Query psy15012
Match_columns 1085
No_of_seqs 335 out of 1009
Neff 6.5
Searched_HMMs 46136
Date Fri Aug 16 18:10:35 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15012.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15012hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05380 Peptidase_A17: Pao re 100.0 8.7E-45 1.9E-49 371.7 12.6 158 476-636 1-159 (159)
2 cd01644 RT_pepA17 RT_pepA17: R 98.8 3.4E-09 7.4E-14 114.1 4.4 143 304-461 65-213 (213)
3 PF05585 DUF1758: Putative pep 98.0 7.5E-06 1.6E-10 84.7 5.2 46 208-254 115-160 (164)
4 PF00075 RNase_H: RNase H; In 97.9 1.4E-05 3E-10 78.9 4.6 100 558-680 3-116 (132)
5 cd06222 RnaseH RNase H (RNase 97.8 6.5E-05 1.4E-09 71.7 8.3 113 561-686 2-127 (130)
6 PF09337 zf-H2C2: His(2)-Cys(2 97.6 6.3E-06 1.4E-10 64.4 -1.7 39 872-911 1-39 (39)
7 PF00336 DNA_pol_viral_C: DNA 97.5 0.00024 5.2E-09 73.8 6.9 98 560-688 96-194 (245)
8 COG0328 RnhA Ribonuclease HI [ 97.4 0.00075 1.6E-08 68.8 8.9 105 558-679 3-128 (154)
9 PRK07708 hypothetical protein; 97.2 0.0017 3.8E-08 70.4 9.6 121 558-688 73-205 (219)
10 PRK13907 rnhA ribonuclease H; 96.9 0.0043 9.4E-08 61.4 9.3 113 559-687 2-123 (128)
11 PRK06548 ribonuclease H; Provi 96.6 0.0081 1.7E-07 62.2 8.9 104 556-678 3-124 (161)
12 PRK00203 rnhA ribonuclease H; 96.5 0.011 2.5E-07 60.3 8.9 103 558-679 3-125 (150)
13 PF13456 RVT_3: Reverse transc 96.4 0.0027 5.8E-08 57.7 3.6 75 606-686 4-82 (87)
14 PRK07238 bifunctional RNase H/ 96.3 0.0097 2.1E-07 69.8 8.0 118 558-688 2-129 (372)
15 PRK08719 ribonuclease H; Revie 96.0 0.033 7.2E-07 56.8 9.1 102 557-678 3-129 (147)
16 cd01644 RT_pepA17 RT_pepA17: R 89.3 0.14 3.1E-06 55.5 0.8 21 386-406 1-22 (213)
17 cd04714 BAH_BAHCC1 BAH, or Bro 75.6 4.2 9.1E-05 40.2 4.7 39 1025-1065 3-41 (121)
18 PRK01191 rpl24p 50S ribosomal 65.4 11 0.00025 37.1 5.1 54 1022-1078 42-96 (120)
19 PF11302 DUF3104: Protein of u 59.9 11 0.00024 34.1 3.5 35 1025-1059 5-44 (75)
20 KOG3752|consensus 58.8 25 0.00055 41.0 7.1 72 559-646 213-293 (371)
21 cd04721 BAH_plant_1 BAH, or Br 54.2 18 0.0004 36.3 4.5 35 1023-1060 5-39 (130)
22 PTZ00194 60S ribosomal protein 53.5 28 0.00061 35.4 5.7 54 1022-1078 43-97 (143)
23 smart00439 BAH Bromo adjacent 52.3 28 0.0006 33.5 5.4 33 1026-1059 2-34 (120)
24 cd04717 BAH_polybromo BAH, or 48.5 19 0.00041 35.4 3.6 34 1025-1059 3-36 (121)
25 smart00333 TUDOR Tudor domain. 42.6 43 0.00092 27.9 4.4 52 1025-1084 2-54 (57)
26 cd04712 BAH_DCM_I BAH, or Brom 41.2 30 0.00064 34.8 3.7 38 1023-1060 3-49 (130)
27 cd04709 BAH_MTA BAH, or Bromo 40.2 45 0.00097 34.9 4.9 40 1025-1067 3-42 (164)
28 cd04370 BAH BAH, or Bromo Adja 38.5 46 0.001 31.9 4.5 35 1025-1060 3-39 (123)
29 PF01426 BAH: BAH domain; Int 37.9 45 0.00097 32.0 4.4 33 1026-1059 3-35 (119)
30 PF03564 DUF1759: Protein of u 30.9 5.6 0.00012 40.0 -3.4 44 42-85 2-49 (145)
31 TIGR00219 mreC rod shape-deter 29.7 96 0.0021 35.3 5.9 49 1022-1070 212-261 (283)
32 smart00743 Agenet Tudor-like d 29.0 95 0.0021 26.4 4.4 55 1025-1084 2-57 (61)
33 PF07039 DUF1325: SGF29 tudor- 27.9 66 0.0014 32.3 3.7 55 1027-1085 1-60 (130)
34 PRK13922 rod shape-determining 27.4 1.1E+02 0.0024 34.4 5.9 47 1024-1070 213-260 (276)
35 PF10377 ATG11: Autophagy-rela 26.9 1.2E+02 0.0027 30.3 5.4 67 981-1053 4-100 (129)
36 cd04720 BAH_Orc1p_Yeast BAH, o 23.5 1.1E+02 0.0023 32.6 4.4 41 1022-1065 49-90 (179)
37 cd04719 BAH_Orc1p_animal BAH, 22.4 79 0.0017 31.8 3.0 38 1025-1065 3-43 (128)
38 PF04085 MreC: rod shape-deter 22.3 1.4E+02 0.0031 30.6 5.0 49 1022-1070 90-139 (152)
39 PF12073 DUF3553: Protein of u 21.5 2.5E+02 0.0055 23.9 5.2 49 1026-1082 1-49 (52)
No 1
>PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family.
Probab=100.00 E-value=8.7e-45 Score=371.73 Aligned_cols=158 Identities=41% Similarity=0.678 Sum_probs=150.8
Q ss_pred hhhhhHHHHHhhhccccCCccchhhHHHHHHHhhhhccCCCCccCChhhHHHHHHHHhhhcccceeeecceeecCCCCCC
Q psy15012 476 VCKRLLLSVYASFFDILGLWCPITTTLKLLIQKTWICKLGWEDEIEDEDKTDFFRIINCMNSVGNIPVGRYLHASLSCDT 555 (1085)
Q Consensus 476 ~TKR~ilS~iasiyDPLGllaPv~l~~K~llq~Lw~~~~~WDd~lp~el~~~w~~~~~~l~~~~~~~iPR~~~~~~~~~~ 555 (1085)
+|||+++|.+|++|||||+++|+++++|+|+|++|+.+++|||+||+++...|.+|.++++.+++++|||++... ...
T Consensus 1 pTKR~ils~ia~~yDPlGl~~p~~i~~K~llq~lw~~~l~WD~~lp~el~~~w~~~~~~l~~~~~i~iPR~i~~~--~~~ 78 (159)
T PF05380_consen 1 PTKRQILSFIASIYDPLGLLAPIIIRAKLLLQKLWQSKLDWDDPLPDELRKEWKKWLKELESLSPIRIPRCIPIS--DYR 78 (159)
T ss_pred CChHHHHHHHHHHcCcchhhHHHHHHHHHHHHhhhccccchhhhhhHHHHHHHHHHHHHHhhcccccCCcccccc--ccc
Confidence 699999999999999999999999999999999999999999999999999999999999999889999987633 245
Q ss_pred cceEeeecccccccceeEEEEEeeeCCCce-eeEeeecccccCCCCCccchhhHHHHHHHHHhHHHHHHhccccccceEE
Q psy15012 556 NYELHAFSDATKDSYAGCVYLKSVSGNETN-VNLVFAKSRIAPVKRPTLPRLELLGALIAYRSLKYVHESLDLKITNTYL 634 (1085)
Q Consensus 556 ~~~L~~F~DAS~~ay~a~vYlr~~~~~~~~-~~ll~aKsrv~Plk~~TIPRlEL~a~~l~~~l~~~v~~~l~~~i~~~~~ 634 (1085)
.++||+|||||+.|||||+|+|+ ..++.. ++|++||+||+|+|.+||||||||||++|++|+.++.+++++++++++|
T Consensus 79 ~~~L~~F~DAS~~aygavvYlr~-~~~~~~~~~ll~aKsrv~P~k~~tIPRlEL~a~~l~~~l~~~~~~~l~~~~~~~~~ 157 (159)
T PF05380_consen 79 SVELHVFCDASESAYGAVVYLRS-YSDGSVQVRLLFAKSRVAPLKTVTIPRLELLAALLGVRLANTVKKELDIEISQVVF 157 (159)
T ss_pred ceeeeEeecccccceeeEeEeee-ccCCceeeeeeeecccccCCCCCcHHHHHHHHHHHHHHHHHHHHHHcCCCcceeEE
Confidence 78999999999999999999999 667777 9999999999999999999999999999999999999999999999999
Q ss_pred Ee
Q psy15012 635 WI 636 (1085)
Q Consensus 635 ~t 636 (1085)
||
T Consensus 158 wt 159 (159)
T PF05380_consen 158 WT 159 (159)
T ss_pred eC
Confidence 97
No 2
>cd01644 RT_pepA17 RT_pepA17: Reverse transcriptase (RTs) in retrotransposons. This subfamily represents the RT domain of a multifunctional enzyme. C-terminal to the RT domain is a domain homologous to aspartic proteinases (corresponding to Merops family A17) encoded by retrotransposons and retroviruses. RT catalyzes DNA replication from an RNA template and is responsible for the replication of retroelements.
Probab=98.79 E-value=3.4e-09 Score=114.13 Aligned_cols=143 Identities=18% Similarity=0.265 Sum_probs=107.1
Q ss_pred HHHHHHhcceeecCCeEEEeecCCCCCcccccchhhhhhhhhHHHhhhccchhHH--HHHhHHHHHHHcCcccccccccC
Q psy15012 304 LALQQFDSTVQFENNRYAVTFPWKNSDRIVQSNYGLALGQLKSVIKRHANDGILE--ACKQTFDDQLAKGILEIVEDEKG 381 (1085)
Q Consensus 304 ~~~~~F~~t~~~~~gRy~V~LPwK~~~~~LpdN~~~A~kRl~~L~~rL~~~p~l~--~Y~~~i~eyl~~G~iE~v~~~~~ 381 (1085)
++.+.|.+.-..+++|...+|.|+++...-+ ....++..+.++++..|.+. ..+++++++.+...++.
T Consensus 65 Di~~af~qI~i~~~d~~~~~F~w~~~~~~~~----~~~Y~~~~~pFG~~~AP~~~~~~~~~~~~~~~~~~~~~~------ 134 (213)
T cd01644 65 DIEKMFHQVKVRPEDRDVLRFLWRKDGDEPK----PIEYRMTVVPFGAASAPFLANRALKQHAEDHPHEAAAKI------ 134 (213)
T ss_pred hHHHhhhheecCcccCceEEEEEeCCCCCCc----ceEEEEEEEccCCccchHHHHHHHHHHHhhcchhhHHHH------
Confidence 4889999988899999999999987532211 35678899999999999998 34455544443300111
Q ss_pred CCCeeEEeCCceeeccCCcccchhHHHHHHHHHHHHhcCccccccccCCccccccccccc----cccccccccccceeec
Q psy15012 382 DNKLVHYFPYHAVLRESVDYECEIQDFVETARKVFNEASLNLREWATNCPNDYYKNMDKT----LINTQENQSVLGMNWN 457 (1085)
Q Consensus 382 ~~~~~~YLPHh~V~k~~~~tKlRlqdl~~~~~~ll~~~gfnLrk~~SN~~~~~~~~i~~~----d~~~~~~~K~LGl~W~ 457 (1085)
....+|++.--|...+... .+.++.++.++|.++||+|+||+||+.+++ +.++++ +++.+...|+||+.|+
T Consensus 135 -i~~~~YvDDili~~~s~~e---~~~~~~~v~~~L~~~Gf~l~kw~sn~~~~l-~~~~~~~~~~~~~~~~~~k~LGl~W~ 209 (213)
T cd01644 135 -IKRNFYVDDILVSTDTLNE---AVNVAKRLIALLKKGGFNLRKWASNSQEVL-DDLPEERVLLDRDSDVTEKTLGLRWN 209 (213)
T ss_pred -HHHeeecccceecCCCHHH---HHHHHHHHHHHHHhCCccchhcccCchhhh-hcccccccccccccccchhcccceee
Confidence 1235899887776554322 334788999999999999999999999999 999864 2356677999999999
Q ss_pred cccC
Q psy15012 458 VHKD 461 (1085)
Q Consensus 458 ~~~D 461 (1085)
+.+|
T Consensus 210 ~~~D 213 (213)
T cd01644 210 PKTD 213 (213)
T ss_pred ccCC
Confidence 9987
No 3
>PF05585 DUF1758: Putative peptidase (DUF1758); InterPro: IPR008737 This is a family of nematode proteins of unknown function []. However, it seems likely that these proteins act as aspartic peptidases.
Probab=97.97 E-value=7.5e-06 Score=84.74 Aligned_cols=46 Identities=17% Similarity=0.086 Sum_probs=35.8
Q ss_pred CccCCCCCCCCCccccccccccccCCCcEEEecceeeEEeccccccc
Q psy15012 208 SRNVPPNCKGPFTLSRTLEPLGVFKDNLCLWETLFGNVLSGTKYITV 254 (1085)
Q Consensus 208 ~~~v~iG~d~p~~~~~~l~~~e~l~~gp~A~~T~lGWii~G~~~~~~ 254 (1085)
.+.++||+|.+|.++ ..+.+..++++|+|++|.||||++|+.....
T Consensus 115 ~iDiLIG~D~~~~ll-~~~~i~~~~~~~~a~~T~~GWiisG~~~~~~ 160 (164)
T PF05585_consen 115 PIDILIGADYFWQLL-TGGQIKRLPGGPTAQETKFGWIISGKASEQK 160 (164)
T ss_pred CCeEEEccchHHHHh-CCceEecCCCCCEEEeCCeEeEEeCccCCcc
Confidence 444589999998876 2233556799999999999999999877543
No 4
>PF00075 RNase_H: RNase H; InterPro: IPR002156 The RNase H domain is responsible for hydrolysis of the RNA portion of RNA x DNA hybrids, and this activity requires the presence of divalent cations (Mg2+ or Mn2+) that bind its active site. This domain is a part of a large family of homologous RNase H enzymes of which the RNase HI protein from Escherichia coli is the best characterised []. Secondary structure predictions for the enzymes from E. coli, yeast, human liver and diverse retroviruses (such as Rous sarcoma virus and the Foamy viruses) supported, in every case, the five beta-strands (1 to 5) and four or five alpha-helices (A, B/C, D, E) that have been identified by crystallography in the RNase H domain of Human immunodeficiency virus 1 (HIV-1) reverse transcriptase and in E. coli RNase H []. Reverse transcriptase (RT) is a modular enzyme carrying polymerase and ribonuclease H (RNase H) activities in separable domains. Reverse transcriptase (RT) converts the single-stranded RNA genome of a retrovirus into a double-stranded DNA copy for integration into the host genome. This process requires ribonuclease H as well as RNA- and DNA-directed DNA polymerase activities. Retroviral RNase H is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. Bacterial RNase H 3.1.26.4 from EC catalyses endonucleolytic cleavage to 5'-phosphomonoester acting on RNA-DNA hybrids. The 3D structure of the RNase H domain from diverse bacteria and retroviruses has been solved [, , ]. All have four beta strands and four to five alpha helices. The E. coli RNase H1 protein binds a single Mg2+ ion cofactor in the active site of the enzyme. The divalent cation is bound by the carboxyl groups of four acidic residues, Asp-10, Glu-48, Asp-70, and Asp-134 []. The first three acidic residues are highly conserved in all bacterial and retroviral RNase H sequences. ; GO: 0003676 nucleic acid binding, 0004523 ribonuclease H activity; PDB: 3LP3_B 2KW4_A 3P1G_A 1RIL_A 2RPI_A 4EQJ_G 4EP2_B 3OTY_P 3U3G_D 2ZQB_D ....
Probab=97.86 E-value=1.4e-05 Score=78.94 Aligned_cols=100 Identities=19% Similarity=0.259 Sum_probs=66.5
Q ss_pred eEeeecccccc------cceeEEEEEeeeCCCceeeEeeecccccCCCCCccchhhHHHHHHHHHhHHHHHHhccccccc
Q psy15012 558 ELHAFSDATKD------SYAGCVYLKSVSGNETNVNLVFAKSRIAPVKRPTLPRLELLGALIAYRSLKYVHESLDLKITN 631 (1085)
Q Consensus 558 ~L~~F~DAS~~------ay~a~vYlr~~~~~~~~~~ll~aKsrv~Plk~~TIPRlEL~a~~l~~~l~~~v~~~l~~~i~~ 631 (1085)
++.+|+|||-. ++|.++| ++.. .-.++...|.-+.||.|+..|++.+ .. ..
T Consensus 3 ~~~iytDgS~~~~~~~~~~g~v~~------~~~~--------~~~~~~~~s~~~aEl~Ai~~AL~~~----~~-----~~ 59 (132)
T PF00075_consen 3 AIIIYTDGSCRPNPGKGGAGYVVW------GGRN--------FSFRLGGQSNNRAELQAIIEALKAL----EH-----RK 59 (132)
T ss_dssp SEEEEEEEEECTTTTEEEEEEEEE------TTEE--------EEEEEESECHHHHHHHHHHHHHHTH----ST-----SE
T ss_pred cEEEEEeCCccCCCCceEEEEEEE------CCeE--------EEecccccchhhhheehHHHHHHHh----hc-----cc
Confidence 68899999932 4444222 1211 1112227899999999999999844 11 88
Q ss_pred eEEEechhhhhHhhhC-----C---CCCchHHHHHHHHHhhcCCcceeeecCCCCCC
Q psy15012 632 TYLWIDNQCVIHWIKG-----T---KTLPTFINNRVKEIKSSTFPIIFRYIPTFCNP 680 (1085)
Q Consensus 632 ~~~~tDS~ivL~wi~~-----~---~~~~~fv~nRv~~I~~~~~~~~~rhV~t~~NP 680 (1085)
++++|||+-++.+|.. . .....-+.+++.+.......+.++|||+..|-
T Consensus 60 v~I~tDS~~v~~~l~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~v~~~~V~~H~~~ 116 (132)
T PF00075_consen 60 VTIYTDSQYVLNALNKWLHGNGWKKTSNGRPIKNEIWELLSRGIKVRFRWVPGHSGV 116 (132)
T ss_dssp EEEEES-HHHHHHHHTHHHHTTSBSCTSSSBHTHHHHHHHHHSSEEEEEESSSSSSS
T ss_pred ccccccHHHHHHHHHHhccccccccccccccchhheeeccccceEEeeeeccCcCCC
Confidence 9999999999998888 3 11111244466665555667999999999775
No 5
>cd06222 RnaseH RNase H (RNase HI) is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a not sequence-specific manner. One of the important functions of RNase H is to remove Okazaki fragments during DNA replication. RNase H knockout mice lack mitochondrial DNA replication and die as embryos. The retroviral reverse transcriptase contains an RNase H domain that plays an important role in converting a single stranded retroviral genomic RNA into a dsDNA for integration into host chromosomes. RNase H inhibitors have been explored as an anti-HIV drug target because RNase H inactivation inhibits reverse transcription.
Probab=97.81 E-value=6.5e-05 Score=71.71 Aligned_cols=113 Identities=19% Similarity=0.183 Sum_probs=76.6
Q ss_pred eecccccc----cceeEEEEEeeeCCCceeeEeeecccccCCCCCccchhhHHHHHHHHHhHHHHHHhccccccceEEEe
Q psy15012 561 AFSDATKD----SYAGCVYLKSVSGNETNVNLVFAKSRIAPVKRPTLPRLELLGALIAYRSLKYVHESLDLKITNTYLWI 636 (1085)
Q Consensus 561 ~F~DAS~~----ay~a~vYlr~~~~~~~~~~ll~aKsrv~Plk~~TIPRlEL~a~~l~~~l~~~v~~~l~~~i~~~~~~t 636 (1085)
+|+|||-. .+|..++++. .++.. ...+.... ...|.-..|+.|+..|.+.+. ......+.++|
T Consensus 2 ~~~Dgs~~~~~~~~g~g~v~~~--~~~~~--~~~~~~~~---~~~s~~~aEl~al~~al~~~~------~~~~~~i~i~~ 68 (130)
T cd06222 2 IYTDGSCRGNPGPAGAGVVLRD--PGGEV--LLSGGLLG---GNTTNNRAELLALIEALELAL------ELGGKKVNIYT 68 (130)
T ss_pred EEecccCCCCCCceEEEEEEEe--CCCeE--EEeccccC---CCCcHHHHHHHHHHHHHHHHH------hCCCceEEEEE
Confidence 79999987 2344445442 22222 11111111 567889999999999988877 46689999999
Q ss_pred chhhhhHhhhCC-CCCchHHHHHHHHHhhc---CCcceeeecCC----CCC-CCccccc
Q psy15012 637 DNQCVIHWIKGT-KTLPTFINNRVKEIKSS---TFPIIFRYIPT----FCN-PADIACR 686 (1085)
Q Consensus 637 DS~ivL~wi~~~-~~~~~fv~nRv~~I~~~---~~~~~~rhV~t----~~N-PAD~~SR 686 (1085)
||..++..+++. .....-....+..|++. .....++|||+ ..| .||.++|
T Consensus 69 Ds~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~i~~v~~h~~~~~n~~ad~la~ 127 (130)
T cd06222 69 DSQYVINALTGWYEGKPVKNVDLWQRLLALLKRFHKVRFEWVPGHSGIEGNERADALAK 127 (130)
T ss_pred CHHHHHHHhhccccCCChhhHHHHHHHHHHHhCCCeEEEEEcCCCCCCcchHHHHHHHH
Confidence 999999999988 31223344444555554 35789999999 555 8997765
No 6
>PF09337 zf-H2C2: His(2)-Cys(2) zinc finger; InterPro: IPR015416 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 an H2C2-type zinc finger that binds to histone upstream activating sequence (UAS) elements found in histone gene promoters []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].
Probab=97.62 E-value=6.3e-06 Score=64.44 Aligned_cols=39 Identities=26% Similarity=0.480 Sum_probs=35.4
Q ss_pred hhhcccCCcchhhhhheeeeeccCCccceeeeeccchhhh
Q psy15012 872 HRQCFHSGVSQTLSVLRVEYWIPQGRSTVKTVLNNCVCLR 911 (1085)
Q Consensus 872 H~~~~H~G~~~tl~~lR~~yWI~~~r~~Vr~vi~~C~~l~ 911 (1085)
|.. .|.|++.|++.|+++|||++++..|+++|++|..|+
T Consensus 1 H~~-~H~Gi~kT~~~i~~~y~W~gm~~~V~~~ir~C~~Cq 39 (39)
T PF09337_consen 1 HNQ-GHPGINKTTAKISQRYHWPGMKKDVRRVIRSCPQCQ 39 (39)
T ss_pred CCc-cCCCHHHHHHHHHHhheecCHHHHHHHHHhcCcccC
Confidence 453 599999999999999999999999999999998763
No 7
>PF00336 DNA_pol_viral_C: DNA polymerase (viral) C-terminal domain; InterPro: IPR001462 This domain is at the C terminus of hepatitis B-type viruses P proteins and represents a functional domain that controls the RNase H activities of the protein. The domain is always associated with IPR000201 from INTERPRO and .; GO: 0004523 ribonuclease H activity
Probab=97.47 E-value=0.00024 Score=73.76 Aligned_cols=98 Identities=26% Similarity=0.258 Sum_probs=62.8
Q ss_pred eeecccccccceeEEEEEeeeCCCceeeEeeecccccCCCCCccchhhHHHHHHHHHhHHHHHHhccccccceEEEechh
Q psy15012 560 HAFSDATKDSYAGCVYLKSVSGNETNVNLVFAKSRIAPVKRPTLPRLELLGALIAYRSLKYVHESLDLKITNTYLWIDNQ 639 (1085)
Q Consensus 560 ~~F~DAS~~ay~a~vYlr~~~~~~~~~~ll~aKsrv~Plk~~TIPRlEL~a~~l~~~l~~~v~~~l~~~i~~~~~~tDS~ 639 (1085)
-+|+||+-.++|.++- +...+.-++| ..-|--.||+||.+|--. +..-.+-|||+
T Consensus 96 ~VfaDATpTgwgi~i~-------~~~~~~Tfs~-------~l~IhtaELlaaClAr~~-----------~~~r~l~tDnt 150 (245)
T PF00336_consen 96 QVFADATPTGWGISIT-------GQRMRGTFSK-------PLPIHTAELLAACLARLM-----------SGARCLGTDNT 150 (245)
T ss_pred ceeccCCCCcceeeec-------Cceeeeeecc-------cccchHHHHHHHHHHHhc-----------cCCcEEeecCc
Confidence 4899999999998732 1122233322 234556899988765422 23334899999
Q ss_pred hhhHhhhCCCCCc-hHHHHHHHHHhhcCCcceeeecCCCCCCCccccccc
Q psy15012 640 CVIHWIKGTKTLP-TFINNRVKEIKSSTFPIIFRYIPTFCNPADIACRGS 688 (1085)
Q Consensus 640 ivL~wi~~~~~~~-~fv~nRv~~I~~~~~~~~~rhV~t~~NPAD~~SRG~ 688 (1085)
+||+.=-..--|. .-++|. +....++.||||+.||||..|||.
T Consensus 151 ~Vlsrkyts~PW~lac~A~w------iLrgts~~yVPS~~NPAD~PsR~~ 194 (245)
T PF00336_consen 151 VVLSRKYTSFPWLLACAANW------ILRGTSFYYVPSKYNPADDPSRGK 194 (245)
T ss_pred EEEecccccCcHHHHHHHHH------hhcCceEEEeccccCcCCCCCCCc
Confidence 9998322221110 113343 345678999999999999999997
No 8
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=97.36 E-value=0.00075 Score=68.80 Aligned_cols=105 Identities=19% Similarity=0.291 Sum_probs=72.0
Q ss_pred eEeeeccccc------ccceeEEEEEeeeCCCceeeEeeecccccCCCCCccchhhHHHHHHHHHhHHHHHHhccccccc
Q psy15012 558 ELHAFSDATK------DSYAGCVYLKSVSGNETNVNLVFAKSRIAPVKRPTLPRLELLGALIAYRSLKYVHESLDLKITN 631 (1085)
Q Consensus 558 ~L~~F~DAS~------~ay~a~vYlr~~~~~~~~~~ll~aKsrv~Plk~~TIPRlEL~a~~l~~~l~~~v~~~l~~~i~~ 631 (1085)
.+++|+|+|- .|||++++ ++++.. .-..+...-|=.|+||+|+..|.+.+.. .....
T Consensus 3 ~v~if~DGa~~gNpG~gG~g~vl~----~~~~~~-------~~s~~~~~tTNNraEl~A~i~AL~~l~~------~~~~~ 65 (154)
T COG0328 3 KVEIFTDGACLGNPGPGGWGAVLR----YGDGEK-------ELSGGEGRTTNNRAELRALIEALEALKE------LGACE 65 (154)
T ss_pred ceEEEecCccCCCCCCceEEEEEE----cCCceE-------EEeeeeecccChHHHHHHHHHHHHHHHh------cCCce
Confidence 5789999974 56777766 333322 1122333678899999999999988776 56889
Q ss_pred eEEEechhhhhH----hhhCC--CCCch----HHHHH--HHHHhhc---CCcceeeecCCCCC
Q psy15012 632 TYLWIDNQCVIH----WIKGT--KTLPT----FINNR--VKEIKSS---TFPIIFRYIPTFCN 679 (1085)
Q Consensus 632 ~~~~tDS~ivL~----wi~~~--~~~~~----fv~nR--v~~I~~~---~~~~~~rhV~t~~N 679 (1085)
+.++|||+-|.. |+.+- ..|++ .|.|+ ..++.++ ...+.|++|++..+
T Consensus 66 v~l~tDS~yv~~~i~~w~~~w~~~~w~~~~~~pvkn~dl~~~~~~~~~~~~~v~~~WVkgH~g 128 (154)
T COG0328 66 VTLYTDSKYVVEGITRWIVKWKKNGWKTADKKPVKNKDLWEELDELLKRHELVFWEWVKGHAG 128 (154)
T ss_pred EEEEecHHHHHHHHHHHHhhccccCccccccCccccHHHHHHHHHHHhhCCeEEEEEeeCCCC
Confidence 999999998865 54444 45553 45544 3444444 44679999997665
No 9
>PRK07708 hypothetical protein; Validated
Probab=97.15 E-value=0.0017 Score=70.38 Aligned_cols=121 Identities=16% Similarity=0.144 Sum_probs=74.7
Q ss_pred eEeeeccccc------ccceeEEEEEeeeCCCceeeEeeecccccCCCCCccchhhHHHHHHHHHhHHHHHHhccccccc
Q psy15012 558 ELHAFSDATK------DSYAGCVYLKSVSGNETNVNLVFAKSRIAPVKRPTLPRLELLGALIAYRSLKYVHESLDLKITN 631 (1085)
Q Consensus 558 ~L~~F~DAS~------~ay~a~vYlr~~~~~~~~~~ll~aKsrv~Plk~~TIPRlEL~a~~l~~~l~~~v~~~l~~~i~~ 631 (1085)
.+++|+|||- .|+|+++|. .+|.....+.+...+.+ ..|=...|+.|+..|.+++.. +++.-..
T Consensus 73 ~~~vY~DGs~~~n~g~aG~GvVI~~----~~g~~~~~~~~~~~l~~--~~TNN~AEy~Ali~aL~~A~e----~g~~~~~ 142 (219)
T PRK07708 73 EILVYFDGGFDKETKLAGLGIVIYY----KQGNKRYRIRRNAYIEG--IYDNNEAEYAALYYAMQELEE----LGVKHEP 142 (219)
T ss_pred cEEEEEeeccCCCCCCcEEEEEEEE----CCCCEEEEEEeeccccc--cccCcHHHHHHHHHHHHHHHH----cCCCcce
Confidence 6889999976 334444442 23322212222223332 247778899999988887743 4544445
Q ss_pred eEEEechhhhhHhhhCC-CCCchHHHHHHHHHhh----cCCcceeeecCCCCC-CCccccccc
Q psy15012 632 TYLWIDNQCVIHWIKGT-KTLPTFINNRVKEIKS----STFPIIFRYIPTFCN-PADIACRGS 688 (1085)
Q Consensus 632 ~~~~tDS~ivL~wi~~~-~~~~~fv~nRv~~I~~----~~~~~~~rhV~t~~N-PAD~~SRG~ 688 (1085)
+.+++||+.++.|+.+. +....-...-+.+|++ +.....+.|||-++| .||.+.+-.
T Consensus 143 V~I~~DSqlVi~qi~g~wk~~~~~l~~y~~~i~~l~~~~~l~~~~~~VpR~~N~~AD~LAk~A 205 (219)
T PRK07708 143 VTFRGDSQVVLNQLAGEWPCYDEHLNHWLDRIEQKLKQLKLTPVYEPISRKQNKEADQLATQA 205 (219)
T ss_pred EEEEeccHHHHHHhCCCceeCChhHHHHHHHHHHHHhhCCceEEEEECCchhhhHHHHHHHHH
Confidence 89999999999999998 3333222222233333 222467789999999 588765543
No 10
>PRK13907 rnhA ribonuclease H; Provisional
Probab=96.92 E-value=0.0043 Score=61.37 Aligned_cols=113 Identities=15% Similarity=0.138 Sum_probs=71.9
Q ss_pred Eeeecccccc----cceeEEEEEeeeCCCceeeEeeecccccCCCCCccchhhHHHHHHHHHhHHHHHHhccccccceEE
Q psy15012 559 LHAFSDATKD----SYAGCVYLKSVSGNETNVNLVFAKSRIAPVKRPTLPRLELLGALIAYRSLKYVHESLDLKITNTYL 634 (1085)
Q Consensus 559 L~~F~DAS~~----ay~a~vYlr~~~~~~~~~~ll~aKsrv~Plk~~TIPRlEL~a~~l~~~l~~~v~~~l~~~i~~~~~ 634 (1085)
+++|+|||-. ..|+.+.+| +.++.. . . + .+....|=.+.|+.|+..|++++... .+..+.+
T Consensus 2 ~~iy~DGa~~~~~g~~G~G~vi~--~~~~~~-~-~-~----~~~~~~tn~~AE~~All~aL~~a~~~------g~~~v~i 66 (128)
T PRK13907 2 IEVYIDGASKGNPGPSGAGVFIK--GVQPAV-Q-L-S----LPLGTMSNHEAEYHALLAALKYCTEH------NYNIVSF 66 (128)
T ss_pred EEEEEeeCCCCCCCccEEEEEEE--ECCeeE-E-E-E----ecccccCCcHHHHHHHHHHHHHHHhC------CCCEEEE
Confidence 5789998764 223333344 333322 1 1 1 12334577899999999998887533 3457999
Q ss_pred EechhhhhHhhhCC-CCCchHHHHHHHHHhhc---CCcceeeecCCCCC-CCcccccc
Q psy15012 635 WIDNQCVIHWIKGT-KTLPTFINNRVKEIKSS---TFPIIFRYIPTFCN-PADIACRG 687 (1085)
Q Consensus 635 ~tDS~ivL~wi~~~-~~~~~fv~nRv~~I~~~---~~~~~~rhV~t~~N-PAD~~SRG 687 (1085)
+|||+.+..++++. .+- .-...-+.+++++ .+...+.|||..+| .||.+.|.
T Consensus 67 ~sDS~~vi~~~~~~~~~~-~~~~~l~~~~~~l~~~f~~~~~~~v~r~~N~~Ad~LA~~ 123 (128)
T PRK13907 67 RTDSQLVERAVEKEYAKN-KMFAPLLEEALQYIKSFDLFFIKWIPSSQNKVADELARK 123 (128)
T ss_pred EechHHHHHHHhHHHhcC-hhHHHHHHHHHHHHhcCCceEEEEcCchhchhHHHHHHH
Confidence 99999999999987 321 1123334445443 44667799999999 58876653
No 11
>PRK06548 ribonuclease H; Provisional
Probab=96.63 E-value=0.0081 Score=62.16 Aligned_cols=104 Identities=18% Similarity=0.116 Sum_probs=63.5
Q ss_pred cceEeeecccccc----cceeEEEEEeeeCCCceeeEeeecccccCCCCCccchhhHHHHHHHHHhHHHHHHhccccccc
Q psy15012 556 NYELHAFSDATKD----SYAGCVYLKSVSGNETNVNLVFAKSRIAPVKRPTLPRLELLGALIAYRSLKYVHESLDLKITN 631 (1085)
Q Consensus 556 ~~~L~~F~DAS~~----ay~a~vYlr~~~~~~~~~~ll~aKsrv~Plk~~TIPRlEL~a~~l~~~l~~~v~~~l~~~i~~ 631 (1085)
+.++++|+|||-. .-|..+|+. + ++ ....+....|=.|.||+|+..|.+.+ ......
T Consensus 3 ~~~~~IytDGa~~gnpg~~G~g~~~~--~-~~---------~~~g~~~~~TNnraEl~Aii~aL~~~-------~~~~~~ 63 (161)
T PRK06548 3 NNEIIAATDGSSLANPGPSGWAWYVD--E-NT---------WDSGGWDIATNNIAELTAVRELLIAT-------RHTDRP 63 (161)
T ss_pred CCEEEEEEeeccCCCCCceEEEEEEe--C-Cc---------EEccCCCCCCHHHHHHHHHHHHHHhh-------hcCCce
Confidence 3468999998765 222333432 1 11 11223345688999999998876422 222346
Q ss_pred eEEEechhhhhH--------hhhCC--CCCchHHHHH--HHHHhhcC--CcceeeecCCCC
Q psy15012 632 TYLWIDNQCVIH--------WIKGT--KTLPTFINNR--VKEIKSST--FPIIFRYIPTFC 678 (1085)
Q Consensus 632 ~~~~tDS~ivL~--------wi~~~--~~~~~fv~nR--v~~I~~~~--~~~~~rhV~t~~ 678 (1085)
+.++|||+.|+. |.++. +.-+.-|+|+ +++|.++. ..+.|.||++-.
T Consensus 64 v~I~TDS~yvi~~i~~W~~~Wk~~gWk~s~G~pV~N~dL~~~l~~l~~~~~v~~~wVkgHs 124 (161)
T PRK06548 64 ILILSDSKYVINSLTKWVYSWKMRKWRKADGKPVLNQEIIQEIDSLMENRNIRMSWVNAHT 124 (161)
T ss_pred EEEEeChHHHHHHHHHHHHHHHHCCCcccCCCccccHHHHHHHHHHHhcCceEEEEEecCC
Confidence 899999999986 43444 3334568887 34444433 258899998754
No 12
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=96.48 E-value=0.011 Score=60.27 Aligned_cols=103 Identities=18% Similarity=0.292 Sum_probs=63.1
Q ss_pred eEeeecccccc------cceeEEEEEeeeCCCceeeEeeecccccCCCCCccchhhHHHHHHHHHhHHHHHHhccccccc
Q psy15012 558 ELHAFSDATKD------SYAGCVYLKSVSGNETNVNLVFAKSRIAPVKRPTLPRLELLGALIAYRSLKYVHESLDLKITN 631 (1085)
Q Consensus 558 ~L~~F~DAS~~------ay~a~vYlr~~~~~~~~~~ll~aKsrv~Plk~~TIPRlEL~a~~l~~~l~~~v~~~l~~~i~~ 631 (1085)
.+.+|+|+|-. +||++++ ..++ ...+ .. +....|-.|.||.|+..|++.+. ....
T Consensus 3 ~v~iytDGs~~~n~~~~g~g~v~~----~~~~-~~~~-~~-----~~~~~TN~~aEL~Ai~~AL~~~~--------~~~~ 63 (150)
T PRK00203 3 QVEIYTDGACLGNPGPGGWGAILR----YKGH-EKEL-SG-----GEALTTNNRMELMAAIEALEALK--------EPCE 63 (150)
T ss_pred eEEEEEEecccCCCCceEEEEEEE----ECCe-eEEE-ec-----CCCCCcHHHHHHHHHHHHHHHcC--------CCCe
Confidence 37899999963 4444433 1222 1111 11 12357899999999999987542 1257
Q ss_pred eEEEechhhhhH----hhhC----C--CCCchHHHHH--HHHHhhcC--CcceeeecCCCCC
Q psy15012 632 TYLWIDNQCVIH----WIKG----T--KTLPTFINNR--VKEIKSST--FPIIFRYIPTFCN 679 (1085)
Q Consensus 632 ~~~~tDS~ivL~----wi~~----~--~~~~~fv~nR--v~~I~~~~--~~~~~rhV~t~~N 679 (1085)
+.++|||+.++. |+.+ . +.-..-|+|+ .++|.++. ..+.|.|||+-.+
T Consensus 64 v~I~tDS~yvi~~i~~w~~~Wk~~~~~~~~g~~v~n~dl~~~i~~l~~~~~v~~~wV~~H~~ 125 (150)
T PRK00203 64 VTLYTDSQYVRQGITEWIHGWKKNGWKTADKKPVKNVDLWQRLDAALKRHQIKWHWVKGHAG 125 (150)
T ss_pred EEEEECHHHHHHHHHHHHHHHHHcCCcccCCCccccHHHHHHHHHHhccCceEEEEecCCCC
Confidence 899999987765 4432 2 2223356665 45565544 3589999996653
No 13
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=96.44 E-value=0.0027 Score=57.66 Aligned_cols=75 Identities=24% Similarity=0.246 Sum_probs=53.4
Q ss_pred hhHHHHHHHHHhHHHHHHhccccccceEEEechhhhhHhhhCCCCCchHHHHHHHHHhhcC---CcceeeecCCCCC-CC
Q psy15012 606 LELLGALIAYRSLKYVHESLDLKITNTYLWIDNQCVIHWIKGTKTLPTFINNRVKEIKSST---FPIIFRYIPTFCN-PA 681 (1085)
Q Consensus 606 lEL~a~~l~~~l~~~v~~~l~~~i~~~~~~tDS~ivL~wi~~~~~~~~fv~nRv~~I~~~~---~~~~~rhV~t~~N-PA 681 (1085)
.|+.|+..|.+++. ...+.++.+.|||+.++..|++...........+.+|+.+. ....|+|||-++| .|
T Consensus 4 aE~~al~~al~~a~------~~g~~~i~v~sDs~~vv~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~r~~N~~A 77 (87)
T PF13456_consen 4 AEALALLEALQLAW------ELGIRKIIVESDSQLVVDAINGRSSSRSELRPLIQDIRSLLDRFWNVSVSHIPREQNKVA 77 (87)
T ss_dssp HHHHHHHHHHHHHH------CCT-SCEEEEES-HHHHHHHTTSS---SCCHHHHHHHHHHHCCCSCEEEEE--GGGSHHH
T ss_pred HHHHHHHHHHHHHH------HCCCCEEEEEecCccccccccccccccccccccchhhhhhhccccceEEEEEChHHhHHH
Confidence 48888888877764 45688999999999999999998322226667777776655 4699999999999 58
Q ss_pred ccccc
Q psy15012 682 DIACR 686 (1085)
Q Consensus 682 D~~SR 686 (1085)
|-..|
T Consensus 78 ~~LA~ 82 (87)
T PF13456_consen 78 DALAK 82 (87)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 87654
No 14
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional
Probab=96.28 E-value=0.0097 Score=69.82 Aligned_cols=118 Identities=16% Similarity=0.189 Sum_probs=76.9
Q ss_pred eEeeeccccccc----ceeEEEEEeeeCCCceeeEeeecccccCCCCCccchhhHHHHHHHHHhHHHHHHhccccccceE
Q psy15012 558 ELHAFSDATKDS----YAGCVYLKSVSGNETNVNLVFAKSRIAPVKRPTLPRLELLGALIAYRSLKYVHESLDLKITNTY 633 (1085)
Q Consensus 558 ~L~~F~DAS~~a----y~a~vYlr~~~~~~~~~~ll~aKsrv~Plk~~TIPRlEL~a~~l~~~l~~~v~~~l~~~i~~~~ 633 (1085)
++++|+|||-.. .|+.+.++ +.++..+ +...+. ++...|-...|+.|++.|.+++..+ .+..+.
T Consensus 2 ~~~i~~DGa~~~n~g~aG~G~vi~--~~~~~~~-~~~~~~---~~~~~tnn~AE~~All~gL~~a~~~------g~~~v~ 69 (372)
T PRK07238 2 KVVVEADGGSRGNPGPAGYGAVVW--DADRGEV-LAERAE---AIGRATNNVAEYRGLIAGLEAAAEL------GATEVE 69 (372)
T ss_pred eEEEEecCCCCCCCCceEEEEEEE--eCCCCcE-EEEeec---ccCCCCchHHHHHHHHHHHHHHHhC------CCCeEE
Confidence 688999998652 23334444 2333211 111112 2335677889999999999887543 356899
Q ss_pred EEechhhhhHhhhCC-C----CCchHHHHHHHHHhhcCCcceeeecCCCCC-CCccccccc
Q psy15012 634 LWIDNQCVIHWIKGT-K----TLPTFINNRVKEIKSSTFPIIFRYIPTFCN-PADIACRGS 688 (1085)
Q Consensus 634 ~~tDS~ivL~wi~~~-~----~~~~fv~nRv~~I~~~~~~~~~rhV~t~~N-PAD~~SRG~ 688 (1085)
+++||..++.-+.+. + .+..+. ..+.++.+......|.||+..+| .||.+.+..
T Consensus 70 i~~DS~lvi~~i~~~~~~~~~~l~~~~-~~i~~l~~~f~~~~i~~v~r~~N~~AD~LA~~a 129 (372)
T PRK07238 70 VRMDSKLVVEQMSGRWKVKHPDMKPLA-AQARELASQFGRVTYTWIPRARNAHADRLANEA 129 (372)
T ss_pred EEeCcHHHHHHhCCCCccCChHHHHHH-HHHHHHHhcCCceEEEECCchhhhHHHHHHHHH
Confidence 999999999999876 2 122221 33444555566799999999888 588876654
No 15
>PRK08719 ribonuclease H; Reviewed
Probab=95.97 E-value=0.033 Score=56.84 Aligned_cols=102 Identities=14% Similarity=0.118 Sum_probs=62.2
Q ss_pred ceEeeecccccc---------cceeEEEEEeeeCCCcee-eEeeecccccCCC-CCccchhhHHHHHHHHHhHHHHHHhc
Q psy15012 557 YELHAFSDATKD---------SYAGCVYLKSVSGNETNV-NLVFAKSRIAPVK-RPTLPRLELLGALIAYRSLKYVHESL 625 (1085)
Q Consensus 557 ~~L~~F~DAS~~---------ay~a~vYlr~~~~~~~~~-~ll~aKsrv~Plk-~~TIPRlEL~a~~l~~~l~~~v~~~l 625 (1085)
..+++|+|+|-. +||+++|. .++... .+. .|+. ..|--|.||.|+..|.+.+..
T Consensus 3 ~~~~iYtDGs~~~n~~~~~~~G~G~vv~~----~~~~~~~~~~------~~~~~~~Tnn~aEl~A~~~aL~~~~~----- 67 (147)
T PRK08719 3 ASYSIYIDGAAPNNQHGCVRGGIGLVVYD----EAGEIVDEQS------ITVNRYTDNAELELLALIEALEYARD----- 67 (147)
T ss_pred ceEEEEEecccCCCCCCCCCcEEEEEEEe----CCCCeeEEEE------ecCCCCccHHHHHHHHHHHHHHHcCC-----
Confidence 367899998872 55555542 333321 121 1222 369999999999988876532
Q ss_pred cccccceEEEechhhhhHhh--------hCC--CCCchHHHHH--HHHHhhcC--CcceeeecCCCC
Q psy15012 626 DLKITNTYLWIDNQCVIHWI--------KGT--KTLPTFINNR--VKEIKSST--FPIIFRYIPTFC 678 (1085)
Q Consensus 626 ~~~i~~~~~~tDS~ivL~wi--------~~~--~~~~~fv~nR--v~~I~~~~--~~~~~rhV~t~~ 678 (1085)
...++|||+-|+.=| ++. +.-...|.|+ .++|.++. ..+.|.||++-.
T Consensus 68 -----~~~i~tDS~yvi~~i~~~~~~W~~~~w~~s~g~~v~n~dl~~~i~~l~~~~~i~~~~VkgH~ 129 (147)
T PRK08719 68 -----GDVIYSDSDYCVRGFNEWLDTWKQKGWRKSDKKPVANRDLWQQVDELRARKYVEVEKVTAHS 129 (147)
T ss_pred -----CCEEEechHHHHHHHHHHHHHHHhCCcccCCCcccccHHHHHHHHHHhCCCcEEEEEecCCC
Confidence 137999998887544 444 2233456664 22333332 358899999943
No 16
>cd01644 RT_pepA17 RT_pepA17: Reverse transcriptase (RTs) in retrotransposons. This subfamily represents the RT domain of a multifunctional enzyme. C-terminal to the RT domain is a domain homologous to aspartic proteinases (corresponding to Merops family A17) encoded by retrotransposons and retroviruses. RT catalyzes DNA replication from an RNA template and is responsible for the replication of retroelements.
Probab=89.26 E-value=0.14 Score=55.46 Aligned_cols=21 Identities=33% Similarity=0.555 Sum_probs=19.0
Q ss_pred eEEeCCceeeccCCc-ccchhH
Q psy15012 386 VHYFPYHAVLRESVD-YECEIQ 406 (1085)
Q Consensus 386 ~~YLPHh~V~k~~~~-tKlRlq 406 (1085)
+||||||+|++++++ ||+|++
T Consensus 1 ~~y~ph~~V~~~~~~~~k~R~V 22 (213)
T cd01644 1 VWYLPHHAVIKPSKTTTKLRVV 22 (213)
T ss_pred CcccCCceecCCCCCCCccEEE
Confidence 499999999999996 999955
No 17
>cd04714 BAH_BAHCC1 BAH, or Bromo Adjacent Homology domain, as present in mammalian BAHCC1 and similar proteins. BAHCC1 stands for BAH domain and coiled-coil containing 1. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=75.61 E-value=4.2 Score=40.17 Aligned_cols=39 Identities=21% Similarity=0.262 Sum_probs=31.4
Q ss_pred CCCCCcEEEEecCCCCCCCcCcceeEEeeeCCCCceEEEEE
Q psy15012 1025 EPREGEVVLIREDKMPRASWPYGVIVKLNPSRDSRVRTAIV 1065 (1085)
Q Consensus 1025 ~~~vGdiVlv~~~~~pr~~W~lGrI~~v~pg~DG~vR~v~v 1065 (1085)
-.++||-|+|+.++.+...| +|||.++..++||.. .+.|
T Consensus 3 ~~~vGD~V~v~~~~~~~~py-IgrI~~i~e~~~g~~-~~~v 41 (121)
T cd04714 3 IIRVGDCVLFKSPGRPSLPY-VARIESLWEDPEGNM-VVRV 41 (121)
T ss_pred EEEcCCEEEEeCCCCCCCCE-EEEEEEEEEcCCCCE-EEEE
Confidence 46899999999876555556 999999999999976 5555
No 18
>PRK01191 rpl24p 50S ribosomal protein L24P; Validated
Probab=65.38 E-value=11 Score=37.11 Aligned_cols=54 Identities=26% Similarity=0.410 Sum_probs=41.3
Q ss_pred CCCCCCCCcEEEEecCCCCCCCcCcceeEEeeeCCC-CceEEEEEEeCCCceEeecCc
Q psy15012 1022 TNIEPREGEVVLIREDKMPRASWPYGVIVKLNPSRD-SRVRTAIVRTAHRTEIVRPIS 1078 (1085)
Q Consensus 1022 ~~~~~~vGdiVlv~~~~~pr~~W~lGrI~~v~pg~D-G~vR~v~vkt~~g~~~~Rpv~ 1078 (1085)
.+..+++||.|.|......- .-|+|++|.+.++ -.|..+.+.++.|...+.||+
T Consensus 42 r~~~IkkGD~V~VisG~~KG---k~GkV~~V~~~~~~V~VeGvn~~k~~G~~~e~pIh 96 (120)
T PRK01191 42 RSLPVRKGDTVKVMRGDFKG---EEGKVVEVDLKRGRIYVEGVTVKKADGTEVPRPIH 96 (120)
T ss_pred ccceEeCCCEEEEeecCCCC---ceEEEEEEEcCCCEEEEeCcEEECCCCeEEEcccc
Confidence 45689999999999766332 4599999999865 556677777788867788874
No 19
>PF11302 DUF3104: Protein of unknown function (DUF3104); InterPro: IPR021453 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=59.91 E-value=11 Score=34.11 Aligned_cols=35 Identities=17% Similarity=0.547 Sum_probs=29.5
Q ss_pred CCCCCcEEEEecCC----CCCCCcCcceeEEeeeC-CCCc
Q psy15012 1025 EPREGEVVLIREDK----MPRASWPYGVIVKLNPS-RDSR 1059 (1085)
Q Consensus 1025 ~~~vGdiVlv~~~~----~pr~~W~lGrI~~v~pg-~DG~ 1059 (1085)
.+|.||.|+|.+++ .....|-||-|+.+.-| +|..
T Consensus 5 ~Vk~Gd~ViV~~~~~~~~~~~~dWWmg~Vi~~~ggaR~P~ 44 (75)
T PF11302_consen 5 SVKPGDTVIVQDEQEVGQKQDKDWWMGQVIHCEGGARDPK 44 (75)
T ss_pred ccCCCCEEEEecCccccccCCCCcEEEEEEEEeccccCCC
Confidence 57899999999877 67889999999998876 4555
No 20
>KOG3752|consensus
Probab=58.79 E-value=25 Score=40.96 Aligned_cols=72 Identities=21% Similarity=0.300 Sum_probs=48.7
Q ss_pred Eeeeccccccc-------ceeEEEEEeeeCCCceeeEeeecccccCCC--CCccchhhHHHHHHHHHhHHHHHHhccccc
Q psy15012 559 LHAFSDATKDS-------YAGCVYLKSVSGNETNVNLVFAKSRIAPVK--RPTLPRLELLGALIAYRSLKYVHESLDLKI 629 (1085)
Q Consensus 559 L~~F~DAS~~a-------y~a~vYlr~~~~~~~~~~ll~aKsrv~Plk--~~TIPRlEL~a~~l~~~l~~~v~~~l~~~i 629 (1085)
+++++|+|-.+ -|.+||. ++|.. +..-.|+. ..|-.|-||.|+..|.+ +.+..++
T Consensus 213 ~vvytDGS~~~ng~~~~~AGyGvyw----g~~~e------~N~s~pv~~g~qtNnrAEl~Av~~ALk------ka~~~~~ 276 (371)
T KOG3752|consen 213 QVVYTDGSSSGNGRKSSRAGYGVYW----GPGHE------LNVSGPLAGGRQTNNRAELIAAIEALK------KARSKNI 276 (371)
T ss_pred eEEEecCccccCCCCCCcceeEEee----CCCCc------ccccccCCCCcccccHHHHHHHHHHHH------HHHhcCC
Confidence 67889987644 3345674 23322 11223444 48999999999987764 4445556
Q ss_pred cceEEEechhhhhHhhh
Q psy15012 630 TNTYLWIDNQCVIHWIK 646 (1085)
Q Consensus 630 ~~~~~~tDS~ivL~wi~ 646 (1085)
.+++|-|||.-+..|+.
T Consensus 277 ~kv~I~TDS~~~i~~l~ 293 (371)
T KOG3752|consen 277 NKVVIRTDSEYFINSLT 293 (371)
T ss_pred CcEEEEechHHHHHHHH
Confidence 69999999999988765
No 21
>cd04721 BAH_plant_1 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=54.23 E-value=18 Score=36.25 Aligned_cols=35 Identities=9% Similarity=0.144 Sum_probs=28.3
Q ss_pred CCCCCCCcEEEEecCCCCCCCcCcceeEEeeeCCCCce
Q psy15012 1023 NIEPREGEVVLIREDKMPRASWPYGVIVKLNPSRDSRV 1060 (1085)
Q Consensus 1023 ~~~~~vGdiVlv~~~~~pr~~W~lGrI~~v~pg~DG~v 1060 (1085)
+..+++||.|+|..++.+ .| +|+|.++.-+.||..
T Consensus 5 ~~~i~vGD~V~v~~~~~~--~~-va~Ie~i~ed~~g~~ 39 (130)
T cd04721 5 GVTISVHDFVYVLSEEED--RY-VAYIEDLYEDKKGSK 39 (130)
T ss_pred CEEEECCCEEEEeCCCCC--cE-EEEEEEEEEcCCCCE
Confidence 445899999999976622 35 999999999999964
No 22
>PTZ00194 60S ribosomal protein L26; Provisional
Probab=53.54 E-value=28 Score=35.43 Aligned_cols=54 Identities=9% Similarity=0.118 Sum_probs=42.0
Q ss_pred CCCCCCCCcEEEEecCCCCCCCcCcceeEEeeeCCC-CceEEEEEEeCCCceEeecCc
Q psy15012 1022 TNIEPREGEVVLIREDKMPRASWPYGVIVKLNPSRD-SRVRTAIVRTAHRTEIVRPIS 1078 (1085)
Q Consensus 1022 ~~~~~~vGdiVlv~~~~~pr~~W~lGrI~~v~pg~D-G~vR~v~vkt~~g~~~~Rpv~ 1078 (1085)
.+..++.||.|.|...... + .-|.|++|.+..+ -.|-.|.+..++|+...-||+
T Consensus 43 Rs~~IkkGD~V~Vi~Gk~K-G--k~GkV~~V~~k~~~ViVEgvn~~Kk~gk~~e~PIh 97 (143)
T PTZ00194 43 RSMPVRKDDEVMVVRGHHK-G--REGKVTAVYRKKWVIHIEKITREKANGEPVQIGIH 97 (143)
T ss_pred ccceeecCCEEEEecCCCC-C--CceEEEEEEcCCCEEEEeCeEEEecCCCEeecCcC
Confidence 3457999999999976633 2 4599999998764 567788889999988777775
No 23
>smart00439 BAH Bromo adjacent homology domain.
Probab=52.34 E-value=28 Score=33.45 Aligned_cols=33 Identities=21% Similarity=0.375 Sum_probs=27.0
Q ss_pred CCCCcEEEEecCCCCCCCcCcceeEEeeeCCCCc
Q psy15012 1026 PREGEVVLIREDKMPRASWPYGVIVKLNPSRDSR 1059 (1085)
Q Consensus 1026 ~~vGdiVlv~~~~~pr~~W~lGrI~~v~pg~DG~ 1059 (1085)
+++||.|+|..+... ...-+|+|.++..+.+|.
T Consensus 2 ~~vgd~V~v~~~~~~-~~~~i~~I~~i~~~~~~~ 34 (120)
T smart00439 2 IRVGDFVLVEPDDAD-EPYYIGRIEEIFETKKNS 34 (120)
T ss_pred cccCCEEEEeCCCCC-CCCEEEEEEEEEECCCCC
Confidence 589999999987622 345599999999999886
No 24
>cd04717 BAH_polybromo BAH, or Bromo Adjacent Homology domain, as present in polybromo and yeast RSC1/2. The human polybromo protein (BAF180) is a component of the SWI/SNF chromatin-remodeling complex PBAF. It is thought that polybromo participates in transcriptional regulation. Saccharomyces cerevisiae RSC1 and RSC2 are part of the 15-subunit nucleosome remodeling RSC complex. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=48.53 E-value=19 Score=35.42 Aligned_cols=34 Identities=21% Similarity=0.234 Sum_probs=28.4
Q ss_pred CCCCCcEEEEecCCCCCCCcCcceeEEeeeCCCCc
Q psy15012 1025 EPREGEVVLIREDKMPRASWPYGVIVKLNPSRDSR 1059 (1085)
Q Consensus 1025 ~~~vGdiVlv~~~~~pr~~W~lGrI~~v~pg~DG~ 1059 (1085)
..++||-|+|..++.|-..| +|||.++..+.+|.
T Consensus 3 ~~~vGD~V~v~~~~~~~~~~-i~~I~~i~~~~~g~ 36 (121)
T cd04717 3 QYRVGDCVYVANPEDPSKPI-IFRIERLWKDEDGE 36 (121)
T ss_pred EEECCCEEEEeCCCCCCCCE-EEEEeEEEECCCCC
Confidence 46899999999877654455 99999999998886
No 25
>smart00333 TUDOR Tudor domain. Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).
Probab=42.58 E-value=43 Score=27.90 Aligned_cols=52 Identities=27% Similarity=0.238 Sum_probs=36.6
Q ss_pred CCCCCcEEEEecCCCCCCCcCcceeEEeeeCCCCceEEEEEEeCC-CceEeecCcceeecC
Q psy15012 1025 EPREGEVVLIREDKMPRASWPYGVIVKLNPSRDSRVRTAIVRTAH-RTEIVRPISMLYPLE 1084 (1085)
Q Consensus 1025 ~~~vGdiVlv~~~~~pr~~W~lGrI~~v~pg~DG~vR~v~vkt~~-g~~~~Rpv~~L~pLe 1084 (1085)
++++|++|++.- .-+.|--|+|+++.+. +. +.|.--+ |+.-.=+...|.+|+
T Consensus 2 ~~~~G~~~~a~~---~d~~wyra~I~~~~~~--~~---~~V~f~D~G~~~~v~~~~l~~l~ 54 (57)
T smart00333 2 TFKVGDKVAARW---EDGEWYRARIIKVDGE--QL---YEVFFIDYGNEEVVPPSDLRPLP 54 (57)
T ss_pred CCCCCCEEEEEe---CCCCEEEEEEEEECCC--CE---EEEEEECCCccEEEeHHHeecCC
Confidence 689999999996 2678999999999864 33 4455555 544455556666554
No 26
>cd04712 BAH_DCM_I BAH, or Bromo Adjacent Homology domain, as present in DNA (Cytosine-5)-methyltransferases (DCM) 1. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=41.16 E-value=30 Score=34.76 Aligned_cols=38 Identities=18% Similarity=0.372 Sum_probs=29.1
Q ss_pred CCCCCCCcEEEEecCCCCCCC-------cC--cceeEEeeeCCCCce
Q psy15012 1023 NIEPREGEVVLIREDKMPRAS-------WP--YGVIVKLNPSRDSRV 1060 (1085)
Q Consensus 1023 ~~~~~vGdiVlv~~~~~pr~~-------W~--lGrI~~v~pg~DG~v 1060 (1085)
...++|||+|+|..+...... |+ +++|+....+.||..
T Consensus 3 ~~~i~vGD~V~v~~d~~~~~~~~~~~~~~~~~i~~V~~~~e~~~g~~ 49 (130)
T cd04712 3 GLTIRVGDVVSVERDDADSTTKWNDDHRWLPLVQFVEYMKKGSDGSK 49 (130)
T ss_pred CCEEeCCCEEEEcCCCCCccccccccccccceEEEEEEeeecCCCce
Confidence 346899999999987755433 43 888999999888863
No 27
>cd04709 BAH_MTA BAH, or Bromo Adjacent Homology domain, as present in MTA1 and similar proteins. The Metastasis-associated protein MTA1 is part of the NURD (nucleosome remodeling and deacetylating) complex and plays a role in cellular transformation and metastasis. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=40.16 E-value=45 Score=34.91 Aligned_cols=40 Identities=23% Similarity=0.218 Sum_probs=30.5
Q ss_pred CCCCCcEEEEecCCCCCCCcCcceeEEeeeCCCCceEEEEEEe
Q psy15012 1025 EPREGEVVLIREDKMPRASWPYGVIVKLNPSRDSRVRTAIVRT 1067 (1085)
Q Consensus 1025 ~~~vGdiVlv~~~~~pr~~W~lGrI~~v~pg~DG~vR~v~vkt 1067 (1085)
-.++||-|++..+. -.-.-+|||+++..+++|.+ .|.|+.
T Consensus 3 ~yrvGD~Vy~~~~~--~~Py~I~rI~e~~~~~~~~~-~vkV~w 42 (164)
T cd04709 3 MYRVGDYVYFESSP--NNPYLIRRIEELNKTARGHV-EAKVVC 42 (164)
T ss_pred EEecCCEEEEECCC--CCCCEEEEEEEEEeCCCCCE-EEEEEE
Confidence 36899999999652 22367999999999999976 346654
No 28
>cd04370 BAH BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in mammalian DNA methyltransferases and the MTA1 subunits of histone deacetylase complexes. A BAH domain is also found in Yeast Sir3p and in the origin receptor complex protein 1 (Orc1p), where it was found to interact with the N-terminal lobe of the silence information regulator 1 protein (Sir1p), confirming the initial hypothesis that BAH plays a role in protein-protein interactions.
Probab=38.46 E-value=46 Score=31.85 Aligned_cols=35 Identities=14% Similarity=0.199 Sum_probs=27.1
Q ss_pred CCCCCcEEEEecCCC--CCCCcCcceeEEeeeCCCCce
Q psy15012 1025 EPREGEVVLIREDKM--PRASWPYGVIVKLNPSRDSRV 1060 (1085)
Q Consensus 1025 ~~~vGdiVlv~~~~~--pr~~W~lGrI~~v~pg~DG~v 1060 (1085)
..++||.|+|..++. +-..| +|+|.++..+.+|..
T Consensus 3 ~y~vgd~V~v~~~~~~~~~~~~-i~~I~~i~~~~~~~~ 39 (123)
T cd04370 3 TYEVGDSVYVEPDDSIKSDPPY-IARIEELWEDTNGSK 39 (123)
T ss_pred EEecCCEEEEecCCcCCCCCCE-EEEEeeeeECCCCCE
Confidence 457899999998764 23333 999999999988753
No 29
>PF01426 BAH: BAH domain; InterPro: IPR001025 The BAH (bromo-adjacent homology) family contains proteins such as eukaryotic DNA (cytosine-5) methyltransferases IPR001525 from INTERPRO, the origin recognition complex 1 (Orc1) proteins, as well as several proteins involved in transcriptional regulation. The BAH domain appears to act as a protein-protein interaction module specialised in gene silencing, as suggested for example by its interaction within yeast Orc1p with the silent information regulator Sir1p. The BAH module might therefore play an important role by linking DNA methylation, replication and transcriptional regulation [].; GO: 0003677 DNA binding; PDB: 4DA4_A 3PT6_B 3AV6_A 3AV5_A 3AV4_A 3PT9_A 3SWR_A 3PTA_A 1M4Z_A 1ZBX_A ....
Probab=37.94 E-value=45 Score=31.99 Aligned_cols=33 Identities=18% Similarity=0.284 Sum_probs=29.2
Q ss_pred CCCCcEEEEecCCCCCCCcCcceeEEeeeCCCCc
Q psy15012 1026 PREGEVVLIREDKMPRASWPYGVIVKLNPSRDSR 1059 (1085)
Q Consensus 1026 ~~vGdiVlv~~~~~pr~~W~lGrI~~v~pg~DG~ 1059 (1085)
.++||.|+|..+. +....-+|+|.++.-+.++.
T Consensus 3 ~~vGD~V~v~~~~-~~~~~~v~~I~~i~~~~~~~ 35 (119)
T PF01426_consen 3 YKVGDFVYVKPDD-PPEPPYVARIEEIWEDKDGN 35 (119)
T ss_dssp EETTSEEEEECTS-TTSEEEEEEEEEEEEETTTS
T ss_pred EeCCCEEEEeCCC-CCCCCEEEEEEEEEcCCCCC
Confidence 5799999999888 66778899999999998887
No 30
>PF03564 DUF1759: Protein of unknown function (DUF1759); InterPro: IPR005312 This is a small family of proteins of unknown function.
Probab=30.89 E-value=5.6 Score=40.05 Aligned_cols=44 Identities=23% Similarity=0.181 Sum_probs=25.3
Q ss_pred ccccccccCCC--cccccccCCCccccccc--cccccCCcccccCCCC
Q psy15012 42 EGRALEHQAPS--RAGTRHRGLPYLFCTKY--RRPCLKGEGVHIPPPS 85 (1085)
Q Consensus 42 ~~~~~~~~~~~--~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~ 85 (1085)
+|++.++..|+ |.-.+|..-.+....|+ ++.||+||+...=-+.
T Consensus 2 ~G~~~~~~~F~~~F~~~v~~n~~~~d~~K~~~L~~~L~G~A~~~i~~~ 49 (145)
T PF03564_consen 2 DGDPSEWPEFIDQFDSLVHENPDLSDIEKLNYLRSCLKGEAKELIRGL 49 (145)
T ss_pred CCCHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHhcchHHHHHHcc
Confidence 46666666666 55566654444444444 6666666665544333
No 31
>TIGR00219 mreC rod shape-determining protein MreC. MreC (murein formation C) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped. Cells defective in MreC are round. Species with MreC include many of the Proteobacteria, Gram-positives, and spirochetes.
Probab=29.68 E-value=96 Score=35.34 Aligned_cols=49 Identities=12% Similarity=0.243 Sum_probs=40.1
Q ss_pred CCCCCCCCcEEEEec-CCCCCCCcCcceeEEeeeCCCCceEEEEEEeCCC
Q psy15012 1022 TNIEPREGEVVLIRE-DKMPRASWPYGVIVKLNPSRDSRVRTAIVRTAHR 1070 (1085)
Q Consensus 1022 ~~~~~~vGdiVlv~~-~~~pr~~W~lGrI~~v~pg~DG~vR~v~vkt~~g 1070 (1085)
....+++||.|+--. +..=|.--|.|+|+++.++.+|..+.|.|+-.-.
T Consensus 212 ~~~~v~~GD~VvTSGlgg~fP~Gl~VG~V~~v~~~~~~~~~~v~v~P~ad 261 (283)
T TIGR00219 212 AEKDIKKGDLIVTSGLGGRFPEGYPIGVVTSVHIDSYNSLLVIEVKPAAV 261 (283)
T ss_pred CCCCCCCCCEEEECCCCCcCCCCCEEEEEEEEEeCCCCceEEEEEEECCC
Confidence 346899999997664 4445556899999999999999999999998655
No 32
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=29.03 E-value=95 Score=26.37 Aligned_cols=55 Identities=20% Similarity=0.185 Sum_probs=36.6
Q ss_pred CCCCCcEEEEecCCCCCCCcCcceeEEeeeCCCCceEEEEEEe-CCCceEeecCcceeecC
Q psy15012 1025 EPREGEVVLIREDKMPRASWPYGVIVKLNPSRDSRVRTAIVRT-AHRTEIVRPISMLYPLE 1084 (1085)
Q Consensus 1025 ~~~vGdiVlv~~~~~pr~~W~lGrI~~v~pg~DG~vR~v~vkt-~~g~~~~Rpv~~L~pLe 1084 (1085)
..++||.|-+..+. .+.|--|+|+++.. ++. -.|.... ..|+..+=+..+|-|++
T Consensus 2 ~~~~G~~Ve~~~~~--~~~W~~a~V~~~~~--~~~-~~V~~~~~~~~~~e~v~~~~LRp~~ 57 (61)
T smart00743 2 DFKKGDRVEVFSKE--EDSWWEAVVTKVLG--DGK-YLVRYLTESEPLKETVDWSDLRPHP 57 (61)
T ss_pred CcCCCCEEEEEECC--CCEEEEEEEEEECC--CCE-EEEEECCCCcccEEEEeHHHcccCC
Confidence 46899999999755 78999999999987 444 3444444 12224555566665543
No 33
>PF07039 DUF1325: SGF29 tudor-like domain; InterPro: IPR010750 SAGA-associated factor 29 is involved in transcriptional regulation, probably through association with histone acetyltransferase (HAT) complexes like the TFTC-HAT or STAGA complexes. It also may be involved in MYC-mediated oncogenic transformation. It is a component of the ATAC complex, which is a complex with histone acetyltransferase activity on histones H3 and H4 []. This entry represents a domain found in yeast and human SAGA-associated factor 29 proteins that is related to the tudor domain. ; PDB: 3MP6_A 3MP1_A 3MP8_A 3MET_B 3ME9_A 3MEU_B 3MEA_A 3MEV_B 3LX7_A 3MEW_A.
Probab=27.87 E-value=66 Score=32.32 Aligned_cols=55 Identities=16% Similarity=0.234 Sum_probs=37.3
Q ss_pred CCCcEEEEecC-CCCCCCcCcceeEEeeeCCCCceEEEEEEeC----CCceEeecCcceeecCC
Q psy15012 1027 REGEVVLIRED-KMPRASWPYGVIVKLNPSRDSRVRTAIVRTA----HRTEIVRPISMLYPLEY 1085 (1085)
Q Consensus 1027 ~vGdiVlv~~~-~~pr~~W~lGrI~~v~pg~DG~vR~v~vkt~----~g~~~~Rpv~~L~pLei 1085 (1085)
|+||-|-.+-. .-.-..|-||+|++..... +.-+|+=. +.+.++=+-+++||||.
T Consensus 1 q~G~~VAak~~~~~~~~~WIla~Vv~~~~~~----~rYeV~D~d~~~~~~~~~~~~~~iIPLP~ 60 (130)
T PF07039_consen 1 QPGDQVAAKVKQGNEEEEWILAEVVKYNSDG----NRYEVEDPDPEEEKKRYKLSRKQIIPLPK 60 (130)
T ss_dssp -TT-EEEEEECTTTTTCEEEEEEEEEEETTT----TEEEEEETTTCTTTEEEEEEGGGEEEE-S
T ss_pred CCCCEEEEEcCCCCCCCCEEEEEEEEEeCCC----CEEEEecCCCCCCCceEEeCHHHEEECCC
Confidence 57999988754 4456899999999987644 34444432 22488889999999983
No 34
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=27.38 E-value=1.1e+02 Score=34.39 Aligned_cols=47 Identities=17% Similarity=0.270 Sum_probs=38.5
Q ss_pred CCCCCCcEEEEec-CCCCCCCcCcceeEEeeeCCCCceEEEEEEeCCC
Q psy15012 1024 IEPREGEVVLIRE-DKMPRASWPYGVIVKLNPSRDSRVRTAIVRTAHR 1070 (1085)
Q Consensus 1024 ~~~~vGdiVlv~~-~~~pr~~W~lGrI~~v~pg~DG~vR~v~vkt~~g 1070 (1085)
..+++||.|+--. +..=+.-=|+|+|+++.++.++.-+.|.|+....
T Consensus 213 ~~i~~GD~VvTSGl~g~fP~Gi~VG~V~~v~~~~~~~~~~~~v~p~~d 260 (276)
T PRK13922 213 ADIKVGDLVVTSGLGGIFPAGLPVGKVTSVERDDYGLFKTVYVKPAAD 260 (276)
T ss_pred CCCCCCCEEEECCCCCcCCCCCEEEEEEEEEeCCCCCeeEEEEEECcc
Confidence 4699999997664 3444556799999999999999999999998654
No 35
>PF10377 ATG11: Autophagy-related protein 11; InterPro: IPR019460 This family consists of proteins involved in telomere maintenance. In Schizosaccharomyces pombe (fission yeast) this protein is called Taf1 (taz1 interacting factor) and is part of the telomere cap complex. In Saccharomyces cerevisiae (baker's yeast) this protein is called ATG11 and is known to be involved in vacuolar targeting and peroxisome degradation [, ].
Probab=26.92 E-value=1.2e+02 Score=30.34 Aligned_cols=67 Identities=22% Similarity=0.286 Sum_probs=37.6
Q ss_pred hHHHHHhhhcchhhhHHHHhhHHHHhhhhhhhhhhhcCCCCCCCCCCCCcEEEEecC-----------------------
Q psy15012 981 NVIQLWKKGTSYLDVFWRHWSRSYLDSLKDRRQVMFKQGKTTNIEPREGEVVLIRED----------------------- 1037 (1085)
Q Consensus 981 ~~~~rw~~~~~~~~~fW~rW~~eYL~~Lq~r~kw~~~~~~~~~~~~~vGdiVlv~~~----------------------- 1037 (1085)
.+.+|.+.++.++...=+... .|-..++ +..+ .+=+-.+.++||+||+-=+
T Consensus 4 ~v~~r~~d~e~lakkl~Ke~k-~~~~~~~---~~~~--~kIs~~~f~~GDlvLflpt~~~~~~~~~~~af~~~~~~YFL~ 77 (129)
T PF10377_consen 4 AVIKRFKDVEELAKKLQKENK-SKRSELK---KLQK--EKISFRNFQVGDLVLFLPTRNHNNKKQPWAAFNVGCPHYFLH 77 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-hhhhhhh---hhhc--CcEEEecCCCCCEEEEEecCCCCccccceEEeeCCCceEEEe
Confidence 356666666666554433321 2211111 1111 1335689999999987521
Q ss_pred -------CCCCCCcCcceeEEee
Q psy15012 1038 -------KMPRASWPYGVIVKLN 1053 (1085)
Q Consensus 1038 -------~~pr~~W~lGrI~~v~ 1053 (1085)
..++..|-+|||+.+.
T Consensus 78 ~~s~~~~~~~~~~w~vgrI~~~e 100 (129)
T PF10377_consen 78 EDSIAANELKRREWIVGRIVSIE 100 (129)
T ss_pred cccchhccCCCCCEEEEEEEEEE
Confidence 2236789999988775
No 36
>cd04720 BAH_Orc1p_Yeast BAH, or Bromo Adjacent Homology domain, as present in Orc1p, which again is part of the Saccharomyces cerevisiae Sir1-origin recognition complex, and as present in Sir3p. The Orc1p BAH doman functions in epigenetic silencing. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=23.53 E-value=1.1e+02 Score=32.60 Aligned_cols=41 Identities=17% Similarity=0.250 Sum_probs=30.8
Q ss_pred CCCCCCCCcEEEEecCCCCCCCcCcceeEEeeeCCC-CceEEEEE
Q psy15012 1022 TNIEPREGEVVLIREDKMPRASWPYGVIVKLNPSRD-SRVRTAIV 1065 (1085)
Q Consensus 1022 ~~~~~~vGdiVlv~~~~~pr~~W~lGrI~~v~pg~D-G~vR~v~v 1065 (1085)
-...+++||.|||+++.. -..| .|+|.++.-+.+ +.| .+.|
T Consensus 49 d~~~~~vGD~Vlik~~~~-~~~~-V~iI~ei~~~~~~~~v-~i~v 90 (179)
T cd04720 49 DGLELSVGDTILVKDDVA-NSPS-VYLIHEIRLNTLNNEV-ELWV 90 (179)
T ss_pred CCeEEeCCCEEEEeCCCC-CCCE-EEEEEEEEeCCCCCEE-EEEE
Confidence 345699999999999864 3344 999999998876 545 4555
No 37
>cd04719 BAH_Orc1p_animal BAH, or Bromo Adjacent Homology domain, as present in animal homologs of Saccharomyces cerevisiae Orc1p. Orc1 is part of the Yeast Sir1-origin recognition complex. The Orc1p BAH doman functions in epigenetic silencing. In vertebrates, a similar ORC protein complex exists, which has been shown essential for DNA replication in Xenopus laevis. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=22.37 E-value=79 Score=31.77 Aligned_cols=38 Identities=24% Similarity=0.275 Sum_probs=29.3
Q ss_pred CCCCCcEEEEecCC-CCCCCcCcceeEEeeeCCCC--ceEEEEE
Q psy15012 1025 EPREGEVVLIREDK-MPRASWPYGVIVKLNPSRDS--RVRTAIV 1065 (1085)
Q Consensus 1025 ~~~vGdiVlv~~~~-~pr~~W~lGrI~~v~pg~DG--~vR~v~v 1065 (1085)
.++|||-|||..++ .++ =+|+|+++.-..+| .+..|.|
T Consensus 3 ~i~vGd~VlI~~~d~~~~---yVAkI~~i~e~~~~~~~~~~~~V 43 (128)
T cd04719 3 TIEVGDFVLIEGEDADGP---DVARILHLYEDGNEDDDPKRAIV 43 (128)
T ss_pred EEecCCEEEEECCCCCCC---cEeeehhhhccccCCcccceEEE
Confidence 47899999999766 333 69999999988777 4555555
No 38
>PF04085 MreC: rod shape-determining protein MreC; InterPro: IPR007221 MreC (murein formation C) is involved in the rod shape determination in Escherichia coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped.; GO: 0008360 regulation of cell shape; PDB: 2J5U_B 2QF4_B 2QF5_A.
Probab=22.28 E-value=1.4e+02 Score=30.60 Aligned_cols=49 Identities=14% Similarity=0.363 Sum_probs=34.4
Q ss_pred CCCCCCCCcEEEEec-CCCCCCCcCcceeEEeeeCCCCceEEEEEEeCCC
Q psy15012 1022 TNIEPREGEVVLIRE-DKMPRASWPYGVIVKLNPSRDSRVRTAIVRTAHR 1070 (1085)
Q Consensus 1022 ~~~~~~vGdiVlv~~-~~~pr~~W~lGrI~~v~pg~DG~vR~v~vkt~~g 1070 (1085)
....+++||.|+--. +..-+.-=++|+|+++.+++++.-+.|.|+-...
T Consensus 90 ~~~~i~~GD~V~TSG~~~~fP~Gi~VG~V~~v~~~~~~~~~~~~v~p~~d 139 (152)
T PF04085_consen 90 KDADIKKGDIVVTSGLGGIFPPGIPVGTVSSVEPDKSGLFKEVYVKPAVD 139 (152)
T ss_dssp TTS---TT-EEEEE-TTSSS-CCEEEEEEEEEECTTTCCCEEEEEEESS-
T ss_pred CCCCCCCCCEEEECCCCCcCCCCCEEEEEEEEEeCCCCcEEEEEEEECCC
Confidence 345789999998654 4434555799999999999999999999987655
No 39
>PF12073 DUF3553: Protein of unknown function (DUF3553); InterPro: IPR021938 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 60 amino acids in length. This protein has two conserved sequence motifs: GQVQS and TVNF.
Probab=21.49 E-value=2.5e+02 Score=23.85 Aligned_cols=49 Identities=20% Similarity=0.169 Sum_probs=34.4
Q ss_pred CCCCcEEEEecCCCCCCCcCcceeEEeeeCCCCceEEEEEEeCCCceEeecCcceee
Q psy15012 1026 PREGEVVLIREDKMPRASWPYGVIVKLNPSRDSRVRTAIVRTAHRTEIVRPISMLYP 1082 (1085)
Q Consensus 1026 ~~vGdiVlv~~~~~pr~~W~lGrI~~v~pg~DG~vR~v~vkt~~g~~~~Rpv~~L~p 1082 (1085)
+.+||.|. +-.+-.|=+|.|.+.. +|+| .|....++++.|......|.+
T Consensus 1 l~pG~~Vr----HP~~pdWG~GqVqS~i---~~rv-TVnF~~aGK~vI~~~~v~L~~ 49 (52)
T PF12073_consen 1 LEPGMLVR----HPDHPDWGIGQVQSNI---GGRV-TVNFEHAGKKVIDGSRVALEK 49 (52)
T ss_pred CCCCCEEe----CCCCCCCcceEEEEec---CCeE-EEeeccCCeEEEeccEEEEEE
Confidence 35788885 2235689999999855 7777 777777777666665555544
Done!