Query 025382
Match_columns 253
No_of_seqs 255 out of 1096
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 05:14:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025382.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025382hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00018 AP2 DNA-binding domain 99.8 1E-20 2.3E-25 136.3 7.6 61 82-142 1-61 (61)
2 smart00380 AP2 DNA-binding dom 99.8 2.2E-19 4.8E-24 131.0 8.2 62 83-144 1-62 (64)
3 PHA00280 putative NHN endonucl 99.6 1.5E-15 3.3E-20 124.9 7.3 73 61-136 45-119 (121)
4 PF00847 AP2: AP2 domain; Int 99.1 1.7E-10 3.6E-15 81.1 5.7 52 82-133 1-56 (56)
5 PF14657 Integrase_AP2: AP2-li 80.0 6.7 0.00014 26.6 5.4 38 94-131 1-42 (46)
6 PHA02601 int integrase; Provis 68.6 7.3 0.00016 35.3 4.3 44 86-130 2-46 (333)
7 cd00801 INT_P4 Bacteriophage P 52.5 32 0.0007 30.7 5.4 40 92-131 9-50 (357)
8 PF08846 DUF1816: Domain of un 46.4 46 0.001 25.2 4.5 42 94-135 9-50 (68)
9 PF05036 SPOR: Sporulation rel 44.2 17 0.00036 25.5 1.8 23 105-127 43-65 (76)
10 PF10729 CedA: Cell division a 39.7 57 0.0012 25.2 4.1 40 80-122 29-68 (80)
11 PRK09692 integrase; Provisiona 38.9 86 0.0019 29.7 6.3 34 93-126 41-78 (413)
12 PF13356 DUF4102: Domain of un 34.7 1.2E+02 0.0025 22.9 5.3 38 93-130 35-74 (89)
13 cd04516 TBP_eukaryotes eukaryo 33.8 2E+02 0.0043 25.1 7.2 49 80-131 32-81 (174)
14 PLN00062 TATA-box-binding prot 33.7 2E+02 0.0043 25.3 7.2 50 80-132 32-82 (179)
15 KOG0570 Transcriptional coacti 31.7 26 0.00056 32.0 1.4 22 194-216 44-65 (223)
16 PF00352 TBP: Transcription fa 29.7 1.9E+02 0.0042 21.7 5.8 48 81-131 35-83 (86)
17 PF08471 Ribonuc_red_2_N: Clas 28.0 63 0.0014 26.0 2.9 21 110-130 70-90 (93)
18 cd04517 TLF TBP-like factors ( 24.8 3.2E+02 0.007 23.7 7.0 46 83-131 35-81 (174)
19 PF14112 DUF4284: Domain of un 24.6 48 0.001 27.1 1.7 18 106-123 2-19 (122)
20 PF04508 Pox_A_type_inc: Viral 24.2 49 0.0011 20.2 1.2 14 199-212 4-17 (23)
21 PRK10113 cell division modulat 21.7 74 0.0016 24.5 2.1 38 82-122 31-68 (80)
22 PF09954 DUF2188: Uncharacteri 20.5 2.6E+02 0.0056 19.7 4.7 39 87-129 3-41 (62)
No 1
>cd00018 AP2 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor element essential for ethylene responsiveness. EREBPs and the C-repeat binding factor CBF1, which is involved in stress response, contain a single copy of the AP2 domain. APETALA2-like proteins, which play a role in plant development contain two copies.
Probab=99.83 E-value=1e-20 Score=136.28 Aligned_cols=61 Identities=69% Similarity=1.236 Sum_probs=57.2
Q ss_pred CceeeEEECCCCeEEEEEecCCCCeeeeccCcCCHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q 025382 82 NVYRGIRQRPWGKWAAEIRDPYKGVRVWLGTFNTAEEAARAYDEAAKRIRGDKAKLNFAQP 142 (253)
Q Consensus 82 SgYrGVr~r~~GKW~A~I~~~~~gkri~LGtF~T~EEAArAYD~AA~~l~G~~A~lNFp~~ 142 (253)
|+|+||+++++|||+|+|+++..|+++|||+|+|+||||+|||.++++++|.++.+|||.+
T Consensus 1 s~~~GV~~~~~gkw~A~I~~~~~gk~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~ 61 (61)
T cd00018 1 SKYRGVRQRPWGKWVAEIRDPSGGRRIWLGTFDTAEEAARAYDRAALKLRGSSAVLNFPDS 61 (61)
T ss_pred CCccCEEECCCCcEEEEEEeCCCCceEccCCCCCHHHHHHHHHHHHHHhcCCccccCCCCC
Confidence 6899999888899999999954499999999999999999999999999999999999974
No 2
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.80 E-value=2.2e-19 Score=131.00 Aligned_cols=62 Identities=71% Similarity=1.210 Sum_probs=58.6
Q ss_pred ceeeEEECCCCeEEEEEecCCCCeeeeccCcCCHHHHHHHHHHHHHHhcCCCCCCCCCCCCC
Q 025382 83 VYRGIRQRPWGKWAAEIRDPYKGVRVWLGTFNTAEEAARAYDEAAKRIRGDKAKLNFAQPPP 144 (253)
Q Consensus 83 gYrGVr~r~~GKW~A~I~~~~~gkri~LGtF~T~EEAArAYD~AA~~l~G~~A~lNFp~~~~ 144 (253)
+|+||+++++|||+|+|+++.+|+.+|||+|+|+||||+|||.++++++|.++.+|||.+..
T Consensus 1 ~~kGV~~~~~gkw~A~I~~~~~~k~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~~y 62 (64)
T smart00380 1 KYRGVRQRPWGKWVAEIRDPSKGKRVWLGTFDTAEEAARAYDRAAFKFRGRSARLNFPNSLY 62 (64)
T ss_pred CEeeEEeCCCCeEEEEEEecCCCcEEecCCCCCHHHHHHHHHHHHHHhcCCccccCCCCccC
Confidence 48999988899999999999899999999999999999999999999999999999998654
No 3
>PHA00280 putative NHN endonuclease
Probab=99.60 E-value=1.5e-15 Score=124.88 Aligned_cols=73 Identities=16% Similarity=0.271 Sum_probs=63.2
Q ss_pred hhhhHH-HHHHHhhhhccccCCCceeeEE-ECCCCeEEEEEecCCCCeeeeccCcCCHHHHHHHHHHHHHHhcCCCCC
Q 025382 61 DSSNKA-ARTEWKEKKTQRVRKNVYRGIR-QRPWGKWAAEIRDPYKGVRVWLGTFNTAEEAARAYDEAAKRIRGDKAK 136 (253)
Q Consensus 61 ~~~~~~-~~~~~~~~~~r~~~~SgYrGVr-~r~~GKW~A~I~~~~~gkri~LGtF~T~EEAArAYD~AA~~l~G~~A~ 136 (253)
++-+.. ..+|..|++++++|+|||+||+ .+..|||+|+|++ +||+++||.|+|+|+|+.||+ +++++||+||.
T Consensus 45 ~NLr~~T~~eN~~N~~~~~~N~SG~kGV~~~k~~~kw~A~I~~--~gK~~~lG~f~~~e~A~~a~~-~~~~lhGeFa~ 119 (121)
T PHA00280 45 DNLRLALPKENSWNMKTPKSNTSGLKGLSWSKEREMWRGTVTA--EGKQHNFRSRDLLEVVAWIYR-TRRELHGQFAR 119 (121)
T ss_pred HHhhhcCHHHHhcccCCCCCCCCCCCeeEEecCCCeEEEEEEE--CCEEEEcCCCCCHHHHHHHHH-HHHHHhhcccc
Confidence 344443 5677788888899999999997 4568999999999 999999999999999999997 78899999985
No 4
>PF00847 AP2: AP2 domain; InterPro: IPR001471 Pathogenesis-related genes transcriptional activator binds to the GCC-box pathogenesis-related promoter element and activates the plant's defence genes. Ethylene, chemically the simplest plant hormone, participates in a number of stress responses and developmental processes: e.g., fruit ripening, inhibition of stem and root elongation, promotion of seed germination and flowering, senescence of leaves and flowers, and sex determination []. DNA sequence elements that confer ethylene responsiveness have been shown to contain two 11bp GCC boxes, which are necessary and sufficient for transcriptional control by ethylene. Ethylene responsive element binding proteins (EREBPs) have now been identified in a variety of plants. The proteins share a similar domain of around 59 amino acids, which interacts directly with the GCC box in the ERE.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3IGM_A 3GCC_A 1GCC_A 2GCC_A.
Probab=99.10 E-value=1.7e-10 Score=81.11 Aligned_cols=52 Identities=37% Similarity=0.533 Sum_probs=45.0
Q ss_pred CceeeEEEC-CCCeEEEEEecCC-C--CeeeeccCcCCHHHHHHHHHHHHHHhcCC
Q 025382 82 NVYRGIRQR-PWGKWAAEIRDPY-K--GVRVWLGTFNTAEEAARAYDEAAKRIRGD 133 (253)
Q Consensus 82 SgYrGVr~r-~~GKW~A~I~~~~-~--gkri~LGtF~T~EEAArAYD~AA~~l~G~ 133 (253)
|+|+||++. ..++|+|+|++.. + +++++||.|++++||++||+.+++.++|+
T Consensus 1 s~~~GV~~~~~~~~W~a~i~~~~~~g~~k~f~~g~fg~~~eA~~~a~~~r~~~~~e 56 (56)
T PF00847_consen 1 SGYKGVSWDKRRGRWRAQIRVWSENGKRKRFSVGKFGFEEEAKRAAIEARKELEGE 56 (56)
T ss_dssp SSSTTEEEETTTTEEEEEEEECCCTTEEEEEEECCCCCHHHHHHHHHHHHHHCTS-
T ss_pred CCcEEEEEcCCCCEEEEEEEEcccCcccEEEeCccCCCHHHHHHHHHHHHHHhcCC
Confidence 789999754 4799999999942 2 49999999999999999999999999874
No 5
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=80.03 E-value=6.7 Score=26.60 Aligned_cols=38 Identities=21% Similarity=0.313 Sum_probs=29.4
Q ss_pred eEEEEEe--cCCCC--eeeeccCcCCHHHHHHHHHHHHHHhc
Q 025382 94 KWAAEIR--DPYKG--VRVWLGTFNTAEEAARAYDEAAKRIR 131 (253)
Q Consensus 94 KW~A~I~--~~~~g--kri~LGtF~T~EEAArAYD~AA~~l~ 131 (253)
+|..+|. ++..| ++++-+-|.|..||..+...+...+.
T Consensus 1 ~w~~~v~g~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~~~~~ 42 (46)
T PF14657_consen 1 TWYYRVYGYDDETGKRKQKTKRGFKTKKEAEKALAKIEAELE 42 (46)
T ss_pred CEEEEEEEEECCCCCEEEEEcCCCCcHHHHHHHHHHHHHHHH
Confidence 5888883 43344 66888999999999999988776654
No 6
>PHA02601 int integrase; Provisional
Probab=68.61 E-value=7.3 Score=35.28 Aligned_cols=44 Identities=27% Similarity=0.354 Sum_probs=31.0
Q ss_pred eEEECCCCeEEEEEecC-CCCeeeeccCcCCHHHHHHHHHHHHHHh
Q 025382 86 GIRQRPWGKWAAEIRDP-YKGVRVWLGTFNTAEEAARAYDEAAKRI 130 (253)
Q Consensus 86 GVr~r~~GKW~A~I~~~-~~gkri~LGtF~T~EEAArAYD~AA~~l 130 (253)
+|++.++|+|+++++.. ..|+++.. +|.|..||....+.....+
T Consensus 2 ~~~~~~~g~w~~~~~~~~~~g~r~~~-~f~tk~eA~~~~~~~~~~~ 46 (333)
T PHA02601 2 AVRKLKDGKWLCEIYPNGRDGKRIRK-RFATKGEALAFENYTMAEV 46 (333)
T ss_pred ceEEcCCCCEEEEEEECCCCCchhhh-hhcCHHHHHHHHHHHHHhc
Confidence 56667789999999862 24777654 6999999876665554444
No 7
>cd00801 INT_P4 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall reaction mechanism with the superfamily of DNA breaking-rejoining enzymes. The P4 integrase mediates integrative and excisive site-specific recombination between two sites, called attachment sites, located on the phage genome and the bacterial chromosome. The phage attachment site is often found adjacent to the integrase gene, while the host attachment sites are typically situated near tRNA genes.
Probab=52.48 E-value=32 Score=30.65 Aligned_cols=40 Identities=28% Similarity=0.307 Sum_probs=28.7
Q ss_pred CCeEEEEEecCCCCeeeeccCcC--CHHHHHHHHHHHHHHhc
Q 025382 92 WGKWAAEIRDPYKGVRVWLGTFN--TAEEAARAYDEAAKRIR 131 (253)
Q Consensus 92 ~GKW~A~I~~~~~gkri~LGtF~--T~EEAArAYD~AA~~l~ 131 (253)
.+.|+.+++...+.+++.||+|. |.++|..........+.
T Consensus 9 ~~~~~~~~~~~g~~~~~~~g~~~~~~~~~A~~~~~~~~~~~~ 50 (357)
T cd00801 9 SKSWRFRYRLAGKRKRLTLGSYPAVSLAEAREKADEARALLA 50 (357)
T ss_pred CEEEEEEeccCCceeEEeCcCCCCCCHHHHHHHHHHHHHHHH
Confidence 46799999995455567899995 77777777666555553
No 8
>PF08846 DUF1816: Domain of unknown function (DUF1816); InterPro: IPR014945 Q4C9H3 from SWISSPROT is associated with the IPR008213 from INTERPRO domain suggesting this protein could have a role in phycobilisomes.
Probab=46.35 E-value=46 Score=25.21 Aligned_cols=42 Identities=24% Similarity=0.426 Sum_probs=33.4
Q ss_pred eEEEEEecCCCCeeeeccCcCCHHHHHHHHHHHHHHhcCCCC
Q 025382 94 KWAAEIRDPYKGVRVWLGTFNTAEEAARAYDEAAKRIRGDKA 135 (253)
Q Consensus 94 KW~A~I~~~~~gkri~LGtF~T~EEAArAYD~AA~~l~G~~A 135 (253)
-|-++|.--.-.-..|-|-|.|.+||..+.-.-...+..+.|
T Consensus 9 aWWveI~T~~P~ctYyFGPF~s~~eA~~~~~gyieDL~~Ega 50 (68)
T PF08846_consen 9 AWWVEIETQNPNCTYYFGPFDSREEAEAALPGYIEDLESEGA 50 (68)
T ss_pred cEEEEEEcCCCCEEEEeCCcCCHHHHHHHhccHHHHHHhhCc
Confidence 477899884446789999999999999998777777766554
No 9
>PF05036 SPOR: Sporulation related domain; InterPro: IPR007730 This 70 residue domain is composed of two 35 residue repeats that are found in bacterial proteins involved in sporulation and cell division, such as FtsN, CwlM and RlpA. This repeat might be involved in binding peptidoglycan. FtsN is an essential cell division protein with a simple bitopic topology: a short N-terminal cytoplasmic segment fused to a large carboxy periplasmic domain through a single transmembrane domain. The repeats lie at the periplasmic C terminus, which has an RNP-like fold []. FtsN localises to the septum ring complex. The CwlM protein is a cell wall hydrolase, where the C-terminal region, including the repeats, determines substrate specificity []. RlpA is a rare lipoprotein A protein that may be important for cell division. Its N-terminal cysteine may be attached to thioglyceride and N-fatty acyl residues [].; PDB: 1X60_A 1UTA_A.
Probab=44.21 E-value=17 Score=25.48 Aligned_cols=23 Identities=35% Similarity=0.427 Sum_probs=18.8
Q ss_pred CeeeeccCcCCHHHHHHHHHHHH
Q 025382 105 GVRVWLGTFNTAEEAARAYDEAA 127 (253)
Q Consensus 105 gkri~LGtF~T~EEAArAYD~AA 127 (253)
.-+|.+|.|+|.+||..+.....
T Consensus 43 ~yrV~~G~f~~~~~A~~~~~~l~ 65 (76)
T PF05036_consen 43 WYRVRVGPFSSREEAEAALRKLK 65 (76)
T ss_dssp CEEEEECCECTCCHHHHHHHHHH
T ss_pred eEEEEECCCCCHHHHHHHHHHHh
Confidence 33788899999999998877655
No 10
>PF10729 CedA: Cell division activator CedA; InterPro: IPR019666 CedA is made up of four antiparallel beta-strands and an alpha-helix. It activates cell division by inhibiting chromosome over-replication. This is mediated by binding to dsDNA via the beta-sheet [, ]. ; GO: 0003677 DNA binding, 0051301 cell division; PDB: 2BN8_A 2D35_A.
Probab=39.68 E-value=57 Score=25.19 Aligned_cols=40 Identities=23% Similarity=0.194 Sum_probs=27.4
Q ss_pred CCCceeeEEECCCCeEEEEEecCCCCeeeeccCcCCHHHHHHH
Q 025382 80 RKNVYRGIRQRPWGKWAAEIRDPYKGVRVWLGTFNTAEEAARA 122 (253)
Q Consensus 80 ~~SgYrGVr~r~~GKW~A~I~~~~~gkri~LGtF~T~EEAArA 122 (253)
.--+||-|+.-+ |||+|.+.. +-.-.---.|..+|.|-|-
T Consensus 29 k~dgfrdvw~lr-gkyvafvl~--ge~f~rsp~fs~pesaqrw 68 (80)
T PF10729_consen 29 KMDGFRDVWQLR-GKYVAFVLM--GEHFRRSPAFSVPESAQRW 68 (80)
T ss_dssp -TTTECCECCCC-CEEEEEEES--SS-EEE---BSSHHHHHHH
T ss_pred hcccccceeeec-cceEEEEEe--cchhccCCCcCCcHHHHHH
Confidence 346899998665 999999998 5555555678888888764
No 11
>PRK09692 integrase; Provisional
Probab=38.94 E-value=86 Score=29.66 Aligned_cols=34 Identities=21% Similarity=0.313 Sum_probs=22.5
Q ss_pred CeEEEEEecCCCCee--eeccCcC--CHHHHHHHHHHH
Q 025382 93 GKWAAEIRDPYKGVR--VWLGTFN--TAEEAARAYDEA 126 (253)
Q Consensus 93 GKW~A~I~~~~~gkr--i~LGtF~--T~EEAArAYD~A 126 (253)
..|+.+-+.+.+|++ +.||.|. |..+|..+..++
T Consensus 41 k~~~~rY~~~~~gk~~~~~lG~yp~~sl~~AR~~a~~~ 78 (413)
T PRK09692 41 KIWQFRYYRPLTKTRAKKSFGPYPSVTLADARNYRAES 78 (413)
T ss_pred EEEEEEEecCCCCceeeeeCCCCCCCCHHHHHHHHHHH
Confidence 459998875434554 6899998 666665544443
No 12
>PF13356 DUF4102: Domain of unknown function (DUF4102); PDB: 3JU0_A 3RMP_A 3JTZ_A 2KJ8_A.
Probab=34.69 E-value=1.2e+02 Score=22.88 Aligned_cols=38 Identities=21% Similarity=0.149 Sum_probs=25.0
Q ss_pred CeEEEEEecCCCCeeeeccCcCC--HHHHHHHHHHHHHHh
Q 025382 93 GKWAAEIRDPYKGVRVWLGTFNT--AEEAARAYDEAAKRI 130 (253)
Q Consensus 93 GKW~A~I~~~~~gkri~LGtF~T--~EEAArAYD~AA~~l 130 (253)
..|..+.+...+.+++.||.|.+ ..+|..........+
T Consensus 35 kt~~~r~~~~gk~~~~~lG~~p~~sl~~AR~~a~~~~~~~ 74 (89)
T PF13356_consen 35 KTFYFRYRINGKRRRITLGRYPELSLAEAREKARELRALV 74 (89)
T ss_dssp EEEEEEEEETTEEEEEEEEECTTS-HHHHHHHHHHHHHHH
T ss_pred eEEEEEEEecceEEEeccCCCccCCHHHHHHHHHHHHHHH
Confidence 45998888844455699999965 566655554444444
No 13
>cd04516 TBP_eukaryotes eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=33.85 E-value=2e+02 Score=25.08 Aligned_cols=49 Identities=20% Similarity=0.187 Sum_probs=37.7
Q ss_pred CCCceeeEEEC-CCCeEEEEEecCCCCeeeeccCcCCHHHHHHHHHHHHHHhc
Q 025382 80 RKNVYRGIRQR-PWGKWAAEIRDPYKGVRVWLGTFNTAEEAARAYDEAAKRIR 131 (253)
Q Consensus 80 ~~SgYrGVr~r-~~GKW~A~I~~~~~gkri~LGtF~T~EEAArAYD~AA~~l~ 131 (253)
+...|-|+..| ..-+=.+-|.. .||-+-.|. .+.|+|..|.++.++.+.
T Consensus 32 ePe~fpgli~Rl~~Pk~t~lIF~--SGKiviTGa-ks~e~a~~a~~~i~~~L~ 81 (174)
T cd04516 32 NPKRFAAVIMRIREPKTTALIFS--SGKMVCTGA-KSEDDSKLAARKYARIIQ 81 (174)
T ss_pred CCccCcEEEEEeCCCcEEEEEEC--CCeEEEEec-CCHHHHHHHHHHHHHHHH
Confidence 34678998533 34566778888 999998887 578899999999888874
No 14
>PLN00062 TATA-box-binding protein; Provisional
Probab=33.66 E-value=2e+02 Score=25.30 Aligned_cols=50 Identities=20% Similarity=0.155 Sum_probs=37.7
Q ss_pred CCCceeeEEEC-CCCeEEEEEecCCCCeeeeccCcCCHHHHHHHHHHHHHHhcC
Q 025382 80 RKNVYRGIRQR-PWGKWAAEIRDPYKGVRVWLGTFNTAEEAARAYDEAAKRIRG 132 (253)
Q Consensus 80 ~~SgYrGVr~r-~~GKW~A~I~~~~~gkri~LGtF~T~EEAArAYD~AA~~l~G 132 (253)
+...|-||..| +.-|=.+-|.. .||-+-.|. .+.|+|..|.++.++.+..
T Consensus 32 ePe~fpgli~Rl~~Pk~t~lIF~--SGKiviTGa-ks~e~a~~a~~~~~~~L~~ 82 (179)
T PLN00062 32 NPKRFAAVIMRIREPKTTALIFA--SGKMVCTGA-KSEHDSKLAARKYARIIQK 82 (179)
T ss_pred CCccCcEEEEEeCCCcEEEEEEC--CCeEEEEec-CCHHHHHHHHHHHHHHHHH
Confidence 44579998533 34556777777 999888886 7889999999998888743
No 15
>KOG0570 consensus Transcriptional coactivator [Transcription]
Probab=31.66 E-value=26 Score=31.99 Aligned_cols=22 Identities=23% Similarity=0.377 Sum_probs=17.9
Q ss_pred CCchhHHHHHHhhhhhhhhCCCC
Q 025382 194 AVDDEFELSQQISRLESFLGLEP 216 (253)
Q Consensus 194 ~~~~~~~~~~~~~~le~fl~l~~ 216 (253)
..++++...+.|..||++ |+..
T Consensus 44 ~FG~~~~~ddvip~Le~~-Gv~q 65 (223)
T KOG0570|consen 44 MFGEEYREDDVIPPLEEQ-GVPQ 65 (223)
T ss_pred hhccccchhccccChhhc-ChHh
Confidence 346788888999999999 8765
No 16
>PF00352 TBP: Transcription factor TFIID (or TATA-binding protein, TBP); InterPro: IPR000814 The TATA-box binding protein (TBP) is required for the initiation of transcription by RNA polymerases I, II and III, from promoters with or without a TATA box [, ]. TBP associates with a host of factors, including the general transcription factors TFIIA, -B, -D, -E, and -H, to form huge multi-subunit pre-initiation complexes on the core promoter. Through its association with different transcription factors, TBP can initiate transcription from different RNA polymerases. There are several related TBPs, including TBP-like (TBPL) proteins []. The C-terminal core of TBP (~180 residues) is highly conserved and contains two 77-amino acid repeats that produce a saddle-shaped structure that straddles the DNA; this region binds to the TATA box and interacts with transcription factors and regulatory proteins []. By contrast, the N-terminal region varies in both length and sequence.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0006367 transcription initiation from RNA polymerase II promoter; PDB: 1D3U_A 1PCZ_B 1AIS_A 1NGM_A 1TBP_A 1TBA_B 1YTB_A 1RM1_A 1YTF_A 1NH2_A ....
Probab=29.71 E-value=1.9e+02 Score=21.74 Aligned_cols=48 Identities=23% Similarity=0.241 Sum_probs=35.4
Q ss_pred CCceeeEEEC-CCCeEEEEEecCCCCeeeeccCcCCHHHHHHHHHHHHHHhc
Q 025382 81 KNVYRGIRQR-PWGKWAAEIRDPYKGVRVWLGTFNTAEEAARAYDEAAKRIR 131 (253)
Q Consensus 81 ~SgYrGVr~r-~~GKW~A~I~~~~~gkri~LGtF~T~EEAArAYD~AA~~l~ 131 (253)
...|.||..| ..-+-.+.|.. .||-+..|. .+.++|..|.++....+.
T Consensus 35 Pe~fpgl~~r~~~p~~t~~IF~--sGki~itGa-ks~~~~~~a~~~i~~~L~ 83 (86)
T PF00352_consen 35 PERFPGLIYRLRNPKATVLIFS--SGKIVITGA-KSEEEAKKAIEKILPILQ 83 (86)
T ss_dssp TTTESSEEEEETTTTEEEEEET--TSEEEEEEE-SSHHHHHHHHHHHHHHHH
T ss_pred eccCCeEEEeecCCcEEEEEEc--CCEEEEEec-CCHHHHHHHHHHHHHHHH
Confidence 4478998533 33456667776 999888886 789999999988776653
No 17
>PF08471 Ribonuc_red_2_N: Class II vitamin B12-dependent ribonucleotide reductase; InterPro: IPR013678 This domain is found to the N terminus of the ribonucleotide reductase barrel domain (IPR000788 from INTERPRO). It occurs in bacterial class II ribonucleotide reductase proteins which depend upon coenzyme B12 (deoxyadenosylcobalamine) []. ; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0050897 cobalt ion binding, 0055114 oxidation-reduction process
Probab=28.04 E-value=63 Score=25.96 Aligned_cols=21 Identities=38% Similarity=0.474 Sum_probs=18.1
Q ss_pred ccCcCCHHHHHHHHHHHHHHh
Q 025382 110 LGTFNTAEEAARAYDEAAKRI 130 (253)
Q Consensus 110 LGtF~T~EEAArAYD~AA~~l 130 (253)
-|+|+|+|+|..=||..+-.|
T Consensus 70 ~GYF~t~eDA~~FydEl~~mL 90 (93)
T PF08471_consen 70 GGYFATEEDAEAFYDELTYML 90 (93)
T ss_pred CCCcCCHHHHHHHHHHHHHHH
Confidence 499999999999999877654
No 18
>cd04517 TLF TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans. TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the basal transcription machinery. Yet, in contrast to TBPs, TLFs seem not to interact with the TATA-box and even have a negative effect on the transcription of TATA-containing promoters. Recent results indicate that TLFs are involved in the transcription via TATA-less promoters.
Probab=24.79 E-value=3.2e+02 Score=23.70 Aligned_cols=46 Identities=24% Similarity=0.271 Sum_probs=36.2
Q ss_pred ceeeEEEC-CCCeEEEEEecCCCCeeeeccCcCCHHHHHHHHHHHHHHhc
Q 025382 83 VYRGIRQR-PWGKWAAEIRDPYKGVRVWLGTFNTAEEAARAYDEAAKRIR 131 (253)
Q Consensus 83 gYrGVr~r-~~GKW~A~I~~~~~gkri~LGtF~T~EEAArAYD~AA~~l~ 131 (253)
.|.||..| +.-+=.+-|.. .||-+-.|. .+.|+|++|.++.++.+.
T Consensus 35 ~fpgli~R~~~Pk~t~lIF~--sGKiviTGa-ks~~~~~~a~~~~~~~l~ 81 (174)
T cd04517 35 RYPKVTMRLREPRATASVWS--SGKITITGA-TSEEEAKQAARRAARLLQ 81 (174)
T ss_pred CCCEEEEEecCCcEEEEEEC--CCeEEEEcc-CCHHHHHHHHHHHHHHHH
Confidence 89999543 34566778887 999887775 789999999998888773
No 19
>PF14112 DUF4284: Domain of unknown function (DUF4284)
Probab=24.63 E-value=48 Score=27.13 Aligned_cols=18 Identities=28% Similarity=0.890 Sum_probs=13.8
Q ss_pred eeeeccCcCCHHHHHHHH
Q 025382 106 VRVWLGTFNTAEEAARAY 123 (253)
Q Consensus 106 kri~LGtF~T~EEAArAY 123 (253)
..||||+|.|.+|--.=.
T Consensus 2 VsiWiG~f~s~~el~~Y~ 19 (122)
T PF14112_consen 2 VSIWIGNFKSEDELEEYF 19 (122)
T ss_pred eEEEEecCCCHHHHHHHh
Confidence 579999999888765443
No 20
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=24.24 E-value=49 Score=20.21 Aligned_cols=14 Identities=43% Similarity=0.430 Sum_probs=11.6
Q ss_pred HHHHHHhhhhhhhh
Q 025382 199 FELSQQISRLESFL 212 (253)
Q Consensus 199 ~~~~~~~~~le~fl 212 (253)
..||..|++||.-|
T Consensus 4 ~rlr~rI~dLer~L 17 (23)
T PF04508_consen 4 NRLRNRISDLERQL 17 (23)
T ss_pred HHHHHHHHHHHHHH
Confidence 35889999999876
No 21
>PRK10113 cell division modulator; Provisional
Probab=21.69 E-value=74 Score=24.49 Aligned_cols=38 Identities=21% Similarity=0.223 Sum_probs=27.5
Q ss_pred CceeeEEECCCCeEEEEEecCCCCeeeeccCcCCHHHHHHH
Q 025382 82 NVYRGIRQRPWGKWAAEIRDPYKGVRVWLGTFNTAEEAARA 122 (253)
Q Consensus 82 SgYrGVr~r~~GKW~A~I~~~~~gkri~LGtF~T~EEAArA 122 (253)
-+|+-|+.-+ |||+|.+.. +-.-.---.|..+|.|-|-
T Consensus 31 d~frDVW~Lr-GKYVAFvl~--ge~FrRSPaFs~PEsAQRW 68 (80)
T PRK10113 31 DSFRDVWMLR-GKYVAFVLM--GESFLRSPAFSVPESAQRW 68 (80)
T ss_pred cchhhhheec-cceEEEEEe--chhhccCCccCCcHHHHHH
Confidence 4789998666 999999987 4333334678888887764
No 22
>PF09954 DUF2188: Uncharacterized protein conserved in bacteria (DUF2188); InterPro: IPR018691 This family has no known function.
Probab=20.51 E-value=2.6e+02 Score=19.71 Aligned_cols=39 Identities=33% Similarity=0.335 Sum_probs=25.2
Q ss_pred EEECCCCeEEEEEecCCCCeeeeccCcCCHHHHHHHHHHHHHH
Q 025382 87 IRQRPWGKWAAEIRDPYKGVRVWLGTFNTAEEAARAYDEAAKR 129 (253)
Q Consensus 87 Vr~r~~GKW~A~I~~~~~gkri~LGtF~T~EEAArAYD~AA~~ 129 (253)
|..+..+.|..+.-. ..+ -..+|+|.+||..+=...|+.
T Consensus 3 V~p~~~~~W~v~~eg--~~r--a~~~~~Tk~eAi~~Ar~~a~~ 41 (62)
T PF09954_consen 3 VVPREDGGWAVKKEG--AKR--ASKTFDTKAEAIEAARELAKN 41 (62)
T ss_pred EEecCCCCceEEeCC--Ccc--cccccCcHHHHHHHHHHHHHh
Confidence 333455779877664 332 378999999988765555544
Done!