Query psy2243
Match_columns 405
No_of_seqs 314 out of 1525
Neff 7.3
Searched_HMMs 46136
Date Fri Aug 16 19:49:31 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2243.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2243hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2415|consensus 100.0 1E-47 2.2E-52 374.9 8.0 172 176-380 405-577 (621)
2 PF05187 ETF_QO: Electron tran 100.0 9E-49 2E-53 322.8 0.5 98 281-378 13-110 (110)
3 COG0328 RnhA Ribonuclease HI [ 99.8 8.5E-21 1.8E-25 166.4 11.4 126 146-272 3-146 (154)
4 PRK00203 rnhA ribonuclease H; 99.8 3E-20 6.5E-25 164.4 13.4 130 146-278 3-149 (150)
5 PF00075 RNase_H: RNase H; In 99.8 1.6E-20 3.5E-25 161.2 11.1 118 145-269 2-131 (132)
6 PRK08719 ribonuclease H; Revie 99.8 9.6E-20 2.1E-24 160.4 13.4 122 145-270 3-146 (147)
7 PRK06548 ribonuclease H; Provi 99.8 1.5E-19 3.3E-24 160.8 14.0 124 145-271 4-142 (161)
8 cd06222 RnaseH RNase H (RNase 99.7 4E-16 8.7E-21 130.2 14.1 122 148-269 1-130 (130)
9 KOG3752|consensus 99.7 8.3E-16 1.8E-20 150.2 12.4 126 145-270 211-364 (371)
10 PRK13907 rnhA ribonuclease H; 99.6 3.7E-15 8.1E-20 128.0 13.5 120 147-271 2-127 (128)
11 PRK07708 hypothetical protein; 99.5 1.8E-13 3.9E-18 128.1 14.8 125 143-271 70-208 (219)
12 PRK07238 bifunctional RNase H/ 99.4 1.7E-11 3.7E-16 123.9 17.4 121 146-271 2-132 (372)
13 PF13456 RVT_3: Reverse transc 99.0 2.3E-09 4.9E-14 84.8 9.2 84 183-270 1-86 (87)
14 COG2440 FixX Ferredoxin-like p 95.5 0.0056 1.2E-07 49.5 1.0 51 324-379 9-59 (99)
15 PF09257 BCMA-Tall_bind: BCMA, 89.3 0.038 8.3E-07 36.0 -2.1 24 339-371 15-38 (39)
16 PRK15449 ferredoxin-like prote 81.2 0.6 1.3E-05 38.0 0.5 38 332-375 14-51 (95)
17 PF00336 DNA_pol_viral_C: DNA 69.8 9.3 0.0002 35.4 5.1 91 144-251 92-182 (245)
18 PF05380 Peptidase_A17: Pao re 68.6 16 0.00035 32.3 6.5 52 146-199 81-142 (159)
19 COG0295 Cdd Cytidine deaminase 27.1 1.2E+02 0.0027 26.2 4.7 54 158-212 26-81 (134)
20 COG1143 NuoI Formate hydrogenl 21.3 51 0.0011 29.8 1.4 19 361-379 61-79 (172)
21 PRK06848 hypothetical protein; 21.1 2E+02 0.0044 24.9 5.0 59 150-212 22-82 (139)
22 PRK08298 cytidine deaminase; V 20.5 2E+02 0.0043 25.0 4.8 58 150-212 19-78 (136)
No 1
>KOG2415|consensus
Probab=100.00 E-value=1e-47 Score=374.91 Aligned_cols=172 Identities=41% Similarity=0.599 Sum_probs=152.2
Q ss_pred cCCCCccchHHHHHHHHHHHHHHHhcCCCcEEE-EeCcHHHHHHHhccCCCChhHHHHHHHHHcCCCCceEEEEecCCCC
Q psy2243 176 TLNPKSSIFHAELLAISDAVSTIKSQSIGEAVI-ISDSLSALQAISSMSHSNPLVQSIHEEISTIPNSTIKFFWCPSHVG 254 (405)
Q Consensus 176 ~l~~~ssv~~AEl~AI~~AL~~~~~~~~~~i~I-~sDs~~al~~l~~~~~~~~~~~~I~~~l~~lr~~~v~f~WVpgH~G 254 (405)
+-.|+++|.+|| +|+.||....+ .+-+.+ .++|.+.++ .+|+|++|+.+||++++|.- -.|
T Consensus 405 HtAMKSGmlAAe--sif~ai~~~~~--~k~~~~~~~~Ye~nlk-----------ds~V~KeLysvRNirPsf~~---~lG 466 (621)
T KOG2415|consen 405 HTAMKSGMLAAE--SIFEAIKGLPQ--SKMAGLDPTTYEENLK-----------DSYVWKELYSVRNIRPSFHG---KLG 466 (621)
T ss_pred hhhhhcchhHHH--HHHHHHhcCcc--ccccccChhhHHHhhh-----------hhHHHHHHHHhhccCccccc---ccc
Confidence 345899999999 99999965431 111122 667887777 58999999999999999952 278
Q ss_pred CcccHHHHHHHHHHhcCCCCCCCCccccccccCCCCCCCCCCCCCccccCCccCCCCCCCCCCCCCccccccceeccCCC
Q psy2243 255 IAGNDAADLEAKSALENPISHDHGIGLTQLSGLFAHTPKPQKGDNTFLKPASECKPIEYPKPDGQVSFDLLSSVALTGTN 334 (405)
Q Consensus 255 i~gNe~AD~lAk~a~~~~~~~~~~~~~~~l~g~~pwTl~~~~~D~~~~~~a~~~~~i~ypkpdg~ltfd~~~s~~~s~t~ 334 (405)
..|++. ++|+.. ++++|++||||+|.+.|++.|+||++++||.||||||+||||+||||+|||||
T Consensus 467 ~ygGmi-----ySgi~~----------~~lkG~~PwTLkh~~~D~e~l~pa~k~~pI~YPKPDg~lSFDlltSvs~sgTn 531 (621)
T KOG2415|consen 467 LYGGMI-----YSGIFS----------YVLKGKVPWTLKHGKNDHEALKPASKYKPIVYPKPDGVLSFDLLTSVSRSGTN 531 (621)
T ss_pred cccchh-----hhhhHH----------HhhcCccceeeccCCCchhhccchhhCCCcccCCCCceEEEeecchhhccCCC
Confidence 888875 888854 89999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCcceeccCCCCcccccccCcCCcccccccCceeEeecCCCc
Q psy2243 335 HEGDQPAHLTLKDDSVPVNTNLAVYDGPEGRFCPAGKLENHNTQNY 380 (405)
Q Consensus 335 h~~~qp~hl~~~~~~~~~~~~~~~~~~~~~~~cpa~vye~~~~~~~ 380 (405)
|+|||||||+++|++++.++|++.|+|||+|||||||||||.||.+
T Consensus 532 H~~dqP~HL~l~~~~ip~~~nf~~y~gpE~rfCPAgVYEyV~dE~~ 577 (621)
T KOG2415|consen 532 HDEDQPAHLTLRDDDIPVKVNFPVYKGPESRFCPAGVYEYVPDEAG 577 (621)
T ss_pred CCCCCCceeeecCCCcchhcCcccccChhhccCCccceeecccccC
Confidence 9999999999999999999999999999999999999999998863
No 2
>PF05187 ETF_QO: Electron transfer flavoprotein-ubiquinone oxidoreductase; InterPro: IPR007859 Electron-transfer flavoprotein-ubiquinone oxidoreductase (ETF-QO) in the inner mitochondrial membrane accepts electrons from electron-transfer flavoprotein which is located in the mitochondrial matrix and reduces ubiquinone in the mitochondrial membrane. The two redox centres in the protein, FAD and a [4Fe4S] cluster, are present in a 64 kDa monomer [].; GO: 0004174 electron-transferring-flavoprotein dehydrogenase activity, 0055114 oxidation-reduction process; PDB: 2GMJ_B 2GMH_B.
Probab=100.00 E-value=9e-49 Score=322.84 Aligned_cols=98 Identities=55% Similarity=0.917 Sum_probs=62.8
Q ss_pred ccccccCCCCCCCCCCCCCccccCCccCCCCCCCCCCCCCccccccceeccCCCCCCCCCcceeccCCCCcccccccCcC
Q psy2243 281 LTQLSGLFAHTPKPQKGDNTFLKPASECKPIEYPKPDGQVSFDLLSSVALTGTNHEGDQPAHLTLKDDSVPVNTNLAVYD 360 (405)
Q Consensus 281 ~~~l~g~~pwTl~~~~~D~~~~~~a~~~~~i~ypkpdg~ltfd~~~s~~~s~t~h~~~qp~hl~~~~~~~~~~~~~~~~~ 360 (405)
+.+++|+.|||++|.+.|+++++|+++++||+||||||+||||||||||+|||+|||||||||+|+|+++|+++|+++|+
T Consensus 13 ~~~~~g~~p~tl~~~~~D~~~l~~a~~~~~i~YpKpDg~ltFDklssv~~SgT~HeEdQP~HL~l~d~~i~~~~~~~~y~ 92 (110)
T PF05187_consen 13 QNLLKGRAPWTLKHKKPDHESLKPASKCKPIDYPKPDGKLTFDKLSSVYLSGTNHEEDQPCHLKLKDPEIPIEVNLPEYG 92 (110)
T ss_dssp TTTTTT--S------S-GGGG---GGGS---------SSSS--HHHHHHTTT-B--SSS--SEEESSTTHHHHTHHHHHS
T ss_pred HHHccCCCCcccCCCCccHHHHhHHHhcccCCCCCCCCCCccccccceeccccCCCCCCCCeeEECCCChhhhhhhhhhc
Confidence 38899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcccccccCceeEeecCC
Q psy2243 361 GPEGRFCPAGKLENHNTQ 378 (405)
Q Consensus 361 ~~~~~~cpa~vye~~~~~ 378 (405)
+||||||||||||||+||
T Consensus 93 ~P~qryCPAgVYE~v~~e 110 (110)
T PF05187_consen 93 GPEQRYCPAGVYEIVEDE 110 (110)
T ss_dssp -THHHH-TTS-EEEE---
T ss_pred ChhhhcCcceeEEEeccC
Confidence 999999999999999875
No 3
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=99.84 E-value=8.5e-21 Score=166.38 Aligned_cols=126 Identities=21% Similarity=0.268 Sum_probs=101.9
Q ss_pred cEEEEecCCCC--CCCceEEEEeecCcee--EeecCCCCccchHHHHHHHHHHHHHHHhcCCCcEEEEeCcHHHHHHHhc
Q psy2243 146 FVQVYTDGSKS--DSSVGCAFVIPQLHIV--KKQTLNPKSSIFHAELLAISDAVSTIKSQSIGEAVIISDSLSALQAISS 221 (405)
Q Consensus 146 ~~~iyTDGS~~--~~~~G~g~v~~~~~~~--~~~~l~~~ssv~~AEl~AI~~AL~~~~~~~~~~i~I~sDs~~al~~l~~ 221 (405)
.+.||||||+. +|..|+|+|+..+... .+...+ .+|++.||++|++.||+.+.+.+...+.|+|||+.++++|+.
T Consensus 3 ~v~if~DGa~~gNpG~gG~g~vl~~~~~~~~~s~~~~-~tTNNraEl~A~i~AL~~l~~~~~~~v~l~tDS~yv~~~i~~ 81 (154)
T COG0328 3 KVEIFTDGACLGNPGPGGWGAVLRYGDGEKELSGGEG-RTTNNRAELRALIEALEALKELGACEVTLYTDSKYVVEGITR 81 (154)
T ss_pred ceEEEecCccCCCCCCceEEEEEEcCCceEEEeeeee-cccChHHHHHHHHHHHHHHHhcCCceEEEEecHHHHHHHHHH
Confidence 58899999998 5788999998854333 333444 799999999999999999998778899999999999999994
Q ss_pred cCCC-----------Ch-hHHHHHHHHHcCC-CC-ceEEEEecCCCCCcccHHHHHHHHHHhcCC
Q psy2243 222 MSHS-----------NP-LVQSIHEEISTIP-NS-TIKFFWCPSHVGIAGNDAADLEAKSALENP 272 (405)
Q Consensus 222 ~~~~-----------~~-~~~~I~~~l~~lr-~~-~v~f~WVpgH~Gi~gNe~AD~lAk~a~~~~ 272 (405)
+... .+ ..+.+|+++.++. .. .|.+.|||||.|.++|+.||+||+.|++..
T Consensus 82 w~~~w~~~~w~~~~~~pvkn~dl~~~~~~~~~~~~~v~~~WVkgH~g~~~NeraD~LA~~~~~~~ 146 (154)
T COG0328 82 WIVKWKKNGWKTADKKPVKNKDLWEELDELLKRHELVFWEWVKGHAGHPENERADQLAREAARAA 146 (154)
T ss_pred HHhhccccCccccccCccccHHHHHHHHHHHhhCCeEEEEEeeCCCCChHHHHHHHHHHHHHHhh
Confidence 4111 11 2356677777764 24 899999999999999999999999999753
No 4
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=99.84 E-value=3e-20 Score=164.35 Aligned_cols=130 Identities=22% Similarity=0.308 Sum_probs=98.4
Q ss_pred cEEEEecCCCC--CCCceEEEEeecCceeE--eecCCCCccchHHHHHHHHHHHHHHHhcCCCcEEEEeCcHHHHHHHhc
Q psy2243 146 FVQVYTDGSKS--DSSVGCAFVIPQLHIVK--KQTLNPKSSIFHAELLAISDAVSTIKSQSIGEAVIISDSLSALQAISS 221 (405)
Q Consensus 146 ~~~iyTDGS~~--~~~~G~g~v~~~~~~~~--~~~l~~~ssv~~AEl~AI~~AL~~~~~~~~~~i~I~sDs~~al~~l~~ 221 (405)
.+.||||||+. ++..|+|+|+...+... .... ...+++.||++|++.||+.+.+ ...+.|+|||++++++|+.
T Consensus 3 ~v~iytDGs~~~n~~~~g~g~v~~~~~~~~~~~~~~-~~~TN~~aEL~Ai~~AL~~~~~--~~~v~I~tDS~yvi~~i~~ 79 (150)
T PRK00203 3 QVEIYTDGACLGNPGPGGWGAILRYKGHEKELSGGE-ALTTNNRMELMAAIEALEALKE--PCEVTLYTDSQYVRQGITE 79 (150)
T ss_pred eEEEEEEecccCCCCceEEEEEEEECCeeEEEecCC-CCCcHHHHHHHHHHHHHHHcCC--CCeEEEEECHHHHHHHHHH
Confidence 48899999998 45789998886544332 2222 3678999999999999998754 4579999999999999986
Q ss_pred c--------CC---CChh-HHHHHHHHHcC-CCCceEEEEecCCCCCcccHHHHHHHHHHhcCCCCCCCC
Q psy2243 222 M--------SH---SNPL-VQSIHEEISTI-PNSTIKFFWCPSHVGIAGNDAADLEAKSALENPISHDHG 278 (405)
Q Consensus 222 ~--------~~---~~~~-~~~I~~~l~~l-r~~~v~f~WVpgH~Gi~gNe~AD~lAk~a~~~~~~~~~~ 278 (405)
+ +. +.++ .+.+++++.++ ....|.|.|||||+|++||+.||+||++|+..+...|.|
T Consensus 80 w~~~Wk~~~~~~~~g~~v~n~dl~~~i~~l~~~~~v~~~wV~~H~~~~~N~~AD~lA~~a~~~~~~~~~~ 149 (150)
T PRK00203 80 WIHGWKKNGWKTADKKPVKNVDLWQRLDAALKRHQIKWHWVKGHAGHPENERCDELARAGAEEATLEDTG 149 (150)
T ss_pred HHHHHHHcCCcccCCCccccHHHHHHHHHHhccCceEEEEecCCCCCHHHHHHHHHHHHHHHHhhhcccC
Confidence 2 11 2233 24456666554 346799999999999999999999999999876555543
No 5
>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=99.84 E-value=1.6e-20 Score=161.22 Aligned_cols=118 Identities=31% Similarity=0.391 Sum_probs=92.9
Q ss_pred CcEEEEecCCCC--CCCceEEEEeecCceeEeecCCCCccchHHHHHHHHHHHHHHHhcCCCcEEEEeCcHHHHHHHhc-
Q psy2243 145 DFVQVYTDGSKS--DSSVGCAFVIPQLHIVKKQTLNPKSSIFHAELLAISDAVSTIKSQSIGEAVIISDSLSALQAISS- 221 (405)
Q Consensus 145 ~~~~iyTDGS~~--~~~~G~g~v~~~~~~~~~~~l~~~ssv~~AEl~AI~~AL~~~~~~~~~~i~I~sDs~~al~~l~~- 221 (405)
..+.||||||+. ++..|+|+++..+ ...+..++ ..+++.||+.||..||+.+ . ...++|+|||+++++.|..
T Consensus 2 ~~~~iytDgS~~~~~~~~~~g~v~~~~-~~~~~~~~-~~s~~~aEl~Ai~~AL~~~-~--~~~v~I~tDS~~v~~~l~~~ 76 (132)
T PF00075_consen 2 KAIIIYTDGSCRPNPGKGGAGYVVWGG-RNFSFRLG-GQSNNRAELQAIIEALKAL-E--HRKVTIYTDSQYVLNALNKW 76 (132)
T ss_dssp TSEEEEEEEEECTTTTEEEEEEEEETT-EEEEEEEE-SECHHHHHHHHHHHHHHTH-S--TSEEEEEES-HHHHHHHHTH
T ss_pred CcEEEEEeCCccCCCCceEEEEEEECC-eEEEeccc-ccchhhhheehHHHHHHHh-h--cccccccccHHHHHHHHHHh
Confidence 468999999987 4556888876544 44455566 8899999999999999944 3 3889999999999998877
Q ss_pred ----cCCC----ChhHHHHHHHHHcCCCCceEEEEecCCCCC-cccHHHHHHHHHHh
Q psy2243 222 ----MSHS----NPLVQSIHEEISTIPNSTIKFFWCPSHVGI-AGNDAADLEAKSAL 269 (405)
Q Consensus 222 ----~~~~----~~~~~~I~~~l~~lr~~~v~f~WVpgH~Gi-~gNe~AD~lAk~a~ 269 (405)
.+.. .++...|++.+. ++..|.|+|||||+|+ .||+.||+|||.|+
T Consensus 77 ~~~~~~~~~~~~~~i~~~i~~~~~--~~~~v~~~~V~~H~~~~~~N~~aD~lAk~a~ 131 (132)
T PF00075_consen 77 LHGNGWKKTSNGRPIKNEIWELLS--RGIKVRFRWVPGHSGVPQGNERADRLAKEAA 131 (132)
T ss_dssp HHHTTSBSCTSSSBHTHHHHHHHH--HSSEEEEEESSSSSSSHHHHHHHHHHHHHHH
T ss_pred ccccccccccccccchhheeeccc--cceEEeeeeccCcCCCchhHHHHHHHHHHhc
Confidence 3321 246667777663 3688999999999999 69999999999997
No 6
>PRK08719 ribonuclease H; Reviewed
Probab=99.82 E-value=9.6e-20 Score=160.40 Aligned_cols=122 Identities=25% Similarity=0.366 Sum_probs=92.5
Q ss_pred CcEEEEecCCCCCC-----CceEEEEeecC--cee--EeecCCCCccchHHHHHHHHHHHHHHHhcCCCcEEEEeCcHHH
Q psy2243 145 DFVQVYTDGSKSDS-----SVGCAFVIPQL--HIV--KKQTLNPKSSIFHAELLAISDAVSTIKSQSIGEAVIISDSLSA 215 (405)
Q Consensus 145 ~~~~iyTDGS~~~~-----~~G~g~v~~~~--~~~--~~~~l~~~ssv~~AEl~AI~~AL~~~~~~~~~~i~I~sDs~~a 215 (405)
..++||||||+..+ ..|+|+++... ... .+..+....|++.||+.|+..||+.+.+. ..|+|||+.+
T Consensus 3 ~~~~iYtDGs~~~n~~~~~~~G~G~vv~~~~~~~~~~~~~~~~~~~Tnn~aEl~A~~~aL~~~~~~----~~i~tDS~yv 78 (147)
T PRK08719 3 ASYSIYIDGAAPNNQHGCVRGGIGLVVYDEAGEIVDEQSITVNRYTDNAELELLALIEALEYARDG----DVIYSDSDYC 78 (147)
T ss_pred ceEEEEEecccCCCCCCCCCcEEEEEEEeCCCCeeEEEEecCCCCccHHHHHHHHHHHHHHHcCCC----CEEEechHHH
Confidence 46899999999732 46999987653 222 34445556899999999999999988542 4899999999
Q ss_pred HHHHh--------ccCC---CChh-HHHHHHHHHcCC-CCceEEEEecCCCCCcccHHHHHHHHHHhc
Q psy2243 216 LQAIS--------SMSH---SNPL-VQSIHEEISTIP-NSTIKFFWCPSHVGIAGNDAADLEAKSALE 270 (405)
Q Consensus 216 l~~l~--------~~~~---~~~~-~~~I~~~l~~lr-~~~v~f~WVpgH~Gi~gNe~AD~lAk~a~~ 270 (405)
+++++ +.+. +.++ ...++++|.++. ...|.|.|||||+|++||+.||+||+.|++
T Consensus 79 i~~i~~~~~~W~~~~w~~s~g~~v~n~dl~~~i~~l~~~~~i~~~~VkgH~g~~~Ne~aD~lA~~a~~ 146 (147)
T PRK08719 79 VRGFNEWLDTWKQKGWRKSDKKPVANRDLWQQVDELRARKYVEVEKVTAHSGIEGNEAADMLAQAAAE 146 (147)
T ss_pred HHHHHHHHHHHHhCCcccCCCcccccHHHHHHHHHHhCCCcEEEEEecCCCCChhHHHHHHHHHHHhh
Confidence 99984 3332 1222 356677666553 356999999999999999999999999874
No 7
>PRK06548 ribonuclease H; Provisional
Probab=99.82 E-value=1.5e-19 Score=160.84 Aligned_cols=124 Identities=25% Similarity=0.322 Sum_probs=95.4
Q ss_pred CcEEEEecCCCC--CCCceEEEEeecCceeEeecCCCCccchHHHHHHHHHHHHHHHhcCCCcEEEEeCcHHHHHHHhc-
Q psy2243 145 DFVQVYTDGSKS--DSSVGCAFVIPQLHIVKKQTLNPKSSIFHAELLAISDAVSTIKSQSIGEAVIISDSLSALQAISS- 221 (405)
Q Consensus 145 ~~~~iyTDGS~~--~~~~G~g~v~~~~~~~~~~~l~~~ssv~~AEl~AI~~AL~~~~~~~~~~i~I~sDs~~al~~l~~- 221 (405)
..+.||||||+. ++..|+|+++...+.. +... ...|++.||++|++.||+.+.. ....+.|+|||++++++++.
T Consensus 4 ~~~~IytDGa~~gnpg~~G~g~~~~~~~~~-~g~~-~~~TNnraEl~Aii~aL~~~~~-~~~~v~I~TDS~yvi~~i~~W 80 (161)
T PRK06548 4 NEIIAATDGSSLANPGPSGWAWYVDENTWD-SGGW-DIATNNIAELTAVRELLIATRH-TDRPILILSDSKYVINSLTKW 80 (161)
T ss_pred CEEEEEEeeccCCCCCceEEEEEEeCCcEE-ccCC-CCCCHHHHHHHHHHHHHHhhhc-CCceEEEEeChHHHHHHHHHH
Confidence 358999999998 4678999888653321 1111 3579999999999999986643 34569999999999999994
Q ss_pred --------cCC--CChh-HHHHHHHHHcCC-CCceEEEEecCCCCCcccHHHHHHHHHHhcC
Q psy2243 222 --------MSH--SNPL-VQSIHEEISTIP-NSTIKFFWCPSHVGIAGNDAADLEAKSALEN 271 (405)
Q Consensus 222 --------~~~--~~~~-~~~I~~~l~~lr-~~~v~f~WVpgH~Gi~gNe~AD~lAk~a~~~ 271 (405)
+.. +.++ .+.++++|.++. ...|.|.|||||+|.+||+.||+||++|+..
T Consensus 81 ~~~Wk~~gWk~s~G~pV~N~dL~~~l~~l~~~~~v~~~wVkgHsg~~gNe~aD~LA~~aa~~ 142 (161)
T PRK06548 81 VYSWKMRKWRKADGKPVLNQEIIQEIDSLMENRNIRMSWVNAHTGHPLNEAADSLARQAANN 142 (161)
T ss_pred HHHHHHCCCcccCCCccccHHHHHHHHHHHhcCceEEEEEecCCCCHHHHHHHHHHHHHHHH
Confidence 211 3443 477777776653 3579999999999999999999999999965
No 8
>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=99.70 E-value=4e-16 Score=130.15 Aligned_cols=122 Identities=25% Similarity=0.324 Sum_probs=93.6
Q ss_pred EEEecCCCCC--CCceEEEEeecCceeE---eecCCCCccchHHHHHHHHHHHHHHHhcCCCcEEEEeCcHHHHHHHhcc
Q psy2243 148 QVYTDGSKSD--SSVGCAFVIPQLHIVK---KQTLNPKSSIFHAELLAISDAVSTIKSQSIGEAVIISDSLSALQAISSM 222 (405)
Q Consensus 148 ~iyTDGS~~~--~~~G~g~v~~~~~~~~---~~~l~~~ssv~~AEl~AI~~AL~~~~~~~~~~i~I~sDs~~al~~l~~~ 222 (405)
++|||||... +.+|+|+++.+.+... ........+++.||+.|++.||+.+.......+.|++||+.+++.+.+.
T Consensus 1 ~~~~Dgs~~~~~~~~g~g~v~~~~~~~~~~~~~~~~~~~s~~~aEl~al~~al~~~~~~~~~~i~i~~Ds~~~~~~~~~~ 80 (130)
T cd06222 1 VIYTDGSCRGNPGPAGAGVVLRDPGGEVLLSGGLLGGNTTNNRAELLALIEALELALELGGKKVNIYTDSQYVINALTGW 80 (130)
T ss_pred CEEecccCCCCCCceEEEEEEEeCCCeEEEeccccCCCCcHHHHHHHHHHHHHHHHHhCCCceEEEEECHHHHHHHhhcc
Confidence 3899999984 4789999988754322 1112246789999999999999999877788999999999999999987
Q ss_pred CC-CChhHHHHHHHHHcC--CCCceEEEEecCCCCCcccHHHHHHHHHHh
Q psy2243 223 SH-SNPLVQSIHEEISTI--PNSTIKFFWCPSHVGIAGNDAADLEAKSAL 269 (405)
Q Consensus 223 ~~-~~~~~~~I~~~l~~l--r~~~v~f~WVpgH~Gi~gNe~AD~lAk~a~ 269 (405)
.. .......++.++.++ +...+.|.|||+|+|..+|+.||.||+.|+
T Consensus 81 ~~~~~~~~~~~~~~i~~~~~~~~~~~i~~v~~h~~~~~n~~ad~la~~~~ 130 (130)
T cd06222 81 YEGKPVKNVDLWQRLLALLKRFHKVRFEWVPGHSGIEGNERADALAKEAA 130 (130)
T ss_pred ccCCChhhHHHHHHHHHHHhCCCeEEEEEcCCCCCCcchHHHHHHHHhhC
Confidence 54 222223333333332 357899999999999999999999999874
No 9
>KOG3752|consensus
Probab=99.65 E-value=8.3e-16 Score=150.18 Aligned_cols=126 Identities=26% Similarity=0.324 Sum_probs=100.6
Q ss_pred CcEEEEecCCCCC-----CCceEEEEeecCce-eEeecCC-CCccchHHHHHHHHHHHHHHHhcCCCcEEEEeCcHHHHH
Q psy2243 145 DFVQVYTDGSKSD-----SSVGCAFVIPQLHI-VKKQTLN-PKSSIFHAELLAISDAVSTIKSQSIGEAVIISDSLSALQ 217 (405)
Q Consensus 145 ~~~~iyTDGS~~~-----~~~G~g~v~~~~~~-~~~~~l~-~~ssv~~AEl~AI~~AL~~~~~~~~~~i~I~sDs~~al~ 217 (405)
+..+||||||+.. ..+|+|+++..++. ..+.++. +..+++.||+.||..||+.+.+....+++|.|||+.+++
T Consensus 211 ~~~vvytDGS~~~ng~~~~~AGyGvywg~~~e~N~s~pv~~g~qtNnrAEl~Av~~ALkka~~~~~~kv~I~TDS~~~i~ 290 (371)
T KOG3752|consen 211 EIQVVYTDGSSSGNGRKSSRAGYGVYWGPGHELNVSGPLAGGRQTNNRAELIAAIEALKKARSKNINKVVIRTDSEYFIN 290 (371)
T ss_pred cceEEEecCccccCCCCCCcceeEEeeCCCCcccccccCCCCcccccHHHHHHHHHHHHHHHhcCCCcEEEEechHHHHH
Confidence 3489999999983 36899999987654 4566765 789999999999999999998877789999999999999
Q ss_pred HHhccCC-----------CCh----------hHHHHHHHHHcCCCCceEEEEecCCCCCcccHHHHHHHHHHhc
Q psy2243 218 AISSMSH-----------SNP----------LVQSIHEEISTIPNSTIKFFWCPSHVGIAGNDAADLEAKSALE 270 (405)
Q Consensus 218 ~l~~~~~-----------~~~----------~~~~I~~~l~~lr~~~v~f~WVpgH~Gi~gNe~AD~lAk~a~~ 270 (405)
.|+.+.+ .++ ....+.+.++++++..|++.||+||.|+.||++||.||+++..
T Consensus 291 ~l~~wv~~~k~~~~k~~~~~~~i~~~v~n~~~~~e~~~l~q~~~~~~vq~~~V~Gh~gi~gne~Ad~lARkgs~ 364 (371)
T KOG3752|consen 291 SLTLWVQGWKKNGWKTSNGSDRICAYVKNQDFFNELDELEQEISNKKVQQEYVGGHSGILGNEMADALARKGST 364 (371)
T ss_pred HHHHHHhhhccCccccccCCCccceeeecchHHHHHHHHHhhhccCceEEEEecCcCCcchHHHHHHHHhhhhh
Confidence 9987632 112 1122333334445689999999999999999999999999863
No 10
>PRK13907 rnhA ribonuclease H; Provisional
Probab=99.64 E-value=3.7e-15 Score=127.99 Aligned_cols=120 Identities=22% Similarity=0.237 Sum_probs=92.8
Q ss_pred EEEEecCCCC--CCCceEEEEeecCcee--EeecCCCCccchHHHHHHHHHHHHHHHhcCCCcEEEEeCcHHHHHHHhcc
Q psy2243 147 VQVYTDGSKS--DSSVGCAFVIPQLHIV--KKQTLNPKSSIFHAELLAISDAVSTIKSQSIGEAVIISDSLSALQAISSM 222 (405)
Q Consensus 147 ~~iyTDGS~~--~~~~G~g~v~~~~~~~--~~~~l~~~ssv~~AEl~AI~~AL~~~~~~~~~~i~I~sDs~~al~~l~~~ 222 (405)
+.||||||+. ++..|+|+|+.+.+.. .+... ...++..||+.|++.||+.+.+.+...+.|++||+.+++.+++.
T Consensus 2 ~~iy~DGa~~~~~g~~G~G~vi~~~~~~~~~~~~~-~~~tn~~AE~~All~aL~~a~~~g~~~v~i~sDS~~vi~~~~~~ 80 (128)
T PRK13907 2 IEVYIDGASKGNPGPSGAGVFIKGVQPAVQLSLPL-GTMSNHEAEYHALLAALKYCTEHNYNIVSFRTDSQLVERAVEKE 80 (128)
T ss_pred EEEEEeeCCCCCCCccEEEEEEEECCeeEEEEecc-cccCCcHHHHHHHHHHHHHHHhCCCCEEEEEechHHHHHHHhHH
Confidence 5799999998 4688999999764332 22223 35789999999999999999888778899999999999999986
Q ss_pred CCCChhHHHHHHHHHcC-CCC-ceEEEEecCCCCCcccHHHHHHHHHHhcC
Q psy2243 223 SHSNPLVQSIHEEISTI-PNS-TIKFFWCPSHVGIAGNDAADLEAKSALEN 271 (405)
Q Consensus 223 ~~~~~~~~~I~~~l~~l-r~~-~v~f~WVpgH~Gi~gNe~AD~lAk~a~~~ 271 (405)
+..+...+.+++++..+ ..+ .+.|.|||+ ..|+.||.||+.|+.+
T Consensus 81 ~~~~~~~~~l~~~~~~l~~~f~~~~~~~v~r----~~N~~Ad~LA~~a~~~ 127 (128)
T PRK13907 81 YAKNKMFAPLLEEALQYIKSFDLFFIKWIPS----SQNKVADELARKAILQ 127 (128)
T ss_pred HhcChhHHHHHHHHHHHHhcCCceEEEEcCc----hhchhHHHHHHHHHhc
Confidence 65444445566665544 233 466799995 5899999999999853
No 11
>PRK07708 hypothetical protein; Validated
Probab=99.53 E-value=1.8e-13 Score=128.08 Aligned_cols=125 Identities=18% Similarity=0.087 Sum_probs=93.5
Q ss_pred CCCcEEEEecCCCC--CCCceEEEEeec--CceeE----eecCCCCccchHHHHHHHHHHHHHHHhcCCCc--EEEEeCc
Q psy2243 143 YGDFVQVYTDGSKS--DSSVGCAFVIPQ--LHIVK----KQTLNPKSSIFHAELLAISDAVSTIKSQSIGE--AVIISDS 212 (405)
Q Consensus 143 ~~~~~~iyTDGS~~--~~~~G~g~v~~~--~~~~~----~~~l~~~ssv~~AEl~AI~~AL~~~~~~~~~~--i~I~sDs 212 (405)
.++.+++|+|||.. ++.+|+|+++.. ++... ...++..++++.||+.|++.||+.+.+.+... +.|++||
T Consensus 70 ep~~~~vY~DGs~~~n~g~aG~GvVI~~~~g~~~~~~~~~~~l~~~~TNN~AEy~Ali~aL~~A~e~g~~~~~V~I~~DS 149 (219)
T PRK07708 70 EPHEILVYFDGGFDKETKLAGLGIVIYYKQGNKRYRIRRNAYIEGIYDNNEAEYAALYYAMQELEELGVKHEPVTFRGDS 149 (219)
T ss_pred CCCcEEEEEeeccCCCCCCcEEEEEEEECCCCEEEEEEeeccccccccCcHHHHHHHHHHHHHHHHcCCCcceEEEEecc
Confidence 34579999999986 567999998864 22222 12455567999999999999999998876544 8999999
Q ss_pred HHHHHHHhccCC-CChhHHHHHHHHHcC-C--CCceEEEEecCCCCCcccHHHHHHHHHHhcC
Q psy2243 213 LSALQAISSMSH-SNPLVQSIHEEISTI-P--NSTIKFFWCPSHVGIAGNDAADLEAKSALEN 271 (405)
Q Consensus 213 ~~al~~l~~~~~-~~~~~~~I~~~l~~l-r--~~~v~f~WVpgH~Gi~gNe~AD~lAk~a~~~ 271 (405)
+.+++.+++.+. .++..+..++++.++ . ...+.|.||| +..|+.||+||+.|++.
T Consensus 150 qlVi~qi~g~wk~~~~~l~~y~~~i~~l~~~~~l~~~~~~Vp----R~~N~~AD~LAk~Al~~ 208 (219)
T PRK07708 150 QVVLNQLAGEWPCYDEHLNHWLDRIEQKLKQLKLTPVYEPIS----RKQNKEADQLATQALEG 208 (219)
T ss_pred HHHHHHhCCCceeCChhHHHHHHHHHHHHhhCCceEEEEECC----chhhhHHHHHHHHHHhc
Confidence 999999999775 344444444444432 2 2346778887 57899999999999974
No 12
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional
Probab=99.37 E-value=1.7e-11 Score=123.92 Aligned_cols=121 Identities=17% Similarity=0.262 Sum_probs=93.0
Q ss_pred cEEEEecCCCCC--CCceEEEEeecC--c-eeE--eecCCCCccchHHHHHHHHHHHHHHHhcCCCcEEEEeCcHHHHHH
Q psy2243 146 FVQVYTDGSKSD--SSVGCAFVIPQL--H-IVK--KQTLNPKSSIFHAELLAISDAVSTIKSQSIGEAVIISDSLSALQA 218 (405)
Q Consensus 146 ~~~iyTDGS~~~--~~~G~g~v~~~~--~-~~~--~~~l~~~ssv~~AEl~AI~~AL~~~~~~~~~~i~I~sDs~~al~~ 218 (405)
.+.||||||+.. +.+|+|+++.+. + ... +..++ .++++.||+.|++.||+.+.+.+...+.|++||+.+++.
T Consensus 2 ~~~i~~DGa~~~n~g~aG~G~vi~~~~~~~~~~~~~~~~~-~~tnn~AE~~All~gL~~a~~~g~~~v~i~~DS~lvi~~ 80 (372)
T PRK07238 2 KVVVEADGGSRGNPGPAGYGAVVWDADRGEVLAERAEAIG-RATNNVAEYRGLIAGLEAAAELGATEVEVRMDSKLVVEQ 80 (372)
T ss_pred eEEEEecCCCCCCCCceEEEEEEEeCCCCcEEEEeecccC-CCCchHHHHHHHHHHHHHHHhCCCCeEEEEeCcHHHHHH
Confidence 378999999993 578999998864 2 212 23344 678889999999999999988878899999999999999
Q ss_pred HhccCC-CChhHHHHHHHHHcC-CC-CceEEEEecCCCCCcccHHHHHHHHHHhcC
Q psy2243 219 ISSMSH-SNPLVQSIHEEISTI-PN-STIKFFWCPSHVGIAGNDAADLEAKSALEN 271 (405)
Q Consensus 219 l~~~~~-~~~~~~~I~~~l~~l-r~-~~v~f~WVpgH~Gi~gNe~AD~lAk~a~~~ 271 (405)
+.+.+. .++-...+++++.++ .. ..+.|.|||+ .+|+.||.||+.|++.
T Consensus 81 i~~~~~~~~~~l~~~~~~i~~l~~~f~~~~i~~v~r----~~N~~AD~LA~~a~~~ 132 (372)
T PRK07238 81 MSGRWKVKHPDMKPLAAQARELASQFGRVTYTWIPR----ARNAHADRLANEAMDA 132 (372)
T ss_pred hCCCCccCChHHHHHHHHHHHHHhcCCceEEEECCc----hhhhHHHHHHHHHHHh
Confidence 988764 333334444444443 22 4689999994 7899999999999864
No 13
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=99.00 E-value=2.3e-09 Score=84.78 Aligned_cols=84 Identities=26% Similarity=0.261 Sum_probs=62.6
Q ss_pred chHHHHHHHHHHHHHHHhcCCCcEEEEeCcHHHHHHHhccCCCChhHHHHHHHHHcC-C-CCceEEEEecCCCCCcccHH
Q psy2243 183 IFHAELLAISDAVSTIKSQSIGEAVIISDSLSALQAISSMSHSNPLVQSIHEEISTI-P-NSTIKFFWCPSHVGIAGNDA 260 (405)
Q Consensus 183 v~~AEl~AI~~AL~~~~~~~~~~i~I~sDs~~al~~l~~~~~~~~~~~~I~~~l~~l-r-~~~v~f~WVpgH~Gi~gNe~ 260 (405)
+..||+.|++.||+.+.+.+..++.+.|||+.+++.|++..........++.++..+ . -..+.|.||| ..+|..
T Consensus 1 ~~~aE~~al~~al~~a~~~g~~~i~v~sDs~~vv~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~----r~~N~~ 76 (87)
T PF13456_consen 1 PLEAEALALLEALQLAWELGIRKIIVESDSQLVVDAINGRSSSRSELRPLIQDIRSLLDRFWNVSVSHIP----REQNKV 76 (87)
T ss_dssp HHHHHHHHHHHHHHHHHCCT-SCEEEEES-HHHHHHHTTSS---SCCHHHHHHHHHHHCCCSCEEEEE------GGGSHH
T ss_pred CcHHHHHHHHHHHHHHHHCCCCEEEEEecCccccccccccccccccccccchhhhhhhccccceEEEEEC----hHHhHH
Confidence 357999999999999999888999999999999999998754322334445555443 2 2568999998 699999
Q ss_pred HHHHHHHHhc
Q psy2243 261 ADLEAKSALE 270 (405)
Q Consensus 261 AD~lAk~a~~ 270 (405)
||.|||.|.+
T Consensus 77 A~~LA~~a~~ 86 (87)
T PF13456_consen 77 ADALAKFALS 86 (87)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHhh
Confidence 9999999873
No 14
>COG2440 FixX Ferredoxin-like protein [Energy production and conversion]
Probab=95.48 E-value=0.0056 Score=49.52 Aligned_cols=51 Identities=18% Similarity=0.292 Sum_probs=35.8
Q ss_pred cccceeccCCCCCCCCCcceeccCCCCcccccccCcCCcccccccCceeEeecCCC
Q psy2243 324 LLSSVALTGTNHEGDQPAHLTLKDDSVPVNTNLAVYDGPEGRFCPAGKLENHNTQN 379 (405)
Q Consensus 324 ~~~s~~~s~t~h~~~qp~hl~~~~~~~~~~~~~~~~~~~~~~~cpa~vye~~~~~~ 379 (405)
+...+++-. .|-+.+-.|+.++|+..+.+.+ +.|+...||||+|++.++.+
T Consensus 9 iE~kL~~n~-~~vDe~~pHI~v~~~~~~~~~~----~~~l~~aCPA~~Y~~~~~g~ 59 (99)
T COG2440 9 IEEKLSVNR-YNVDEDHPHIIVKDPDDCQECE----DKPLIKACPAGCYKLIDDGK 59 (99)
T ss_pred HhHhhhhhe-eeccCCCCcEecCCchhhhhcc----chhhhhcCCHHHeeECCCCc
Confidence 334444444 4444445799999877766544 77999999999999998553
No 15
>PF09257 BCMA-Tall_bind: BCMA, TALL-1 binding; InterPro: IPR015337 Cytokines can be grouped into a family on the basis of sequence, functional and structural similarities [, , ]. Tumor necrosis factor (TNF) (also known as TNF-alpha or cachectin) is a monocyte-derived cytotoxin that has been implicated in tumour regression, septic shock and cachexia [, ]. The protein is synthesised as a prohormone with an unusually long and atypical signal sequence, which is absent from the mature secreted cytokine []. A short hydrophobic stretch of amino acids serves to anchor the prohormone in lipid bilayers []. Both the mature protein and a partially-processed form of the hormone are secreted after cleavage of the propeptide []. There are a number of different families of TNF, but all these cytokines seem to form homotrimeric (or heterotrimeric in the case of LT-alpha/beta) complexes that are recognised by their specific receptors. Members of this entry, which are predominantly found in the tumour necrosis factor receptor superfamily member 17, BCMA, are required for binding to tumour necrosis factor ligand TALL-1 []. ; PDB: 2KN1_A 1OQD_R 1XU2_T.
Probab=89.27 E-value=0.038 Score=36.02 Aligned_cols=24 Identities=33% Similarity=0.700 Sum_probs=17.4
Q ss_pred CCcceeccCCCCcccccccCcCCcccccccCce
Q psy2243 339 QPAHLTLKDDSVPVNTNLAVYDGPEGRFCPAGK 371 (405)
Q Consensus 339 qp~hl~~~~~~~~~~~~~~~~~~~~~~~cpa~v 371 (405)
.|||||-.+..-| -+|||||-|.|
T Consensus 15 kPChLRCsn~tPP---------~~Cq~YCnas~ 38 (39)
T PF09257_consen 15 KPCHLRCSNNTPP---------LPCQRYCNASV 38 (39)
T ss_dssp EEHHHHHTSSS-----------TTTHHHHHHTC
T ss_pred ccceeecCCCCCC---------ccchhhccccc
Confidence 5999998763332 38999998876
No 16
>PRK15449 ferredoxin-like protein FixX; Provisional
Probab=81.17 E-value=0.6 Score=38.03 Aligned_cols=38 Identities=18% Similarity=0.325 Sum_probs=26.8
Q ss_pred CCCCCCCCCcceeccCCCCcccccccCcCCcccccccCceeEee
Q psy2243 332 GTNHEGDQPAHLTLKDDSVPVNTNLAVYDGPEGRFCPAGKLENH 375 (405)
Q Consensus 332 ~t~h~~~qp~hl~~~~~~~~~~~~~~~~~~~~~~~cpa~vye~~ 375 (405)
++++-+++-+|++|++.. ..+ -..+|...||||+|..-
T Consensus 14 ~~y~vd~~~~HI~i~~~~---~~~---~~k~C~~aCPagA~~~~ 51 (95)
T PRK15449 14 NKFNVDEEHPHIVVKADA---DKQ---ALELLVKACPAGLYKKQ 51 (95)
T ss_pred ceeECCCCCCcEEEcCCC---Cch---hhhHHHHHCCHhhcEeC
Confidence 444445566999998753 222 25699999999999753
No 17
>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=69.81 E-value=9.3 Score=35.41 Aligned_cols=91 Identities=19% Similarity=0.155 Sum_probs=51.3
Q ss_pred CCcEEEEecCCCCCCCceEEEEeecCceeEeecCCCCccchHHHHHHHHHHHHHHHhcCCCcEEEEeCcHHHHHHHhccC
Q psy2243 144 GDFVQVYTDGSKSDSSVGCAFVIPQLHIVKKQTLNPKSSIFHAELLAISDAVSTIKSQSIGEAVIISDSLSALQAISSMS 223 (405)
Q Consensus 144 ~~~~~iyTDGS~~~~~~G~g~v~~~~~~~~~~~l~~~ssv~~AEl~AI~~AL~~~~~~~~~~i~I~sDs~~al~~l~~~~ 223 (405)
+.--+||+|+.-. |+|+.+..+.....+.. --.+..||++|+..|.-+. .. -.|.|||.-++.. ..
T Consensus 92 ~~lc~VfaDATpT----gwgi~i~~~~~~~Tfs~--~l~IhtaELlaaClAr~~~----~~-r~l~tDnt~Vlsr---ky 157 (245)
T PF00336_consen 92 PGLCQVFADATPT----GWGISITGQRMRGTFSK--PLPIHTAELLAACLARLMS----GA-RCLGTDNTVVLSR---KY 157 (245)
T ss_pred CCCCceeccCCCC----cceeeecCceeeeeecc--cccchHHHHHHHHHHHhcc----CC-cEEeecCcEEEec---cc
Confidence 3456899998854 56665544333333322 2457889999998877654 22 3489999876641 11
Q ss_pred CCChhHHHHHHHHHcCCCCceEEEEecC
Q psy2243 224 HSNPLVQSIHEEISTIPNSTIKFFWCPS 251 (405)
Q Consensus 224 ~~~~~~~~I~~~l~~lr~~~v~f~WVpg 251 (405)
. ..-|.+.-+.+--=..++|..||+
T Consensus 158 t---s~PW~lac~A~wiLrgts~~yVPS 182 (245)
T PF00336_consen 158 T---SFPWLLACAANWILRGTSFYYVPS 182 (245)
T ss_pred c---cCcHHHHHHHHHhhcCceEEEecc
Confidence 1 123433322210003578889996
No 18
>PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family.
Probab=68.61 E-value=16 Score=32.26 Aligned_cols=52 Identities=25% Similarity=0.280 Sum_probs=32.0
Q ss_pred cEEEEecCCCCCCCceEEEEeec---CceeE-----eecCCC--CccchHHHHHHHHHHHHHHH
Q psy2243 146 FVQVYTDGSKSDSSVGCAFVIPQ---LHIVK-----KQTLNP--KSSIFHAELLAISDAVSTIK 199 (405)
Q Consensus 146 ~~~iyTDGS~~~~~~G~g~v~~~---~~~~~-----~~~l~~--~ssv~~AEl~AI~~AL~~~~ 199 (405)
.+++|+|+|.. +.|+.+++.. +.... +.++.+ ..++=.-|+.|+..|.+.+.
T Consensus 81 ~L~~F~DAS~~--aygavvYlr~~~~~~~~~~ll~aKsrv~P~k~~tIPRlEL~a~~l~~~l~~ 142 (159)
T PF05380_consen 81 ELHVFCDASES--AYGAVVYLRSYSDGSVQVRLLFAKSRVAPLKTVTIPRLELLAALLGVRLAN 142 (159)
T ss_pred eeeEeeccccc--ceeeEeEeeeccCCceeeeeeeecccccCCCCCcHHHHHHHHHHHHHHHHH
Confidence 58999999953 2333333332 12111 112322 45899999999999998774
No 19
>COG0295 Cdd Cytidine deaminase [Nucleotide transport and metabolism]
Probab=27.11 E-value=1.2e+02 Score=26.23 Aligned_cols=54 Identities=22% Similarity=0.236 Sum_probs=35.4
Q ss_pred CCceEEEEeecCceeEeecCC--CCccchHHHHHHHHHHHHHHHhcCCCcEEEEeCc
Q psy2243 158 SSVGCAFVIPQLHIVKKQTLN--PKSSIFHAELLAISDAVSTIKSQSIGEAVIISDS 212 (405)
Q Consensus 158 ~~~G~g~v~~~~~~~~~~~l~--~~ssv~~AEl~AI~~AL~~~~~~~~~~i~I~sDs 212 (405)
-.||+++...++.+....-+. ...--..||-.||..|+.. -......+.+++|+
T Consensus 26 F~VGAa~~t~~G~i~tG~NiEnasy~~t~CAErsAI~~ais~-G~~~~~~v~v~~~~ 81 (134)
T COG0295 26 FKVGAALRTKDGRIYTGANVENASYGLTVCAERSAIFKAISE-GKRKFDAVVVVADT 81 (134)
T ss_pred CcEEEEEEeCCCCEEEEEeeecccccchhhHHHHHHHHHHHc-CCCcEEEEEEEcCC
Confidence 358888877776554433332 1223456999999999876 22335678888987
No 20
>COG1143 NuoI Formate hydrogenlyase subunit 6/NADH:ubiquinone oxidoreductase 23 kD subunit (chain I) [Energy production and conversion]
Probab=21.28 E-value=51 Score=29.80 Aligned_cols=19 Identities=21% Similarity=0.503 Sum_probs=16.4
Q ss_pred CcccccccCceeEeecCCC
Q psy2243 361 GPEGRFCPAGKLENHNTQN 379 (405)
Q Consensus 361 ~~~~~~cpa~vye~~~~~~ 379 (405)
+.|.+.|||++++++.++.
T Consensus 61 ~lCa~iCP~~aI~m~~~~~ 79 (172)
T COG1143 61 GLCANICPANAITMETAER 79 (172)
T ss_pred hHHHhhCCcCceEEEEccc
Confidence 5789999999999998754
No 21
>PRK06848 hypothetical protein; Validated
Probab=21.08 E-value=2e+02 Score=24.94 Aligned_cols=59 Identities=24% Similarity=0.242 Sum_probs=36.9
Q ss_pred EecCCCCCCCceEEEEeecCceeEeecCCC--CccchHHHHHHHHHHHHHHHhcCCCcEEEEeCc
Q psy2243 150 YTDGSKSDSSVGCAFVIPQLHIVKKQTLNP--KSSIFHAELLAISDAVSTIKSQSIGEAVIISDS 212 (405)
Q Consensus 150 yTDGS~~~~~~G~g~v~~~~~~~~~~~l~~--~ssv~~AEl~AI~~AL~~~~~~~~~~i~I~sDs 212 (405)
|.. | ...||+++...++.+....-+.+ ......||-.||+.|+..- ......+.+.++.
T Consensus 22 y~p-s--~f~VgAa~l~~~G~i~~G~NvEnas~~~tiCAEr~Ai~~av~~g-~~~i~~i~~v~~~ 82 (139)
T PRK06848 22 YRN-D--WHHVGAALRTKTGRIYAAVHLEAYVGRITVCAEAIAIGKAISEG-DHEIDTIVAVRHP 82 (139)
T ss_pred cCC-C--CCcEEEEEEeCCCCEEEEEEeecCCCCcccCHHHHHHHHHHHcC-CCceEEEEEEecC
Confidence 554 4 35789998888877665444432 3345679999999988642 1123456556544
No 22
>PRK08298 cytidine deaminase; Validated
Probab=20.45 E-value=2e+02 Score=24.96 Aligned_cols=58 Identities=16% Similarity=0.134 Sum_probs=37.5
Q ss_pred EecCCCCCCCceEEEEeecCceeEeecCCC--CccchHHHHHHHHHHHHHHHhcCCCcEEEEeCc
Q psy2243 150 YTDGSKSDSSVGCAFVIPQLHIVKKQTLNP--KSSIFHAELLAISDAVSTIKSQSIGEAVIISDS 212 (405)
Q Consensus 150 yTDGS~~~~~~G~g~v~~~~~~~~~~~l~~--~ssv~~AEl~AI~~AL~~~~~~~~~~i~I~sDs 212 (405)
|...| +||+++...++.+....-+.+ ...-.-||..||..|+..- ......+.|.+|.
T Consensus 19 Y~PYS----~VgAAllt~dG~i~tG~NvEnas~~~t~CAEr~Ai~~av~~G-~~~~~~i~v~~~~ 78 (136)
T PRK08298 19 YPNGW----GGAAAMRVEDGTILTSVAPEVINASTELCMETGAICEAHKLQ-KRVTHSICVAREN 78 (136)
T ss_pred cCCCC----ceeEEEEeCCCCEEEEEeecCCCCCcchhHHHHHHHHHHHCC-CceEEEEEEEcCC
Confidence 55555 799999888877765544432 3345679999999987542 1123446666665
Done!