Query psy11353
Match_columns 76
No_of_seqs 112 out of 1054
Neff 7.7
Searched_HMMs 46136
Date Fri Aug 16 16:13:50 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy11353.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/11353hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PHA02713 hypothetical protein; 99.6 9.2E-16 2E-20 111.7 3.8 57 14-70 4-61 (557)
2 KOG4441|consensus 99.6 2.5E-15 5.5E-20 109.9 3.9 59 12-70 13-71 (571)
3 PHA02790 Kelch-like protein; P 99.3 2.5E-12 5.4E-17 92.2 3.6 45 25-70 12-56 (480)
4 PF00651 BTB: BTB/POZ domain; 99.2 3.2E-12 7E-17 74.5 2.3 43 26-68 1-44 (111)
5 KOG4350|consensus 99.1 2E-11 4.3E-16 87.1 1.9 50 18-67 27-76 (620)
6 PHA03098 kelch-like protein; P 99.1 2.1E-11 4.6E-16 87.6 2.0 39 32-70 6-46 (534)
7 smart00225 BTB Broad-Complex, 98.7 1.2E-08 2.5E-13 56.2 1.9 33 37-69 1-33 (90)
8 KOG4591|consensus 98.6 3.4E-08 7.4E-13 65.4 2.6 51 15-67 46-99 (280)
9 KOG0783|consensus 98.2 1.6E-06 3.6E-11 66.5 4.6 38 32-69 555-592 (1267)
10 KOG2075|consensus 97.9 7.3E-06 1.6E-10 59.5 3.0 55 14-68 93-152 (521)
11 KOG0783|consensus 97.4 8.1E-05 1.8E-09 57.6 1.9 31 35-66 712-742 (1267)
12 KOG2838|consensus 97.1 0.00012 2.6E-09 50.8 0.2 52 19-70 114-165 (401)
13 KOG4682|consensus 96.2 0.0059 1.3E-07 44.2 3.6 41 27-68 61-101 (488)
14 KOG2838|consensus 95.6 0.0025 5.4E-08 44.3 -0.6 47 20-66 220-282 (401)
15 KOG0511|consensus 90.4 0.015 3.3E-07 42.0 -3.6 42 34-75 148-191 (516)
16 KOG3863|consensus 84.1 0.13 2.7E-06 38.9 -2.1 35 25-64 4-38 (604)
17 KOG2716|consensus 79.5 2.6 5.7E-05 28.4 3.1 32 38-69 7-38 (230)
18 PF02214 BTB_2: BTB/POZ domain 77.8 0.77 1.7E-05 25.9 0.1 31 38-68 1-32 (94)
19 KOG0511|consensus 73.4 0.66 1.4E-05 33.8 -1.1 32 36-67 179-210 (516)
20 KOG3342|consensus 70.6 1.3 2.7E-05 28.5 -0.2 19 35-53 80-100 (180)
21 KOG1987|consensus 66.5 2.3 5.1E-05 28.5 0.5 25 44-68 109-133 (297)
22 PF03931 Skp1_POZ: Skp1 family 54.7 22 0.00047 18.6 2.9 33 38-71 3-36 (62)
23 COG1531 Uncharacterized protei 50.8 23 0.00051 20.0 2.7 17 39-55 48-64 (77)
24 PF02772 S-AdoMet_synt_M: S-ad 47.2 64 0.0014 19.6 4.8 49 9-57 20-78 (120)
25 COG0350 Ada Methylated DNA-pro 42.9 14 0.0003 23.5 1.1 13 46-58 136-148 (168)
26 COG1576 Uncharacterized conser 37.7 56 0.0012 20.8 3.2 24 19-44 82-105 (155)
27 TIGR00589 ogt O-6-methylguanin 37.2 12 0.00026 20.9 0.2 12 46-57 50-61 (80)
28 PF01848 HOK_GEF: Hok/gef fami 35.2 64 0.0014 16.1 2.7 21 30-50 20-40 (43)
29 PF04343 DUF488: Protein of un 34.4 23 0.0005 20.9 1.1 19 38-56 101-120 (122)
30 PF11265 Med25_VWA: Mediator c 34.0 42 0.00091 22.6 2.3 25 32-65 10-34 (226)
31 PF11889 DUF3409: Domain of un 33.1 46 0.00099 17.5 1.9 18 34-51 34-51 (56)
32 PRK00901 methylated-DNA--prote 32.5 18 0.00038 22.8 0.3 12 46-57 121-132 (155)
33 PF09593 Pathogen_betaC1: Beta 29.3 1E+02 0.0022 18.7 3.3 20 43-62 20-39 (117)
34 PRK12459 S-adenosylmethionine 27.8 2.3E+02 0.005 20.8 5.3 49 9-57 135-192 (386)
35 PF14242 DUF4342: Domain of un 26.7 1.3E+02 0.0028 17.0 4.5 33 14-46 10-42 (84)
36 TIGR02370 pyl_corrinoid methyl 26.2 92 0.002 20.0 2.9 34 14-47 144-177 (197)
37 cd06445 ATase The DNA repair p 26.1 27 0.00058 19.2 0.3 10 46-55 48-57 (79)
38 PRK10286 O-6-alkylguanine-DNA: 25.0 29 0.00062 22.3 0.4 13 46-58 136-148 (171)
39 PRK09738 small toxic polypepti 24.0 1.2E+02 0.0026 15.8 3.6 23 29-51 24-46 (52)
40 PRK03887 methylated-DNA--prote 23.9 33 0.00071 22.3 0.5 13 46-58 139-151 (175)
41 KOG2714|consensus 23.8 1.2E+02 0.0026 22.7 3.3 30 38-67 13-44 (465)
42 cd02070 corrinoid_protein_B12- 20.2 1.4E+02 0.003 19.1 2.8 33 15-47 143-175 (201)
43 COG1844 Uncharacterized protei 20.1 99 0.0021 19.0 2.0 18 48-65 81-98 (125)
No 1
>PHA02713 hypothetical protein; Provisional
Probab=99.59 E-value=9.2e-16 Score=111.66 Aligned_cols=57 Identities=33% Similarity=0.556 Sum_probs=52.3
Q ss_pred eccchHHHHHHHHHHhhcCCCCeeEEEEeC-CeEEEeEeEEecccCHHHHHhhcCCCC
Q psy11353 14 RWHNYQTSLLATLPQLLDGEDLTDVTLSAG-GRHMKAHKVVLSACSHYFKQLFKVSKS 70 (76)
Q Consensus 14 ~~~~~~~~~~~~l~~~~~~~~~~Dv~l~v~-g~~~~aHr~vLa~~S~~F~~~f~~~~~ 70 (76)
....|...+++.|+++|+++.+|||+|.|+ |+.|+|||+|||++|+||++||+++..
T Consensus 4 ~~~~h~~~~l~~l~~lr~~~~l~DV~L~v~~~~~f~~Hr~vLaa~S~YF~amF~~~~~ 61 (557)
T PHA02713 4 DDIKHNRRVVSNISNLLDDDILCDVIITIGDGEEIKAHKTILAAGSKYFRTLFTTPMI 61 (557)
T ss_pred chhhhhHHHHHHHHHHHhCCCCCCEEEEeCCCCEEeehHHHHhhcCHHHHHHhcCCch
Confidence 356789999999999999999999999998 899999999999999999999987543
No 2
>KOG4441|consensus
Probab=99.56 E-value=2.5e-15 Score=109.86 Aligned_cols=59 Identities=37% Similarity=0.513 Sum_probs=54.8
Q ss_pred EeeccchHHHHHHHHHHhhcCCCCeeEEEEeCCeEEEeEeEEecccCHHHHHhhcCCCC
Q psy11353 12 CLRWHNYQTSLLATLPQLLDGEDLTDVTLSAGGRHMKAHKVVLSACSHYFKQLFKVSKS 70 (76)
Q Consensus 12 ~~~~~~~~~~~~~~l~~~~~~~~~~Dv~l~v~g~~~~aHr~vLa~~S~~F~~~f~~~~~ 70 (76)
.+....|...+++.|+.+|+.+.+|||+|.+++++|+|||+|||++|+|||+||+++..
T Consensus 13 ~~~~~~h~~~~l~~l~~lr~~~~lcDv~L~v~~~~~~aHR~VLAa~S~YFraMFt~~l~ 71 (571)
T KOG4441|consen 13 EFTDPSHSKFLLQGLNELREEGLLCDVTLLVGDREFPAHRVVLAACSPYFRAMFTSGLK 71 (571)
T ss_pred ccccHHHHHHHHHHHHHHHHhCCCceEEEEECCeeechHHHHHHhccHHHHHHhcCCcc
Confidence 45778899999999999999999999999999999999999999999999999997544
No 3
>PHA02790 Kelch-like protein; Provisional
Probab=99.28 E-value=2.5e-12 Score=92.22 Aligned_cols=45 Identities=16% Similarity=0.322 Sum_probs=37.9
Q ss_pred HHHHhhcCCCCeeEEEEeCCeEEEeEeEEecccCHHHHHhhcCCCC
Q psy11353 25 TLPQLLDGEDLTDVTLSAGGRHMKAHKVVLSACSHYFKQLFKVSKS 70 (76)
Q Consensus 25 ~l~~~~~~~~~~Dv~l~v~g~~~~aHr~vLa~~S~~F~~~f~~~~~ 70 (76)
.+-.++..+.+|||++.+|+ +|+|||+|||++|+|||+||+++..
T Consensus 12 ~~~~~~~~~~~~~~~~~~~~-~~~~HR~VLAa~S~YFraMF~~~~~ 56 (480)
T PHA02790 12 NILALSMTKKFKTIIEAIGG-NIIVNSTILKKLSPYFRTHLRQKYT 56 (480)
T ss_pred hHHHHHhhhhhceEEEEcCc-EEeeehhhhhhcCHHHHHHhcCCcc
Confidence 34457888999998877665 8999999999999999999987543
No 4
>PF00651 BTB: BTB/POZ domain; InterPro: IPR013069 The BTB (for BR-C, ttk and bab) [] or POZ (for Pox virus and Zinc finger) [] domain is present near the N terminus of a fraction of zinc finger (IPR007087 from INTERPRO) proteins and in proteins that contain the IPR006652 from INTERPRO motif such as Kelch and a family of pox virus proteins. The BTB/POZ domain mediates homomeric dimerisation and in some instances heteromeric dimerisation []. The structure of the dimerised PLZF BTB/POZ domain has been solved and consists of a tightly intertwined homodimer. The central scaffolding of the protein is made up of a cluster of alpha-helices flanked by short beta-sheets at both the top and bottom of the molecule []. POZ domains from several zinc finger proteins have been shown to mediate transcriptional repression and to interact with components of histone deacetylase co-repressor complexes including N-CoR and SMRT [, , ]. The POZ or BTB domain is also known as BR-C/Ttk or ZiN.; GO: 0005515 protein binding; PDB: 3M5B_A 1R28_B 3LBZ_A 3E4U_F 3BIM_B 1R2B_A 1R29_A 2VPK_A 2YY9_B 3GA1_A ....
Probab=99.25 E-value=3.2e-12 Score=74.50 Aligned_cols=43 Identities=40% Similarity=0.729 Sum_probs=37.6
Q ss_pred HHHhhcCCCCeeEEEEeC-CeEEEeEeEEecccCHHHHHhhcCC
Q psy11353 26 LPQLLDGEDLTDVTLSAG-GRHMKAHKVVLSACSHYFKQLFKVS 68 (76)
Q Consensus 26 l~~~~~~~~~~Dv~l~v~-g~~~~aHr~vLa~~S~~F~~~f~~~ 68 (76)
|+++++++.++|++|.++ |+.|+|||.||+++|+||+.||...
T Consensus 1 ~~~~~~~~~~~D~~i~v~d~~~~~vhk~iL~~~S~~F~~~~~~~ 44 (111)
T PF00651_consen 1 LNDLFNSNEFSDVTIRVGDGKTFYVHKNILAARSPYFRNLFEGS 44 (111)
T ss_dssp HHHHHHHTTS--EEEEETTTEEEEE-HHHHHHHBHHHHHHHTTT
T ss_pred ChHHHcCCCCCCEEEEECCCEEEeechhhhhccchhhhhccccc
Confidence 567889999999999999 8999999999999999999999887
No 5
>KOG4350|consensus
Probab=99.13 E-value=2e-11 Score=87.14 Aligned_cols=50 Identities=30% Similarity=0.511 Sum_probs=45.4
Q ss_pred hHHHHHHHHHHhhcCCCCeeEEEEeCCeEEEeEeEEecccCHHHHHhhcC
Q psy11353 18 YQTSLLATLPQLLDGEDLTDVTLSAGGRHMKAHKVVLSACSHYFKQLFKV 67 (76)
Q Consensus 18 ~~~~~~~~l~~~~~~~~~~Dv~l~v~g~~~~aHr~vLa~~S~~F~~~f~~ 67 (76)
.+.++.+.+..+.-..+++||+++|++++|||||+|||++|+|||+|+-+
T Consensus 27 i~~~fS~~~~~l~~~e~y~DVtfvve~~rfpAHRvILAaRs~yFRAlLYg 76 (620)
T KOG4350|consen 27 ISNNFSQSFDELFTSEDYSDVTFVVEDTRFPAHRVILAARSSYFRALLYG 76 (620)
T ss_pred hccchhHHHHHHhhcCcccceEEEEeccccchhhhhHHHHHHHHHHHHhh
Confidence 45667888889999999999999999999999999999999999999854
No 6
>PHA03098 kelch-like protein; Provisional
Probab=99.13 E-value=2.1e-11 Score=87.61 Aligned_cols=39 Identities=36% Similarity=0.624 Sum_probs=36.3
Q ss_pred CCCCeeEEEEe--CCeEEEeEeEEecccCHHHHHhhcCCCC
Q psy11353 32 GEDLTDVTLSA--GGRHMKAHKVVLSACSHYFKQLFKVSKS 70 (76)
Q Consensus 32 ~~~~~Dv~l~v--~g~~~~aHr~vLa~~S~~F~~~f~~~~~ 70 (76)
++.+|||+|.+ +|+.|+|||.||+++|+||++||++...
T Consensus 6 ~~~~~Dv~l~~~~~~~~~~~Hk~vLaa~S~yF~~mf~~~~~ 46 (534)
T PHA03098 6 LQKFCDESIIIVNGGGIIKVHKIILSSSSEYFKKMFKNNFK 46 (534)
T ss_pred cCCCCCEEEEEEcCCEEEEeHHHHHHhhhHHHHHHHhCCCC
Confidence 78999999998 9999999999999999999999987654
No 7
>smart00225 BTB Broad-Complex, Tramtrack and Bric a brac. Domain in Broad-Complex, Tramtrack and Bric a brac. Also known as POZ (poxvirus and zinc finger) domain. Known to be a protein-protein interaction motif found at the N-termini of several C2H2-type transcription factors as well as Shaw-type potassium channels. Known structure reveals a tightly intertwined dimer formed via interactions between N-terminal strand and helix structures. However in a subset of BTB/POZ domains, these two secondary structures appear to be missing. Be aware SMART predicts BTB/POZ domains without the beta1- and alpha1-secondary structures.
Probab=98.66 E-value=1.2e-08 Score=56.18 Aligned_cols=33 Identities=61% Similarity=0.939 Sum_probs=30.8
Q ss_pred eEEEEeCCeEEEeEeEEecccCHHHHHhhcCCC
Q psy11353 37 DVTLSAGGRHMKAHKVVLSACSHYFKQLFKVSK 69 (76)
Q Consensus 37 Dv~l~v~g~~~~aHr~vLa~~S~~F~~~f~~~~ 69 (76)
|+++.++|+.|++||.+|+++|+||++||.+..
T Consensus 1 dv~i~v~~~~~~~h~~iL~~~s~~f~~~~~~~~ 33 (90)
T smart00225 1 DVTLVVGGKKFKAHKAVLAACSPYFKALFSGDF 33 (90)
T ss_pred CeEEEECCEEEehHHHHHhhcCHHHHHHHcCCC
Confidence 789999999999999999999999999998754
No 8
>KOG4591|consensus
Probab=98.58 E-value=3.4e-08 Score=65.36 Aligned_cols=51 Identities=35% Similarity=0.598 Sum_probs=45.1
Q ss_pred ccchHHHHHHHHHHhhcCCCCeeEEEEeCC---eEEEeEeEEecccCHHHHHhhcC
Q psy11353 15 WHNYQTSLLATLPQLLDGEDLTDVTLSAGG---RHMKAHKVVLSACSHYFKQLFKV 67 (76)
Q Consensus 15 ~~~~~~~~~~~l~~~~~~~~~~Dv~l~v~g---~~~~aHr~vLa~~S~~F~~~f~~ 67 (76)
...+++.++.....++.+++|+|++++++| +.++|||+|||+||++++ |.+
T Consensus 46 ~dSF~SRLLaitadL~Ek~qfSDlk~K~~gns~k~i~AHKfVLAARsD~Wk--faN 99 (280)
T KOG4591|consen 46 PDSFISRLLAITADLLEKEQFSDLKFKFAGNSDKHIPAHKFVLAARSDFWK--FAN 99 (280)
T ss_pred chhHHHHHHHHHHHHhhcccccceeEEecCCccccCchhhhhhhhhcchhh--hcc
Confidence 345789999999999999999999999985 779999999999999997 544
No 9
>KOG0783|consensus
Probab=98.24 E-value=1.6e-06 Score=66.52 Aligned_cols=38 Identities=32% Similarity=0.517 Sum_probs=34.0
Q ss_pred CCCCeeEEEEeCCeEEEeEeEEecccCHHHHHhhcCCC
Q psy11353 32 GEDLTDVTLSAGGRHMKAHKVVLSACSHYFKQLFKVSK 69 (76)
Q Consensus 32 ~~~~~Dv~l~v~g~~~~aHr~vLa~~S~~F~~~f~~~~ 69 (76)
...+.|||+.||++.|+|||+||+++|++||.+|-...
T Consensus 555 ~ds~hDVtf~vg~~~F~aHKfIl~~rs~flrkL~l~~~ 592 (1267)
T KOG0783|consen 555 KDSFHDVTFYVGTSMFHAHKFILCARSSFLRKLLLQKK 592 (1267)
T ss_pred ccccceEEEEecCeecccceEEEEeccHHHHHHHHhhc
Confidence 45789999999999999999999999999999985543
No 10
>KOG2075|consensus
Probab=97.94 E-value=7.3e-06 Score=59.54 Aligned_cols=55 Identities=27% Similarity=0.482 Sum_probs=46.9
Q ss_pred eccchHHHHHHHHHHhhcCCCCeeEEEEeCC-----eEEEeEeEEecccCHHHHHhhcCC
Q psy11353 14 RWHNYQTSLLATLPQLLDGEDLTDVTLSAGG-----RHMKAHKVVLSACSHYFKQLFKVS 68 (76)
Q Consensus 14 ~~~~~~~~~~~~l~~~~~~~~~~Dv~l~v~g-----~~~~aHr~vLa~~S~~F~~~f~~~ 68 (76)
.|..--..+..+.-.++++...+|+.++|++ ..|||||.|||..|.+|.+||.+.
T Consensus 93 nwq~~~~t~~er~~~l~~n~~~adv~fivg~~~~~~q~~paHk~vla~gS~VFdaMf~g~ 152 (521)
T KOG2075|consen 93 NWQAQKETMRERQAALFNNELLADVHFIVGEEDGGSQRIPAHKLVLADGSDVFDAMFYGG 152 (521)
T ss_pred ccccchhhHHHhhHhhccCcccceeEEEeccCCCcccccchhhhhhhcchHHHHHHhccC
Confidence 4555556777788888999999999999974 579999999999999999999764
No 11
>KOG0783|consensus
Probab=97.41 E-value=8.1e-05 Score=57.60 Aligned_cols=31 Identities=42% Similarity=0.636 Sum_probs=26.0
Q ss_pred CeeEEEEeCCeEEEeEeEEecccCHHHHHhhc
Q psy11353 35 LTDVTLSAGGRHMKAHKVVLSACSHYFKQLFK 66 (76)
Q Consensus 35 ~~Dv~l~v~g~~~~aHr~vLa~~S~~F~~~f~ 66 (76)
.|||+++ +|+.|+||+++|++|.+||..||.
T Consensus 712 d~~i~~K-DGkvl~aHkc~L~aRlEYF~smf~ 742 (1267)
T KOG0783|consen 712 DTVIKLK-DGKVLKAHKCFLSARLEYFSSMFQ 742 (1267)
T ss_pred eEEEEec-CCcCcccceeEeeeHHHHHHHHHH
Confidence 3444444 889999999999999999999995
No 12
>KOG2838|consensus
Probab=97.12 E-value=0.00012 Score=50.75 Aligned_cols=52 Identities=19% Similarity=0.255 Sum_probs=43.8
Q ss_pred HHHHHHHHHHhhcCCCCeeEEEEeCCeEEEeEeEEecccCHHHHHhhcCCCC
Q psy11353 19 QTSLLATLPQLLDGEDLTDVTLSAGGRHMKAHKVVLSACSHYFKQLFKVSKS 70 (76)
Q Consensus 19 ~~~~~~~l~~~~~~~~~~Dv~l~v~g~~~~aHr~vLa~~S~~F~~~f~~~~~ 70 (76)
...+++.+...+......|+-|......|+|||++|++++++|+.+.++.++
T Consensus 114 a~sf~kD~ad~ye~k~c~dldiiFkeTcfpahRA~laaRCpffK~l~nsd~e 165 (401)
T KOG2838|consen 114 ANSFLKDFADGYERKVCGDLDIIFKETCFPAHRAFLAARCPFFKILANSDEE 165 (401)
T ss_pred hhHHHHHHhhhhheeeeccceeeeeeccchHHHHHHHhhCcchhhhccCCCC
Confidence 4667777777777778889999999999999999999999999988877554
No 13
>KOG4682|consensus
Probab=96.24 E-value=0.0059 Score=44.21 Aligned_cols=41 Identities=34% Similarity=0.425 Sum_probs=36.1
Q ss_pred HHhhcCCCCeeEEEEeCCeEEEeEeEEecccCHHHHHhhcCC
Q psy11353 27 PQLLDGEDLTDVTLSAGGRHMKAHKVVLSACSHYFKQLFKVS 68 (76)
Q Consensus 27 ~~~~~~~~~~Dv~l~v~g~~~~aHr~vLa~~S~~F~~~f~~~ 68 (76)
..++.++.=+||.|.+-|++|..||.-|.. |+||.+||++.
T Consensus 61 q~lf~q~enSDv~l~alg~eWrlHk~yL~Q-S~yf~smf~Gt 101 (488)
T KOG4682|consen 61 QNLFLQGENSDVILEALGFEWRLHKPYLFQ-SEYFKSMFSGT 101 (488)
T ss_pred HHHHhcCCCcceehhhccceeeeeeeeeec-cHHHHHHhccc
Confidence 456678999999999999999999999976 58999999764
No 14
>KOG2838|consensus
Probab=95.56 E-value=0.0025 Score=44.34 Aligned_cols=47 Identities=28% Similarity=0.434 Sum_probs=33.3
Q ss_pred HHHHHHHHHhhcCCCCeeEEEE--eCC--------------eEEEeEeEEecccCHHHHHhhc
Q psy11353 20 TSLLATLPQLLDGEDLTDVTLS--AGG--------------RHMKAHKVVLSACSHYFKQLFK 66 (76)
Q Consensus 20 ~~~~~~l~~~~~~~~~~Dv~l~--v~g--------------~~~~aHr~vLa~~S~~F~~~f~ 66 (76)
..+-..++.++++..+.|+.|. ++| .+++||++|.+++|++||.++.
T Consensus 220 kkLd~Dmkglfd~~c~~d~li~~ssD~elveafggeeNc~deeikahkai~aaRS~ffRnLL~ 282 (401)
T KOG2838|consen 220 KKLDEDMKGLFDQDCKHDDLIIESSDGELVEAFGGEENCEDEEIKAHKAIAAARSKFFRNLLL 282 (401)
T ss_pred hhhhHHHHHHHHhhcccCcEEEEeccchhhhhcCCcccchhHHHHHHHHHHHhhhHHHHHHHH
Confidence 4444556677776665565553 333 3699999999999999999873
No 15
>KOG0511|consensus
Probab=90.43 E-value=0.015 Score=42.03 Aligned_cols=42 Identities=24% Similarity=0.237 Sum_probs=28.7
Q ss_pred CCeeEEEEe-CCeEEEeEeEEecccCHHHHH-hhcCCCCCcccC
Q psy11353 34 DLTDVTLSA-GGRHMKAHKVVLSACSHYFKQ-LFKVSKSSAEIT 75 (76)
Q Consensus 34 ~~~Dv~l~v-~g~~~~aHr~vLa~~S~~F~~-~f~~~~~~~~i~ 75 (76)
...|+++.+ .|+.|-||++.|+++|.+|.. +-+-.+..++|.
T Consensus 148 ~~~di~f~~q~g~~f~ahkfll~arSs~~~~k~v~~~~~~heI~ 191 (516)
T KOG0511|consen 148 CCHDIDFLQQEGANFDAHKFLLEARSSNYFPKDVMFYVQGHEIE 191 (516)
T ss_pred cccchHHHhhccccccHHHHHHHhhhcccCchhhhhccccCchh
Confidence 456777755 678888999999999886633 333455566663
No 16
>KOG3863|consensus
Probab=84.13 E-value=0.13 Score=38.90 Aligned_cols=35 Identities=31% Similarity=0.494 Sum_probs=30.2
Q ss_pred HHHHhhcCCCCeeEEEEeCCeEEEeEeEEecccCHHHHHh
Q psy11353 25 TLPQLLDGEDLTDVTLSAGGRHMKAHKVVLSACSHYFKQL 64 (76)
Q Consensus 25 ~l~~~~~~~~~~Dv~l~v~g~~~~aHr~vLa~~S~~F~~~ 64 (76)
.++..|+...+||+++.+.+..|.+|+ ++.||..-
T Consensus 4 ~~~~qr~~~~~~~~~~~~~~~~f~~~~-----~~e~~~~~ 38 (604)
T KOG3863|consen 4 SLNDQRKKDVLCDVTAFVERQGFRAHR-----CSEYFTSR 38 (604)
T ss_pred cccccccccccchhHHHHhccccccee-----ccchhhhh
Confidence 467788899999999999999999999 78888543
No 17
>KOG2716|consensus
Probab=79.53 E-value=2.6 Score=28.41 Aligned_cols=32 Identities=28% Similarity=0.519 Sum_probs=28.4
Q ss_pred EEEEeCCeEEEeEeEEecccCHHHHHhhcCCC
Q psy11353 38 VTLSAGGRHMKAHKVVLSACSHYFKQLFKVSK 69 (76)
Q Consensus 38 v~l~v~g~~~~aHr~vLa~~S~~F~~~f~~~~ 69 (76)
|.|-|||..|...+.-|..-..+|++|+....
T Consensus 7 vkLnvGG~~F~Tsk~TLtk~dg~fk~m~e~~i 38 (230)
T KOG2716|consen 7 VKLNVGGTIFKTSKSTLTKFDGFFKTMLETDI 38 (230)
T ss_pred EEEecCCeEEEeehhhhhhhhhHHHHHhhcCC
Confidence 45789999999999999999999999997653
No 18
>PF02214 BTB_2: BTB/POZ domain; InterPro: IPR003131 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. The Kv family can be divided into several subfamilies on the basis of sequence similarity and function. Four of these subfamilies, Kv1 (Shaker), Kv2 (Shab), Kv3 (Shaw) and Kv4 (Shal), consist of pore-forming alpha subunits that associate with different types of beta subunit. Each alpha subunit comprises six hydrophobic TM domains with a P-domain between the fifth and sixth, which partially resides in the membrane. The fourth TM domain has positively charged residues at every third residue and acts as a voltage sensor, which triggers the conformational change that opens the channel pore in response to a displacement in membrane potential []. More recently, 4 new electrically-silent alpha subunits have been cloned: Kv5 (KCNF), Kv6 (KCNG), Kv8 and Kv9 (KCNS). These subunits do not themselves possess any functional activity, but appear to form heteromeric channels with Kv2 subunits, and thus modulate Shab channel activity []. When highly expressed, they inhibit channel activity, but at lower levels show more specific modulatory actions. The N-terminal, cytoplasmic tetramerization domain (T1) of voltage-gated potassium channels encodes molecular determinants for subfamily-specific assembly of alpha-subunits into functional tetrameric channels []. This domain is found in a subset of a larger group of proteins that contain the BTB/POZ domain.; GO: 0005249 voltage-gated potassium channel activity, 0006813 potassium ion transport, 0008076 voltage-gated potassium channel complex, 0016020 membrane; PDB: 1NN7_A 3KVT_A 1EXB_E 1QDV_A 1DSX_E 1QDW_F 3LUT_B 3LNM_B 2A79_B 3DRY_C ....
Probab=77.78 E-value=0.77 Score=25.86 Aligned_cols=31 Identities=23% Similarity=0.383 Sum_probs=25.7
Q ss_pred EEEEeCCeEEEeEeEEec-ccCHHHHHhhcCC
Q psy11353 38 VTLSAGGRHMKAHKVVLS-ACSHYFKQLFKVS 68 (76)
Q Consensus 38 v~l~v~g~~~~aHr~vLa-~~S~~F~~~f~~~ 68 (76)
|.|-|||+.|..-+..|. ....+|.+|+...
T Consensus 1 V~lNVGG~~f~~~~~tL~~~~~s~l~~~~~~~ 32 (94)
T PF02214_consen 1 VRLNVGGTIFETSRSTLTRYPDSLLARLFSGE 32 (94)
T ss_dssp EEEEETTEEEEEEHHHHHTSTTSTTTSHHHTG
T ss_pred CEEEECCEEEEEcHHHHhhCCCChhhhHHhhc
Confidence 678999999999999998 5566888888753
No 19
>KOG0511|consensus
Probab=73.36 E-value=0.66 Score=33.84 Aligned_cols=32 Identities=41% Similarity=0.650 Sum_probs=28.6
Q ss_pred eeEEEEeCCeEEEeEeEEecccCHHHHHhhcC
Q psy11353 36 TDVTLSAGGRHMKAHKVVLSACSHYFKQLFKV 67 (76)
Q Consensus 36 ~Dv~l~v~g~~~~aHr~vLa~~S~~F~~~f~~ 67 (76)
-||.+-+.|++|-+||+++.+.+++|+-+|..
T Consensus 179 k~v~~~~~~heI~~~~v~~~~f~~flk~lyl~ 210 (516)
T KOG0511|consen 179 KDVMFYVQGHEIEAHRVILSAFSPFLKQLYLN 210 (516)
T ss_pred hhhhhccccCchhhhhhhHhhhhHHHHHHHHh
Confidence 47888899999999999999999999988754
No 20
>KOG3342|consensus
Probab=70.61 E-value=1.3 Score=28.52 Aligned_cols=19 Identities=26% Similarity=0.677 Sum_probs=14.5
Q ss_pred CeeEEE-EeCCeEEE-eEeEE
Q psy11353 35 LTDVTL-SAGGRHMK-AHKVV 53 (76)
Q Consensus 35 ~~Dv~l-~v~g~~~~-aHr~v 53 (76)
..|+++ .++|+++| +||+|
T Consensus 80 vGdivVf~vegR~IPiVHRvi 100 (180)
T KOG3342|consen 80 VGDIVVFKVEGREIPIVHRVI 100 (180)
T ss_pred eccEEEEEECCccCchhHHHH
Confidence 446554 89999999 78876
No 21
>KOG1987|consensus
Probab=66.52 E-value=2.3 Score=28.55 Aligned_cols=25 Identities=36% Similarity=0.404 Sum_probs=21.7
Q ss_pred CeEEEeEeEEecccCHHHHHhhcCC
Q psy11353 44 GRHMKAHKVVLSACSHYFKQLFKVS 68 (76)
Q Consensus 44 g~~~~aHr~vLa~~S~~F~~~f~~~ 68 (76)
+..+.+|+++++++++.|++|+...
T Consensus 109 ~g~~~~~~~~~~a~~~V~~~~~~~d 133 (297)
T KOG1987|consen 109 NGFLVAHKLVLVARSEVFEAMGKSD 133 (297)
T ss_pred CcEEEcCceEEEeeecceeeecccc
Confidence 4559999999999999999998654
No 22
>PF03931 Skp1_POZ: Skp1 family, tetramerisation domain; InterPro: IPR016073 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a POZ domain with a core structure consisting of beta(2)/alpha(2)/beta(2)/alpha(2) in two layers, alpha/beta. This domain is found at the N-terminal of SKP1 proteins [] as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. ; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 1LM8_C 2XAI_E 1VCB_E 3ZRC_K 3ZRF_E 3DCG_B 2C9W_C 1LQB_B 2IZV_C 1HV2_A ....
Probab=54.66 E-value=22 Score=18.56 Aligned_cols=33 Identities=15% Similarity=0.231 Sum_probs=23.6
Q ss_pred EEEEe-CCeEEEeEeEEecccCHHHHHhhcCCCCC
Q psy11353 38 VTLSA-GGRHMKAHKVVLSACSHYFKQLFKVSKSS 71 (76)
Q Consensus 38 v~l~v-~g~~~~aHr~vLa~~S~~F~~~f~~~~~~ 71 (76)
|+|+. +|+.|.+-+.++. .|..++.|+......
T Consensus 3 v~L~SsDg~~f~V~~~~a~-~S~~i~~ml~~~~~~ 36 (62)
T PF03931_consen 3 VKLVSSDGQEFEVSREAAK-QSKTIKNMLEDLGDE 36 (62)
T ss_dssp EEEEETTSEEEEEEHHHHT-TSHHHHHHHHCTCCC
T ss_pred EEEEcCCCCEEEeeHHHHH-HhHHHHHHHhhhccc
Confidence 45544 7788888887655 678999999765443
No 23
>COG1531 Uncharacterized protein conserved in archaea [Function unknown]
Probab=50.79 E-value=23 Score=19.98 Aligned_cols=17 Identities=24% Similarity=0.223 Sum_probs=13.2
Q ss_pred EEEeCCeEEEeEeEEec
Q psy11353 39 TLSAGGRHMKAHKVVLS 55 (76)
Q Consensus 39 ~l~v~g~~~~aHr~vLa 55 (76)
.+..+|..+|.||+|--
T Consensus 48 ~~~~~~~~IP~HRIveI 64 (77)
T COG1531 48 YLLYQGTYIPYHRIVEI 64 (77)
T ss_pred EEEecCceeeeEEEEEE
Confidence 55667889999998843
No 24
>PF02772 S-AdoMet_synt_M: S-adenosylmethionine synthetase, central domain; InterPro: IPR022629 The three domains of S-adenosylmethionine synthetase have the same alpha+beta fold. This entry represents the central domain and is found in association with PF00438 from PFAM and PF02773 from PFAM. S-adenosylmethionine synthetase (MAT, 2.5.1.6 from EC) is the enzyme that catalyzes the formation of S-adenosylmethionine (AdoMet) from methionine and ATP []. AdoMet is an important methyl donor for transmethylation and is also the propylamino donor in polyamine biosynthesis. In bacteria there is a single isoform of AdoMet synthetase (gene metK), there are two in budding yeast (genes SAM1 and SAM2) and in mammals while in plants there is generally a multigene family. The sequence of AdoMet synthetase is highly conserved throughout isozymes and species. The active sites of both the Escherichia coli and rat liver MAT reside between two subunits, with contributions from side chains of residues from both subunits, resulting in a dimer as the minimal catalytic entity. The side chains that contribute to the ligand binding sites are conserved between the two proteins. In the structures of complexes with the E. coli enzyme, the phosphate groups have the same positions in the (PPi plus Pi) complex and the (ADP plus Pi) complex, and are located at the bottom of a deep cavity with the adenosyl group nearer the entrance []; GO: 0004478 methionine adenosyltransferase activity; PDB: 3S82_B 2OBV_A 3RV2_A 1FUG_A 1RG9_D 1XRA_A 1P7L_C 1XRB_A 1MXA_A 1MXB_A ....
Probab=47.16 E-value=64 Score=19.60 Aligned_cols=49 Identities=16% Similarity=0.192 Sum_probs=34.2
Q ss_pred cceEeeccchHHHHHHHHHHhhcCCC----Cee----EEEEe--CCeEEEeEeEEeccc
Q psy11353 9 QQFCLRWHNYQTSLLATLPQLLDGED----LTD----VTLSA--GGRHMKAHKVVLSAC 57 (76)
Q Consensus 9 ~~~~~~~~~~~~~~~~~l~~~~~~~~----~~D----v~l~v--~g~~~~aHr~vLa~~ 57 (76)
..|..-....+..+...|..+|+++. ..| |++.. +++....|.+|+++.
T Consensus 20 ~~~MPl~i~lAh~L~~~l~~~R~~~~~~~l~PD~KsQVtveY~~~~~P~ri~tivvS~Q 78 (120)
T PF02772_consen 20 PELMPLPIVLAHRLARRLAEVRKNGELPWLRPDGKSQVTVEYDENGKPVRIDTIVVSTQ 78 (120)
T ss_dssp TTSS-HHHHHHHHHHHHHHHHHHTSSSTTEEEEEEEEEEEEEEETTEEEEEEEEEEEEE
T ss_pred CccCChHHHHHHHHHHHHHHHHhcccCcccCCCcceeEEEeeccCCceeeeeEEEEEec
Confidence 33333333467888999999998764 334 66654 678899999999876
No 25
>COG0350 Ada Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]
Probab=42.93 E-value=14 Score=23.51 Aligned_cols=13 Identities=15% Similarity=0.266 Sum_probs=10.1
Q ss_pred EEEeEeEEecccC
Q psy11353 46 HMKAHKVVLSACS 58 (76)
Q Consensus 46 ~~~aHr~vLa~~S 58 (76)
.+||||+|=+..+
T Consensus 136 iIPCHRVig~~G~ 148 (168)
T COG0350 136 IIPCHRVIGADGD 148 (168)
T ss_pred EecCeEeEcCCCC
Confidence 3999999976653
No 26
>COG1576 Uncharacterized conserved protein [Function unknown]
Probab=37.67 E-value=56 Score=20.82 Aligned_cols=24 Identities=25% Similarity=0.429 Sum_probs=19.4
Q ss_pred HHHHHHHHHHhhcCCCCeeEEEEeCC
Q psy11353 19 QTSLLATLPQLLDGEDLTDVTLSAGG 44 (76)
Q Consensus 19 ~~~~~~~l~~~~~~~~~~Dv~l~v~g 44 (76)
...+...+..++..| .||+|.+||
T Consensus 82 Se~fA~~l~~~~~~G--~~i~f~IGG 105 (155)
T COG1576 82 SEEFADFLERLRDDG--RDISFLIGG 105 (155)
T ss_pred hHHHHHHHHHHHhcC--CeEEEEEeC
Confidence 456667778888888 899999988
No 27
>TIGR00589 ogt O-6-methylguanine DNA methyltransferase. All proteins in this family for which functions are known are involved alkyl-DNA transferases which remove alkyl groups from DNA as part of alkylation DNA repair. Some of the proteins in this family are also transcription regulators and have a distinct transcription regulatory domain. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=37.18 E-value=12 Score=20.94 Aligned_cols=12 Identities=17% Similarity=0.230 Sum_probs=10.0
Q ss_pred EEEeEeEEeccc
Q psy11353 46 HMKAHKVVLSAC 57 (76)
Q Consensus 46 ~~~aHr~vLa~~ 57 (76)
.+||||+|-+..
T Consensus 50 ~iPcHRVv~s~G 61 (80)
T TIGR00589 50 LVPCHRVIGKNG 61 (80)
T ss_pred CCCCceeECCCC
Confidence 689999997765
No 28
>PF01848 HOK_GEF: Hok/gef family; InterPro: IPR000021 The hok/gef family of Gram-negative bacterial proteins are toxic to cells when over-expressed, killing the cells from within by interfering with a vital function in the cell membrane []. Some family members (flm) increase the stability of unstable RNA [], some (pnd) induce the degradation of stable RNA at higher than optimum growth temperatures [], while others affect the release of cellular magnesium by membrane alterations []. The proteins are short (50-70 residues), consisting of an N-terminal hydrophobic (possibly membrane spanning) domain, and a C-terminal periplasmic region, which contains the toxic domain. The C-terminal region contains a conserved cysteine residue that mediates homo-dimerisation in the gef protein, although dimerisation is not necessary for the toxic effect [].; GO: 0016020 membrane
Probab=35.16 E-value=64 Score=16.10 Aligned_cols=21 Identities=19% Similarity=0.434 Sum_probs=17.7
Q ss_pred hcCCCCeeEEEEeCCeEEEeE
Q psy11353 30 LDGEDLTDVTLSAGGRHMKAH 50 (76)
Q Consensus 30 ~~~~~~~Dv~l~v~g~~~~aH 50 (76)
.-.+.+|.+.++.|+.++.|.
T Consensus 20 l~r~sLCEl~i~~g~~evaA~ 40 (43)
T PF01848_consen 20 LTRDSLCELRIKDGNTEVAAF 40 (43)
T ss_pred HhccCcEEEEEecCCEEEEEE
Confidence 346789999999999998875
No 29
>PF04343 DUF488: Protein of unknown function, DUF488; InterPro: IPR007438 This family includes several proteins of uncharacterised function.
Probab=34.36 E-value=23 Score=20.87 Aligned_cols=19 Identities=21% Similarity=0.338 Sum_probs=13.7
Q ss_pred EEEEe-CCeEEEeEeEEecc
Q psy11353 38 VTLSA-GGRHMKAHKVVLSA 56 (76)
Q Consensus 38 v~l~v-~g~~~~aHr~vLa~ 56 (76)
|+|.+ +.....|||.||+.
T Consensus 101 v~LlC~e~dp~~CHR~iLa~ 120 (122)
T PF04343_consen 101 VALLCAEKDPERCHRRILAE 120 (122)
T ss_pred eEEEEEecChhcCcHHHHHH
Confidence 77766 44457799999874
No 30
>PF11265 Med25_VWA: Mediator complex subunit 25 von Willebrand factor type A; InterPro: IPR021419 The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA domain which is this one, an SD2 domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This VWA or von Willebrand factor type A domain when bound to RAR and the histone acetyltransferase CBP is responsible for recruiting Med1 to the rest of the Mediator complex [].
Probab=34.04 E-value=42 Score=22.62 Aligned_cols=25 Identities=20% Similarity=0.295 Sum_probs=20.0
Q ss_pred CCCCeeEEEEeCCeEEEeEeEEecccCHHHHHhh
Q psy11353 32 GEDLTDVTLSAGGRHMKAHKVVLSACSHYFKQLF 65 (76)
Q Consensus 32 ~~~~~Dv~l~v~g~~~~aHr~vLa~~S~~F~~~f 65 (76)
++...||+++|+|. |+-++||..+.
T Consensus 10 ~~~~~~vVfvvEgT---------Aalgpy~~~Lk 34 (226)
T PF11265_consen 10 QPPQAQVVFVVEGT---------AALGPYWNTLK 34 (226)
T ss_pred cCccceEEEEEecc---------hhhhhhHHHHH
Confidence 35678999999997 77888887664
No 31
>PF11889 DUF3409: Domain of unknown function (DUF3409); InterPro: IPR021824 This domain is functionally uncharacterised. This domain is found in viruses. This presumed domain is about 60 amino acids in length. This domain is found associated with PF00271 from PFAM, PF05550 from PFAM, PF05578 from PFAM. ; GO: 0003968 RNA-directed RNA polymerase activity, 0004197 cysteine-type endopeptidase activity, 0004252 serine-type endopeptidase activity, 0016817 hydrolase activity, acting on acid anhydrides, 0017111 nucleoside-triphosphatase activity, 0070008 serine-type exopeptidase activity
Probab=33.09 E-value=46 Score=17.55 Aligned_cols=18 Identities=22% Similarity=0.335 Sum_probs=13.7
Q ss_pred CCeeEEEEeCCeEEEeEe
Q psy11353 34 DLTDVTLSAGGRHMKAHK 51 (76)
Q Consensus 34 ~~~Dv~l~v~g~~~~aHr 51 (76)
.-.|.||+|+|..+.+-+
T Consensus 34 kPPdativv~GvKYQVkK 51 (56)
T PF11889_consen 34 KPPDATIVVDGVKYQVKK 51 (56)
T ss_pred CCCCceEEEeeeEEEEee
Confidence 345899999998877654
No 32
>PRK00901 methylated-DNA--protein-cysteine methyltransferase; Provisional
Probab=32.49 E-value=18 Score=22.84 Aligned_cols=12 Identities=17% Similarity=0.332 Sum_probs=9.6
Q ss_pred EEEeEeEEeccc
Q psy11353 46 HMKAHKVVLSAC 57 (76)
Q Consensus 46 ~~~aHr~vLa~~ 57 (76)
.+||||+|=+..
T Consensus 121 iIPCHRVv~~~G 132 (155)
T PRK00901 121 FIPCHRVIGANG 132 (155)
T ss_pred ccCCceEECCCC
Confidence 489999997665
No 33
>PF09593 Pathogen_betaC1: Beta-satellite pathogenicity beta C1 protein; InterPro: IPR018583 Cotton leaf-curl disease - CLCuD - is of major economic importance in cotton-growing areas of the far-east. The infectious agent appears to be a single-stranded DNA molecule of approx 1350 nucleotides in length, which, when inoculated with the Begomovirus into cotton, induces symptoms typical of CLCuD. This molecule requires the Begomovirus for replication and encapsidation []. DNA beta encodes a single protein, betaC1. The intracellular distribution of betaC1 is consistent with the hypothesis that it has a role in transporting the DNA A of Begomovirus from the nuclear site of replication to the plasmodesmatal exit sites of the infected cell. The DNA beta-encoded protein, betaC1, is the determinant of both pathogenicity and suppression of gene silencing [].
Probab=29.25 E-value=1e+02 Score=18.70 Aligned_cols=20 Identities=15% Similarity=0.041 Sum_probs=17.1
Q ss_pred CCeEEEeEeEEecccCHHHH
Q psy11353 43 GGRHMKAHKVVLSACSHYFK 62 (76)
Q Consensus 43 ~g~~~~aHr~vLa~~S~~F~ 62 (76)
++..+.+|-.+++++||...
T Consensus 20 ~~~~i~V~i~l~ST~sP~l~ 39 (117)
T PF09593_consen 20 EDMSIFVHIQLFSTRSPALI 39 (117)
T ss_pred CCCEEEEEEEEEECCChHHh
Confidence 45789999999999999763
No 34
>PRK12459 S-adenosylmethionine synthetase; Provisional
Probab=27.78 E-value=2.3e+02 Score=20.75 Aligned_cols=49 Identities=24% Similarity=0.198 Sum_probs=34.2
Q ss_pred cceEeeccchHHHHHHHHHHhhcCCCC----ee----EEEEe-CCeEEEeEeEEeccc
Q psy11353 9 QQFCLRWHNYQTSLLATLPQLLDGEDL----TD----VTLSA-GGRHMKAHKVVLSAC 57 (76)
Q Consensus 9 ~~~~~~~~~~~~~~~~~l~~~~~~~~~----~D----v~l~v-~g~~~~aHr~vLa~~ 57 (76)
..+..-.......+.+.|..+|+++.+ .| |++.- +++....|.+|+++.
T Consensus 135 ~~~MPlpi~lAh~l~~~l~~~Rk~g~~~~l~PD~KsQVtv~Y~~~~P~rv~tivvS~Q 192 (386)
T PRK12459 135 PELMPLPIVLAHRLAKRLDQARKDGLLPGLLPDGKTQVTVEYEDGRPVRVDTIVVSAQ 192 (386)
T ss_pred cccCChHHHHHHHHHHHHHHHHhcCCCCeecCCCceEEEEEeeCCceeEEEEEEEeec
Confidence 344333444678888999999987643 23 66654 457788999999886
No 35
>PF14242 DUF4342: Domain of unknown function (DUF4342)
Probab=26.71 E-value=1.3e+02 Score=17.02 Aligned_cols=33 Identities=9% Similarity=0.291 Sum_probs=27.3
Q ss_pred eccchHHHHHHHHHHhhcCCCCeeEEEEeCCeE
Q psy11353 14 RWHNYQTSLLATLPQLLDGEDLTDVTLSAGGRH 46 (76)
Q Consensus 14 ~~~~~~~~~~~~l~~~~~~~~~~Dv~l~v~g~~ 46 (76)
.......++++.+.++.++|.-.-+.++=+++.
T Consensus 10 ~~~~~g~~~~~~iK~li~kGNv~Ri~Ikk~~~t 42 (84)
T PF14242_consen 10 EFQVKGEELVDKIKELIKKGNVTRIIIKKDDKT 42 (84)
T ss_pred eeeecHHHHHHHHHHHHHhcCeEEEEEEcCCeE
Confidence 334457999999999999999999998888854
No 36
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=26.23 E-value=92 Score=20.00 Aligned_cols=34 Identities=12% Similarity=0.018 Sum_probs=26.2
Q ss_pred eccchHHHHHHHHHHhhcCCCCeeEEEEeCCeEE
Q psy11353 14 RWHNYQTSLLATLPQLLDGEDLTDVTLSAGGRHM 47 (76)
Q Consensus 14 ~~~~~~~~~~~~l~~~~~~~~~~Dv~l~v~g~~~ 47 (76)
....+...+.+.+..+++.+...++.+.+||.-|
T Consensus 144 ~~~~~~~~~~~~i~~l~~~~~~~~v~i~vGG~~~ 177 (197)
T TIGR02370 144 LMTTTMYGQKDINDKLKEEGYRDSVKFMVGGAPV 177 (197)
T ss_pred ccccCHHHHHHHHHHHHHcCCCCCCEEEEEChhc
Confidence 3444567777778888888888889999999754
No 37
>cd06445 ATase The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases are specific for repair of guanines with O6-alkyl adducts, however human ATase is not limited to O6-methylguanine, repairing many other adducts at the O6-position of guanine as well. ATase is widely distributed among species. Most ATases have N- and C-terminal domains. The C-terminal domain contains the conserved active-site cysteine motif (PCHR), the O6-alkylguanine binding channel, and the helix-turn-helix (HTH) DNA-binding motif. The active site is located near the recognition helix of the HTH motif. While the C-terminal domain of ATase contains residues that are necessary for DNA binding and alkyl transfer, the function of the N-terminal domain is still unknown. Removal of the N-terminal domain abolishes the activity of
Probab=26.11 E-value=27 Score=19.18 Aligned_cols=10 Identities=40% Similarity=0.534 Sum_probs=8.9
Q ss_pred EEEeEeEEec
Q psy11353 46 HMKAHKVVLS 55 (76)
Q Consensus 46 ~~~aHr~vLa 55 (76)
.+|+||+|-+
T Consensus 48 ~vP~HRVv~~ 57 (79)
T cd06445 48 LIPCHRVVRS 57 (79)
T ss_pred CCCceeEECC
Confidence 6899999987
No 38
>PRK10286 O-6-alkylguanine-DNA:cysteine-protein methyltransferase; Provisional
Probab=25.02 E-value=29 Score=22.33 Aligned_cols=13 Identities=15% Similarity=0.240 Sum_probs=10.1
Q ss_pred EEEeEeEEecccC
Q psy11353 46 HMKAHKVVLSACS 58 (76)
Q Consensus 46 ~~~aHr~vLa~~S 58 (76)
.+||||+|=+..+
T Consensus 136 ~iPCHRVv~~~G~ 148 (171)
T PRK10286 136 VVPCHRVIGRNGT 148 (171)
T ss_pred ccCCceEECCCCC
Confidence 5899999977653
No 39
>PRK09738 small toxic polypeptide; Provisional
Probab=23.97 E-value=1.2e+02 Score=15.76 Aligned_cols=23 Identities=22% Similarity=0.377 Sum_probs=18.9
Q ss_pred hhcCCCCeeEEEEeCCeEEEeEe
Q psy11353 29 LLDGEDLTDVTLSAGGRHMKAHK 51 (76)
Q Consensus 29 ~~~~~~~~Dv~l~v~g~~~~aHr 51 (76)
+.-.+.+|++.+.-|+.++.|.-
T Consensus 24 ~l~r~sLCEl~i~~g~~evaA~L 46 (52)
T PRK09738 24 YLTRKSLCELRYRDGDREVAAFM 46 (52)
T ss_pred HHccCCceEEEEecCCEEEEEEE
Confidence 34567999999999999988764
No 40
>PRK03887 methylated-DNA--protein-cysteine methyltransferase; Provisional
Probab=23.91 E-value=33 Score=22.31 Aligned_cols=13 Identities=23% Similarity=0.217 Sum_probs=10.5
Q ss_pred EEEeEeEEecccC
Q psy11353 46 HMKAHKVVLSACS 58 (76)
Q Consensus 46 ~~~aHr~vLa~~S 58 (76)
.+||||+|=+...
T Consensus 139 ~IPCHRVV~s~G~ 151 (175)
T PRK03887 139 IVPCHRVVGRKNP 151 (175)
T ss_pred ccCCeeEECCCCC
Confidence 5899999987753
No 41
>KOG2714|consensus
Probab=23.78 E-value=1.2e+02 Score=22.72 Aligned_cols=30 Identities=27% Similarity=0.460 Sum_probs=24.4
Q ss_pred EEEEeCCeEEEeEeEEecccC--HHHHHhhcC
Q psy11353 38 VTLSAGGRHMKAHKVVLSACS--HYFKQLFKV 67 (76)
Q Consensus 38 v~l~v~g~~~~aHr~vLa~~S--~~F~~~f~~ 67 (76)
|.|-|||+.|.--+.-|+-.. .+|-++|+.
T Consensus 13 V~lNVGGriF~Ts~qTL~~~~~DSffsaL~s~ 44 (465)
T KOG2714|consen 13 VKLNVGGRIFETSAQTLTWIPRDSFFSALLSG 44 (465)
T ss_pred EEEecCceEEecchhhhhcCCcchHHHHHhcC
Confidence 677899999998888777665 688999863
No 42
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=20.21 E-value=1.4e+02 Score=19.12 Aligned_cols=33 Identities=12% Similarity=0.145 Sum_probs=24.1
Q ss_pred ccchHHHHHHHHHHhhcCCCCeeEEEEeCCeEE
Q psy11353 15 WHNYQTSLLATLPQLLDGEDLTDVTLSAGGRHM 47 (76)
Q Consensus 15 ~~~~~~~~~~~l~~~~~~~~~~Dv~l~v~g~~~ 47 (76)
...+...+.+.+..+++.+...|+.+.+||..+
T Consensus 143 ~~~~~~~~~~~i~~lr~~~~~~~~~i~vGG~~~ 175 (201)
T cd02070 143 MTTTMGGMKEVIEALKEAGLRDKVKVMVGGAPV 175 (201)
T ss_pred ccccHHHHHHHHHHHHHCCCCcCCeEEEECCcC
Confidence 344566777777888887666689999999643
No 43
>COG1844 Uncharacterized protein conserved in archaea [Function unknown]
Probab=20.10 E-value=99 Score=18.96 Aligned_cols=18 Identities=33% Similarity=0.563 Sum_probs=15.6
Q ss_pred EeEeEEecccCHHHHHhh
Q psy11353 48 KAHKVVLSACSHYFKQLF 65 (76)
Q Consensus 48 ~aHr~vLa~~S~~F~~~f 65 (76)
|||-+|+..+.+.|+.++
T Consensus 81 PAHiIVIs~r~dvy~el~ 98 (125)
T COG1844 81 PAHIIVISPRHDVYKELL 98 (125)
T ss_pred CceEEEeCCCchHHHHHH
Confidence 599999999999887654
Done!