Query 032246
Match_columns 144
No_of_seqs 154 out of 1113
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 11:33:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032246.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032246hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0721 GatC Asp-tRNAAsn/Glu-t 99.8 1.5E-20 3.2E-25 137.1 7.0 67 56-122 1-68 (96)
2 TIGR00135 gatC glutamyl-tRNA(G 99.8 3.9E-20 8.4E-25 131.8 7.8 65 58-122 1-66 (93)
3 PRK00034 gatC aspartyl/glutamy 99.8 5E-20 1.1E-24 131.0 7.9 67 56-122 1-68 (95)
4 PRK12821 aspartyl/glutamyl-tRN 99.8 1.9E-18 4.1E-23 154.5 8.1 67 56-122 387-455 (477)
5 PRK12820 bifunctional aspartyl 99.6 4.7E-15 1E-19 138.3 8.3 69 53-122 607-676 (706)
6 PF02686 Glu-tRNAGln: Glu-tRNA 99.4 6.9E-14 1.5E-18 94.3 3.6 49 74-122 1-50 (72)
7 TIGR01827 gatC_rel Asp-tRNA(As 98.0 7.6E-06 1.6E-10 57.5 3.6 38 83-122 3-42 (73)
8 KOG4247 Mitochondrial DNA poly 95.2 0.039 8.5E-07 43.7 4.9 65 52-119 42-108 (175)
9 PF13318 DUF4089: Protein of u 83.0 5.4 0.00012 26.1 5.5 41 63-103 2-42 (50)
10 COG3079 Uncharacterized protei 78.3 3.1 6.6E-05 34.3 3.8 38 59-96 127-165 (186)
11 PRK02166 hypothetical protein; 75.3 3 6.5E-05 33.7 3.0 38 58-95 125-162 (184)
12 PRK04758 hypothetical protein; 68.8 5.8 0.00013 32.1 3.2 38 58-95 123-161 (181)
13 PRK01736 hypothetical protein; 66.8 6.9 0.00015 31.5 3.3 37 59-95 128-165 (190)
14 smart00224 GGL G protein gamma 65.0 16 0.00036 24.5 4.4 39 81-124 21-62 (63)
15 PF13833 EF-hand_8: EF-hand do 63.2 10 0.00022 23.3 2.9 31 56-86 3-34 (54)
16 PRK07235 amidase; Provisional 61.7 16 0.00034 33.3 4.9 51 56-107 4-54 (502)
17 PF07128 DUF1380: Protein of u 57.2 13 0.00028 29.4 3.2 33 57-89 26-58 (139)
18 PF05397 Med15_fungi: Mediator 49.2 12 0.00025 28.1 1.7 33 67-99 20-54 (115)
19 PF10256 Erf4: Golgin subfamil 43.4 53 0.0012 23.7 4.4 37 42-91 11-47 (118)
20 PF11181 YflT: Heat induced st 42.7 22 0.00048 25.4 2.3 22 67-88 75-96 (103)
21 PF04201 TPD52: Tumour protein 34.4 60 0.0013 26.3 3.8 30 70-99 22-51 (162)
22 COG4860 Uncharacterized protei 33.8 38 0.00082 27.5 2.5 33 57-91 93-125 (170)
23 PF13499 EF-hand_7: EF-hand do 33.7 18 0.00038 22.8 0.5 34 48-82 8-41 (66)
24 PF09677 TrbI_Ftype: Type-F co 32.5 84 0.0018 23.5 4.0 28 65-92 45-72 (111)
25 PF09754 PAC2: PAC2 family; I 32.3 78 0.0017 24.7 4.1 40 59-98 180-219 (219)
26 KOG4119 G protein gamma subuni 32.3 1.1E+02 0.0023 21.7 4.3 38 79-121 27-66 (71)
27 PRK09458 pspB phage shock prot 30.6 90 0.0019 22.3 3.7 23 48-70 25-48 (75)
28 KOG0030 Myosin essential light 30.4 34 0.00075 27.5 1.7 44 41-85 89-132 (152)
29 PRK13717 conjugal transfer pro 29.6 1E+02 0.0022 24.2 4.1 29 64-92 58-86 (128)
30 cd00051 EFh EF-hand, calcium b 29.6 1.1E+02 0.0024 17.2 4.2 30 56-85 15-44 (63)
31 PF07308 DUF1456: Protein of u 28.7 77 0.0017 21.8 3.1 30 56-85 12-41 (68)
32 PRK06474 hypothetical protein; 28.0 54 0.0012 25.9 2.5 26 70-95 132-157 (178)
33 PRK10870 transcriptional repre 27.2 1E+02 0.0022 24.0 3.9 28 73-100 142-169 (176)
34 TIGR03798 ocin_TIGR03798 bacte 27.2 89 0.0019 20.6 3.1 30 58-87 25-54 (64)
35 COG2047 Uncharacterized protei 26.8 1.3E+02 0.0028 26.1 4.6 39 60-98 202-240 (258)
36 TIGR02744 TrbI_Ftype type-F co 26.7 1.2E+02 0.0026 23.1 4.0 28 65-92 46-73 (112)
37 PF08069 Ribosomal_S13_N: Ribo 26.5 1.3E+02 0.0029 20.5 3.9 30 56-85 26-56 (60)
38 PF14069 SpoVIF: Stage VI spor 24.7 1.6E+02 0.0035 21.1 4.2 25 61-85 35-59 (79)
39 PTZ00373 60S Acidic ribosomal 24.5 1.3E+02 0.0028 22.8 3.9 44 56-99 18-67 (112)
40 PF14842 FliG_N: FliG N-termin 24.5 1.7E+02 0.0036 21.1 4.4 34 57-90 29-64 (108)
41 cd04411 Ribosomal_P1_P2_L12p R 24.4 1.5E+02 0.0033 22.0 4.1 32 56-87 15-46 (105)
42 TIGR00268 conserved hypothetic 23.8 23 0.00049 29.0 -0.4 43 55-97 176-238 (252)
43 PF02969 TAF: TATA box binding 23.6 2.2E+02 0.0049 19.5 4.6 35 56-90 2-37 (66)
44 TIGR00162 conserved hypothetic 23.5 1.8E+02 0.0039 23.3 4.7 40 59-98 130-169 (188)
45 PRK09706 transcriptional repre 22.8 1.2E+02 0.0026 22.3 3.4 40 56-97 83-122 (135)
46 PF00631 G-gamma: GGL domain; 21.7 35 0.00077 22.8 0.3 32 81-119 24-61 (68)
47 PF06580 His_kinase: Histidine 21.7 1.9E+02 0.0042 19.7 4.1 31 62-94 17-47 (82)
48 cd05027 S-100B S-100B: S-100B 20.8 1.4E+02 0.003 20.8 3.2 30 57-86 26-60 (88)
49 cd08318 Death_NMPP84 Death dom 20.7 3E+02 0.0066 19.1 4.9 29 57-85 4-41 (86)
50 PRK14981 DNA-directed RNA poly 20.6 2.3E+02 0.0051 20.9 4.6 29 59-87 80-108 (112)
51 TIGR03544 DivI1A_domain DivIVA 20.5 1.4E+02 0.0031 17.5 2.8 30 59-88 2-32 (34)
52 cd05832 Ribosomal_L12p Ribosom 20.4 1.6E+02 0.0034 22.2 3.6 33 56-88 15-47 (106)
53 PF03670 UPF0184: Uncharacteri 20.2 1.4E+02 0.0031 21.7 3.2 26 73-98 22-47 (83)
No 1
>COG0721 GatC Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit [Translation, ribosomal structure and biogenesis]
Probab=99.82 E-value=1.5e-20 Score=137.13 Aligned_cols=67 Identities=25% Similarity=0.490 Sum_probs=65.3
Q ss_pred CCCChhHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCccCC-CCCCCCCCCccc
Q 032246 56 SSLEPPDVPRLAQTARISLTPHEVEEFAPKIRQVIDWFGQLQDVDLDSVDPALRA-GFKNPFQPPFFF 122 (144)
Q Consensus 56 M~Is~EeVkkLA~LARL~L~EEEle~l~~eLn~IL~~~d~L~eVDTegVEPm~hp-~~~NvLREDv~~ 122 (144)
|.|+.++|+|||+||||+++|+|.+.++.+|++|++||++|+++||+||+|++|+ +..|+||||++.
T Consensus 1 ~~i~~e~v~~la~LarL~lseee~e~~~~~l~~Il~~veql~evD~~~vep~~~~~~~~~~lReD~~~ 68 (96)
T COG0721 1 MAIDREEVKHLAKLARLELSEEELEKFATQLEDILGYVEQLNEVDTEGVEPTTHPLEVSNVLREDEVT 68 (96)
T ss_pred CccCHHHHHHHHHHhhcccCHHHHHHHHHHHHHHHHHHHHHHhccccCCCcccccccccccccCCCCC
Confidence 6799999999999999999999999999999999999999999999999999999 999999999985
No 2
>TIGR00135 gatC glutamyl-tRNA(Gln) and/or aspartyl-tRNA(Asn) amidotransferase, C subunit. This model has been revised to remove the candidate sequence from Methanococcus jannaschii, now part of a related model.
Probab=99.82 E-value=3.9e-20 Score=131.78 Aligned_cols=65 Identities=26% Similarity=0.436 Sum_probs=63.1
Q ss_pred CChhHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCccCC-CCCCCCCCCccc
Q 032246 58 LEPPDVPRLAQTARISLTPHEVEEFAPKIRQVIDWFGQLQDVDLDSVDPALRA-GFKNPFQPPFFF 122 (144)
Q Consensus 58 Is~EeVkkLA~LARL~L~EEEle~l~~eLn~IL~~~d~L~eVDTegVEPm~hp-~~~NvLREDv~~ 122 (144)
||+++|+|||+||||+|+++|++++.++|++|++|+++|+++||+||+||+|+ +..++||||++.
T Consensus 1 i~~~~v~~lA~La~L~l~eee~~~~~~~l~~il~~~~~L~~vdt~~v~p~~~~~~~~~~lReD~~~ 66 (93)
T TIGR00135 1 ISDEEVKHLAKLARLELSEEEAESFAGDLDKILGFVEQLNEVDTENVEPMTHPLEISNVLREDEPE 66 (93)
T ss_pred CCHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHhcCccCCCCcccCccccccCCCCCCCC
Confidence 68999999999999999999999999999999999999999999999999999 888999999985
No 3
>PRK00034 gatC aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed
Probab=99.82 E-value=5e-20 Score=131.00 Aligned_cols=67 Identities=28% Similarity=0.538 Sum_probs=65.3
Q ss_pred CCCChhHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCccCC-CCCCCCCCCccc
Q 032246 56 SSLEPPDVPRLAQTARISLTPHEVEEFAPKIRQVIDWFGQLQDVDLDSVDPALRA-GFKNPFQPPFFF 122 (144)
Q Consensus 56 M~Is~EeVkkLA~LARL~L~EEEle~l~~eLn~IL~~~d~L~eVDTegVEPm~hp-~~~NvLREDv~~ 122 (144)
|+|++++|+|||+||||+++++|++.+.++|++|++|+++|+++||+||+|++|+ +..++||+|++.
T Consensus 1 M~i~~e~i~~la~La~l~l~~ee~~~~~~~l~~il~~~~~l~~vd~~~vep~~~~~~~~~~lReD~~~ 68 (95)
T PRK00034 1 MAITREEVKHLAKLARLELSEEELEKFAGQLNKILDFVEQLNEVDTEGVEPTTHPLDMKNVLREDVVT 68 (95)
T ss_pred CCCCHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCcccCcccccCCCCCCCCC
Confidence 6899999999999999999999999999999999999999999999999999999 889999999984
No 4
>PRK12821 aspartyl/glutamyl-tRNA amidotransferase subunit C-like protein; Provisional
Probab=99.75 E-value=1.9e-18 Score=154.52 Aligned_cols=67 Identities=18% Similarity=0.327 Sum_probs=64.5
Q ss_pred CCCChhHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCccCC--CCCCCCCCCccc
Q 032246 56 SSLEPPDVPRLAQTARISLTPHEVEEFAPKIRQVIDWFGQLQDVDLDSVDPALRA--GFKNPFQPPFFF 122 (144)
Q Consensus 56 M~Is~EeVkkLA~LARL~L~EEEle~l~~eLn~IL~~~d~L~eVDTegVEPm~hp--~~~NvLREDv~~ 122 (144)
+++++|||+|+|+||||+++|||++++.+|+++|++++|+|+|+||+|||||.|| +..|+||||++.
T Consensus 387 ~~ItkEeVkKLAkLARLeLSEEElEkl~~dLn~ILdyVEkLnEVDTegVEPM~hp~e~~~nvLREDeV~ 455 (477)
T PRK12821 387 QQLNKDELKKLARLVMFDLDDAELEKLQVEFKDITSSFKQVEKIDTTNVKPMYAPFSNSPTPLRKDKDV 455 (477)
T ss_pred ccCCHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHcccCcCCCCCcccCcccccCCCCCCCCC
Confidence 6899999999999999999999999999999999999999999999999999999 478999999984
No 5
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=99.57 E-value=4.7e-15 Score=138.26 Aligned_cols=69 Identities=13% Similarity=0.147 Sum_probs=64.5
Q ss_pred CCCCCCChhHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCccCC-CCCCCCCCCccc
Q 032246 53 TTRSSLEPPDVPRLAQTARISLTPHEVEEFAPKIRQVIDWFGQLQDVDLDSVDPALRA-GFKNPFQPPFFF 122 (144)
Q Consensus 53 ~~~M~Is~EeVkkLA~LARL~L~EEEle~l~~eLn~IL~~~d~L~eVDTegVEPm~hp-~~~NvLREDv~~ 122 (144)
.++..=++++|+|||+||||+|+|+|++.++++|++||+||++|++||| +|+||+|| +..|+||||++.
T Consensus 607 ~~~~~~~~~~V~~iA~LARL~l~eeE~~~~~~~L~~IL~~ve~L~evdt-~VeP~~~~~~~~~~lReD~v~ 676 (706)
T PRK12820 607 LPGDAEKEDLIDHLSWVSRIGFAEAERAAIESALADAEELAAQLEDIAC-DEEPLFSPAPAANRMGEGLEA 676 (706)
T ss_pred ccccccchHHHHHHHHHhCcCCCHHHHHHHHHHHHHHHHHHHHHhhccC-CCCCCcCccccccCCCCCcCC
Confidence 3444678999999999999999999999999999999999999999999 59999999 999999999985
No 6
>PF02686 Glu-tRNAGln: Glu-tRNAGln amidotransferase C subunit; InterPro: IPR003837 Glu-tRNAGln amidotransferase is a heterotrimeric enzyme that is required for correct decoding of glutamine codons during translation. The Glu-tRNA Gln amidotransferase enzyme is an important translational fidelity mechanism replacing incorrectly charged Glu-tRNAGln with the correct Gln-tRANGln via transmidation of the misacylated Glu-tRNAGln []. This activity supplements the lack of glutaminyl-tRNA synthetase activity in Gram-positive eubacteria, cyanobacteria, archaea, and organelles [].; GO: 0006450 regulation of translational fidelity; PDB: 2DQN_C 3IP4_C 2G5I_C 2F2A_C 2G5H_C 2DF4_C 3AL0_C 3KFU_G 3H0R_I 3H0L_U ....
Probab=99.44 E-value=6.9e-14 Score=94.27 Aligned_cols=49 Identities=27% Similarity=0.543 Sum_probs=32.8
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCccCC-CCCCCCCCCccc
Q 032246 74 LTPHEVEEFAPKIRQVIDWFGQLQDVDLDSVDPALRA-GFKNPFQPPFFF 122 (144)
Q Consensus 74 L~EEEle~l~~eLn~IL~~~d~L~eVDTegVEPm~hp-~~~NvLREDv~~ 122 (144)
|+|+|++.+.++|++|++||++|+++||+||+||+|+ +..++||+|++.
T Consensus 1 l~eeE~~~~~~~l~~il~~~~~l~~vdt~~v~p~~~~~~~~~~lReD~~~ 50 (72)
T PF02686_consen 1 LTEEELEKLTKQLNDILDYVEKLQEVDTEGVEPMYHPVEMSNPLREDEVE 50 (72)
T ss_dssp --HHHHHHHHHHHHHHHHHHTTGGGS--TT----S-SS-SS--EB-S---
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHhhcccCCCCcccccccccCCCCCCCCC
Confidence 6899999999999999999999999999999999999 999999999973
No 7
>TIGR01827 gatC_rel Asp-tRNA(Asn)/Glu-tRNA(Gln) amidotransferase, subunit C, putative. This model represents a family small family related to GatC, the third subunit of an enzyme for completing the charging of tRNA(Gln) by amidating the Glu-tRNA(Gln). The few known archaea that contain a member of this family appear to produce Asn-tRNA(Asn) by an analogous amidotransferase reaction. This protein is proposed to substitute for GatC in the charging of both tRNAs.
Probab=97.98 E-value=7.6e-06 Score=57.50 Aligned_cols=38 Identities=16% Similarity=0.192 Sum_probs=30.7
Q ss_pred HHHHHHHHH-HHHHhccCCCCCCCCccCC-CCCCCCCCCccc
Q 032246 83 APKIRQVID-WFGQLQDVDLDSVDPALRA-GFKNPFQPPFFF 122 (144)
Q Consensus 83 ~~eLn~IL~-~~d~L~eVDTegVEPm~hp-~~~NvLREDv~~ 122 (144)
.++-.+|++ +-++|++|| ||+||+|+ +..|+||||+..
T Consensus 3 ~~~~~~~~~~~~e~L~evd--~VeP~~~~~~~~n~lReD~~~ 42 (73)
T TIGR01827 3 LKEAEEILEEFSERLEDVD--EEEETYYISDGSNKFREDEEP 42 (73)
T ss_pred HHHHHHHHHHHHHHHHccC--CCCCcccccccccCCCCCcCC
Confidence 344445553 557899999 99999999 999999999985
No 8
>KOG4247 consensus Mitochondrial DNA polymerase accessory subunit [Replication, recombination and repair]
Probab=95.18 E-value=0.039 Score=43.71 Aligned_cols=65 Identities=14% Similarity=0.221 Sum_probs=51.3
Q ss_pred CCCCCCCChhHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCccCC--CCCCCCCCC
Q 032246 52 TTTRSSLEPPDVPRLAQTARISLTPHEVEEFAPKIRQVIDWFGQLQDVDLDSVDPALRA--GFKNPFQPP 119 (144)
Q Consensus 52 ~~~~M~Is~EeVkkLA~LARL~L~EEEle~l~~eLn~IL~~~d~L~eVDTegVEPm~hp--~~~NvLRED 119 (144)
...|-+|+.+.+.|+..|+-..++.|+ ....|..-+.-...|.-||.+|||||-.+ +.+.+-=||
T Consensus 42 lspmpqidaklinhlerlslvrfdseq---avanlrssirvakrlelvdvegvepmhtvwedqecptfed 108 (175)
T KOG4247|consen 42 LSPMPQIDAKLINHLERLSLVRFDSEQ---AVANLRSSIRVAKRLELVDVEGVEPMHTVWEDQECPTFED 108 (175)
T ss_pred cCCcchhhHHHHHHHHhhhheeecHHH---HHHHHHHHHhHHhheeeeeccCccchhhhcccccCCcccc
Confidence 345678999999999999999998776 45677778888899999999999999766 444444444
No 9
>PF13318 DUF4089: Protein of unknown function (DUF4089)
Probab=83.01 E-value=5.4 Score=26.11 Aligned_cols=41 Identities=10% Similarity=0.101 Sum_probs=38.1
Q ss_pred HHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHhccCCCCC
Q 032246 63 VPRLAQTARISLTPHEVEEFAPKIRQVIDWFGQLQDVDLDS 103 (144)
Q Consensus 63 VkkLA~LARL~L~EEEle~l~~eLn~IL~~~d~L~eVDTeg 103 (144)
|+..+.+--|.|+|+-.+.+..++..|..+.+.+.+...++
T Consensus 2 v~~~a~llgL~l~~~~r~~V~~n~~ri~~mA~~v~~fpL~~ 42 (50)
T PF13318_consen 2 VDQMAALLGLPLDEEWRPGVVANFERIAAMAQLVMEFPLPD 42 (50)
T ss_pred HHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHcCCCCc
Confidence 56789999999999999999999999999999999998865
No 10
>COG3079 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=78.27 E-value=3.1 Score=34.29 Aligned_cols=38 Identities=16% Similarity=0.327 Sum_probs=33.1
Q ss_pred ChhHHHHHHHHcCCCCCH-HHHHHHHHHHHHHHHHHHHh
Q 032246 59 EPPDVPRLAQTARISLTP-HEVEEFAPKIRQVIDWFGQL 96 (144)
Q Consensus 59 s~EeVkkLA~LARL~L~E-EEle~l~~eLn~IL~~~d~L 96 (144)
..|-++.++++|++..+| ++.++....+.+|++|+...
T Consensus 127 ~~EaldDL~~iaQlg~Deded~EE~~~~leEiiEyvRva 165 (186)
T COG3079 127 AGEALDDLANIAQLGYDEDEDQEELEESLEEIIEYVRVA 165 (186)
T ss_pred HHHHHHHHHHHHHhcCCccccHHHHHHHHHHHHHHHHHH
Confidence 356789999999999998 78889999999999998754
No 11
>PRK02166 hypothetical protein; Reviewed
Probab=75.34 E-value=3 Score=33.75 Aligned_cols=38 Identities=13% Similarity=0.147 Sum_probs=31.7
Q ss_pred CChhHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHH
Q 032246 58 LEPPDVPRLAQTARISLTPHEVEEFAPKIRQVIDWFGQ 95 (144)
Q Consensus 58 Is~EeVkkLA~LARL~L~EEEle~l~~eLn~IL~~~d~ 95 (144)
=.+|-++.++++|+++.++++-++-...+.+|++|+..
T Consensus 125 e~~E~l~Dl~~Iaql~~d~dd~ee~E~al~Ei~EyvRv 162 (184)
T PRK02166 125 EAKEVLQDLAAISQVQDALEESEDGETDYMEVMEYLRV 162 (184)
T ss_pred HHHHHHHHHHHHHccCCCCCCCchHHHHHHHHHHHHHH
Confidence 34677899999999999877777888889999999864
No 12
>PRK04758 hypothetical protein; Validated
Probab=68.78 E-value=5.8 Score=32.06 Aligned_cols=38 Identities=16% Similarity=0.145 Sum_probs=30.9
Q ss_pred CChhHHHHHHHHcCCCCCH-HHHHHHHHHHHHHHHHHHH
Q 032246 58 LEPPDVPRLAQTARISLTP-HEVEEFAPKIRQVIDWFGQ 95 (144)
Q Consensus 58 Is~EeVkkLA~LARL~L~E-EEle~l~~eLn~IL~~~d~ 95 (144)
=.+|-++.++++|++++++ ++-++-...+.+|++|+..
T Consensus 123 e~~E~L~Dl~~Iaql~~d~~ed~ee~E~al~El~EyvRv 161 (181)
T PRK04758 123 EGEEALQDLARLAQASSDDFDAAEEDDTALAEIEEFVRV 161 (181)
T ss_pred HHHHHHHHHHHHHccCCCcccCchHHHHHHHHHHHHHHH
Confidence 3567789999999999884 4567788899999999863
No 13
>PRK01736 hypothetical protein; Reviewed
Probab=66.76 E-value=6.9 Score=31.52 Aligned_cols=37 Identities=19% Similarity=0.357 Sum_probs=30.8
Q ss_pred ChhHHHHHHHHcCCCCCH-HHHHHHHHHHHHHHHHHHH
Q 032246 59 EPPDVPRLAQTARISLTP-HEVEEFAPKIRQVIDWFGQ 95 (144)
Q Consensus 59 s~EeVkkLA~LARL~L~E-EEle~l~~eLn~IL~~~d~ 95 (144)
.+|-|+.++.+|++++++ ++.++....+.+|++|+..
T Consensus 128 ~~E~l~Dl~~Ia~~~~d~~ed~ee~e~~~~Ei~EyvR~ 165 (190)
T PRK01736 128 TGEAIDDLRNIAQLGYDEDEDQEELAQSLEEVIEYVRV 165 (190)
T ss_pred HHHHHHHHHHHHhcCCCccccchHHHHHHHHHHHHHHH
Confidence 377899999999999875 4567888999999999864
No 14
>smart00224 GGL G protein gamma subunit-like motifs.
Probab=65.00 E-value=16 Score=24.51 Aligned_cols=39 Identities=23% Similarity=0.423 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHhccCCCCCCCCccCC--CCCCCCCC-Cccccc
Q 032246 81 EFAPKIRQVIDWFGQLQDVDLDSVDPALRA--GFKNPFQP-PFFFWV 124 (144)
Q Consensus 81 ~l~~eLn~IL~~~d~L~eVDTegVEPm~hp--~~~NvLRE-Dv~~~~ 124 (144)
...+-..+|++|.++= ..-+|+.++ +..|++|+ |..+|+
T Consensus 21 kvS~a~~~li~y~e~~-----~~~DP~l~g~~~~~NP~~~dk~~c~~ 62 (63)
T smart00224 21 KVSKAAEELLAYCEQH-----AEEDPLLTGPPPSKNPFIEDKTSCWI 62 (63)
T ss_pred hHHHHHHHHHHHHHcC-----CCCCCCcCCCCCCCCCCCCCCCCcCc
Confidence 3556778899999872 233577776 44499999 666664
No 15
>PF13833 EF-hand_8: EF-hand domain pair; PDB: 3KF9_A 1TTX_A 1WLZ_A 1ALV_A 1NX3_A 1ALW_A 1NX2_A 1NX1_A 1NX0_A 1DF0_A ....
Probab=63.23 E-value=10 Score=23.28 Aligned_cols=31 Identities=16% Similarity=0.267 Sum_probs=25.7
Q ss_pred CCCChhHHHHHHHHcCCC-CCHHHHHHHHHHH
Q 032246 56 SSLEPPDVPRLAQTARIS-LTPHEVEEFAPKI 86 (144)
Q Consensus 56 M~Is~EeVkkLA~LARL~-L~EEEle~l~~eL 86 (144)
..|+.++++++...-.+. ++++|++.+...+
T Consensus 3 G~i~~~~~~~~l~~~g~~~~s~~e~~~l~~~~ 34 (54)
T PF13833_consen 3 GKITREEFRRALSKLGIKDLSEEEVDRLFREF 34 (54)
T ss_dssp SEEEHHHHHHHHHHTTSSSSCHHHHHHHHHHH
T ss_pred CEECHHHHHHHHHHhCCCCCCHHHHHHHHHhc
Confidence 358999999999777888 9999988877654
No 16
>PRK07235 amidase; Provisional
Probab=61.74 E-value=16 Score=33.26 Aligned_cols=51 Identities=14% Similarity=0.330 Sum_probs=41.3
Q ss_pred CCCChhHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCc
Q 032246 56 SSLEPPDVPRLAQTARISLTPHEVEEFAPKIRQVIDWFGQLQDVDLDSVDPA 107 (144)
Q Consensus 56 M~Is~EeVkkLA~LARL~L~EEEle~l~~eLn~IL~~~d~L~eVDTegVEPm 107 (144)
...++++++.+|.--.++|++++++++..-++.-++-.|.++++ .+-+++.
T Consensus 4 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ 54 (502)
T PRK07235 4 KRPTLEQLREIAAQFGLDLTDEELASYLSLMQASLDAYDRIDEL-PDEIPPV 54 (502)
T ss_pred CCCCHHHHHHHHHHhCCCCChhhHHHHHHHHHhccCHHHHHHHH-hhccccc
Confidence 45789999999998899999999999999998888877777777 3344333
No 17
>PF07128 DUF1380: Protein of unknown function (DUF1380); InterPro: IPR009811 This family consists of several hypothetical bacterial proteins of around 140 residues in length. Members of this family seem to be specific to Enterobacteria. The function of this family is unknown.
Probab=57.15 E-value=13 Score=29.36 Aligned_cols=33 Identities=24% Similarity=0.283 Sum_probs=28.7
Q ss_pred CCChhHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Q 032246 57 SLEPPDVPRLAQTARISLTPHEVEEFAPKIRQV 89 (144)
Q Consensus 57 ~Is~EeVkkLA~LARL~L~EEEle~l~~eLn~I 89 (144)
-.|++||+++|.=.-.++||+|++.+..++.++
T Consensus 26 IWT~eDV~~~a~gme~~lTd~E~~aVL~~I~~~ 58 (139)
T PF07128_consen 26 IWTREDVRALADGMEYNLTDDEARAVLARIGDI 58 (139)
T ss_pred EecHHHHHHHHhcCCCCCCHHHHHHHHHHHhcC
Confidence 469999999998778999999999988887765
No 18
>PF05397 Med15_fungi: Mediator complex subunit 15; InterPro: IPR008626 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This family represents subunit 15 of the Mediator complex in fungi. It contains Saccharomyces cerevisiae GAL11 (Med15) protein. Gal11 (Med15) and Sin4 (Med16) proteins are S. cerevisiae global transcription factors that regulate transcription of a variety of genes, both positively and negatively. Gal11, in a major part, functions in the activation of transcription, whereas Sin4 has an opposite role [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=49.23 E-value=12 Score=28.13 Aligned_cols=33 Identities=12% Similarity=0.426 Sum_probs=26.7
Q ss_pred HHHcCCC--CCHHHHHHHHHHHHHHHHHHHHhccC
Q 032246 67 AQTARIS--LTPHEVEEFAPKIRQVIDWFGQLQDV 99 (144)
Q Consensus 67 A~LARL~--L~EEEle~l~~eLn~IL~~~d~L~eV 99 (144)
-.+.-+. +++||.+.+.+++.++-+++.+++.+
T Consensus 20 ~~l~~v~~~ls~eeK~~i~~~l~~~~~m~~~vd~l 54 (115)
T PF05397_consen 20 VRLSPVTNSLSPEEKAAIRQQLQEIQDMLARVDSL 54 (115)
T ss_pred CCCCcccccCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456666 99999999999999999888887653
No 19
>PF10256 Erf4: Golgin subfamily A member 7/ERF4 family; InterPro: IPR019383 Proteins in this entry include Golgin subfamily A member 7 and the Ras modification protein ERF4.
Probab=43.40 E-value=53 Score=23.74 Aligned_cols=37 Identities=22% Similarity=0.271 Sum_probs=27.0
Q ss_pred ccCcccCCCCCCCCCCCChhHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Q 032246 42 YNNRTRNCSTTTTRSSLEPPDVPRLAQTARISLTPHEVEEFAPKIRQVID 91 (144)
Q Consensus 42 ~~~~~~~~st~~~~M~Is~EeVkkLA~LARL~L~EEEle~l~~eLn~IL~ 91 (144)
-.+..+.|++.-... |... ++++|-+++.+++|+++.
T Consensus 11 ~~~~~~~Fs~~~P~~------------L~~~-is~~ef~~iI~~IN~~l~ 47 (118)
T PF10256_consen 11 SSGIFPQFSTEYPGE------------LSGY-ISPEEFEEIINTINQILK 47 (118)
T ss_pred CCCcCCccCccCCHh------------hcCC-CCHHHHHHHHHHHHHHHH
Confidence 346667777744432 5555 999999999999999864
No 20
>PF11181 YflT: Heat induced stress protein YflT
Probab=42.71 E-value=22 Score=25.41 Aligned_cols=22 Identities=18% Similarity=0.431 Sum_probs=20.1
Q ss_pred HHHcCCCCCHHHHHHHHHHHHH
Q 032246 67 AQTARISLTPHEVEEFAPKIRQ 88 (144)
Q Consensus 67 A~LARL~L~EEEle~l~~eLn~ 88 (144)
++|.++.|+++|.+.+.+++++
T Consensus 75 ~~l~~lGl~~~ea~~y~~~l~~ 96 (103)
T PF11181_consen 75 SKLESLGLSEDEAERYEEELDQ 96 (103)
T ss_pred HHHHHcCCCHHHHHHHHHHHHC
Confidence 8999999999999999998863
No 21
>PF04201 TPD52: Tumour protein D52 family; InterPro: IPR007327 The hD52 gene was originally identified through its elevated expression level in human breast carcinoma. Cloning of D52 homologues from other species has indicated that D52 may play roles in calcium-mediated signal transduction and cell proliferation. Two human homologues of hD52, hD53 and hD54, have also been identified, demonstrating the existence of a novel gene/protein family []. These proteins have an N-terminal coiled-coil that allows members to form homo- and heterodimers with each other [].
Probab=34.44 E-value=60 Score=26.26 Aligned_cols=30 Identities=23% Similarity=0.324 Sum_probs=25.2
Q ss_pred cCCCCCHHHHHHHHHHHHHHHHHHHHhccC
Q 032246 70 ARISLTPHEVEEFAPKIRQVIDWFGQLQDV 99 (144)
Q Consensus 70 ARL~L~EEEle~l~~eLn~IL~~~d~L~eV 99 (144)
+.-.|+|+|.+++..+|.++-+-+..|.+|
T Consensus 22 ~~~~LsEeE~eeLr~EL~KvEeEI~TLrqv 51 (162)
T PF04201_consen 22 SEEGLSEEEREELRSELAKVEEEIQTLRQV 51 (162)
T ss_pred CcccCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346899999999999999998888888765
No 22
>COG4860 Uncharacterized protein conserved in archaea [Function unknown]
Probab=33.81 E-value=38 Score=27.51 Aligned_cols=33 Identities=21% Similarity=0.357 Sum_probs=25.2
Q ss_pred CCChhHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Q 032246 57 SLEPPDVPRLAQTARISLTPHEVEEFAPKIRQVID 91 (144)
Q Consensus 57 ~Is~EeVkkLA~LARL~L~EEEle~l~~eLn~IL~ 91 (144)
..+-+|+..|-.++- +++||++++.+++.+.++
T Consensus 93 ~~Sl~dL~dii~~~f--~sdeev~ey~~ei~~l~e 125 (170)
T COG4860 93 MGSLSDLADIIYAAF--LSDEEVKEYEDEIKALME 125 (170)
T ss_pred EEeHHHHHHHHHHHh--CCHHHHHHHHHHHHHHHH
Confidence 467888888888876 478998888887776654
No 23
>PF13499 EF-hand_7: EF-hand domain pair; PDB: 1TCF_A 2TN4_A 1TN4_A 1A2X_A 2CT9_B 2OTG_B 2OS8_B 1SNL_A 3O4Y_A 3J04_E ....
Probab=33.69 E-value=18 Score=22.79 Aligned_cols=34 Identities=9% Similarity=0.159 Sum_probs=25.8
Q ss_pred CCCCCCCCCCCChhHHHHHHHHcCCCCCHHHHHHH
Q 032246 48 NCSTTTTRSSLEPPDVPRLAQTARISLTPHEVEEF 82 (144)
Q Consensus 48 ~~st~~~~M~Is~EeVkkLA~LARL~L~EEEle~l 82 (144)
.+.+...+ .|+.+|++++.+......++++.+..
T Consensus 8 ~~D~d~~G-~i~~~el~~~~~~~~~~~~~~~~~~~ 41 (66)
T PF13499_consen 8 KFDKDGDG-YISKEELRRALKHLGRDMSDEESDEM 41 (66)
T ss_dssp HHSTTSSS-EEEHHHHHHHHHHTTSHSTHHHHHHH
T ss_pred HHcCCccC-CCCHHHHHHHHHHhcccccHHHHHHH
Confidence 34444444 79999999999999998887776663
No 24
>PF09677 TrbI_Ftype: Type-F conjugative transfer system protein (TrbI_Ftype); InterPro: IPR014115 This entry represents TrbI, an essential component of the F-type conjugative transfer system for plasmid DNA transfer that has been shown to be localized to the periplasm [, ].
Probab=32.48 E-value=84 Score=23.51 Aligned_cols=28 Identities=36% Similarity=0.472 Sum_probs=23.6
Q ss_pred HHHHHcCCCCCHHHHHHHHHHHHHHHHH
Q 032246 65 RLAQTARISLTPHEVEEFAPKIRQVIDW 92 (144)
Q Consensus 65 kLA~LARL~L~EEEle~l~~eLn~IL~~ 92 (144)
.+..+|+-+++|+|.+.....|+..|+-
T Consensus 45 f~~~~a~~~lt~~q~~a~t~~F~~aL~~ 72 (111)
T PF09677_consen 45 FVQQLARSSLTPEQVEALTQRFMQALEA 72 (111)
T ss_pred HHHHHhccCCCHHHHHHHHHHHHHHHHH
Confidence 4566889999999999999988888863
No 25
>PF09754 PAC2: PAC2 family; InterPro: IPR019151 This PAC2 (Proteasome assembly chaperone) family of proteins is found in bacteria, archaea and eukaryotes. Proteins in this family are typically between 247 and 307 amino acids in length. These proteins function as a chaperone for the 26S proteasome, which is about 2000 kilodaltons (kDa) in molecular mass and contains one 20S core particle structure and two 19S regulatory caps. The 26S proteasome mediates ubiquitin-dependent proteolysis in eukaryotic cells. A number of studies including very recent ones have revealed that assembly of its 20S catalytic core particle is an ordered process that involves several conserved proteasome assembly chaperones (PACs). Two heterodimeric chaperones, PAC1-PAC2 and PAC3-PAC4, promote the assembly of rings composed of seven alpha subunits [, , , ].; PDB: 3MNF_A 2P90_B 3E35_A 3GAA_D 2WAM_C.
Probab=32.32 E-value=78 Score=24.68 Aligned_cols=40 Identities=18% Similarity=0.238 Sum_probs=32.1
Q ss_pred ChhHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHhcc
Q 032246 59 EPPDVPRLAQTARISLTPHEVEEFAPKIRQVIDWFGQLQD 98 (144)
Q Consensus 59 s~EeVkkLA~LARL~L~EEEle~l~~eLn~IL~~~d~L~e 98 (144)
...-++.++++..++++=+++++-.++..+|.+++++|+|
T Consensus 180 A~~ll~~l~~~~~~~id~~~l~~ead~~~e~~~~~~~l~e 219 (219)
T PF09754_consen 180 AARLLEALSKLLGLKIDLSDLEEEADNIEEAEEMVEQLEE 219 (219)
T ss_dssp HHHHHHHHHHHHT---HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhCceeeHHHHHHhcCCHHHHHHHHHHhcC
Confidence 4567899999999999989999889888899999998875
No 26
>KOG4119 consensus G protein gamma subunit [Signal transduction mechanisms]
Probab=32.29 E-value=1.1e+02 Score=21.72 Aligned_cols=38 Identities=16% Similarity=0.253 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHhccCCCCCCCCccCC--CCCCCCCCCcc
Q 032246 79 VEEFAPKIRQVIDWFGQLQDVDLDSVDPALRA--GFKNPFQPPFF 121 (144)
Q Consensus 79 le~l~~eLn~IL~~~d~L~eVDTegVEPm~hp--~~~NvLREDv~ 121 (144)
...+.+--.++++|+++-..=| |+..+ +..|++||-..
T Consensus 27 R~~vS~a~~el~~y~E~~~~~D-----pLl~gv~~~~NPf~e~K~ 66 (71)
T KOG4119|consen 27 RIKVSKAAAELLEYCETHATED-----PLLEGVPEKENPFREKKS 66 (71)
T ss_pred HhhHHHHHHHHHHHHHhcCccC-----ccccCCccccCCCcccCC
Confidence 4445555666777877654333 77666 67799988544
No 27
>PRK09458 pspB phage shock protein B; Provisional
Probab=30.64 E-value=90 Score=22.34 Aligned_cols=23 Identities=22% Similarity=0.278 Sum_probs=15.5
Q ss_pred CCCCCCCC-CCCChhHHHHHHHHc
Q 032246 48 NCSTTTTR-SSLEPPDVPRLAQTA 70 (144)
Q Consensus 48 ~~st~~~~-M~Is~EeVkkLA~LA 70 (144)
||.|+.+. ..+|.+|.+++..|+
T Consensus 25 HY~sk~~~~~~Ls~~d~~~L~~L~ 48 (75)
T PRK09458 25 HYRSKRQGSQGLSQEEQQRLAQLT 48 (75)
T ss_pred hhcccccCCCCCCHHHHHHHHHHH
Confidence 45564433 458999988887765
No 28
>KOG0030 consensus Myosin essential light chain, EF-Hand protein superfamily [Cytoskeleton]
Probab=30.36 E-value=34 Score=27.48 Aligned_cols=44 Identities=20% Similarity=0.236 Sum_probs=36.8
Q ss_pred cccCcccCCCCCCCCCCCChhHHHHHHHHcCCCCCHHHHHHHHHH
Q 032246 41 DYNNRTRNCSTTTTRSSLEPPDVPRLAQTARISLTPHEVEEFAPK 85 (144)
Q Consensus 41 ~~~~~~~~~st~~~~M~Is~EeVkkLA~LARL~L~EEEle~l~~e 85 (144)
++-.++|.|++..++ .|.-.+++||.---==.++|+|++.+..-
T Consensus 89 dfvegLrvFDkeg~G-~i~~aeLRhvLttlGekl~eeEVe~Llag 132 (152)
T KOG0030|consen 89 DFVEGLRVFDKEGNG-TIMGAELRHVLTTLGEKLTEEEVEELLAG 132 (152)
T ss_pred HHHHHHHhhcccCCc-ceeHHHHHHHHHHHHhhccHHHHHHHHcc
Confidence 456789999999988 47888999998877778999999988753
No 29
>PRK13717 conjugal transfer protein TrbI; Provisional
Probab=29.58 E-value=1e+02 Score=24.21 Aligned_cols=29 Identities=3% Similarity=0.183 Sum_probs=24.2
Q ss_pred HHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Q 032246 64 PRLAQTARISLTPHEVEEFAPKIRQVIDW 92 (144)
Q Consensus 64 kkLA~LARL~L~EEEle~l~~eLn~IL~~ 92 (144)
..+..++..+++|++.+.+.+.++..|+-
T Consensus 58 ~F~~Q~~~~~lte~q~e~lt~rF~~aL~~ 86 (128)
T PRK13717 58 AFFDSASQKQLSEAQSKALSARFNTALEA 86 (128)
T ss_pred HHHHHHhccCCCHHHHHHHHHHHHHHHHH
Confidence 34567789999999999999988888774
No 30
>cd00051 EFh EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to the activation or inactivation of target proteins. EF-hands tend to occur in pairs or higher copy numbers.
Probab=29.55 E-value=1.1e+02 Score=17.21 Aligned_cols=30 Identities=10% Similarity=0.262 Sum_probs=24.2
Q ss_pred CCCChhHHHHHHHHcCCCCCHHHHHHHHHH
Q 032246 56 SSLEPPDVPRLAQTARISLTPHEVEEFAPK 85 (144)
Q Consensus 56 M~Is~EeVkkLA~LARL~L~EEEle~l~~e 85 (144)
..|+.+++..+........+++++..+...
T Consensus 15 g~l~~~e~~~~l~~~~~~~~~~~~~~~~~~ 44 (63)
T cd00051 15 GTISADELKAALKSLGEGLSEEEIDEMIRE 44 (63)
T ss_pred CcCcHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence 468999999999988888888877765444
No 31
>PF07308 DUF1456: Protein of unknown function (DUF1456); InterPro: IPR009921 This domain occurs in several hypothetical bacterial proteins of around 150 residues in length. The function of this domain is unknown.
Probab=28.67 E-value=77 Score=21.78 Aligned_cols=30 Identities=17% Similarity=0.225 Sum_probs=26.2
Q ss_pred CCCChhHHHHHHHHcCCCCCHHHHHHHHHH
Q 032246 56 SSLEPPDVPRLAQTARISLTPHEVEEFAPK 85 (144)
Q Consensus 56 M~Is~EeVkkLA~LARL~L~EEEle~l~~e 85 (144)
..++.+++-.|-+|+-..++.+|+..+...
T Consensus 12 l~l~d~~m~~if~l~~~~vs~~el~a~lrk 41 (68)
T PF07308_consen 12 LDLKDDDMIEIFALAGFEVSKAELSAWLRK 41 (68)
T ss_pred HcCChHHHHHHHHHcCCccCHHHHHHHHCC
Confidence 578999999999999999999998877543
No 32
>PRK06474 hypothetical protein; Provisional
Probab=27.98 E-value=54 Score=25.86 Aligned_cols=26 Identities=19% Similarity=0.388 Sum_probs=21.9
Q ss_pred cCCCCCHHHHHHHHHHHHHHHHHHHH
Q 032246 70 ARISLTPHEVEEFAPKIRQVIDWFGQ 95 (144)
Q Consensus 70 ARL~L~EEEle~l~~eLn~IL~~~d~ 95 (144)
..|.+++||.+++.++|+++++-...
T Consensus 132 ~~L~Lt~ee~~el~~el~~ll~~y~~ 157 (178)
T PRK06474 132 VELKLDEEEFEEFQSELNELMIKYYN 157 (178)
T ss_pred eeEecCHHHHHHHHHHHHHHHHHHHh
Confidence 35779999999999999998876643
No 33
>PRK10870 transcriptional repressor MprA; Provisional
Probab=27.18 E-value=1e+02 Score=24.03 Aligned_cols=28 Identities=14% Similarity=0.346 Sum_probs=23.5
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHhccCC
Q 032246 73 SLTPHEVEEFAPKIRQVIDWFGQLQDVD 100 (144)
Q Consensus 73 ~L~EEEle~l~~eLn~IL~~~d~L~eVD 100 (144)
.++++|.+.+..-++++.+.++.+.+-|
T Consensus 142 ~ls~~e~~~l~~~L~kl~~~l~~~~~~~ 169 (176)
T PRK10870 142 ALSTTEKDQLEQITRKLLSRLDQMEQDG 169 (176)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHhhCCCc
Confidence 6899999999999999998888665443
No 34
>TIGR03798 ocin_TIGR03798 bacteriocin propeptide, TIGR03798 family. This model describes a conserved, fairly long (about 65 residue) propeptide region for a family of putative microcins, that is, bacteriocins of small size. Members of the seed alignment tend to have the Gly-Gly motif as the last two residues of the matched region. This is a cleavage site for a combination processing/export ABC transporter with a peptidase domain.
Probab=27.17 E-value=89 Score=20.58 Aligned_cols=30 Identities=20% Similarity=0.341 Sum_probs=24.2
Q ss_pred CChhHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 032246 58 LEPPDVPRLAQTARISLTPHEVEEFAPKIR 87 (144)
Q Consensus 58 Is~EeVkkLA~LARL~L~EEEle~l~~eLn 87 (144)
-+.+++-.+|+=+-.+++++|+.....+|+
T Consensus 25 ~~~e~~~~lA~~~Gf~ft~~el~~~~~els 54 (64)
T TIGR03798 25 EDPEDRVAIAKEAGFEFTGEDLKEAGEELS 54 (64)
T ss_pred CCHHHHHHHHHHcCCCCCHHHHHHHHhhCC
Confidence 468999999999999999999987544443
No 35
>COG2047 Uncharacterized protein (ATP-grasp superfamily) [General function prediction only]
Probab=26.83 E-value=1.3e+02 Score=26.12 Aligned_cols=39 Identities=15% Similarity=0.290 Sum_probs=34.4
Q ss_pred hhHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHhcc
Q 032246 60 PPDVPRLAQTARISLTPHEVEEFAPKIRQVIDWFGQLQD 98 (144)
Q Consensus 60 ~EeVkkLA~LARL~L~EEEle~l~~eLn~IL~~~d~L~e 98 (144)
+.-++.+++.--|+++.+.+++=++++++|++-+..+++
T Consensus 202 kaVL~vl~k~lgiEid~~~Le~RAke~E~ii~k~~emee 240 (258)
T COG2047 202 KAVLEVLCKMLGIEIDMEALEERAKEMEEIIEKLKEMEE 240 (258)
T ss_pred HHHHHHHHHHhCceecHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456889999999999999999999999999988887744
No 36
>TIGR02744 TrbI_Ftype type-F conjugative transfer system protein TrbI. This protein is an essential component of the F-type conjugative transfer sytem for plasmid DNA transfer and has been shown to be localized to the periplasm.
Probab=26.73 E-value=1.2e+02 Score=23.10 Aligned_cols=28 Identities=4% Similarity=0.147 Sum_probs=23.6
Q ss_pred HHHHHcCCCCCHHHHHHHHHHHHHHHHH
Q 032246 65 RLAQTARISLTPHEVEEFAPKIRQVIDW 92 (144)
Q Consensus 65 kLA~LARL~L~EEEle~l~~eLn~IL~~ 92 (144)
.+..++.-+++|+|.++..+.++..|+-
T Consensus 46 F~~q~~~~~lte~q~~~~~~rF~~~L~~ 73 (112)
T TIGR02744 46 FFDSASQKKLSEAQQKALLGRFNALLEA 73 (112)
T ss_pred HHHHHhhcCCCHHHHHHHHHHHHHHHHH
Confidence 3455789999999999999999998853
No 37
>PF08069 Ribosomal_S13_N: Ribosomal S13/S15 N-terminal domain; InterPro: IPR012606 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found at the N terminus of ribosomal S13 and S15 proteins. This domain is also identified as NUC021 [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005840 ribosome; PDB: 3U5C_N 3O30_G 3IZB_O 3O2Z_G 3U5G_N 2XZN_O 2XZM_O 3IZ6_O.
Probab=26.49 E-value=1.3e+02 Score=20.53 Aligned_cols=30 Identities=20% Similarity=0.341 Sum_probs=21.5
Q ss_pred CCCChhHH-HHHHHHcCCCCCHHHHHHHHHH
Q 032246 56 SSLEPPDV-PRLAQTARISLTPHEVEEFAPK 85 (144)
Q Consensus 56 M~Is~EeV-kkLA~LARL~L~EEEle~l~~e 85 (144)
-+.++||| +.|.+||+=.+++.++-.+..|
T Consensus 26 ~~~~~~eVe~~I~klakkG~tpSqIG~iLRD 56 (60)
T PF08069_consen 26 LKYSPEEVEELIVKLAKKGLTPSQIGVILRD 56 (60)
T ss_dssp --S-HHHHHHHHHHHCCTTHCHHHHHHHHHH
T ss_pred cCCCHHHHHHHHHHHHHcCCCHHHhhhhhhh
Confidence 45677777 5689999999999988766544
No 38
>PF14069 SpoVIF: Stage VI sporulation protein F
Probab=24.66 E-value=1.6e+02 Score=21.05 Aligned_cols=25 Identities=8% Similarity=0.183 Sum_probs=18.2
Q ss_pred hHHHHHHHHcCCCCCHHHHHHHHHH
Q 032246 61 PDVPRLAQTARISLTPHEVEEFAPK 85 (144)
Q Consensus 61 EeVkkLA~LARL~L~EEEle~l~~e 85 (144)
.-|+++|.+|.-.++++..+.+.+.
T Consensus 35 ~lIk~vs~~an~~Vs~~~ed~IV~~ 59 (79)
T PF14069_consen 35 QLIKQVSQIANKPVSKEQEDQIVQA 59 (79)
T ss_pred HHHHHHHHHhCCCCCHHHHHHHHHH
Confidence 4467778888888888777766654
No 39
>PTZ00373 60S Acidic ribosomal protein P2; Provisional
Probab=24.55 E-value=1.3e+02 Score=22.79 Aligned_cols=44 Identities=9% Similarity=0.190 Sum_probs=34.9
Q ss_pred CCCChhHHHHHHHHcCCCCCHHHHHHHHHHHHH--HHH----HHHHhccC
Q 032246 56 SSLEPPDVPRLAQTARISLTPHEVEEFAPKIRQ--VID----WFGQLQDV 99 (144)
Q Consensus 56 M~Is~EeVkkLA~LARL~L~EEEle~l~~eLn~--IL~----~~d~L~eV 99 (144)
..+|.++|++|.+-+-++++++.++.+.+.|+. |-+ =-++|..+
T Consensus 18 ~~pTaddI~kIL~AaGveVd~~~~~l~~~~L~GKdI~ELIa~G~~kl~sv 67 (112)
T PTZ00373 18 ENPTKKEVKNVLSAVNADVEDDVLDNFFKSLEGKTPHELIAAGMKKLQNI 67 (112)
T ss_pred CCCCHHHHHHHHHHcCCCccHHHHHHHHHHHcCCCHHHHHHHhHHHHhcc
Confidence 358999999999999999999999999987653 333 33466666
No 40
>PF14842 FliG_N: FliG N-terminal domain; PDB: 3HJL_A 3AJC_A 3USY_B.
Probab=24.49 E-value=1.7e+02 Score=21.15 Aligned_cols=34 Identities=26% Similarity=0.549 Sum_probs=22.5
Q ss_pred CCChhHHHHHHH-HcCCC-CCHHHHHHHHHHHHHHH
Q 032246 57 SLEPPDVPRLAQ-TARIS-LTPHEVEEFAPKIRQVI 90 (144)
Q Consensus 57 ~Is~EeVkkLA~-LARL~-L~EEEle~l~~eLn~IL 90 (144)
.+++++|++|.. .|+|+ ++.++++...+++.+..
T Consensus 29 ~l~~~ei~~i~~~ma~l~~v~~~~~~~Vl~EF~~~~ 64 (108)
T PF14842_consen 29 HLDEEEIERISREMAKLGSVSPEEVEEVLEEFYDEI 64 (108)
T ss_dssp HS-HHHHHHHHHHHHT-----HHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHH
Confidence 468888888864 67776 78888888888887743
No 41
>cd04411 Ribosomal_P1_P2_L12p Ribosomal protein P1, P2, and L12p. Ribosomal proteins P1 and P2 are the eukaryotic proteins that are functionally equivalent to bacterial L7/L12. L12p is the archaeal homolog. Unlike other ribosomal proteins, the archaeal L12p and eukaryotic P1 and P2 do not share sequence similarity with their bacterial counterparts. They are part of the ribosomal stalk (called the L7/L12 stalk in bacteria), along with 28S rRNA and the proteins L11 and P0 in eukaryotes (23S rRNA, L11, and L10e in archaea). In bacterial ribosomes, L7/L12 homodimers bind the extended C-terminal helix of L10 to anchor the L7/L12 molecules to the ribosome. Eukaryotic P1/P2 heterodimers and archaeal L12p homodimers are believed to bind the L10 equivalent proteins, eukaryotic P0 and archaeal L10e, in a similar fashion. P1 and P2 (L12p, L7/L12) are the only proteins in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain
Probab=24.37 E-value=1.5e+02 Score=21.96 Aligned_cols=32 Identities=19% Similarity=0.341 Sum_probs=28.8
Q ss_pred CCCChhHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 032246 56 SSLEPPDVPRLAQTARISLTPHEVEEFAPKIR 87 (144)
Q Consensus 56 M~Is~EeVkkLA~LARL~L~EEEle~l~~eLn 87 (144)
..+|.++|++|.+-+-++++++-+..+.+.|.
T Consensus 15 ~~~ta~~I~~IL~aaGveVe~~~~~~~~~aLa 46 (105)
T cd04411 15 KELTEDKIKELLSAAGAEIEPERVKLFLSALN 46 (105)
T ss_pred CCCCHHHHHHHHHHcCCCcCHHHHHHHHHHHc
Confidence 34999999999999999999999999998853
No 42
>TIGR00268 conserved hypothetical protein TIGR00268. The N-terminal region of the model shows similarity to Argininosuccinate synthase proteins using PSI-blast and using the recognize protein identification server.
Probab=23.79 E-value=23 Score=29.02 Aligned_cols=43 Identities=14% Similarity=0.241 Sum_probs=33.3
Q ss_pred CCCCChhHHHHHH--------------------HHcCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q 032246 55 RSSLEPPDVPRLA--------------------QTARISLTPHEVEEFAPKIRQVIDWFGQLQ 97 (144)
Q Consensus 55 ~M~Is~EeVkkLA--------------------~LARL~L~EEEle~l~~eLn~IL~~~d~L~ 97 (144)
+..+|++.++.+. .+|||+++++|.+.+.+....|.+.+..+.
T Consensus 176 g~~it~~~l~~v~~~E~~l~~~g~~~~rvr~~~~~a~ie~~~~~~~~~~~~~~~i~~~~~~~g 238 (252)
T TIGR00268 176 GREIDEEKLKMVDEAEEVLRNAGVGQVRVRNYDNLAVIEVPEDELSKLLNEAEEVRDKFKDIG 238 (252)
T ss_pred CCcCCHHHHHHHHHHHHHHHHcCCCeEEEEecCCeEEEEECHHHHHHHHhhHHHHHHHHHHcC
Confidence 4678888877765 469999999999999888777777666543
No 43
>PF02969 TAF: TATA box binding protein associated factor (TAF); InterPro: IPR004823 The TATA box binding protein associated factor (TAF) is part of the transcription initiation factor TFIID multimeric protein complex. TFIID plays a central role in mediating promoter responses to various activators and repressors. It binds tightly to TAFII-250 and directly interacts with TAFII-40. TFIID is composed of TATA binding protein (TBP)and a number of TBP-associated factors (TAFS). TAF proteins adopt a histone-like fold.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus; PDB: 1TAF_B.
Probab=23.62 E-value=2.2e+02 Score=19.47 Aligned_cols=35 Identities=17% Similarity=0.290 Sum_probs=23.7
Q ss_pred CCCChhHHHHHHHHcCC-CCCHHHHHHHHHHHHHHH
Q 032246 56 SSLEPPDVPRLAQTARI-SLTPHEVEEFAPKIRQVI 90 (144)
Q Consensus 56 M~Is~EeVkkLA~LARL-~L~EEEle~l~~eLn~IL 90 (144)
..+++|.|+-+|.-.-+ +++||-...++++.+--+
T Consensus 2 s~~~~esvk~iAes~Gi~~l~de~a~~La~dveyrl 37 (66)
T PF02969_consen 2 SVFSQESVKDIAESLGISNLSDEAAKALAEDVEYRL 37 (66)
T ss_dssp ----HHHHHHHHHHTT---B-HHHHHHHHHHHHHHH
T ss_pred CcCCHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHH
Confidence 45788999999999999 899999988888766444
No 44
>TIGR00162 conserved hypothetical protein TIGR00162. This ortholog set includes MJ1210 from Methanococcus jannaschii and AF0525 from Archaeoglobus fulgidus, but not MJ0106 or AF1251.
Probab=23.47 E-value=1.8e+02 Score=23.27 Aligned_cols=40 Identities=13% Similarity=0.254 Sum_probs=32.4
Q ss_pred ChhHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHhcc
Q 032246 59 EPPDVPRLAQTARISLTPHEVEEFAPKIRQVIDWFGQLQD 98 (144)
Q Consensus 59 s~EeVkkLA~LARL~L~EEEle~l~~eLn~IL~~~d~L~e 98 (144)
...-++.|.++.-++++-+++++-++++++.++-+..++|
T Consensus 130 A~alL~~L~kllgl~vd~~~L~e~Ae~ie~~~~~~~~~~~ 169 (188)
T TIGR00162 130 AKAVLEVLCKMLSLEVSVEALEERAKEMEKIIAKIKEMEE 169 (188)
T ss_pred HHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567899999999999999988888888877777766654
No 45
>PRK09706 transcriptional repressor DicA; Reviewed
Probab=22.79 E-value=1.2e+02 Score=22.27 Aligned_cols=40 Identities=18% Similarity=0.181 Sum_probs=30.0
Q ss_pred CCCChhHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHhc
Q 032246 56 SSLEPPDVPRLAQTARISLTPHEVEEFAPKIRQVIDWFGQLQ 97 (144)
Q Consensus 56 M~Is~EeVkkLA~LARL~L~EEEle~l~~eLn~IL~~~d~L~ 97 (144)
..++.++.+-+..... +++++.+.+.+.+...++++|.+-
T Consensus 83 ~~l~~~~~~ll~~~~~--L~~~~~~~~l~~l~~~~~~~~~~~ 122 (135)
T PRK09706 83 VELSEDQKELLELFDA--LPESEQDAQLSEMRARVENFNKLF 122 (135)
T ss_pred CCCCHHHHHHHHHHHH--CCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3466665554444444 789999999999999999998874
No 46
>PF00631 G-gamma: GGL domain; InterPro: IPR015898 This entry represents the G protein gamma subunit and the GGL (G protein gamma-like) domain, which are related in sequence and are comprised of an extended alpha-helical polypeptide. The G protein gamma subunit forms a stable dimer with the beta subunit, but it does not make any contact with the alpha subunit, which contacts the opposite face of the beta subunit. The GGL domain is found in several RGS (regulators of G protein signaling) proteins. GGL domains can interact with beta subunits to form novel dimers that prevent gamma subunit binding, and may prevent heterotrimer formation by inhibiting alpha subunit binding. The interaction between G protein beta-5 neuro-specific isoforms and RGS GGL domains may represent a general mode of binding between beta-propeller proteins and their partners [].; GO: 0004871 signal transducer activity, 0007186 G-protein coupled receptor protein signaling pathway, 0005834 heterotrimeric G-protein complex; PDB: 3PSC_G 3SN6_G 1OMW_G 2BCJ_G 1GG2_G 3PVW_G 3PVU_G 3AH8_G 3CIK_G 1GP2_G ....
Probab=21.68 E-value=35 Score=22.80 Aligned_cols=32 Identities=19% Similarity=0.421 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHhccCCCCCCCCccCC------CCCCCCCCC
Q 032246 81 EFAPKIRQVIDWFGQLQDVDLDSVDPALRA------GFKNPFQPP 119 (144)
Q Consensus 81 ~l~~eLn~IL~~~d~L~eVDTegVEPm~hp------~~~NvLRED 119 (144)
...+-..++++|++ ..-+|+.++ ...|++++|
T Consensus 24 ~vS~a~~~li~y~~-------~~~DPll~~~~~p~~~~~NPw~~~ 61 (68)
T PF00631_consen 24 KVSKACKELIEYCE-------STPDPLLPGPWGPPSSSSNPWIEK 61 (68)
T ss_dssp -HHHHHHHHHHHHH-------GTC-HHHHT--SS--GGGSTTCC-
T ss_pred eHHHHHHHHHHHhc-------CCCCceeCCCCCCCCccCCCCcCC
Confidence 67778889999998 344566555 235999999
No 47
>PF06580 His_kinase: Histidine kinase; InterPro: IPR010559 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This family represents a region within bacterial histidine kinase enzymes. Two-component signal transduction systems such as those mediated by histidine kinase are integral parts of bacterial cellular regulatory processes, and are used to regulate the expression of genes involved in virulence. Members of this family often contain IPR003594 from INTERPRO and/or IPR003660 from INTERPRO.; GO: 0000155 two-component sensor activity, 0000160 two-component signal transduction system (phosphorelay), 0016021 integral to membrane
Probab=21.67 E-value=1.9e+02 Score=19.72 Aligned_cols=31 Identities=16% Similarity=0.309 Sum_probs=24.2
Q ss_pred HHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHH
Q 032246 62 DVPRLAQTARISLTPHEVEEFAPKIRQVIDWFG 94 (144)
Q Consensus 62 eVkkLA~LARL~L~EEEle~l~~eLn~IL~~~d 94 (144)
.+.-|..+++.+ .++..++...|.+++.+.=
T Consensus 17 tLn~I~~l~~~~--~~~~~~~i~~ls~~lRy~l 47 (82)
T PF06580_consen 17 TLNSISWLARID--PEKASEMILSLSDLLRYSL 47 (82)
T ss_pred HHHHHHHHHHcC--HHHHHHHHHHHHHHHHHHh
Confidence 456678888888 8888888888888888753
No 48
>cd05027 S-100B S-100B: S-100B domain found in proteins similar to S100B. S100B is a calcium-binding protein belonging to a large S100 vertebrate-specific protein family within the EF-hand superfamily of calcium-binding proteins. Note that the S-100 hierarchy, to which this S-100B group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100B is most abundant in glial cells of the central nervous system, predominately in astrocytes. S100B is involved in signal transduction via the inhibition of protein phoshorylation, regulation of enzyme activity and by affecting the calcium homeostasis. Upon calcium binding the S100B homodimer changes conformation to expose a hydrophobic cleft, which represents the interaction site of S100B with its more than 20 known target proteins. These target proteins include several cellular architecture proteins such as tubulin and GFAP; S100B can inhibit polymerization of these oligomeric molecules. Furthermore, S100B i
Probab=20.81 E-value=1.4e+02 Score=20.84 Aligned_cols=30 Identities=10% Similarity=0.154 Sum_probs=23.7
Q ss_pred CCChhHHHHHHHH-----cCCCCCHHHHHHHHHHH
Q 032246 57 SLEPPDVPRLAQT-----ARISLTPHEVEEFAPKI 86 (144)
Q Consensus 57 ~Is~EeVkkLA~L-----ARL~L~EEEle~l~~eL 86 (144)
.|+.++++.+.+- .--..++++++++.+++
T Consensus 26 ~I~~~eL~~ll~~~~~~~lg~~~~~~~v~~~i~~~ 60 (88)
T cd05027 26 KLKKSELKELINNELSHFLEEIKEQEVVDKVMETL 60 (88)
T ss_pred EECHHHHHHHHHHHhHHHhcCCCCHHHHHHHHHHh
Confidence 5999999999986 56667888888877654
No 49
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=20.72 E-value=3e+02 Score=19.10 Aligned_cols=29 Identities=7% Similarity=0.266 Sum_probs=21.9
Q ss_pred CCChhHHHHHHHH---------cCCCCCHHHHHHHHHH
Q 032246 57 SLEPPDVPRLAQT---------ARISLTPHEVEEFAPK 85 (144)
Q Consensus 57 ~Is~EeVkkLA~L---------ARL~L~EEEle~l~~e 85 (144)
.+|.+++..||+. -+|++++.|++.+..+
T Consensus 4 ~~t~~~l~~ia~~iG~~Wk~Lar~LGls~~dI~~i~~~ 41 (86)
T cd08318 4 PVTGEQITVFANKLGEDWKTLAPHLEMKDKEIRAIESD 41 (86)
T ss_pred CCCHHHHHHHHHHHhhhHHHHHHHcCCCHHHHHHHHhc
Confidence 4677777777654 2699999999998866
No 50
>PRK14981 DNA-directed RNA polymerase subunit F; Provisional
Probab=20.62 E-value=2.3e+02 Score=20.88 Aligned_cols=29 Identities=17% Similarity=0.406 Sum_probs=13.8
Q ss_pred ChhHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 032246 59 EPPDVPRLAQTARISLTPHEVEEFAPKIR 87 (144)
Q Consensus 59 s~EeVkkLA~LARL~L~EEEle~l~~eLn 87 (144)
|.+|++-|----+..+++|+++++.+.+.
T Consensus 80 ~~dElrai~~~~~~~~~~e~l~~ILd~l~ 108 (112)
T PRK14981 80 TRDELRAIFAKERYTLSPEELDEILDIVK 108 (112)
T ss_pred CHHHHHHHHHHhccCCCHHHHHHHHHHHH
Confidence 34444443333355566555555544443
No 51
>TIGR03544 DivI1A_domain DivIVA domain. This model describes a domain found in Bacillus subtilis cell division initiation protein DivIVA, and homologs, toward the N-terminus. It is also found as a repeated domain in certain other proteins, including family TIGR03543.
Probab=20.54 E-value=1.4e+02 Score=17.46 Aligned_cols=30 Identities=17% Similarity=0.331 Sum_probs=18.0
Q ss_pred ChhHHHHHHHHcC-CCCCHHHHHHHHHHHHH
Q 032246 59 EPPDVPRLAQTAR-ISLTPHEVEEFAPKIRQ 88 (144)
Q Consensus 59 s~EeVkkLA~LAR-L~L~EEEle~l~~eLn~ 88 (144)
|++||++..-=.. =..+++|++.+..++.+
T Consensus 2 t~~dIr~~~F~~~~rGY~~~eVD~fLd~v~~ 32 (34)
T TIGR03544 2 TPEDIRNKRFKKKLRGYDAAEVDAFLDRVAD 32 (34)
T ss_pred CHHHHhhCcCCCCCCCCCHHHHHHHHHHHHH
Confidence 4455554432222 36788888888877754
No 52
>cd05832 Ribosomal_L12p Ribosomal protein L12p. This subfamily includes archaeal L12p, the protein that is functionally equivalent to L7/L12 in bacteria and the P1 and P2 proteins in eukaryotes. L12p is homologous to P1 and P2 but is not homologous to bacterial L7/L12. It is located in the L12 stalk, with proteins L10, L11, and 23S rRNA. L12p is the only protein in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain six copies of L12p (three homodimers), while eukaryotes have four copies (two heterodimers), and bacteria may have four or six copies (two or three homodimers), depending on the species. The organization of proteins within the stalk has been characterized primarily in bacteria, where L7/L12 forms either two or three homodimers and each homodimer binds to the extended C-terminal helix of L10. L7/L12 is attached to the ribosome through L10 and is the only ribosomal protein that does not directly intera
Probab=20.44 E-value=1.6e+02 Score=22.18 Aligned_cols=33 Identities=9% Similarity=0.305 Sum_probs=29.3
Q ss_pred CCCChhHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 032246 56 SSLEPPDVPRLAQTARISLTPHEVEEFAPKIRQ 88 (144)
Q Consensus 56 M~Is~EeVkkLA~LARL~L~EEEle~l~~eLn~ 88 (144)
..+|.++|++|-+-|-++.++.....+...|++
T Consensus 15 ~eITae~I~~IL~AAGveVd~~~~~ala~aL~g 47 (106)
T cd05832 15 KEINEENLKKVLEAAGIEVDEARVKALVAALEE 47 (106)
T ss_pred CCCCHHHHHHHHHHhCCcccHHHHHHHHHHHcC
Confidence 479999999999999999999999988887765
No 53
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=20.24 E-value=1.4e+02 Score=21.65 Aligned_cols=26 Identities=12% Similarity=0.231 Sum_probs=20.9
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHhcc
Q 032246 73 SLTPHEVEEFAPKIRQVIDWFGQLQD 98 (144)
Q Consensus 73 ~L~EEEle~l~~eLn~IL~~~d~L~e 98 (144)
+++++|++.+-..|+.|-..+|.|.+
T Consensus 22 e~~~~E~~~ins~LD~Lns~LD~LE~ 47 (83)
T PF03670_consen 22 EFDEEEYAAINSMLDQLNSCLDHLEQ 47 (83)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45688888888888888888888765
Done!