7 3.8 52 100-153 163-214 (221)
13 COG5648 NHP6B Chromatin-associ 80.3 3.8 8.2E-05 35.7 5.1 46 100-145 67-112 (211)
14 PF08073 CHDNT: CHDNT (NUC034) 76.5 5 0.00011 28.4 3.9 37 110-146 15-51 (55)
15 PF11331 DUF3133: Protein of u 59.7 1.8 4E-05 29.5 -1.0 17 19-35 29-45 (46)
16 PF10122 Mu-like_Com: Mu-like 54.0 6.3 0.00014 27.7 0.8 12 21-32 4-15 (51)
17 KOG0526 Nucleosome-binding fac 46.1 29 0.00063 34.5 4.3 43 101-145 533-575 (615)
18 PF06382 DUF1074: Protein of u 43.7 32 0.00069 29.6 3.7 35 109-147 84-118 (183)
19 PF05047 L51_S25_CI-B8: Mitoch 43.3 20 0.00043 23.2 1.9 18 112-129 2-19 (52)
20 PF04769 MAT_Alpha1: Mating-ty 33.1 1.1E+02 0.0023 26.1 5.2 46 100-149 40-85 (201)
21 PF05164 ZapA: Cell division p 32.4 66 0.0014 22.1 3.3 32 113-144 28-59 (89)
22 KOG0527 HMG-box transcription 32.4 79 0.0017 28.9 4.6 65 97-169 56-120 (331)
23 PF05180 zf-DNL: DNL zinc fing 30.5 30 0.00064 25.1 1.3 16 18-33 26-41 (66)
24 cd01283 cytidine_deaminase Cyt 28.5 57 0.0012 23.8 2.5 31 4-34 52-90 (112)
25 PF12876 Cellulase-like: Sugar 28.4 95 0.0021 21.9 3.6 29 102-130 31-59 (88)
26 KOG4715 SWI/SNF-related matrix 26.0 88 0.0019 29.7 3.8 42 106-147 67-108 (410)
27 PF14722 KRAP_IP3R_bind: Ki-ra 25.6 76 0.0017 26.8 3.0 29 111-139 71-99 (160)
28 PF10963 DUF2765: Protein of u 24.6 1E+02 0.0022 23.2 3.3 21 116-140 48-68 (83)
29 smart00292 BRCT breast cancer 24.5 41 0.00089 20.7 1.0 26 2-27 19-45 (80)
30 KOG4684 Uncharacterized conser 23.9 36 0.00077 30.7 0.8 16 20-35 169-184 (275)
31 PF13565 HTH_32: Homeodomain-l 23.7 2.3E+02 0.0049 18.8 4.9 31 112-142 32-62 (77)
32 TIGR02147 Fsuc_second hypothet 22.7 85 0.0018 27.6 2.9 25 109-133 8-32 (271)
33 cd00027 BRCT Breast Cancer Sup 21.8 51 0.0011 19.8 1.0 26 2-27 15-40 (72)
34 PRK14126 cell division protein 21.2 1.9E+02 0.0041 21.2 4.1 32 113-144 34-65 (85)
35 PF13719 zinc_ribbon_5: zinc-r 20.7 50 0.0011 20.7 0.8 12 19-30 23-34 (37)
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=3.2e-49 Score=321.88 Aligned_cols=136 Identities=46% Similarity=0.636 Sum_probs=97.2
Q ss_pred HhhhccccceeeeeecCCcchhHHHHHHHHhCCCCchhh-hhh-c---CCCC--CCCCCcCCC---CCCCcccccccccc
Q 030342 9 VREYGSRFSVTVMARCSSSSGFLLQLLLLLLGITLFEEI-EAF-K---APSY--ASPECRIDL---GSSSKCNNKISAMR 78 (179)
Q Consensus 9 ~~~y~s~~~~tVtVRCG~Cs~lLsv~l~~ll~~~p~qD~-q~~-~---~~~~--~~~~~~~~~---~SsS~~~~~~~~~~ 78 (179)
|.-+.|++++|||||||||+|||||+|+.++..+|.|++ ++. . .++. ..+.+.... ++++.+.... .+.
T Consensus 24 VsVP~ssL~~~VTVRCGHCtNLLSVNm~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ 102 (170)
T PF04690_consen 24 VSVPCSSLLKTVTVRCGHCTNLLSVNMRALLQPLPSQDHLQHSLLPPQSQELQFQPENFGSNSSSSSSSSSSSSSS-SMS 102 (170)
T ss_pred EecchhhhhhhhceeccCccceeeeeccccccCCCcccchhccccccccccccccccccccccccCCCcccccccc-ccC
Confidence 333556677799999999999999999999988888776 111 1 1111 111222111 1111111110 112
Q ss_pred CCCCCcccccc-ccccCCCCCCCCcccCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCCccccc
Q 030342 79 TPTNKATEERV-VNRRESPHSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGL 152 (179)
Q Consensus 79 ~~~~~~~~~~~-~~r~~~a~~~p~eK~~R~PSAYN~FMKeEIqRIKa~nP~isHKEAFs~AAkNWa~~P~~~~gl 152 (179)
....++.++.. ++| |||||||+|||||+|||+||+|||++||||+|||||++|||||||+|||||||
T Consensus 103 ~~~~~~~pr~~~v~k-------PPEKRqR~psaYn~f~k~ei~rik~~~p~ishkeaFs~aAknW~h~phihfgl 170 (170)
T PF04690_consen 103 FSEEEEIPRAPPVNK-------PPEKRQRVPSAYNRFMKEEIQRIKAENPDISHKEAFSAAAKNWAHFPHIHFGL 170 (170)
T ss_pred ccccccccccccccC-------CccccCCCchhHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhCcccccCC
Confidence 22344555544 467 99999999999999999999999999999999999999999999999999997
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=98.53 E-value=1.3e-07 Score=65.29 Aligned_cols=46 Identities=35% Similarity=0.634 Sum_probs=38.9
Q ss_pred CcccCCCchhhhHHHHHHHHHHHhh-CCCCCHHHHHHHHHHhhccCC
Q 030342 101 PEKRQRVPSAYNQFIKEEIQRIKAN-NPDISHREAFSTAAKNWAHFP 146 (179)
Q Consensus 101 ~eK~~R~PSAYN~FMKeEIqRIKa~-nP~isHKEAFs~AAkNWa~~P 146 (179)
|.|++|.+|||+.||++.+..++.. .+.++++|+++.++..|+..+
T Consensus 1 p~kpK~~~say~lF~~~~~~~~k~~G~~~~~~~e~~k~~~~~Wk~Ls 47 (73)
T PF09011_consen 1 PKKPKRPPSAYNLFMKEMRKEVKEEGGQKQSFREVMKEISERWKSLS 47 (73)
T ss_dssp SSS--SSSSHHHHHHHHHHHHHHHHT-T-SSHHHHHHHHHHHHHHS-
T ss_pred CcCCCCCCCHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHhcC
Confidence 5788999999999999999999999 889999999999999999854
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=98.27 E-value=2.1e-06 Score=56.25 Aligned_cols=44 Identities=30% Similarity=0.471 Sum_probs=41.0
Q ss_pred cCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 030342 104 RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 147 (179)
Q Consensus 104 ~~R~PSAYN~FMKeEIqRIKa~nP~isHKEAFs~AAkNWa~~P~ 147 (179)
++|.+|+|..||++....+++.+|+++..|+.+.++..|+..+.
T Consensus 1 Pkrp~saf~~f~~~~r~~~~~~~p~~~~~~i~~~~~~~W~~ls~ 44 (66)
T cd01390 1 PKRPLSAYFLFSQEQRPKLKKENPDASVTEVTKILGEKWKELSE 44 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCCH
Confidence 46789999999999999999999999999999999999998654
No 4
>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=98.18 E-value=2.6e-06 Score=56.45 Aligned_cols=43 Identities=33% Similarity=0.613 Sum_probs=38.5
Q ss_pred cCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 030342 104 RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP 146 (179)
Q Consensus 104 ~~R~PSAYN~FMKeEIqRIKa~nP~isHKEAFs~AAkNWa~~P 146 (179)
++|.+|+|..|+++....|+++||+++..|+-+.++..|+..+
T Consensus 1 PkrP~~af~lf~~~~~~~~k~~~p~~~~~~i~~~~~~~W~~l~ 43 (69)
T PF00505_consen 1 PKRPPNAFMLFCKEKRAKLKEENPDLSNKEISKILAQMWKNLS 43 (69)
T ss_dssp SSSS--HHHHHHHHHHHHHHHHSTTSTHHHHHHHHHHHHHCSH
T ss_pred CcCCCCHHHHHHHHHHHHHHHHhcccccccchhhHHHHHhcCC
Confidence 4789999999999999999999999999999999999999754
No 5
>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=98.18 E-value=4.6e-06 Score=53.96 Aligned_cols=44 Identities=30% Similarity=0.416 Sum_probs=41.0
Q ss_pred cCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 030342 104 RQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 147 (179)
Q Consensus 104 ~~R~PSAYN~FMKeEIqRIKa~nP~isHKEAFs~AAkNWa~~P~ 147 (179)
++|.+|+|..|++++...+++.+|+++..|+.+.+++.|+..+.
T Consensus 1 pkrp~~af~~f~~~~~~~~~~~~~~~~~~~i~~~~~~~W~~l~~ 44 (66)
T cd00084 1 PKRPLSAYFLFSQEHRAEVKAENPGLSVGEISKILGEMWKSLSE 44 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCCH
Confidence 46789999999999999999999999999999999999998664
No 6
>smart00398 HMG high mobility group.
Probab=98.16 E-value=4.6e-06 Score=54.50 Aligned_cols=45 Identities=33% Similarity=0.515 Sum_probs=41.8
Q ss_pred ccCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 030342 103 KRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 147 (179)
Q Consensus 103 K~~R~PSAYN~FMKeEIqRIKa~nP~isHKEAFs~AAkNWa~~P~ 147 (179)
+++|.+|+|..|+++....+++.+|+++..|..+.++..|+..++
T Consensus 1 ~pkrp~~~y~~f~~~~r~~~~~~~~~~~~~~i~~~~~~~W~~l~~ 45 (70)
T smart00398 1 KPKRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLSE 45 (70)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHcCCH
Confidence 467899999999999999999999999999999999999998654
No 7
>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=98.15 E-value=4.2e-06 Score=57.59 Aligned_cols=43 Identities=16% Similarity=0.297 Sum_probs=40.4
Q ss_pred CCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 030342 105 QRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 147 (179)
Q Consensus 105 ~R~PSAYN~FMKeEIqRIKa~nP~isHKEAFs~AAkNWa~~P~ 147 (179)
+|.|+||..|+++....|+++||++++.|.-+.++..|+..+.
T Consensus 3 KrP~naf~~F~~~~r~~~~~~~p~~~~~eisk~l~~~Wk~ls~ 45 (72)
T cd01388 3 KRPMNAFMLFSKRHRRKVLQEYPLKENRAISKILGDRWKALSN 45 (72)
T ss_pred CCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCCH
Confidence 6789999999999999999999999999999999999998654
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=98.14 E-value=4.8e-06 Score=57.84 Aligned_cols=45 Identities=18% Similarity=0.348 Sum_probs=41.9
Q ss_pred ccCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 030342 103 KRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 147 (179)
Q Consensus 103 K~~R~PSAYN~FMKeEIqRIKa~nP~isHKEAFs~AAkNWa~~P~ 147 (179)
+.+|-|+||..|+++....|+++||++++.|.-+.++..|+..++
T Consensus 1 ~~kRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~~g~~Wk~ls~ 45 (77)
T cd01389 1 KIPRPRNAFILYRQDKHAQLKTENPGLTNNEISRIIGRMWRSESP 45 (77)
T ss_pred CCCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCCH
Confidence 457899999999999999999999999999999999999998654
No 9
>PTZ00199 high mobility group protein; Provisional
Probab=98.01 E-value=1.3e-05 Score=58.77 Aligned_cols=48 Identities=27% Similarity=0.450 Sum_probs=43.8
Q ss_pred CCcccCCCchhhhHHHHHHHHHHHhhCCCCC--HHHHHHHHHHhhccCCC
Q 030342 100 TPEKRQRVPSAYNQFIKEEIQRIKANNPDIS--HREAFSTAAKNWAHFPH 147 (179)
Q Consensus 100 p~eK~~R~PSAYN~FMKeEIqRIKa~nP~is--HKEAFs~AAkNWa~~P~ 147 (179)
.|.+++|.+|||..|+++.-..|+++||+++ ..|..+.++..|+..++
T Consensus 19 dp~~PKrP~sAY~~F~~~~R~~i~~~~P~~~~~~~evsk~ige~Wk~ls~ 68 (94)
T PTZ00199 19 DPNAPKRALSAYMFFAKEKRAEIIAENPELAKDVAAVGKMVGEAWNKLSE 68 (94)
T ss_pred CCCCCCCCCcHHHHHHHHHHHHHHHHCcCCcccHHHHHHHHHHHHHcCCH
Confidence 6778999999999999999999999999987 68899999999998764
No 10
>KOG0381 consensus HMG box-containing protein [General function prediction only]
Probab=97.30 E-value=0.00053 Score=48.56 Aligned_cols=46 Identities=28% Similarity=0.441 Sum_probs=42.1
Q ss_pred cccCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 030342 102 EKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 147 (179)
Q Consensus 102 eK~~R~PSAYN~FMKeEIqRIKa~nP~isHKEAFs~AAkNWa~~P~ 147 (179)
..++|-+|||..|+.+.-.+||.+||++++.|.-+.+..+|.....
T Consensus 21 ~~pkrp~sa~~~f~~~~~~~~k~~~p~~~~~~v~k~~g~~W~~l~~ 66 (96)
T KOG0381|consen 21 QAPKRPLSAFFLFSSEQRSKIKAENPGLSVGEVAKALGEMWKNLAE 66 (96)
T ss_pred CCCCCCCcHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCH
Confidence 4678899999999999999999999999999999999999988544
No 11
>PF06244 DUF1014: Protein of unknown function (DUF1014); InterPro: IPR010422 This family consists of several hypothetical eukaryotic proteins of unknown function.
Probab=97.11 E-value=0.00063 Score=53.84 Aligned_cols=50 Identities=26% Similarity=0.519 Sum_probs=44.7
Q ss_pred CCcccCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCCcccc
Q 030342 100 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFG 151 (179)
Q Consensus 100 p~eK~~R~PSAYN~FMKeEIqRIKa~nP~isHKEAFs~AAkNWa~~P~~~~g 151 (179)
-|||| .--||..|--.+|.+||++||++.+-+---..=+.|..+|+|||-
T Consensus 71 HPErR--~KAAy~afeE~~Lp~lK~E~PgLrlsQ~kq~l~K~w~KSPeNP~N 120 (122)
T PF06244_consen 71 HPERR--MKAAYKAFEERRLPELKEENPGLRLSQYKQMLWKEWQKSPENPFN 120 (122)
T ss_pred Ccchh--HHHHHHHHHHHHhHHHHhhCCCchHHHHHHHHHHHHhcCCCCCcc
Confidence 45554 467999999999999999999999999999999999999999984
No 12
>KOG3223 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.07 E-value=0.062 Score=46.71 Aligned_cols=52 Identities=29% Similarity=0.526 Sum_probs=45.8
Q ss_pred CCcccCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCCcccccc
Q 030342 100 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLM 153 (179)
Q Consensus 100 p~eK~~R~PSAYN~FMKeEIqRIKa~nP~isHKEAFs~AAkNWa~~P~~~~gl~ 153 (179)
-||||-| -||--|=..++.|||.+||++.|-+-=-+.-+.|..+|.|||.-+
T Consensus 163 HPEkRmr--AA~~afEe~~LPrLK~e~P~lrlsQ~Kqll~Kew~KsPDNP~Nq~ 214 (221)
T KOG3223|consen 163 HPEKRMR--AAFKAFEEARLPRLKKENPGLRLSQYKQLLKKEWQKSPDNPFNQA 214 (221)
T ss_pred ChHHHHH--HHHHHHHHhhchhhhhcCCCccHHHHHHHHHHHHhhCCCChhhHH
Confidence 6777665 599999999999999999999998888888899999999999743
No 13
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=80.33 E-value=3.8 Score=35.70 Aligned_cols=46 Identities=24% Similarity=0.438 Sum_probs=42.5
Q ss_pred CCcccCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccC
Q 030342 100 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHF 145 (179)
Q Consensus 100 p~eK~~R~PSAYN~FMKeEIqRIKa~nP~isHKEAFs~AAkNWa~~ 145 (179)
.|--++|--|||-.|..+.=.+|+..+|+++.-|.=+.+.+.|+..
T Consensus 67 dpN~PKRp~sayf~y~~~~R~ei~~~~p~l~~~e~~k~~~e~WK~L 112 (211)
T COG5648 67 DPNGPKRPLSAYFLYSAENRDEIRKENPKLTFGEVGKLLSEKWKEL 112 (211)
T ss_pred CCCCCCCchhHHHHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHhc
Confidence 4667788999999999999999999999999999999999999974
No 14
>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=76.55 E-value=5 Score=28.42 Aligned_cols=37 Identities=16% Similarity=0.352 Sum_probs=28.2
Q ss_pred hhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCC
Q 030342 110 AYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFP 146 (179)
Q Consensus 110 AYN~FMKeEIqRIKa~nP~isHKEAFs~AAkNWa~~P 146 (179)
.|..|-.-==.-|-+.||++.+-..+.+.+..|++|-
T Consensus 15 ~yK~Fsq~vRP~l~~~NPk~~~sKl~~l~~AKwrEF~ 51 (55)
T PF08073_consen 15 NYKAFSQHVRPLLAKANPKAPMSKLMMLLQAKWREFQ 51 (55)
T ss_pred HHHHHHHHHHHHHHHHCCCCcHHHHHHHHHHHHHHHH
Confidence 3444443333556789999999999999999999874
No 15
>PF11331 DUF3133: Protein of unknown function (DUF3133); InterPro: IPR021480 This eukaryotic family of proteins has no known function.
Probab=59.70 E-value=1.8 Score=29.49 Aligned_cols=17 Identities=29% Similarity=0.323 Sum_probs=13.4
Q ss_pred eeeeecCCcchhHHHHH
Q 030342 19 TVMARCSSSSGFLLQLL 35 (179)
Q Consensus 19 tVtVRCG~Cs~lLsv~l 35 (179)
.-.+|||+|+..+++.+
T Consensus 29 ~~klrCGaCs~vl~~s~ 45 (46)
T PF11331_consen 29 QQKLRCGACSEVLSFSL 45 (46)
T ss_pred eeEEeCCCCceeEEEec
Confidence 56789999999887543
No 16
>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=54.01 E-value=6.3 Score=27.70 Aligned_cols=12 Identities=25% Similarity=0.509 Sum_probs=10.9
Q ss_pred eeecCCcchhHH
Q 030342 21 MARCSSSSGFLL 32 (179)
Q Consensus 21 tVRCG~Cs~lLs 32 (179)
.+|||+|.-||.
T Consensus 4 eiRC~~CnklLa 15 (51)
T PF10122_consen 4 EIRCGHCNKLLA 15 (51)
T ss_pred ceeccchhHHHh
Confidence 589999999998
No 17
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=46.13 E-value=29 Score=34.45 Aligned_cols=43 Identities=26% Similarity=0.494 Sum_probs=39.0
Q ss_pred CcccCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccC
Q 030342 101 PEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHF 145 (179)
Q Consensus 101 ~eK~~R~PSAYN~FMKeEIqRIKa~nP~isHKEAFs~AAkNWa~~ 145 (179)
|-.++|+-|||-.|...+-..||++ +|+.-|.=+.+...|+.-
T Consensus 533 pnapkra~sa~m~w~~~~r~~ik~d--gi~~~dv~kk~g~~wk~m 575 (615)
T KOG0526|consen 533 PNAPKRATSAYMLWLNASRESIKED--GISVGDVAKKAGEKWKQM 575 (615)
T ss_pred CCCCccchhHHHHHHHhhhhhHhhc--CchHHHHHHHHhHHHhhh
Confidence 3467899999999999999999999 999999999999999973
No 18
>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=43.66 E-value=32 Score=29.59 Aligned_cols=35 Identities=23% Similarity=0.574 Sum_probs=29.9
Q ss_pred hhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 030342 109 SAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 147 (179)
Q Consensus 109 SAYN~FMKeEIqRIKa~nP~isHKEAFs~AAkNWa~~P~ 147 (179)
.+|=.||.+ .+..|.+++.+|....||+-|..-++
T Consensus 84 naYLNFLRe----FRrkh~~L~p~dlI~~AAraW~rLSe 118 (183)
T PF06382_consen 84 NAYLNFLRE----FRRKHCGLSPQDLIQRAARAWCRLSE 118 (183)
T ss_pred hHHHHHHHH----HHHHccCCCHHHHHHHHHHHHHhCCH
Confidence 578888764 77799999999999999999988654
No 19
>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=43.32 E-value=20 Score=23.19 Aligned_cols=18 Identities=28% Similarity=0.719 Sum_probs=15.7
Q ss_pred hHHHHHHHHHHHhhCCCC
Q 030342 112 NQFIKEEIQRIKANNPDI 129 (179)
Q Consensus 112 N~FMKeEIqRIKa~nP~i 129 (179)
..|+++.+..|+..||++
T Consensus 2 R~F~~~~lp~l~~~NP~v 19 (52)
T PF05047_consen 2 RDFLKNNLPTLKYHNPQV 19 (52)
T ss_dssp HHHHHHTHHHHHHHSTT-
T ss_pred HhHHHHhHHHHHHHCCCc
Confidence 369999999999999987
No 20
>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=33.15 E-value=1.1e+02 Score=26.14 Aligned_cols=46 Identities=22% Similarity=0.315 Sum_probs=38.3
Q ss_pred CCcccCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCCcc
Q 030342 100 TPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIH 149 (179)
Q Consensus 100 p~eK~~R~PSAYN~FMKeEIqRIKa~nP~isHKEAFs~AAkNWa~~P~~~ 149 (179)
..++++|.-.+|+.|+.==. ...|+.+.|++-...++.|...|+-.
T Consensus 40 ~~~~~kr~lN~Fm~FRsyy~----~~~~~~~Qk~~S~~l~~lW~~dp~k~ 85 (201)
T PF04769_consen 40 SPEKAKRPLNGFMAFRSYYS----PIFPPLPQKELSGILTKLWEKDPFKN 85 (201)
T ss_pred cccccccchhHHHHHHHHHH----hhcCCcCHHHHHHHHHHHHhCCccHh
Confidence 57788888999999986533 67889999999999999999988753
No 21
>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=32.44 E-value=66 Score=22.13 Aligned_cols=32 Identities=34% Similarity=0.420 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHhhCCCCCHHHHHHHHHHhhcc
Q 030342 113 QFIKEEIQRIKANNPDISHREAFSTAAKNWAH 144 (179)
Q Consensus 113 ~FMKeEIqRIKa~nP~isHKEAFs~AAkNWa~ 144 (179)
.++.+.|..++...|.++...++..||-|-++
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 22
>KOG0527 consensus HMG-box transcription factor [Transcription]
Probab=32.37 E-value=79 Score=28.91 Aligned_cols=65 Identities=18% Similarity=0.377 Sum_probs=52.3
Q ss_pred CCCCCcccCCCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCCcccccccccCCCCCCcchhhhh
Q 030342 97 HSTTPEKRQRVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPHIHFGLMLEANNQPKLDDASGNR 169 (179)
Q Consensus 97 ~~~p~eK~~R~PSAYN~FMKeEIqRIKa~nP~isHKEAFs~AAkNWa~~P~~~~gl~~~~~~~~~~d~~~~~~ 169 (179)
..+..++-+|--.||=.|=+.|=++|-++||+|---|+=|...+.|+.- .+..|..-+|+++--+
T Consensus 56 ~k~~~~hIKRPMNAFMVWSq~~RRkma~qnP~mHNSEISK~LG~~WK~L--------se~EKrPFi~EAeRLR 120 (331)
T KOG0527|consen 56 DKTSTDRIKRPMNAFMVWSQGQRRKLAKQNPKMHNSEISKRLGAEWKLL--------SEEEKRPFVDEAERLR 120 (331)
T ss_pred CCCCccccCCCcchhhhhhHHHHHHHHHhCcchhhHHHHHHHHHHHhhc--------CHhhhccHHHHHHHHH
Confidence 4456788899999999999999999999999998899999999999862 3445555566655443
No 23
>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=30.55 E-value=30 Score=25.15 Aligned_cols=16 Identities=19% Similarity=0.295 Sum_probs=10.5
Q ss_pred eeeeeecCCcchhHHH
Q 030342 18 VTVMARCSSSSGFLLQ 33 (179)
Q Consensus 18 ~tVtVRCG~Cs~lLsv 33 (179)
-+|-|||..|.+.-.+
T Consensus 26 GvViv~C~gC~~~HlI 41 (66)
T PF05180_consen 26 GVVIVQCPGCKNRHLI 41 (66)
T ss_dssp SEEEEE-TTS--EEES
T ss_pred CeEEEECCCCcceeee
Confidence 4899999999987653
No 24
>cd01283 cytidine_deaminase Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on the substrate. Cytidine deaminases catalyze the deamination of cytidine to uridine and are important in the pyrimadine salvage pathway in many cell types, from bacteria to humans. This family also includes the apoBec proteins, which are a mammal specific expansion of RNA editing enzymes, and the closely related phorbolins, and the AID (activation-induced) enzymes.
Probab=28.48 E-value=57 Score=23.77 Aligned_cols=31 Identities=23% Similarity=0.291 Sum_probs=19.5
Q ss_pred HHHHHHhhhccccceeeeee--------cCCcchhHHHH
Q 030342 4 LLQSMVREYGSRFSVTVMAR--------CSSSSGFLLQL 34 (179)
Q Consensus 4 ~~~~~~~~y~s~~~~tVtVR--------CG~Cs~lLsv~ 34 (179)
.|-.|++........|+.|. ||.|..++...
T Consensus 52 ai~~~~~~~~~~~~~~i~vs~~~~~~sPC~~C~~~l~~~ 90 (112)
T cd01283 52 AIGKAVSEGLRRYLVTWAVSDEGGVWSPCGACRQVLAEF 90 (112)
T ss_pred HHHHHHHcCCCceEEEEEEECCCCccCCCHHHHHHHHHh
Confidence 34455555544455565555 99999988844
No 25
>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=28.35 E-value=95 Score=21.92 Aligned_cols=29 Identities=28% Similarity=0.453 Sum_probs=21.7
Q ss_pred cccCCCchhhhHHHHHHHHHHHhhCCCCC
Q 030342 102 EKRQRVPSAYNQFIKEEIQRIKANNPDIS 130 (179)
Q Consensus 102 eK~~R~PSAYN~FMKeEIqRIKa~nP~is 130 (179)
+.......+|-.||++-.+.||+.+|+.+
T Consensus 31 ~~~~~~~~~~~~~l~~~~~~iR~~dP~~p 59 (88)
T PF12876_consen 31 EWGDPKAEAYAEWLKEAFRWIRAVDPSQP 59 (88)
T ss_dssp -TT-TTSHHHHHHHHHHHHHHHTT-TTS-
T ss_pred cccchhHHHHHHHHHHHHHHHHHhCCCCc
Confidence 34444678999999999999999999754
No 26
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=26.04 E-value=88 Score=29.69 Aligned_cols=42 Identities=19% Similarity=0.402 Sum_probs=37.4
Q ss_pred CCchhhhHHHHHHHHHHHhhCCCCCHHHHHHHHHHhhccCCC
Q 030342 106 RVPSAYNQFIKEEIQRIKANNPDISHREAFSTAAKNWAHFPH 147 (179)
Q Consensus 106 R~PSAYN~FMKeEIqRIKa~nP~isHKEAFs~AAkNWa~~P~ 147 (179)
+-.-.|-+|-+.=-..+|+.||++--=|.=+.++..|.+.|.
T Consensus 67 kpl~pymrySrkvWd~VkA~nPe~kLWeiGK~Ig~mW~dLpd 108 (410)
T KOG4715|consen 67 KPLMPYMRYSRKVWDQVKASNPELKLWEIGKIIGGMWLDLPD 108 (410)
T ss_pred cccchhhHHhhhhhhhhhccCcchHHHHHHHHHHHHHhhCcc
Confidence 345679999999999999999999999999999999999875
No 27
>PF14722 KRAP_IP3R_bind: Ki-ras-induced actin-interacting protein-IP3R-interacting domain
Probab=25.64 E-value=76 Score=26.80 Aligned_cols=29 Identities=21% Similarity=0.454 Sum_probs=23.5
Q ss_pred hhHHHHHHHHHHHhhCCCCCHHHHHHHHH
Q 030342 111 YNQFIKEEIQRIKANNPDISHREAFSTAA 139 (179)
Q Consensus 111 YN~FMKeEIqRIKa~nP~isHKEAFs~AA 139 (179)
...|++.++|||..++|...---+|.+.-
T Consensus 71 ~~~FL~aQ~qrm~~E~p~~~l~~RFRQ~e 99 (160)
T PF14722_consen 71 IRVFLEAQKQRMDIENPNLALASRFRQLE 99 (160)
T ss_pred HHHHHHHHHHHHHhhCccHHHHHHHHHHH
Confidence 56899999999999999966666666543
No 28
>PF10963 DUF2765: Protein of unknown function (DUF2765); InterPro: IPR024406 This family of proteins with no known function is found in phages and suspected prophages.
Probab=24.61 E-value=1e+02 Score=23.19 Aligned_cols=21 Identities=29% Similarity=0.476 Sum_probs=13.1
Q ss_pred HHHHHHHHhhCCCCCHHHHHHHHHH
Q 030342 116 KEEIQRIKANNPDISHREAFSTAAK 140 (179)
Q Consensus 116 KeEIqRIKa~nP~isHKEAFs~AAk 140 (179)
|+.+..|-+++|+. ++..|++
T Consensus 48 KeaL~~lle~~PGa----a~qia~~ 68 (83)
T PF10963_consen 48 KEALKELLEENPGA----AMQIAGA 68 (83)
T ss_pred HHHHHHHHHHCCCH----HHHHHHH
Confidence 36677777777776 4554444
No 29
>smart00292 BRCT breast cancer carboxy-terminal domain.
Probab=24.50 E-value=41 Score=20.73 Aligned_cols=26 Identities=12% Similarity=0.341 Sum_probs=19.3
Q ss_pred hHHHHHHHhhhccccceeeee-ecCCc
Q 030342 2 RALLQSMVREYGSRFSVTVMA-RCSSS 27 (179)
Q Consensus 2 ~~~~~~~~~~y~s~~~~tVtV-RCG~C 27 (179)
+..|+.+++.+|..+...+.. +|.|+
T Consensus 19 ~~~l~~~i~~~Gg~~~~~~~~~~~thv 45 (80)
T smart00292 19 RDELKELIEALGGKVTSSLSSKTTTHV 45 (80)
T ss_pred HHHHHHHHHHcCCEEecccCccceeEE
Confidence 467888999999988877665 55544
No 30
>KOG4684 consensus Uncharacterized conserved protein, contains C4-type Zn-finger [General function prediction only]
Probab=23.89 E-value=36 Score=30.73 Aligned_cols=16 Identities=13% Similarity=0.208 Sum_probs=12.6
Q ss_pred eeeecCCcchhHHHHH
Q 030342 20 VMARCSSSSGFLLQLL 35 (179)
Q Consensus 20 VtVRCG~Cs~lLsv~l 35 (179)
+-|.||||++..+.+.
T Consensus 169 cRV~CgHC~~tFLfnt 184 (275)
T KOG4684|consen 169 CRVKCGHCNETFLFNT 184 (275)
T ss_pred eEEEecCccceeehhh
Confidence 7799999999766443
No 31
>PF13565 HTH_32: Homeodomain-like domain
Probab=23.72 E-value=2.3e+02 Score=18.80 Aligned_cols=31 Identities=16% Similarity=0.229 Sum_probs=26.0
Q ss_pred hHHHHHHHHHHHhhCCCCCHHHHHHHHHHhh
Q 030342 112 NQFIKEEIQRIKANNPDISHREAFSTAAKNW 142 (179)
Q Consensus 112 N~FMKeEIqRIKa~nP~isHKEAFs~AAkNW 142 (179)
..-+.++|..+..++|..+-++..-..+..+
T Consensus 32 ~~e~~~~i~~~~~~~p~wt~~~i~~~L~~~~ 62 (77)
T PF13565_consen 32 DPEQRERIIALIEEHPRWTPREIAEYLEEEF 62 (77)
T ss_pred cHHHHHHHHHHHHhCCCCCHHHHHHHHHHHh
Confidence 5677799999999999999999887777643
No 32
>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=22.68 E-value=85 Score=27.57 Aligned_cols=25 Identities=20% Similarity=0.486 Sum_probs=23.6
Q ss_pred hhhhHHHHHHHHHHHhhCCCCCHHH
Q 030342 109 SAYNQFIKEEIQRIKANNPDISHRE 133 (179)
Q Consensus 109 SAYN~FMKeEIqRIKa~nP~isHKE 133 (179)
+.|..||++...+-|..+|..|.|+
T Consensus 8 ~dYR~fl~d~ye~rk~~~p~fS~R~ 32 (271)
T TIGR02147 8 TDYRKYLRDYYEERKKTDPAFSWRF 32 (271)
T ss_pred hhHHHHHHHHHHHHhccCcCcCHHH
Confidence 4699999999999999999999998
No 33
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/hetero BRCT multimers, BRCT-non-BRCT interactions, and interactions within DNA strand breaks.
Probab=21.80 E-value=51 Score=19.76 Aligned_cols=26 Identities=15% Similarity=0.395 Sum_probs=18.7
Q ss_pred hHHHHHHHhhhccccceeeeeecCCc
Q 030342 2 RALLQSMVREYGSRFSVTVMARCSSS 27 (179)
Q Consensus 2 ~~~~~~~~~~y~s~~~~tVtVRCG~C 27 (179)
+..|+.+++.+|..+...++-.|-|+
T Consensus 15 ~~~l~~~i~~~Gg~v~~~~~~~~thv 40 (72)
T cd00027 15 RDELKELIEKLGGKVTSSVSKKTTHV 40 (72)
T ss_pred HHHHHHHHHHcCCEEeccccCCceEE
Confidence 45678888889988887777555444
No 34
>PRK14126 cell division protein ZapA; Provisional
Probab=21.19 E-value=1.9e+02 Score=21.20 Aligned_cols=32 Identities=16% Similarity=0.365 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHhhCCCCCHHHHHHHHHHhhcc
Q 030342 113 QFIKEEIQRIKANNPDISHREAFSTAAKNWAH 144 (179)
Q Consensus 113 ~FMKeEIqRIKa~nP~isHKEAFs~AAkNWa~ 144 (179)
.|+-+.|..|+..+|.++-..+-.+||-|-+|
T Consensus 34 ~~vd~km~ei~~~~~~ls~~~iAVLaALNia~ 65 (85)
T PRK14126 34 AIVDDKMRELNEKNPSLDTSKLAVLTAVNVIH 65 (85)
T ss_pred HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHH
Confidence 58889999999999999999999999998776
No 35
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=20.71 E-value=50 Score=20.70 Aligned_cols=12 Identities=17% Similarity=0.321 Sum_probs=9.4
Q ss_pred eeeeecCCcchh
Q 030342 19 TVMARCSSSSGF 30 (179)
Q Consensus 19 tVtVRCG~Cs~l 30 (179)
...|||++|...
T Consensus 23 ~~~vrC~~C~~~ 34 (37)
T PF13719_consen 23 GRKVRCPKCGHV 34 (37)
T ss_pred CcEEECCCCCcE
Confidence 468999999753
Done!