Query 029507
Match_columns 192
No_of_seqs 229 out of 1131
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 14:01:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029507.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029507hhsearch_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 99.9 6.3E-22 1.4E-26 137.0 7.8 61 6-66 1-61 (61)
2 smart00380 AP2 DNA-binding dom 99.8 9.4E-21 2E-25 132.8 8.6 63 7-69 1-63 (64)
3 PHA00280 putative NHN endonucl 99.5 1.6E-13 3.4E-18 108.7 7.2 55 3-60 64-119 (121)
4 PF00847 AP2: AP2 domain; Int 99.2 4.4E-11 9.5E-16 80.7 6.4 52 6-57 1-56 (56)
5 PF14657 Integrase_AP2: AP2-li 73.3 16 0.00035 23.7 5.6 38 18-55 1-42 (46)
6 PHA02601 int integrase; Provis 71.6 6.8 0.00015 33.8 4.5 44 10-54 2-46 (333)
7 cd00801 INT_P4 Bacteriophage P 69.5 12 0.00027 31.7 5.6 40 16-55 9-50 (357)
8 PF13356 DUF4102: Domain of un 66.0 21 0.00045 25.8 5.5 43 12-54 28-74 (89)
9 PF08846 DUF1816: Domain of un 63.9 16 0.00036 26.5 4.5 40 18-57 9-48 (68)
10 PF10729 CedA: Cell division a 57.7 23 0.0005 26.3 4.3 38 6-46 31-68 (80)
11 PF05036 SPOR: Sporulation rel 51.8 21 0.00045 23.8 3.2 30 22-51 36-65 (76)
12 PF08471 Ribonuc_red_2_N: Clas 50.6 18 0.00038 27.9 2.9 21 34-54 70-90 (93)
13 PRK09692 integrase; Provisiona 47.0 61 0.0013 29.2 6.3 42 12-53 34-81 (413)
14 PF10055 DUF2292: Uncharacteri 44.8 13 0.00027 24.2 1.1 19 166-185 4-22 (38)
15 PF05378 Hydant_A_N: Hydantoin 39.8 29 0.00062 28.7 2.8 32 158-189 126-159 (176)
16 PF12286 DUF3622: Protein of u 38.2 92 0.002 23.0 4.9 31 16-46 15-49 (71)
17 PF14112 DUF4284: Domain of un 36.9 23 0.00049 27.8 1.7 18 30-47 2-19 (122)
18 PRK10113 cell division modulat 36.7 30 0.00065 25.6 2.2 38 6-46 31-68 (80)
19 cd08788 CARD_NOD2_2_CARD15 Cas 32.5 30 0.00065 26.1 1.6 20 166-185 14-35 (81)
20 PF07830 PP2C_C: Protein serin 26.2 50 0.0011 24.7 1.9 15 165-179 25-39 (81)
21 PRK10927 essential cell divisi 26.0 93 0.002 28.9 3.9 34 19-52 273-306 (319)
22 PF00352 TBP: Transcription fa 25.6 2.2E+02 0.0048 20.5 5.3 46 6-54 36-82 (86)
23 COG3087 FtsN Cell division pro 23.3 1.1E+02 0.0023 27.8 3.7 32 19-50 216-249 (264)
24 PF09954 DUF2188: Uncharacteri 22.9 2.2E+02 0.0048 19.2 4.6 39 11-53 3-41 (62)
25 cd04516 TBP_eukaryotes eukaryo 22.8 3.9E+02 0.0085 22.2 6.8 47 6-55 34-81 (174)
26 PF14261 DUF4351: Domain of un 22.4 56 0.0012 22.7 1.4 25 158-182 29-53 (59)
27 PLN00062 TATA-box-binding prot 22.4 3.8E+02 0.0083 22.5 6.7 47 6-55 34-81 (179)
28 COG1915 Uncharacterized conser 21.6 60 0.0013 30.6 1.9 22 165-186 58-81 (415)
29 COG5583 Uncharacterized small 21.3 79 0.0017 22.1 2.0 10 176-185 21-30 (54)
30 COG3628 Phage baseplate assemb 21.1 66 0.0014 25.8 1.8 12 165-176 19-30 (116)
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=99.86 E-value=6.3e-22 Score=137.01 Aligned_cols=61 Identities=62% Similarity=1.057 Sum_probs=58.3
Q ss_pred CceeeeEeCCCCeEEEEEeeCCCCcEEeccCCCCHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q 029507 6 QRYRGVRQRHWGSWVSEIRHPLLKTRIWLGTFETAEDAARAYDEAARLMCGPRARTNFPYN 66 (192)
Q Consensus 6 S~YRGVr~r~~GKW~AeIr~~~~kkri~LGtFdT~EEAA~AYD~AA~~~~G~~A~~NFP~s 66 (192)
|+|+||+++++|||+|+|+++..++++|||+|+|+|||+.|||.++++++|.++++|||++
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 7899998888999999999998899999999999999999999999999999999999974
No 2
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.84 E-value=9.4e-21 Score=132.76 Aligned_cols=63 Identities=60% Similarity=1.035 Sum_probs=58.9
Q ss_pred ceeeeEeCCCCeEEEEEeeCCCCcEEeccCCCCHHHHHHHHHHHHHHhcCCCCCCCCCCCCCC
Q 029507 7 RYRGVRQRHWGSWVSEIRHPLLKTRIWLGTFETAEDAARAYDEAARLMCGPRARTNFPYNPNA 69 (192)
Q Consensus 7 ~YRGVr~r~~GKW~AeIr~~~~kkri~LGtFdT~EEAA~AYD~AA~~~~G~~A~~NFP~s~~~ 69 (192)
+|+||+++++|||+|+|+++..++.+|||+|+|+||||.|||.++++++|.++++|||.+.+.
T Consensus 1 ~~kGV~~~~~gkw~A~I~~~~~~k~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~~y~ 63 (64)
T smart00380 1 KYRGVRQRPWGKWVAEIRDPSKGKRVWLGTFDTAEEAARAYDRAAFKFRGRSARLNFPNSLYD 63 (64)
T ss_pred CEeeEEeCCCCeEEEEEEecCCCcEEecCCCCCHHHHHHHHHHHHHHhcCCccccCCCCccCC
Confidence 599998888999999999977799999999999999999999999999999999999987654
No 3
>PHA00280 putative NHN endonuclease
Probab=99.46 E-value=1.6e-13 Score=108.70 Aligned_cols=55 Identities=16% Similarity=0.237 Sum_probs=49.7
Q ss_pred CCCCceeeeE-eCCCCeEEEEEeeCCCCcEEeccCCCCHHHHHHHHHHHHHHhcCCCCC
Q 029507 3 RPQQRYRGVR-QRHWGSWVSEIRHPLLKTRIWLGTFETAEDAARAYDEAARLMCGPRAR 60 (192)
Q Consensus 3 r~sS~YRGVr-~r~~GKW~AeIr~~~~kkri~LGtFdT~EEAA~AYD~AA~~~~G~~A~ 60 (192)
.++|||+||. ....|||+|+|++. +|+++||.|+|+|+|+.||+ ++.++||+||+
T Consensus 64 ~N~SG~kGV~~~k~~~kw~A~I~~~--gK~~~lG~f~~~e~A~~a~~-~~~~lhGeFa~ 119 (121)
T PHA00280 64 SNTSGLKGLSWSKEREMWRGTVTAE--GKQHNFRSRDLLEVVAWIYR-TRRELHGQFAR 119 (121)
T ss_pred CCCCCCCeeEEecCCCeEEEEEEEC--CEEEEcCCCCCHHHHHHHHH-HHHHHhhcccc
Confidence 5689999995 55589999999998 99999999999999999997 77899999985
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=99.20 E-value=4.4e-11 Score=80.68 Aligned_cols=52 Identities=33% Similarity=0.482 Sum_probs=44.7
Q ss_pred CceeeeEe-CCCCeEEEEEeeCCC---CcEEeccCCCCHHHHHHHHHHHHHHhcCC
Q 029507 6 QRYRGVRQ-RHWGSWVSEIRHPLL---KTRIWLGTFETAEDAARAYDEAARLMCGP 57 (192)
Q Consensus 6 S~YRGVr~-r~~GKW~AeIr~~~~---kkri~LGtFdT~EEAA~AYD~AA~~~~G~ 57 (192)
|+|+||++ +..++|+|+|++... +++++||.|++++||+++|+.++..++|+
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 78999965 458999999998321 49999999999999999999999999875
No 5
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=73.32 E-value=16 Score=23.66 Aligned_cols=38 Identities=13% Similarity=0.180 Sum_probs=28.5
Q ss_pred eEEEEEe--eC--CCCcEEeccCCCCHHHHHHHHHHHHHHhc
Q 029507 18 SWVSEIR--HP--LLKTRIWLGTFETAEDAARAYDEAARLMC 55 (192)
Q Consensus 18 KW~AeIr--~~--~~kkri~LGtFdT~EEAA~AYD~AA~~~~ 55 (192)
+|...|. ++ ++.++++-+-|.|..||-.+.......+.
T Consensus 1 ~w~~~v~g~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~~~~~ 42 (46)
T PF14657_consen 1 TWYYRVYGYDDETGKRKQKTKRGFKTKKEAEKALAKIEAELE 42 (46)
T ss_pred CEEEEEEEEECCCCCEEEEEcCCCCcHHHHHHHHHHHHHHHH
Confidence 5788883 32 23378889999999999999888766553
No 6
>PHA02601 int integrase; Provisional
Probab=71.63 E-value=6.8 Score=33.83 Aligned_cols=44 Identities=25% Similarity=0.250 Sum_probs=30.2
Q ss_pred eeEeCCCCeEEEEEeeC-CCCcEEeccCCCCHHHHHHHHHHHHHHh
Q 029507 10 GVRQRHWGSWVSEIRHP-LLKTRIWLGTFETAEDAARAYDEAARLM 54 (192)
Q Consensus 10 GVr~r~~GKW~AeIr~~-~~kkri~LGtFdT~EEAA~AYD~AA~~~ 54 (192)
+|++.++|+|+++++.. ..|+++. .+|.|..||....+.....+
T Consensus 2 ~~~~~~~g~w~~~~~~~~~~g~r~~-~~f~tk~eA~~~~~~~~~~~ 46 (333)
T PHA02601 2 AVRKLKDGKWLCEIYPNGRDGKRIR-KRFATKGEALAFENYTMAEV 46 (333)
T ss_pred ceEEcCCCCEEEEEEECCCCCchhh-hhhcCHHHHHHHHHHHHHhc
Confidence 57777789999999863 2345554 36999999877665544443
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=69.50 E-value=12 Score=31.71 Aligned_cols=40 Identities=28% Similarity=0.388 Sum_probs=30.4
Q ss_pred CCeEEEEEeeCCCCcEEeccCCC--CHHHHHHHHHHHHHHhc
Q 029507 16 WGSWVSEIRHPLLKTRIWLGTFE--TAEDAARAYDEAARLMC 55 (192)
Q Consensus 16 ~GKW~AeIr~~~~kkri~LGtFd--T~EEAA~AYD~AA~~~~ 55 (192)
.+.|..+++.++..+++.||+|+ |.++|.....+....+.
T Consensus 9 ~~~~~~~~~~~g~~~~~~~g~~~~~~~~~A~~~~~~~~~~~~ 50 (357)
T cd00801 9 SKSWRFRYRLAGKRKRLTLGSYPAVSLAEAREKADEARALLA 50 (357)
T ss_pred CEEEEEEeccCCceeEEeCcCCCCCCHHHHHHHHHHHHHHHH
Confidence 35699999998777789999995 77787777766555553
No 8
>PF13356 DUF4102: Domain of unknown function (DUF4102); PDB: 3JU0_A 3RMP_A 3JTZ_A 2KJ8_A.
Probab=66.00 E-value=21 Score=25.83 Aligned_cols=43 Identities=23% Similarity=0.245 Sum_probs=29.2
Q ss_pred EeCCCC--eEEEEEeeCCCCcEEeccCCCC--HHHHHHHHHHHHHHh
Q 029507 12 RQRHWG--SWVSEIRHPLLKTRIWLGTFET--AEDAARAYDEAARLM 54 (192)
Q Consensus 12 r~r~~G--KW~AeIr~~~~kkri~LGtFdT--~EEAA~AYD~AA~~~ 54 (192)
+-.+.| .|.-+.+.+.+.+++.||.|.+ ..+|.....+....+
T Consensus 28 ~v~~~G~kt~~~r~~~~gk~~~~~lG~~p~~sl~~AR~~a~~~~~~~ 74 (89)
T PF13356_consen 28 RVTPSGSKTFYFRYRINGKRRRITLGRYPELSLAEAREKARELRALV 74 (89)
T ss_dssp EE-TTS-EEEEEEEEETTEEEEEEEEECTTS-HHHHHHHHHHHHHHH
T ss_pred EEEeCCCeEEEEEEEecceEEEeccCCCccCCHHHHHHHHHHHHHHH
Confidence 334444 4999999886678999999975 666665555444444
No 9
>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=63.95 E-value=16 Score=26.50 Aligned_cols=40 Identities=20% Similarity=0.325 Sum_probs=30.6
Q ss_pred eEEEEEeeCCCCcEEeccCCCCHHHHHHHHHHHHHHhcCC
Q 029507 18 SWVSEIRHPLLKTRIWLGTFETAEDAARAYDEAARLMCGP 57 (192)
Q Consensus 18 KW~AeIr~~~~kkri~LGtFdT~EEAA~AYD~AA~~~~G~ 57 (192)
.|-++|.-..-.-..|.|-|+|.+||..+.......+..+
T Consensus 9 aWWveI~T~~P~ctYyFGPF~s~~eA~~~~~gyieDL~~E 48 (68)
T PF08846_consen 9 AWWVEIETQNPNCTYYFGPFDSREEAEAALPGYIEDLESE 48 (68)
T ss_pred cEEEEEEcCCCCEEEEeCCcCCHHHHHHHhccHHHHHHhh
Confidence 4778998775668899999999999999866555444433
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=57.68 E-value=23 Score=26.30 Aligned_cols=38 Identities=24% Similarity=0.244 Sum_probs=26.2
Q ss_pred CceeeeEeCCCCeEEEEEeeCCCCcEEeccCCCCHHHHHHH
Q 029507 6 QRYRGVRQRHWGSWVSEIRHPLLKTRIWLGTFETAEDAARA 46 (192)
Q Consensus 6 S~YRGVr~r~~GKW~AeIr~~~~kkri~LGtFdT~EEAA~A 46 (192)
-+||-||.-+ |||+|.+... ..-..--.|..+|.|-+-
T Consensus 31 dgfrdvw~lr-gkyvafvl~g--e~f~rsp~fs~pesaqrw 68 (80)
T PF10729_consen 31 DGFRDVWQLR-GKYVAFVLMG--EHFRRSPAFSVPESAQRW 68 (80)
T ss_dssp TTECCECCCC-CEEEEEEESS--S-EEE---BSSHHHHHHH
T ss_pred ccccceeeec-cceEEEEEec--chhccCCCcCCcHHHHHH
Confidence 5799998765 9999999876 333444678888887765
No 11
>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=51.84 E-value=21 Score=23.85 Aligned_cols=30 Identities=20% Similarity=0.270 Sum_probs=21.8
Q ss_pred EEeeCCCCcEEeccCCCCHHHHHHHHHHHH
Q 029507 22 EIRHPLLKTRIWLGTFETAEDAARAYDEAA 51 (192)
Q Consensus 22 eIr~~~~kkri~LGtFdT~EEAA~AYD~AA 51 (192)
.+......-+|.+|.|+|.++|..+-....
T Consensus 36 ~~~~~~~~yrV~~G~f~~~~~A~~~~~~l~ 65 (76)
T PF05036_consen 36 QVSKGGPWYRVRVGPFSSREEAEAALRKLK 65 (76)
T ss_dssp EEEEETTCEEEEECCECTCCHHHHHHHHHH
T ss_pred EEecCCceEEEEECCCCCHHHHHHHHHHHh
Confidence 344444457899999999999988877555
No 12
>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=50.63 E-value=18 Score=27.95 Aligned_cols=21 Identities=43% Similarity=0.586 Sum_probs=18.5
Q ss_pred ccCCCCHHHHHHHHHHHHHHh
Q 029507 34 LGTFETAEDAARAYDEAARLM 54 (192)
Q Consensus 34 LGtFdT~EEAA~AYD~AA~~~ 54 (192)
-|+|+|+|+|..-||+....|
T Consensus 70 ~GYF~t~eDA~~FydEl~~mL 90 (93)
T PF08471_consen 70 GGYFATEEDAEAFYDELTYML 90 (93)
T ss_pred CCCcCCHHHHHHHHHHHHHHH
Confidence 499999999999999987665
No 13
>PRK09692 integrase; Provisional
Probab=47.05 E-value=61 Score=29.23 Aligned_cols=42 Identities=26% Similarity=0.356 Sum_probs=26.1
Q ss_pred EeCCCC--eEEEEEeeCCCC--cEEeccCCC--CHHHHHHHHHHHHHH
Q 029507 12 RQRHWG--SWVSEIRHPLLK--TRIWLGTFE--TAEDAARAYDEAARL 53 (192)
Q Consensus 12 r~r~~G--KW~AeIr~~~~k--kri~LGtFd--T~EEAA~AYD~AA~~ 53 (192)
+-++.| .|+.+.+.+.++ +++-||.|. |..+|..+..++...
T Consensus 34 ~v~~~G~k~~~~rY~~~~~gk~~~~~lG~yp~~sl~~AR~~a~~~~~~ 81 (413)
T PRK09692 34 LIKSSGSKIWQFRYYRPLTKTRAKKSFGPYPSVTLADARNYRAESRSL 81 (413)
T ss_pred EEECCCcEEEEEEEecCCCCceeeeeCCCCCCCCHHHHHHHHHHHHHH
Confidence 444545 499888754233 447899999 677776655444433
No 14
>PF10055 DUF2292: Uncharacterized small protein (DUF2292); InterPro: IPR018743 Members of this family of hypothetical bacterial proteins have no known function.
Probab=44.79 E-value=13 Score=24.23 Aligned_cols=19 Identities=21% Similarity=0.534 Sum_probs=13.4
Q ss_pred HHHHHHHHHHhhcCCceeee
Q 029507 166 DHIEQMIEELLDYGSLELCS 185 (192)
Q Consensus 166 ~~i~qmi~ell~~~s~e~~~ 185 (192)
+.|.+||+. |+|||++|--
T Consensus 4 ~~I~~~l~~-i~yGsV~iii 22 (38)
T PF10055_consen 4 EKILEALKS-IRYGSVTIII 22 (38)
T ss_pred HHHHHHHhc-CCcceEEEEE
Confidence 456666654 5899999853
No 15
>PF05378 Hydant_A_N: Hydantoinase/oxoprolinase N-terminal region; InterPro: IPR008040 This domain is found at the N terminus of the hydantoinase/oxoprolinase IPR002821 from INTERPRO family.
Probab=39.77 E-value=29 Score=28.66 Aligned_cols=32 Identities=25% Similarity=0.528 Sum_probs=27.5
Q ss_pred hcCCCchhHHHHHHHHHHhhcC--CceeeecCCC
Q 029507 158 QQFKPLEDDHIEQMIEELLDYG--SLELCSVVSP 189 (192)
Q Consensus 158 ~~~~~le~~~i~qmi~ell~~~--s~e~~~~~~~ 189 (192)
+...+|.++.|++.+++|.+.| ++-+|.+++.
T Consensus 126 ~~i~~ld~~~v~~~~~~l~~~gv~avAV~~~fS~ 159 (176)
T PF05378_consen 126 EVIEPLDEDEVREALRELKDKGVEAVAVSLLFSY 159 (176)
T ss_pred EEecCCCHHHHHHHHHHHHhCCCCEEEEECccCC
Confidence 3457999999999999999988 8888888765
No 16
>PF12286 DUF3622: Protein of unknown function (DUF3622); InterPro: IPR022069 This family of proteins is found in bacteria. Proteins in this family are typically between 72 and 107 amino acids in length. There is a conserved VSK sequence motif.
Probab=38.18 E-value=92 Score=22.98 Aligned_cols=31 Identities=16% Similarity=0.340 Sum_probs=21.0
Q ss_pred CCeEEEEEeeCCCCcEEec----cCCCCHHHHHHH
Q 029507 16 WGSWVSEIRHPLLKTRIWL----GTFETAEDAARA 46 (192)
Q Consensus 16 ~GKW~AeIr~~~~kkri~L----GtFdT~EEAA~A 46 (192)
.+.|.|+|.-....++.-+ --|+|++||..-
T Consensus 15 ~~~W~aEItR~vTsrkTvVSK~~~GF~SEaeAq~W 49 (71)
T PF12286_consen 15 RNGWTAEITRRVTSRKTVVSKRQDGFASEAEAQAW 49 (71)
T ss_pred CCceeeeeeeeecCceeEEEecccCcccHHHHHHH
Confidence 3669999986655544333 349999887654
No 17
>PF14112 DUF4284: Domain of unknown function (DUF4284)
Probab=36.88 E-value=23 Score=27.77 Aligned_cols=18 Identities=22% Similarity=0.835 Sum_probs=13.6
Q ss_pred cEEeccCCCCHHHHHHHH
Q 029507 30 TRIWLGTFETAEDAARAY 47 (192)
Q Consensus 30 kri~LGtFdT~EEAA~AY 47 (192)
..||||+|.|.++-..=.
T Consensus 2 VsiWiG~f~s~~el~~Y~ 19 (122)
T PF14112_consen 2 VSIWIGNFKSEDELEEYF 19 (122)
T ss_pred eEEEEecCCCHHHHHHHh
Confidence 469999999987755443
No 18
>PRK10113 cell division modulator; Provisional
Probab=36.68 E-value=30 Score=25.63 Aligned_cols=38 Identities=21% Similarity=0.280 Sum_probs=26.6
Q ss_pred CceeeeEeCCCCeEEEEEeeCCCCcEEeccCCCCHHHHHHH
Q 029507 6 QRYRGVRQRHWGSWVSEIRHPLLKTRIWLGTFETAEDAARA 46 (192)
Q Consensus 6 S~YRGVr~r~~GKW~AeIr~~~~kkri~LGtFdT~EEAA~A 46 (192)
-+||-||.-+ |||+|.+... ..-..--.|..+|.|-+-
T Consensus 31 d~frDVW~Lr-GKYVAFvl~g--e~FrRSPaFs~PEsAQRW 68 (80)
T PRK10113 31 DSFRDVWMLR-GKYVAFVLMG--ESFLRSPAFSVPESAQRW 68 (80)
T ss_pred cchhhhheec-cceEEEEEec--hhhccCCccCCcHHHHHH
Confidence 4688888765 9999998875 222223568888877665
No 19
>cd08788 CARD_NOD2_2_CARD15 Caspase activation and recruitment domain of NOD2, repeat 2. Caspase activation and recruitment domain (CARD) similar to that found in human NOD2 (CARD15), repeat 2. NOD2 is a member of the Nod-like receptor (NLR) family, which plays a central role in the innate immune response. NLRs typically contain an N-terminal effector domain, a central nucleotide-binding domain and a C-terminal ligand-binding region of several leucine-rich repeats (LRRs). In NOD2, as well as NOD1, the N-terminal effector domain is a CARD. NOD2 contains two N-terminal CARD repeats. Mutations in NOD2 have been associated with Crohns disease and Blau syndrome. Nod2-CARDs have been shown to interact with the CARD domain of the downstream effector RICK (RIP2, CARDIAK), a serine/threonine kinase. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are pr
Probab=32.45 E-value=30 Score=26.10 Aligned_cols=20 Identities=35% Similarity=0.539 Sum_probs=16.2
Q ss_pred HHHHHHHHHHhhcC--Cceeee
Q 029507 166 DHIEQMIEELLDYG--SLELCS 185 (192)
Q Consensus 166 ~~i~qmi~ell~~~--s~e~~~ 185 (192)
+||++|++-||..| |.|=|-
T Consensus 14 ~~V~~~Ld~ll~~G~is~~Ecd 35 (81)
T cd08788 14 HHVDGALELLLTRGFFSSYDCD 35 (81)
T ss_pred HHHHHHHHHHHHcCCccHhhcc
Confidence 79999999999999 544443
No 20
>PF07830 PP2C_C: Protein serine/threonine phosphatase 2C, C-terminal domain; InterPro: IPR012911 Protein phosphatase 2C (PP2C) is involved in regulating cellular responses to stress in various eukaryotes. It consists of two domains: an N-terminal catalytic domain and a C-terminal domain characteristic of mammalian PP2Cs. This domain consists of three antiparallel alpha helices, one of which packs against two corresponding alpha-helices of the N-terminal domain. The C-terminal domain does not seem to play a role in catalysis, but it may provide protein substrate specificity due to the cleft that is created between it and the catalytic domain []. ; GO: 0000287 magnesium ion binding, 0004721 phosphoprotein phosphatase activity, 0030145 manganese ion binding; PDB: 2P8E_A 3FXL_A 3FXO_A 1A6Q_A 3FXK_A 3FXM_A 3FXJ_A.
Probab=26.17 E-value=50 Score=24.70 Aligned_cols=15 Identities=33% Similarity=0.607 Sum_probs=11.0
Q ss_pred hHHHHHHHHHHhhcC
Q 029507 165 DDHIEQMIEELLDYG 179 (192)
Q Consensus 165 ~~~i~qmi~ell~~~ 179 (192)
|++|+++++|+++..
T Consensus 25 d~~l~~rv~ei~~~~ 39 (81)
T PF07830_consen 25 DKYLEQRVEEIIEKS 39 (81)
T ss_dssp HHHHHHHHHHHT---
T ss_pred HHHHHHHHHHHHHHh
Confidence 489999999999763
No 21
>PRK10927 essential cell division protein FtsN; Provisional
Probab=25.95 E-value=93 Score=28.87 Aligned_cols=34 Identities=18% Similarity=0.182 Sum_probs=26.3
Q ss_pred EEEEEeeCCCCcEEeccCCCCHHHHHHHHHHHHH
Q 029507 19 WVSEIRHPLLKTRIWLGTFETAEDAARAYDEAAR 52 (192)
Q Consensus 19 W~AeIr~~~~kkri~LGtFdT~EEAA~AYD~AA~ 52 (192)
|.|+|...++-.||.||-|.+.++|-++.++...
T Consensus 273 ~~A~I~~~g~~~RVrVGPf~sr~eAe~a~~rLk~ 306 (319)
T PRK10927 273 FDSKITTNNGWNRVVIGPVKGKENADSTLNRLKM 306 (319)
T ss_pred CeeEEccCCcEEEEEeCCCCCHHHHHHHHHHHHH
Confidence 5667765545589999999999999999876543
No 22
>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=25.57 E-value=2.2e+02 Score=20.45 Aligned_cols=46 Identities=17% Similarity=0.234 Sum_probs=33.6
Q ss_pred CceeeeEeCC-CCeEEEEEeeCCCCcEEeccCCCCHHHHHHHHHHHHHHh
Q 029507 6 QRYRGVRQRH-WGSWVSEIRHPLLKTRIWLGTFETAEDAARAYDEAARLM 54 (192)
Q Consensus 6 S~YRGVr~r~-~GKW~AeIr~~~~kkri~LGtFdT~EEAA~AYD~AA~~~ 54 (192)
.+|.||..|- .-+-...|... ||-+..|. .+.+++..|.++....+
T Consensus 36 e~fpgl~~r~~~p~~t~~IF~s--Gki~itGa-ks~~~~~~a~~~i~~~L 82 (86)
T PF00352_consen 36 ERFPGLIYRLRNPKATVLIFSS--GKIVITGA-KSEEEAKKAIEKILPIL 82 (86)
T ss_dssp TTESSEEEEETTTTEEEEEETT--SEEEEEEE-SSHHHHHHHHHHHHHHH
T ss_pred ccCCeEEEeecCCcEEEEEEcC--CEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 4788984333 34567777766 88887775 78999999998877665
No 23
>COG3087 FtsN Cell division protein [Cell division and chromosome partitioning]
Probab=23.29 E-value=1.1e+02 Score=27.79 Aligned_cols=32 Identities=25% Similarity=0.241 Sum_probs=24.9
Q ss_pred EEEEEe--eCCCCcEEeccCCCCHHHHHHHHHHH
Q 029507 19 WVSEIR--HPLLKTRIWLGTFETAEDAARAYDEA 50 (192)
Q Consensus 19 W~AeIr--~~~~kkri~LGtFdT~EEAA~AYD~A 50 (192)
..++|. -+....|+-||.|++.++|..|-++.
T Consensus 216 ~sskI~~~~~~~wyRV~vGP~n~~~~a~~aq~rL 249 (264)
T COG3087 216 ISSKITGVTNGGWYRVRVGPFNSKADAVKAQKRL 249 (264)
T ss_pred ccceeEeecCCceEEEEecCCCcHHHHHHHHHHH
Confidence 456676 55556899999999999999987654
No 24
>PF09954 DUF2188: Uncharacterized protein conserved in bacteria (DUF2188); InterPro: IPR018691 This family has no known function.
Probab=22.94 E-value=2.2e+02 Score=19.15 Aligned_cols=39 Identities=31% Similarity=0.320 Sum_probs=25.3
Q ss_pred eEeCCCCeEEEEEeeCCCCcEEeccCCCCHHHHHHHHHHHHHH
Q 029507 11 VRQRHWGSWVSEIRHPLLKTRIWLGTFETAEDAARAYDEAARL 53 (192)
Q Consensus 11 Vr~r~~GKW~AeIr~~~~kkri~LGtFdT~EEAA~AYD~AA~~ 53 (192)
|..+..|.|..+.-.. . --..+|+|.+||..+=...+..
T Consensus 3 V~p~~~~~W~v~~eg~--~--ra~~~~~Tk~eAi~~Ar~~a~~ 41 (62)
T PF09954_consen 3 VVPREDGGWAVKKEGA--K--RASKTFDTKAEAIEAARELAKN 41 (62)
T ss_pred EEecCCCCceEEeCCC--c--ccccccCcHHHHHHHHHHHHHh
Confidence 4334567798776643 2 2278999999998765544444
No 25
>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=22.78 E-value=3.9e+02 Score=22.23 Aligned_cols=47 Identities=19% Similarity=0.190 Sum_probs=35.4
Q ss_pred CceeeeEeCC-CCeEEEEEeeCCCCcEEeccCCCCHHHHHHHHHHHHHHhc
Q 029507 6 QRYRGVRQRH-WGSWVSEIRHPLLKTRIWLGTFETAEDAARAYDEAARLMC 55 (192)
Q Consensus 6 S~YRGVr~r~-~GKW~AeIr~~~~kkri~LGtFdT~EEAA~AYD~AA~~~~ 55 (192)
.+|.||..|- .-+=.+-|... ||-+-.|. .+.|+|..|.++.+..+.
T Consensus 34 e~fpgli~Rl~~Pk~t~lIF~S--GKiviTGa-ks~e~a~~a~~~i~~~L~ 81 (174)
T cd04516 34 KRFAAVIMRIREPKTTALIFSS--GKMVCTGA-KSEDDSKLAARKYARIIQ 81 (174)
T ss_pred ccCcEEEEEeCCCcEEEEEECC--CeEEEEec-CCHHHHHHHHHHHHHHHH
Confidence 5788984443 45667788877 88887786 578899999999888874
No 26
>PF14261 DUF4351: Domain of unknown function (DUF4351)
Probab=22.40 E-value=56 Score=22.68 Aligned_cols=25 Identities=32% Similarity=0.643 Sum_probs=20.1
Q ss_pred hcCCCchhHHHHHHHHHHhhcCCce
Q 029507 158 QQFKPLEDDHIEQMIEELLDYGSLE 182 (192)
Q Consensus 158 ~~~~~le~~~i~qmi~ell~~~s~e 182 (192)
+....|..+.+|...+.|||..|+|
T Consensus 29 ~~I~~l~~eqLE~l~e~ildf~~l~ 53 (59)
T PF14261_consen 29 ERIQQLSLEQLEALAEAILDFNSLE 53 (59)
T ss_pred HHHHcCCHHHHHHHHHHHhCCCCHH
Confidence 3445666788999999999999876
No 27
>PLN00062 TATA-box-binding protein; Provisional
Probab=22.38 E-value=3.8e+02 Score=22.47 Aligned_cols=47 Identities=19% Similarity=0.189 Sum_probs=35.0
Q ss_pred CceeeeEeC-CCCeEEEEEeeCCCCcEEeccCCCCHHHHHHHHHHHHHHhc
Q 029507 6 QRYRGVRQR-HWGSWVSEIRHPLLKTRIWLGTFETAEDAARAYDEAARLMC 55 (192)
Q Consensus 6 S~YRGVr~r-~~GKW~AeIr~~~~kkri~LGtFdT~EEAA~AYD~AA~~~~ 55 (192)
.+|-||..| +.-+=.+-|... ||-+-.|. .+.|+|..|.++.+..+.
T Consensus 34 e~fpgli~Rl~~Pk~t~lIF~S--GKiviTGa-ks~e~a~~a~~~~~~~L~ 81 (179)
T PLN00062 34 KRFAAVIMRIREPKTTALIFAS--GKMVCTGA-KSEHDSKLAARKYARIIQ 81 (179)
T ss_pred ccCcEEEEEeCCCcEEEEEECC--CeEEEEec-CCHHHHHHHHHHHHHHHH
Confidence 478898443 345667778776 87776664 788999999999888874
No 28
>COG1915 Uncharacterized conserved protein [Function unknown]
Probab=21.56 E-value=60 Score=30.57 Aligned_cols=22 Identities=36% Similarity=0.717 Sum_probs=18.6
Q ss_pred hHHHHHHHHHHhhcC--Cceeeec
Q 029507 165 DDHIEQMIEELLDYG--SLELCSV 186 (192)
Q Consensus 165 ~~~i~qmi~ell~~~--s~e~~~~ 186 (192)
+.|+||++.||.|+| -.|+|-+
T Consensus 58 ~~~leeIl~eL~~lGA~~~e~~ev 81 (415)
T COG1915 58 HEHLEEILSELIDLGAVIPEIEEV 81 (415)
T ss_pred HHHHHHHHHHHHHhCCCCcchhhh
Confidence 489999999999999 5577755
No 29
>COG5583 Uncharacterized small protein [Function unknown]
Probab=21.35 E-value=79 Score=22.15 Aligned_cols=10 Identities=40% Similarity=0.803 Sum_probs=8.2
Q ss_pred hhcCCceeee
Q 029507 176 LDYGSLELCS 185 (192)
Q Consensus 176 l~~~s~e~~~ 185 (192)
|+|||++|.-
T Consensus 21 lkyGsV~ItV 30 (54)
T COG5583 21 LKYGSVTITV 30 (54)
T ss_pred cccceEEEEE
Confidence 5999999953
No 30
>COG3628 Phage baseplate assembly protein W [General function prediction only]
Probab=21.12 E-value=66 Score=25.77 Aligned_cols=12 Identities=50% Similarity=0.731 Sum_probs=11.4
Q ss_pred hHHHHHHHHHHh
Q 029507 165 DDHIEQMIEELL 176 (192)
Q Consensus 165 ~~~i~qmi~ell 176 (192)
+|||.|=|+.+|
T Consensus 19 ~dhirQSi~~IL 30 (116)
T COG3628 19 LDHIRQSIRDIL 30 (116)
T ss_pred cHHHHHHHHHHH
Confidence 699999999999
Done!