Query psy16693
Match_columns 196
No_of_seqs 140 out of 1331
Neff 7.2
Searched_HMMs 46136
Date Fri Aug 16 19:35:56 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16693.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16693hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00075 RNase_H: RNase H; In 99.6 2.6E-15 5.5E-20 113.3 8.3 80 13-95 40-132 (132)
2 PRK06548 ribonuclease H; Provi 99.6 4.1E-15 8.9E-20 117.7 9.0 84 12-96 41-142 (161)
3 PRK08719 ribonuclease H; Revie 99.6 3.9E-15 8.5E-20 116.3 8.0 84 12-95 49-146 (147)
4 PRK00203 rnhA ribonuclease H; 99.6 1.2E-14 2.6E-19 113.5 8.3 81 12-96 42-142 (150)
5 COG0328 RnhA Ribonuclease HI [ 99.5 1.4E-13 3E-18 107.9 7.5 83 12-97 42-146 (154)
6 cd06222 RnaseH RNase H (RNase 99.3 1.2E-11 2.7E-16 90.0 9.7 79 13-94 41-130 (130)
7 KOG3752|consensus 98.9 4.4E-09 9.5E-14 92.1 7.8 84 12-96 255-365 (371)
8 PRK13907 rnhA ribonuclease H; 98.8 1.6E-08 3.4E-13 76.5 8.5 77 13-96 41-127 (128)
9 PF13456 RVT_3: Reverse transc 98.8 4.1E-08 8.8E-13 68.3 8.4 74 15-95 3-86 (87)
10 PRK07708 hypothetical protein; 98.4 1.9E-06 4.1E-11 71.6 8.7 78 13-96 118-208 (219)
11 PRK07238 bifunctional RNase H/ 98.3 2.4E-06 5.1E-11 75.7 8.2 77 13-96 45-132 (372)
12 COG0296 GlgB 1,4-alpha-glucan 47.1 23 0.0005 34.0 3.7 35 53-87 213-248 (628)
13 PF05237 MoeZ_MoeB: MoeZ/MoeB 30.9 16 0.00035 25.3 -0.1 10 185-194 74-84 (84)
14 TIGR01997 sufA_proteo FeS asse 30.6 34 0.00073 24.8 1.6 15 182-196 93-107 (107)
15 KOG1123|consensus 24.5 2.4E+02 0.0051 27.1 6.2 31 15-45 531-561 (776)
16 PF12760 Zn_Tnp_IS1595: Transp 21.8 31 0.00068 21.0 0.1 19 170-194 9-28 (46)
17 PLN02961 alanine-tRNA ligase 21.4 42 0.00091 27.6 0.8 11 185-195 186-196 (223)
18 PF10580 Neuromodulin_N: Gap j 20.9 85 0.0018 17.9 1.7 23 73-95 4-26 (32)
No 1
>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=99.61 E-value=2.6e-15 Score=113.29 Aligned_cols=80 Identities=36% Similarity=0.553 Sum_probs=62.2
Q ss_pred HHHHHHHHHHH--hc-CCCEEEEecccHHHHHHHhc-----ccC-C--C-hHHHHHHHHHHhccCCceEEEEecCCCCCC
Q psy16693 13 YYQVDLTGTAE--KS-ECQVYLTPDNSLSALQSIQN-----VSS-S--N-PIAREIRNLLDKNKHVFSLHFTWVPSHVGI 80 (196)
Q Consensus 13 ~~~~e~~~~~~--~~-~~~~i~I~tDs~sal~~l~~-----~~~-~--~-~~~~~i~~l~~~~~~~~~v~~~WvpgH~gi 80 (196)
.+.+|+.|+.. +. ....+.|+|||++++..+.. .+. . . ++..+|.+++.. +..|.|.|||||+|+
T Consensus 40 ~~~aEl~Ai~~AL~~~~~~~v~I~tDS~~v~~~l~~~~~~~~~~~~~~~~~i~~~i~~~~~~---~~~v~~~~V~~H~~~ 116 (132)
T PF00075_consen 40 NNRAELQAIIEALKALEHRKVTIYTDSQYVLNALNKWLHGNGWKKTSNGRPIKNEIWELLSR---GIKVRFRWVPGHSGV 116 (132)
T ss_dssp HHHHHHHHHHHHHHTHSTSEEEEEES-HHHHHHHHTHHHHTTSBSCTSSSBHTHHHHHHHHH---SSEEEEEESSSSSSS
T ss_pred hhhhheehHHHHHHHhhcccccccccHHHHHHHHHHhccccccccccccccchhheeecccc---ceEEeeeeccCcCCC
Confidence 57899998752 22 45899999999999998888 332 1 2 466777777733 348999999999999
Q ss_pred -ccchHHhHHHHHHhh
Q psy16693 81 -AGNEEADRLAKEALS 95 (196)
Q Consensus 81 -~gNe~aD~~A~~a~~ 95 (196)
.|||.||+|||+|+.
T Consensus 117 ~~~N~~aD~lAk~a~~ 132 (132)
T PF00075_consen 117 PQGNERADRLAKEAAQ 132 (132)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred chhHHHHHHHHHHhcC
Confidence 699999999999974
No 2
>PRK06548 ribonuclease H; Provisional
Probab=99.60 E-value=4.1e-15 Score=117.70 Aligned_cols=84 Identities=24% Similarity=0.368 Sum_probs=60.4
Q ss_pred HHHHHHHHHHHH-----hcCCCEEEEecccHHHHHHHhcc---------cCCC--hHH-HH-HHHHHHhccCCceEEEEe
Q psy16693 12 IYYQVDLTGTAE-----KSECQVYLTPDNSLSALQSIQNV---------SSSN--PIA-RE-IRNLLDKNKHVFSLHFTW 73 (196)
Q Consensus 12 ~~~~~e~~~~~~-----~~~~~~i~I~tDs~sal~~l~~~---------~~~~--~~~-~~-i~~l~~~~~~~~~v~~~W 73 (196)
+-..+||.|+.. ......+.|+|||++++++++.| ..++ ++. ++ |+++.....+ ..|.|.|
T Consensus 41 TNnraEl~Aii~aL~~~~~~~~~v~I~TDS~yvi~~i~~W~~~Wk~~gWk~s~G~pV~N~dL~~~l~~l~~~-~~v~~~w 119 (161)
T PRK06548 41 TNNIAELTAVRELLIATRHTDRPILILSDSKYVINSLTKWVYSWKMRKWRKADGKPVLNQEIIQEIDSLMEN-RNIRMSW 119 (161)
T ss_pred CHHHHHHHHHHHHHHhhhcCCceEEEEeChHHHHHHHHHHHHHHHHCCCcccCCCccccHHHHHHHHHHHhc-CceEEEE
Confidence 567888888652 22345799999999999999963 1222 322 22 3333333222 3799999
Q ss_pred cCCCCCCccchHHhHHHHHHhhc
Q psy16693 74 VPSHVGIAGNEEADRLAKEALSS 96 (196)
Q Consensus 74 vpgH~gi~gNe~aD~~A~~a~~~ 96 (196)
||||+|++|||.||+||++|+..
T Consensus 120 VkgHsg~~gNe~aD~LA~~aa~~ 142 (161)
T PRK06548 120 VNAHTGHPLNEAADSLARQAANN 142 (161)
T ss_pred EecCCCCHHHHHHHHHHHHHHHH
Confidence 99999999999999999999977
No 3
>PRK08719 ribonuclease H; Reviewed
Probab=99.59 E-value=3.9e-15 Score=116.26 Aligned_cols=84 Identities=23% Similarity=0.245 Sum_probs=57.7
Q ss_pred HHHHHHHHHHHH--hcCCCEEEEecccHHHHHHHhc--------ccCCC---hHH-HHHHHHHHhccCCceEEEEecCCC
Q psy16693 12 IYYQVDLTGTAE--KSECQVYLTPDNSLSALQSIQN--------VSSSN---PIA-REIRNLLDKNKHVFSLHFTWVPSH 77 (196)
Q Consensus 12 ~~~~~e~~~~~~--~~~~~~i~I~tDs~sal~~l~~--------~~~~~---~~~-~~i~~l~~~~~~~~~v~~~WvpgH 77 (196)
+.+++|+.|+.. +.-.....|+|||++++++++. +|..+ ++. .++.+.+........|.|.|||||
T Consensus 49 Tnn~aEl~A~~~aL~~~~~~~~i~tDS~yvi~~i~~~~~~W~~~~w~~s~g~~v~n~dl~~~i~~l~~~~~i~~~~VkgH 128 (147)
T PRK08719 49 DNAELELLALIEALEYARDGDVIYSDSDYCVRGFNEWLDTWKQKGWRKSDKKPVANRDLWQQVDELRARKYVEVEKVTAH 128 (147)
T ss_pred cHHHHHHHHHHHHHHHcCCCCEEEechHHHHHHHHHHHHHHHhCCcccCCCcccccHHHHHHHHHHhCCCcEEEEEecCC
Confidence 678999998762 2222335899999999999953 33221 221 222222222112347999999999
Q ss_pred CCCccchHHhHHHHHHhh
Q psy16693 78 VGIAGNEEADRLAKEALS 95 (196)
Q Consensus 78 ~gi~gNe~aD~~A~~a~~ 95 (196)
+|++|||.||+||++|+.
T Consensus 129 ~g~~~Ne~aD~lA~~a~~ 146 (147)
T PRK08719 129 SGIEGNEAADMLAQAAAE 146 (147)
T ss_pred CCChhHHHHHHHHHHHhh
Confidence 999999999999999975
No 4
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=99.56 E-value=1.2e-14 Score=113.52 Aligned_cols=81 Identities=21% Similarity=0.303 Sum_probs=60.7
Q ss_pred HHHHHHHHHHHH--h--cCCCEEEEecccHHHHHHHhcc--------cC-CC--h-----HHHHHHHHHHhccCCceEEE
Q psy16693 12 IYYQVDLTGTAE--K--SECQVYLTPDNSLSALQSIQNV--------SS-SN--P-----IAREIRNLLDKNKHVFSLHF 71 (196)
Q Consensus 12 ~~~~~e~~~~~~--~--~~~~~i~I~tDs~sal~~l~~~--------~~-~~--~-----~~~~i~~l~~~~~~~~~v~~ 71 (196)
+...|||.|+.. + .....+.|+|||++++++|..| +. ++ + +.++|.+++. ...|.|
T Consensus 42 TN~~aEL~Ai~~AL~~~~~~~~v~I~tDS~yvi~~i~~w~~~Wk~~~~~~~~g~~v~n~dl~~~i~~l~~----~~~v~~ 117 (150)
T PRK00203 42 TNNRMELMAAIEALEALKEPCEVTLYTDSQYVRQGITEWIHGWKKNGWKTADKKPVKNVDLWQRLDAALK----RHQIKW 117 (150)
T ss_pred cHHHHHHHHHHHHHHHcCCCCeEEEEECHHHHHHHHHHHHHHHHHcCCcccCCCccccHHHHHHHHHHhc----cCceEE
Confidence 467899998752 1 3346899999999999999973 11 11 2 2333433332 247999
Q ss_pred EecCCCCCCccchHHhHHHHHHhhc
Q psy16693 72 TWVPSHVGIAGNEEADRLAKEALSS 96 (196)
Q Consensus 72 ~WvpgH~gi~gNe~aD~~A~~a~~~ 96 (196)
.|||||+|++|||.||+||++|+..
T Consensus 118 ~wV~~H~~~~~N~~AD~lA~~a~~~ 142 (150)
T PRK00203 118 HWVKGHAGHPENERCDELARAGAEE 142 (150)
T ss_pred EEecCCCCCHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999987
No 5
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=99.47 E-value=1.4e-13 Score=107.88 Aligned_cols=83 Identities=24% Similarity=0.355 Sum_probs=62.1
Q ss_pred HHHHHHHHHHH------HhcCCCEEEEecccHHHHHHHhcc---cCCC--------h-----HHHHHHHHHHhccCCceE
Q psy16693 12 IYYQVDLTGTA------EKSECQVYLTPDNSLSALQSIQNV---SSSN--------P-----IAREIRNLLDKNKHVFSL 69 (196)
Q Consensus 12 ~~~~~e~~~~~------~~~~~~~i~I~tDs~sal~~l~~~---~~~~--------~-----~~~~i~~l~~~~~~~~~v 69 (196)
|-..+|+.|+. .+.+...|.|+|||++++++|..| +... | +.+++.+++..++ .|
T Consensus 42 TNNraEl~A~i~AL~~l~~~~~~~v~l~tDS~yv~~~i~~w~~~w~~~~w~~~~~~pvkn~dl~~~~~~~~~~~~---~v 118 (154)
T COG0328 42 TNNRAELRALIEALEALKELGACEVTLYTDSKYVVEGITRWIVKWKKNGWKTADKKPVKNKDLWEELDELLKRHE---LV 118 (154)
T ss_pred cChHHHHHHHHHHHHHHHhcCCceEEEEecHHHHHHHHHHHHhhccccCccccccCccccHHHHHHHHHHHhhCC---eE
Confidence 44567777654 346788999999999999999954 1111 1 2344444444443 69
Q ss_pred EEEecCCCCCCccchHHhHHHHHHhhcC
Q psy16693 70 HFTWVPSHVGIAGNEEADRLAKEALSSN 97 (196)
Q Consensus 70 ~~~WvpgH~gi~gNe~aD~~A~~a~~~~ 97 (196)
.+.|||||+|.++||.||+||+.|+...
T Consensus 119 ~~~WVkgH~g~~~NeraD~LA~~~~~~~ 146 (154)
T COG0328 119 FWEWVKGHAGHPENERADQLAREAARAA 146 (154)
T ss_pred EEEEeeCCCCChHHHHHHHHHHHHHHhh
Confidence 9999999999999999999999998873
No 6
>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=99.33 E-value=1.2e-11 Score=89.96 Aligned_cols=79 Identities=28% Similarity=0.376 Sum_probs=61.7
Q ss_pred HHHHHHHHHH------HhcCCCEEEEecccHHHHHHHhcccC-C-C---hHHHHHHHHHHhccCCceEEEEecCCCCCCc
Q psy16693 13 YYQVDLTGTA------EKSECQVYLTPDNSLSALQSIQNVSS-S-N---PIAREIRNLLDKNKHVFSLHFTWVPSHVGIA 81 (196)
Q Consensus 13 ~~~~e~~~~~------~~~~~~~i~I~tDs~sal~~l~~~~~-~-~---~~~~~i~~l~~~~~~~~~v~~~WvpgH~gi~ 81 (196)
++.+|+.|+. ......++.|++||+.+++.+.++.. . . .+...+++++ .+...+.|.|||+|+|+.
T Consensus 41 ~~~aEl~al~~al~~~~~~~~~~i~i~~Ds~~~~~~~~~~~~~~~~~~~~~~~~i~~~~---~~~~~~~i~~v~~h~~~~ 117 (130)
T cd06222 41 NNRAELLALIEALELALELGGKKVNIYTDSQYVINALTGWYEGKPVKNVDLWQRLLALL---KRFHKVRFEWVPGHSGIE 117 (130)
T ss_pred HHHHHHHHHHHHHHHHHhCCCceEEEEECHHHHHHHhhccccCCChhhHHHHHHHHHHH---hCCCeEEEEEcCCCCCCc
Confidence 6788998865 24678899999999999999998754 2 2 2334444444 234479999999999999
Q ss_pred cchHHhHHHHHHh
Q psy16693 82 GNEEADRLAKEAL 94 (196)
Q Consensus 82 gNe~aD~~A~~a~ 94 (196)
+|+.||.+|++|.
T Consensus 118 ~n~~ad~la~~~~ 130 (130)
T cd06222 118 GNERADALAKEAA 130 (130)
T ss_pred chHHHHHHHHhhC
Confidence 9999999999874
No 7
>KOG3752|consensus
Probab=98.90 E-value=4.4e-09 Score=92.12 Aligned_cols=84 Identities=20% Similarity=0.217 Sum_probs=60.5
Q ss_pred HHHHHHHHHHH------HhcCCCEEEEecccHHHHHHHhccc---CCC--------h----------HHHHHHHHHHhcc
Q psy16693 12 IYYQVDLTGTA------EKSECQVYLTPDNSLSALQSIQNVS---SSN--------P----------IAREIRNLLDKNK 64 (196)
Q Consensus 12 ~~~~~e~~~~~------~~~~~~~i~I~tDs~sal~~l~~~~---~~~--------~----------~~~~i~~l~~~~~ 64 (196)
+-..||+.|+. .+.+..+++|.|||++++++|+.|. .+. + ....+.++.+..
T Consensus 255 tNnrAEl~Av~~ALkka~~~~~~kv~I~TDS~~~i~~l~~wv~~~k~~~~k~~~~~~~i~~~v~n~~~~~e~~~l~q~~- 333 (371)
T KOG3752|consen 255 TNNRAELIAAIEALKKARSKNINKVVIRTDSEYFINSLTLWVQGWKKNGWKTSNGSDRICAYVKNQDFFNELDELEQEI- 333 (371)
T ss_pred cccHHHHHHHHHHHHHHHhcCCCcEEEEechHHHHHHHHHHHhhhccCccccccCCCccceeeecchHHHHHHHHHhhh-
Confidence 35678887754 3455669999999999999999872 221 1 122233333331
Q ss_pred CCceEEEEecCCCCCCccchHHhHHHHHHhhc
Q psy16693 65 HVFSLHFTWVPSHVGIAGNEEADRLAKEALSS 96 (196)
Q Consensus 65 ~~~~v~~~WvpgH~gi~gNe~aD~~A~~a~~~ 96 (196)
.+..|.+.|||||.||.|||.||.+|++....
T Consensus 334 ~~~~vq~~~V~Gh~gi~gne~Ad~lARkgs~~ 365 (371)
T KOG3752|consen 334 SNKKVQQEYVGGHSGILGNEMADALARKGSTL 365 (371)
T ss_pred ccCceEEEEecCcCCcchHHHHHHHHhhhhhh
Confidence 23589999999999999999999999998544
No 8
>PRK13907 rnhA ribonuclease H; Provisional
Probab=98.85 E-value=1.6e-08 Score=76.50 Aligned_cols=77 Identities=17% Similarity=0.299 Sum_probs=57.8
Q ss_pred HHHHHHHHHH------HhcCCCEEEEecccHHHHHHHhcccCCC----hHHHHHHHHHHhccCCceEEEEecCCCCCCcc
Q psy16693 13 YYQVDLTGTA------EKSECQVYLTPDNSLSALQSIQNVSSSN----PIAREIRNLLDKNKHVFSLHFTWVPSHVGIAG 82 (196)
Q Consensus 13 ~~~~e~~~~~------~~~~~~~i~I~tDs~sal~~l~~~~~~~----~~~~~i~~l~~~~~~~~~v~~~WvpgH~gi~g 82 (196)
...||+.|+. ...+..++.|+|||+++++.+++.+..+ ++..++..++..+. .+.|.|||+ ++
T Consensus 41 n~~AE~~All~aL~~a~~~g~~~v~i~sDS~~vi~~~~~~~~~~~~~~~l~~~~~~l~~~f~---~~~~~~v~r----~~ 113 (128)
T PRK13907 41 NHEAEYHALLAALKYCTEHNYNIVSFRTDSQLVERAVEKEYAKNKMFAPLLEEALQYIKSFD---LFFIKWIPS----SQ 113 (128)
T ss_pred CcHHHHHHHHHHHHHHHhCCCCEEEEEechHHHHHHHhHHHhcChhHHHHHHHHHHHHhcCC---ceEEEEcCc----hh
Confidence 4567777643 3556678999999999999999976543 34455555555444 577899999 69
Q ss_pred chHHhHHHHHHhhc
Q psy16693 83 NEEADRLAKEALSS 96 (196)
Q Consensus 83 Ne~aD~~A~~a~~~ 96 (196)
|+.||.+|++|...
T Consensus 114 N~~Ad~LA~~a~~~ 127 (128)
T PRK13907 114 NKVADELARKAILQ 127 (128)
T ss_pred chhHHHHHHHHHhc
Confidence 99999999999754
No 9
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=98.79 E-value=4.1e-08 Score=68.31 Aligned_cols=74 Identities=27% Similarity=0.346 Sum_probs=54.1
Q ss_pred HHHHHHHH------HhcCCCEEEEecccHHHHHHHhcccC-CC---hHHHHHHHHHHhccCCceEEEEecCCCCCCccch
Q psy16693 15 QVDLTGTA------EKSECQVYLTPDNSLSALQSIQNVSS-SN---PIAREIRNLLDKNKHVFSLHFTWVPSHVGIAGNE 84 (196)
Q Consensus 15 ~~e~~~~~------~~~~~~~i~I~tDs~sal~~l~~~~~-~~---~~~~~i~~l~~~~~~~~~v~~~WvpgH~gi~gNe 84 (196)
.||+.|+. .+.+..++.|.|||+.+++.|++... .+ .++..|+.+++.+. ++.|.|||. ++|.
T Consensus 3 ~aE~~al~~al~~a~~~g~~~i~v~sDs~~vv~~i~~~~~~~~~~~~~~~~i~~~~~~~~---~~~~~~i~r----~~N~ 75 (87)
T PF13456_consen 3 EAEALALLEALQLAWELGIRKIIVESDSQLVVDAINGRSSSRSELRPLIQDIRSLLDRFW---NVSVSHIPR----EQNK 75 (87)
T ss_dssp HHHHHHHHHHHHHHHCCT-SCEEEEES-HHHHHHHTTSS---SCCHHHHHHHHHHHCCCS---CEEEEE--G----GGSH
T ss_pred HHHHHHHHHHHHHHHHCCCCEEEEEecCccccccccccccccccccccchhhhhhhcccc---ceEEEEECh----HHhH
Confidence 46666643 56788899999999999999998743 22 35566666666544 699999998 9999
Q ss_pred HHhHHHHHHhh
Q psy16693 85 EADRLAKEALS 95 (196)
Q Consensus 85 ~aD~~A~~a~~ 95 (196)
.||.|||.|..
T Consensus 76 ~A~~LA~~a~~ 86 (87)
T PF13456_consen 76 VADALAKFALS 86 (87)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHhh
Confidence 99999999875
No 10
>PRK07708 hypothetical protein; Validated
Probab=98.38 E-value=1.9e-06 Score=71.57 Aligned_cols=78 Identities=18% Similarity=0.173 Sum_probs=55.8
Q ss_pred HHHHHHHHHH------HhcCCC--EEEEecccHHHHHHHhcccC-CCh----HHHHHHHHHHhccCCceEEEEecCCCCC
Q psy16693 13 YYQVDLTGTA------EKSECQ--VYLTPDNSLSALQSIQNVSS-SNP----IAREIRNLLDKNKHVFSLHFTWVPSHVG 79 (196)
Q Consensus 13 ~~~~e~~~~~------~~~~~~--~i~I~tDs~sal~~l~~~~~-~~~----~~~~i~~l~~~~~~~~~v~~~WvpgH~g 79 (196)
...||+.|.. ...+.+ .|.|++||+.+++.+.+.|. .++ +...+.+++..+. ..+.|.|||.
T Consensus 118 NN~AEy~Ali~aL~~A~e~g~~~~~V~I~~DSqlVi~qi~g~wk~~~~~l~~y~~~i~~l~~~~~--l~~~~~~VpR--- 192 (219)
T PRK07708 118 NNEAEYAALYYAMQELEELGVKHEPVTFRGDSQVVLNQLAGEWPCYDEHLNHWLDRIEQKLKQLK--LTPVYEPISR--- 192 (219)
T ss_pred CcHHHHHHHHHHHHHHHHcCCCcceEEEEeccHHHHHHhCCCceeCChhHHHHHHHHHHHHhhCC--ceEEEEECCc---
Confidence 4456666543 334443 48999999999999998764 343 3444555555443 2588899987
Q ss_pred CccchHHhHHHHHHhhc
Q psy16693 80 IAGNEEADRLAKEALSS 96 (196)
Q Consensus 80 i~gNe~aD~~A~~a~~~ 96 (196)
+.|+.||+||++|+..
T Consensus 193 -~~N~~AD~LAk~Al~~ 208 (219)
T PRK07708 193 -KQNKEADQLATQALEG 208 (219)
T ss_pred -hhhhHHHHHHHHHHhc
Confidence 7899999999999987
No 11
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional
Probab=98.31 E-value=2.4e-06 Score=75.74 Aligned_cols=77 Identities=23% Similarity=0.361 Sum_probs=58.8
Q ss_pred HHHHHHHHHH------HhcCCCEEEEecccHHHHHHHhcccC-CCh----HHHHHHHHHHhccCCceEEEEecCCCCCCc
Q psy16693 13 YYQVDLTGTA------EKSECQVYLTPDNSLSALQSIQNVSS-SNP----IAREIRNLLDKNKHVFSLHFTWVPSHVGIA 81 (196)
Q Consensus 13 ~~~~e~~~~~------~~~~~~~i~I~tDs~sal~~l~~~~~-~~~----~~~~i~~l~~~~~~~~~v~~~WvpgH~gi~ 81 (196)
...||+.|+. .+.+..++.|++||+.+++.+.+.+. +++ +..++++++..+. .+.|.|||+ +
T Consensus 45 nn~AE~~All~gL~~a~~~g~~~v~i~~DS~lvi~~i~~~~~~~~~~l~~~~~~i~~l~~~f~---~~~i~~v~r----~ 117 (372)
T PRK07238 45 NNVAEYRGLIAGLEAAAELGATEVEVRMDSKLVVEQMSGRWKVKHPDMKPLAAQARELASQFG---RVTYTWIPR----A 117 (372)
T ss_pred chHHHHHHHHHHHHHHHhCCCCeEEEEeCcHHHHHHhCCCCccCChHHHHHHHHHHHHHhcCC---ceEEEECCc----h
Confidence 3467777654 35667899999999999999988664 432 3345555555544 699999998 8
Q ss_pred cchHHhHHHHHHhhc
Q psy16693 82 GNEEADRLAKEALSS 96 (196)
Q Consensus 82 gNe~aD~~A~~a~~~ 96 (196)
+|+.||.||+.|...
T Consensus 118 ~N~~AD~LA~~a~~~ 132 (372)
T PRK07238 118 RNAHADRLANEAMDA 132 (372)
T ss_pred hhhHHHHHHHHHHHh
Confidence 999999999999755
No 12
>COG0296 GlgB 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]
Probab=47.12 E-value=23 Score=34.03 Aligned_cols=35 Identities=26% Similarity=0.508 Sum_probs=27.4
Q ss_pred HHHHHHHHHh-ccCCceEEEEecCCCCCCccchHHh
Q psy16693 53 AREIRNLLDK-NKHVFSLHFTWVPSHVGIAGNEEAD 87 (196)
Q Consensus 53 ~~~i~~l~~~-~~~~~~v~~~WvpgH~gi~gNe~aD 87 (196)
-...+++++. ...|+-|-+-|||+|.+..||-.+-
T Consensus 213 Pedfk~fVD~aH~~GIgViLD~V~~HF~~d~~~L~~ 248 (628)
T COG0296 213 PEDFKALVDAAHQAGIGVILDWVPNHFPPDGNYLAR 248 (628)
T ss_pred HHHHHHHHHHHHHcCCEEEEEecCCcCCCCcchhhh
Confidence 3567777664 4578899999999999998887663
No 13
>PF05237 MoeZ_MoeB: MoeZ/MoeB domain; InterPro: IPR007901 This putative domain is found in the MoeZ protein and the MoeB protein. The domain has two CXXC motifs that are only partly conserved. MoeZ is necessary for the synthesis of pyridine-2,6-bis(thiocarboxylic acid), a small secreted metabolite that has a high affinity for transition metals, increases iron uptake efficiency by 20% in Pseudomonas stutzeri, has the ability to reduce both soluble and mineral forms of iron, and has antimicrobial activity towards several species of bacteria. MoeB is the molybdopterin synthase activating enzyme in the molybdopterin cofactor biosynthesis pathway. Both these enzymes are members of a superfamily consisting of related but structurally distinct proteins that are members of pathways involved in the transfer of sulphur-containing moieties to metabolites [] and both also contain the UBA/THIF-type NAD/FAD binding fold (IPR000594 from INTERPRO). ; PDB: 1JWA_B 1JW9_B 1JWB_B 1ZKM_D 1ZUD_3 1ZFN_D.
Probab=30.92 E-value=16 Score=25.30 Aligned_cols=10 Identities=30% Similarity=0.564 Sum_probs=3.6
Q ss_pred CCCcc-CCCCC
Q psy16693 185 SPKKL-CLQTH 194 (196)
Q Consensus 185 ~p~C~-Cg~~~ 194 (196)
+|.|+ ||..|
T Consensus 74 ~~~C~~C~~~~ 84 (84)
T PF05237_consen 74 NPDCPVCGPKH 84 (84)
T ss_dssp -TT-TTT----
T ss_pred CccCcCcCcCC
Confidence 89997 98876
No 14
>TIGR01997 sufA_proteo FeS assembly scaffold SufA. This model represents the SufA protein of the SUF system of iron-sulfur cluster biosynthesis. This system performs FeS biosynthesis even during oxidative stress and tends to be absent in obligate anaerobic and microaerophilic bacteria.
Probab=30.55 E-value=34 Score=24.76 Aligned_cols=15 Identities=20% Similarity=0.308 Sum_probs=11.7
Q ss_pred CCCCCCccCCCCCCC
Q psy16693 182 PIVSPKKLCLQTHHL 196 (196)
Q Consensus 182 ~~~~p~C~Cg~~~~~ 196 (196)
|...-.|-||...+|
T Consensus 93 Pn~~~~CgCG~Sf~~ 107 (107)
T TIGR01997 93 PNATSACGCGESFEL 107 (107)
T ss_pred CCCCCccCCCCCccC
Confidence 445788999998765
No 15
>KOG1123|consensus
Probab=24.53 E-value=2.4e+02 Score=27.07 Aligned_cols=31 Identities=6% Similarity=-0.008 Sum_probs=22.5
Q ss_pred HHHHHHHHHhcCCCEEEEecccHHHHHHHhc
Q psy16693 15 QVDLTGTAEKSECQVYLTPDNSLSALQSIQN 45 (196)
Q Consensus 15 ~~e~~~~~~~~~~~~i~I~tDs~sal~~l~~ 45 (196)
+.|.+-.-.+..+.+|++|+||-+||+...-
T Consensus 531 aCqfLI~~HE~RgDKiIVFsDnvfALk~YAi 561 (776)
T KOG1123|consen 531 ACQFLIKFHERRGDKIIVFSDNVFALKEYAI 561 (776)
T ss_pred HHHHHHHHHHhcCCeEEEEeccHHHHHHHHH
Confidence 4454433356789999999999999976443
No 16
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=21.76 E-value=31 Score=21.04 Aligned_cols=19 Identities=16% Similarity=0.060 Sum_probs=11.7
Q ss_pred CcccccCCCCCCCCCCCCcc-CCCCC
Q psy16693 170 SPPMLELPATKKPIVSPKKL-CLQTH 194 (196)
Q Consensus 170 yL~r~~~~~~~~~~~~p~C~-Cg~~~ 194 (196)
||..++-++ .+.|+ ||.++
T Consensus 9 ~l~~~RW~~------g~~CP~Cg~~~ 28 (46)
T PF12760_consen 9 YLEEIRWPD------GFVCPHCGSTK 28 (46)
T ss_pred HHHHhcCCC------CCCCCCCCCee
Confidence 445555556 57786 88653
No 17
>PLN02961 alanine-tRNA ligase
Probab=21.41 E-value=42 Score=27.63 Aligned_cols=11 Identities=45% Similarity=0.492 Sum_probs=9.5
Q ss_pred CCCccCCCCCC
Q psy16693 185 SPKKLCLQTHH 195 (196)
Q Consensus 185 ~p~C~Cg~~~~ 195 (196)
.+.|+||.+|-
T Consensus 186 ~d~~~CgGTHv 196 (223)
T PLN02961 186 SPGCPCGGTHV 196 (223)
T ss_pred CccCccCCccc
Confidence 77899999993
No 18
>PF10580 Neuromodulin_N: Gap junction protein N-terminal region; InterPro: IPR018947 Neuromodulin is a component of the motile growth cones. It is membrane protein whose expression is widely correlated with successful axon elongation []. It is a crucial component of an effective regeneration response in the nervous system []. Although its function is uncertain, the N-terminal region is well conserved and contains both a calmodulin binding domain, and sites for acylation, membrane attachment and protein kinase C phosphorylation. Structure predictions suggest that the C-terminal region may exist as an extended, negatively-charged rod with some similarity to the side arms of neurofilaments, indicating that the biological role of neuromodulin may depend on its ability to form a dynamic membrane-cytoplasm-calmodulin complex []. This entry represents the neuromodulin N-terminal domain.
Probab=20.88 E-value=85 Score=17.89 Aligned_cols=23 Identities=22% Similarity=0.183 Sum_probs=16.8
Q ss_pred ecCCCCCCccchHHhHHHHHHhh
Q psy16693 73 WVPSHVGIAGNEEADRLAKEALS 95 (196)
Q Consensus 73 WvpgH~gi~gNe~aD~~A~~a~~ 95 (196)
-+..+..++-||.||+-..+-..
T Consensus 4 c~r~tk~VEKNeeadQkieqDg~ 26 (32)
T PF10580_consen 4 CIRRTKPVEKNEEADQKIEQDGI 26 (32)
T ss_pred eeeccccccccchhhhhhhhcCC
Confidence 34556778999999997766443
Done!