Query 029817
Match_columns 187
No_of_seqs 240 out of 1294
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 04:07:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029817.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029817hhsearch_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 6.6E-22 1.4E-26 136.1 7.7 61 33-93 1-61 (61)
2 smart00380 AP2 DNA-binding dom 99.8 1.1E-20 2.4E-25 131.6 8.2 62 34-95 1-62 (64)
3 PHA00280 putative NHN endonucl 99.7 3E-17 6.6E-22 128.6 5.1 76 9-87 43-119 (121)
4 PF00847 AP2: AP2 domain; Int 99.2 2.8E-11 6E-16 81.2 6.1 52 33-84 1-56 (56)
5 PF14657 Integrase_AP2: AP2-li 74.8 15 0.00032 23.6 5.6 38 45-82 1-42 (46)
6 cd00801 INT_P4 Bacteriophage P 74.1 6.8 0.00015 33.3 5.1 39 43-81 9-49 (357)
7 PF13356 DUF4102: Domain of un 65.8 23 0.00049 25.4 5.6 33 44-76 35-69 (89)
8 PHA02601 int integrase; Provis 60.8 15 0.00032 31.6 4.5 44 37-81 2-46 (333)
9 PRK09692 integrase; Provisiona 54.1 37 0.0008 30.5 6.1 43 38-80 33-81 (413)
10 PF10729 CedA: Cell division a 45.2 48 0.001 24.2 4.3 38 32-72 30-67 (80)
11 PF08846 DUF1816: Domain of un 40.2 76 0.0016 22.7 4.6 42 45-86 9-50 (68)
12 PF14112 DUF4284: Domain of un 39.6 22 0.00049 27.5 2.0 18 57-74 2-19 (122)
13 PF05036 SPOR: Sporulation rel 39.2 43 0.00093 22.1 3.2 25 54-78 41-65 (76)
14 PF08471 Ribonuc_red_2_N: Clas 33.9 45 0.00097 25.4 2.8 21 61-81 70-90 (93)
15 PF07494 Reg_prop: Two compone 28.7 54 0.0012 18.2 1.9 16 49-65 9-24 (24)
16 PRK10113 cell division modulat 26.7 51 0.0011 24.0 1.9 37 33-72 31-67 (80)
17 PF09954 DUF2188: Uncharacteri 22.9 1.3E+02 0.0029 20.0 3.4 37 38-78 3-39 (62)
18 COG2185 Sbm Methylmalonyl-CoA 22.5 64 0.0014 26.2 2.0 17 57-73 42-58 (143)
19 PF09003 Phage_integ_N: Bacter 22.0 3.2E+02 0.0068 19.9 5.3 33 49-83 30-62 (75)
20 COG0197 RplP Ribosomal protein 20.1 2E+02 0.0042 23.6 4.4 36 46-84 96-131 (146)
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=6.6e-22 Score=136.13 Aligned_cols=61 Identities=59% Similarity=1.053 Sum_probs=58.0
Q ss_pred CCeeeeeeCCCCcEEEEEeeCCCCeEEeecCCCCHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q 029817 33 TPFRGVRKRRWGSYVSEIRLPGEKTRIWLGSFGSAEKAARAYDSAAFYLKGNLATLNFPAS 93 (187)
Q Consensus 33 s~yRGVr~r~~GkWvAeIr~p~~~kri~LGtf~T~EeAA~AYD~Aa~~l~G~~A~lNFp~s 93 (187)
|+|+||+++++|||+|+|+++..++++|||+|+|+|||+.|||.+++.++|.++.+|||++
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 6899999988999999999876699999999999999999999999999999999999985
No 2
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.84 E-value=1.1e-20 Score=131.62 Aligned_cols=62 Identities=56% Similarity=1.020 Sum_probs=58.9
Q ss_pred CeeeeeeCCCCcEEEEEeeCCCCeEEeecCCCCHHHHHHHHHHHHHHhcCCCCCCCCCCCCC
Q 029817 34 PFRGVRKRRWGSYVSEIRLPGEKTRIWLGSFGSAEKAARAYDSAAFYLKGNLATLNFPASAG 95 (187)
Q Consensus 34 ~yRGVr~r~~GkWvAeIr~p~~~kri~LGtf~T~EeAA~AYD~Aa~~l~G~~A~lNFp~s~~ 95 (187)
+|+||+++++|||+|+|++|.+++++|||+|+|+||||.|||.+++.++|..+.+|||.+.+
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 59999988899999999998899999999999999999999999999999999999998754
No 3
>PHA00280 putative NHN endonuclease
Probab=99.68 E-value=3e-17 Score=128.61 Aligned_cols=76 Identities=16% Similarity=0.154 Sum_probs=70.1
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCeeeeeeCC-CCcEEEEEeeCCCCeEEeecCCCCHHHHHHHHHHHHHHhcCCCCC
Q 029817 9 EPSQLQPGSSTSKPGSKKRTRQNDTPFRGVRKRR-WGSYVSEIRLPGEKTRIWLGSFGSAEKAARAYDSAAFYLKGNLAT 87 (187)
Q Consensus 9 ~~~~l~~~s~~~~~~n~k~~~~~~s~yRGVr~r~-~GkWvAeIr~p~~~kri~LGtf~T~EeAA~AYD~Aa~~l~G~~A~ 87 (187)
.+.||+.++..++..|++.++.|+|+|+||++++ .|||+|+|++ ++|+++||.|+|+|+|+.||+ ++..|||++|+
T Consensus 43 ri~NLr~~T~~eN~~N~~~~~~N~SG~kGV~~~k~~~kw~A~I~~--~gK~~~lG~f~~~e~A~~a~~-~~~~lhGeFa~ 119 (121)
T PHA00280 43 ALDNLRLALPKENSWNMKTPKSNTSGLKGLSWSKEREMWRGTVTA--EGKQHNFRSRDLLEVVAWIYR-TRRELHGQFAR 119 (121)
T ss_pred cHHHhhhcCHHHHhcccCCCCCCCCCCCeeEEecCCCeEEEEEEE--CCEEEEcCCCCCHHHHHHHHH-HHHHHhhcccc
Confidence 5679999999999999999999999999999875 6999999995 999999999999999999997 67789999875
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=99.22 E-value=2.8e-11 Score=81.21 Aligned_cols=52 Identities=33% Similarity=0.493 Sum_probs=45.7
Q ss_pred CCeeeeeeCC-CCcEEEEEeeCCC---CeEEeecCCCCHHHHHHHHHHHHHHhcCC
Q 029817 33 TPFRGVRKRR-WGSYVSEIRLPGE---KTRIWLGSFGSAEKAARAYDSAAFYLKGN 84 (187)
Q Consensus 33 s~yRGVr~r~-~GkWvAeIr~p~~---~kri~LGtf~T~EeAA~AYD~Aa~~l~G~ 84 (187)
|+|+||++++ .++|+|+|+++.. +++++||.|+++++|+++|+.++..++|+
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 6899999876 7999999998522 49999999999999999999999999874
No 5
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=74.83 E-value=15 Score=23.56 Aligned_cols=38 Identities=13% Similarity=0.173 Sum_probs=28.9
Q ss_pred cEEEEEe--eC--CCCeEEeecCCCCHHHHHHHHHHHHHHhc
Q 029817 45 SYVSEIR--LP--GEKTRIWLGSFGSAEKAARAYDSAAFYLK 82 (187)
Q Consensus 45 kWvAeIr--~p--~~~kri~LGtf~T~EeAA~AYD~Aa~~l~ 82 (187)
+|...|. .+ +++++++-+-|.|..||-.+.......+.
T Consensus 1 ~w~~~v~g~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~~~~~ 42 (46)
T PF14657_consen 1 TWYYRVYGYDDETGKRKQKTKRGFKTKKEAEKALAKIEAELE 42 (46)
T ss_pred CEEEEEEEEECCCCCEEEEEcCCCCcHHHHHHHHHHHHHHHH
Confidence 5777773 43 33378899999999999999888776653
No 6
>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=74.12 E-value=6.8 Score=33.29 Aligned_cols=39 Identities=33% Similarity=0.402 Sum_probs=29.2
Q ss_pred CCcEEEEEeeCCCCeEEeecCCC--CHHHHHHHHHHHHHHh
Q 029817 43 WGSYVSEIRLPGEKTRIWLGSFG--SAEKAARAYDSAAFYL 81 (187)
Q Consensus 43 ~GkWvAeIr~p~~~kri~LGtf~--T~EeAA~AYD~Aa~~l 81 (187)
.+.|+.+++..++.+++.||+|+ |.++|..........+
T Consensus 9 ~~~~~~~~~~~g~~~~~~~g~~~~~~~~~A~~~~~~~~~~~ 49 (357)
T cd00801 9 SKSWRFRYRLAGKRKRLTLGSYPAVSLAEAREKADEARALL 49 (357)
T ss_pred CEEEEEEeccCCceeEEeCcCCCCCCHHHHHHHHHHHHHHH
Confidence 45699999987667889999996 6777777666655554
No 7
>PF13356 DUF4102: Domain of unknown function (DUF4102); PDB: 3JU0_A 3RMP_A 3JTZ_A 2KJ8_A.
Probab=65.83 E-value=23 Score=25.40 Aligned_cols=33 Identities=21% Similarity=0.375 Sum_probs=22.6
Q ss_pred CcEEEEEeeCCCCeEEeecCCCC--HHHHHHHHHH
Q 029817 44 GSYVSEIRLPGEKTRIWLGSFGS--AEKAARAYDS 76 (187)
Q Consensus 44 GkWvAeIr~p~~~kri~LGtf~T--~EeAA~AYD~ 76 (187)
..|+-+.+..++.+++.||.|++ ..+|......
T Consensus 35 kt~~~r~~~~gk~~~~~lG~~p~~sl~~AR~~a~~ 69 (89)
T PF13356_consen 35 KTFYFRYRINGKRRRITLGRYPELSLAEAREKARE 69 (89)
T ss_dssp EEEEEEEEETTEEEEEEEEECTTS-HHHHHHHHHH
T ss_pred eEEEEEEEecceEEEeccCCCccCCHHHHHHHHHH
Confidence 35998988766668999999975 4444444333
No 8
>PHA02601 int integrase; Provisional
Probab=60.76 E-value=15 Score=31.62 Aligned_cols=44 Identities=23% Similarity=0.233 Sum_probs=29.3
Q ss_pred eeeeCCCCcEEEEEeeC-CCCeEEeecCCCCHHHHHHHHHHHHHHh
Q 029817 37 GVRKRRWGSYVSEIRLP-GEKTRIWLGSFGSAEKAARAYDSAAFYL 81 (187)
Q Consensus 37 GVr~r~~GkWvAeIr~p-~~~kri~LGtf~T~EeAA~AYD~Aa~~l 81 (187)
+|++.+.|+|.++|+.. ..++|+. .+|.|..+|-...+.....+
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 56666678999999852 2355554 36999998876655544433
No 9
>PRK09692 integrase; Provisional
Probab=54.15 E-value=37 Score=30.51 Aligned_cols=43 Identities=12% Similarity=0.081 Sum_probs=26.7
Q ss_pred eeeCCCC--cEEEEEeeCCCC--eEEeecCCC--CHHHHHHHHHHHHHH
Q 029817 38 VRKRRWG--SYVSEIRLPGEK--TRIWLGSFG--SAEKAARAYDSAAFY 80 (187)
Q Consensus 38 Vr~r~~G--kWvAeIr~p~~~--kri~LGtf~--T~EeAA~AYD~Aa~~ 80 (187)
|+.++.| .|+.+.+.+.++ +++-||.|+ |..+|......+...
T Consensus 33 l~v~~~G~k~~~~rY~~~~~gk~~~~~lG~yp~~sl~~AR~~a~~~~~~ 81 (413)
T PRK09692 33 LLIKSSGSKIWQFRYYRPLTKTRAKKSFGPYPSVTLADARNYRAESRSL 81 (413)
T ss_pred EEEECCCcEEEEEEEecCCCCceeeeeCCCCCCCCHHHHHHHHHHHHHH
Confidence 3444444 498888755333 457899999 777766554444333
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=45.16 E-value=48 Score=24.20 Aligned_cols=38 Identities=29% Similarity=0.347 Sum_probs=24.0
Q ss_pred CCCeeeeeeCCCCcEEEEEeeCCCCeEEeecCCCCHHHHHH
Q 029817 32 DTPFRGVRKRRWGSYVSEIRLPGEKTRIWLGSFGSAEKAAR 72 (187)
Q Consensus 32 ~s~yRGVr~r~~GkWvAeIr~p~~~kri~LGtf~T~EeAA~ 72 (187)
--+||.|..-+ |||||.|.. +..-.---.|..+|.|-+
T Consensus 30 ~dgfrdvw~lr-gkyvafvl~--ge~f~rsp~fs~pesaqr 67 (80)
T PF10729_consen 30 MDGFRDVWQLR-GKYVAFVLM--GEHFRRSPAFSVPESAQR 67 (80)
T ss_dssp TTTECCECCCC-CEEEEEEES--SS-EEE---BSSHHHHHH
T ss_pred cccccceeeec-cceEEEEEe--cchhccCCCcCCcHHHHH
Confidence 45799987655 999999984 332233456888877755
No 11
>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=40.18 E-value=76 Score=22.73 Aligned_cols=42 Identities=24% Similarity=0.261 Sum_probs=30.8
Q ss_pred cEEEEEeeCCCCeEEeecCCCCHHHHHHHHHHHHHHhcCCCC
Q 029817 45 SYVSEIRLPGEKTRIWLGSFGSAEKAARAYDSAAFYLKGNLA 86 (187)
Q Consensus 45 kWvAeIr~p~~~kri~LGtf~T~EeAA~AYD~Aa~~l~G~~A 86 (187)
.|=++|.-..-.-..|.|-|.|.++|..+.-.-..-|..+.+
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 355688854445788999999999999987766666654443
No 12
>PF14112 DUF4284: Domain of unknown function (DUF4284)
Probab=39.62 E-value=22 Score=27.53 Aligned_cols=18 Identities=28% Similarity=0.785 Sum_probs=13.8
Q ss_pred eEEeecCCCCHHHHHHHH
Q 029817 57 TRIWLGSFGSAEKAARAY 74 (187)
Q Consensus 57 kri~LGtf~T~EeAA~AY 74 (187)
..||||+|.|.++--.=.
T Consensus 2 VsiWiG~f~s~~el~~Y~ 19 (122)
T PF14112_consen 2 VSIWIGNFKSEDELEEYF 19 (122)
T ss_pred eEEEEecCCCHHHHHHHh
Confidence 469999999988765443
No 13
>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=39.20 E-value=43 Score=22.10 Aligned_cols=25 Identities=32% Similarity=0.427 Sum_probs=19.0
Q ss_pred CCCeEEeecCCCCHHHHHHHHHHHH
Q 029817 54 GEKTRIWLGSFGSAEKAARAYDSAA 78 (187)
Q Consensus 54 ~~~kri~LGtf~T~EeAA~AYD~Aa 78 (187)
...-|+.+|.|+|.++|..+-....
T Consensus 41 ~~~yrV~~G~f~~~~~A~~~~~~l~ 65 (76)
T PF05036_consen 41 GPWYRVRVGPFSSREEAEAALRKLK 65 (76)
T ss_dssp TTCEEEEECCECTCCHHHHHHHHHH
T ss_pred CceEEEEECCCCCHHHHHHHHHHHh
Confidence 3446888999999999888766554
No 14
>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=33.87 E-value=45 Score=25.38 Aligned_cols=21 Identities=33% Similarity=0.539 Sum_probs=18.1
Q ss_pred ecCCCCHHHHHHHHHHHHHHh
Q 029817 61 LGSFGSAEKAARAYDSAAFYL 81 (187)
Q Consensus 61 LGtf~T~EeAA~AYD~Aa~~l 81 (187)
-|.|+|+|+|..-||.-...|
T Consensus 70 ~GYF~t~eDA~~FydEl~~mL 90 (93)
T PF08471_consen 70 GGYFATEEDAEAFYDELTYML 90 (93)
T ss_pred CCCcCCHHHHHHHHHHHHHHH
Confidence 399999999999999877654
No 15
>PF07494 Reg_prop: Two component regulator propeller; InterPro: IPR011110 A large group of two component regulator proteins appear to have the same N-terminal structure of 14 tandem repeats. These repeats show homology to members of IPR002372 from INTERPRO and IPR001680 from INTERPRO indicating that they are likely to form a beta-propeller. This family has been built with artificially high cut-offs in order to avoid overlaps with other beta-propeller families. The fourteen repeats are likely to form two propellers; it is not clear if these structures are likely to recruit other proteins or interact with DNA.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=28.71 E-value=54 Score=18.19 Aligned_cols=16 Identities=19% Similarity=0.688 Sum_probs=10.4
Q ss_pred EEeeCCCCeEEeecCCC
Q 029817 49 EIRLPGEKTRIWLGSFG 65 (187)
Q Consensus 49 eIr~p~~~kri~LGtf~ 65 (187)
.|.+ .+..+||+||+.
T Consensus 9 ~i~~-D~~G~lWigT~~ 24 (24)
T PF07494_consen 9 SIYE-DSDGNLWIGTYN 24 (24)
T ss_dssp EEEE--TTSCEEEEETS
T ss_pred EEEE-cCCcCEEEEeCC
Confidence 4443 456789999973
No 16
>PRK10113 cell division modulator; Provisional
Probab=26.69 E-value=51 Score=24.00 Aligned_cols=37 Identities=30% Similarity=0.438 Sum_probs=22.5
Q ss_pred CCeeeeeeCCCCcEEEEEeeCCCCeEEeecCCCCHHHHHH
Q 029817 33 TPFRGVRKRRWGSYVSEIRLPGEKTRIWLGSFGSAEKAAR 72 (187)
Q Consensus 33 s~yRGVr~r~~GkWvAeIr~p~~~kri~LGtf~T~EeAA~ 72 (187)
-+||.|..-+ |||||.+.. +..-.---.|..+|.|-+
T Consensus 31 d~frDVW~Lr-GKYVAFvl~--ge~FrRSPaFs~PEsAQR 67 (80)
T PRK10113 31 DSFRDVWMLR-GKYVAFVLM--GESFLRSPAFSVPESAQR 67 (80)
T ss_pred cchhhhheec-cceEEEEEe--chhhccCCccCCcHHHHH
Confidence 4688886555 999999884 211111245666665544
No 17
>PF09954 DUF2188: Uncharacterized protein conserved in bacteria (DUF2188); InterPro: IPR018691 This family has no known function.
Probab=22.89 E-value=1.3e+02 Score=20.02 Aligned_cols=37 Identities=24% Similarity=0.290 Sum_probs=22.5
Q ss_pred eeeCCCCcEEEEEeeCCCCeEEeecCCCCHHHHHHHHHHHH
Q 029817 38 VRKRRWGSYVSEIRLPGEKTRIWLGSFGSAEKAARAYDSAA 78 (187)
Q Consensus 38 Vr~r~~GkWvAeIr~p~~~kri~LGtf~T~EeAA~AYD~Aa 78 (187)
|..+..|.|..+.- +. .+- ..+|+|.++|-.+=...+
T Consensus 3 V~p~~~~~W~v~~e--g~-~ra-~~~~~Tk~eAi~~Ar~~a 39 (62)
T PF09954_consen 3 VVPREDGGWAVKKE--GA-KRA-SKTFDTKAEAIEAARELA 39 (62)
T ss_pred EEecCCCCceEEeC--CC-ccc-ccccCcHHHHHHHHHHHH
Confidence 44444578966544 22 222 789999999876544433
No 18
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=22.46 E-value=64 Score=26.22 Aligned_cols=17 Identities=47% Similarity=0.569 Sum_probs=15.5
Q ss_pred eEEeecCCCCHHHHHHH
Q 029817 57 TRIWLGSFGSAEKAARA 73 (187)
Q Consensus 57 kri~LGtf~T~EeAA~A 73 (187)
.-|++|.|.|+||++++
T Consensus 42 eVi~~g~~~tp~e~v~a 58 (143)
T COG2185 42 EVINLGLFQTPEEAVRA 58 (143)
T ss_pred eEEecCCcCCHHHHHHH
Confidence 66899999999999987
No 19
>PF09003 Phage_integ_N: Bacteriophage lambda integrase, N-terminal domain ; InterPro: IPR015094 The amino terminal domain of bacteriophage lambda integrase folds into a three-stranded, antiparallel beta-sheet that packs against a C-terminal alpha-helix, adopting a fold that is structurally related to the three-stranded beta-sheet family of DNA-binding domains (which includes the GCC-box DNA-binding domain and the N-terminal domain of Tn916 integrase). This domain is responsible for high-affinity binding to each of the five DNA arm-type sites and is also a context-sensitive modulator of DNA cleavage []. ; GO: 0003677 DNA binding, 0008907 integrase activity, 0015074 DNA integration; PDB: 1Z1G_B 1Z1B_A 2WCC_3 1KJK_A.
Probab=22.02 E-value=3.2e+02 Score=19.89 Aligned_cols=33 Identities=18% Similarity=0.113 Sum_probs=21.6
Q ss_pred EEeeCCCCeEEeecCCCCHHHHHHHHHHHHHHhcC
Q 029817 49 EIRLPGEKTRIWLGSFGSAEKAARAYDSAAFYLKG 83 (187)
Q Consensus 49 eIr~p~~~kri~LGtf~T~EeAA~AYD~Aa~~l~G 83 (187)
+-+.|..|+.+.||+ +.++|...=-.|-..+..
T Consensus 30 ~Yr~P~tGk~~~LG~--d~~~Ai~~A~eaN~~i~~ 62 (75)
T PF09003_consen 30 QYRNPITGKEHGLGT--DRAEAIAQAIEANLRIAE 62 (75)
T ss_dssp EEE-TTTS-EEEEES---HHHHHHHHHHHHHHHTS
T ss_pred EEecCCCCceeeCCC--CHHHHHHHHHHHHHHHHH
Confidence 667899999999999 677776655555555543
No 20
>COG0197 RplP Ribosomal protein L16/L10E [Translation, ribosomal structure and biogenesis]
Probab=20.13 E-value=2e+02 Score=23.57 Aligned_cols=36 Identities=17% Similarity=0.064 Sum_probs=29.2
Q ss_pred EEEEEeeCCCCeEEeecCCCCHHHHHHHHHHHHHHhcCC
Q 029817 46 YVSEIRLPGEKTRIWLGSFGSAEKAARAYDSAAFYLKGN 84 (187)
Q Consensus 46 WvAeIr~p~~~kri~LGtf~T~EeAA~AYD~Aa~~l~G~ 84 (187)
|+|.|. -++-++-=...+++.|..|...|+.+|=+.
T Consensus 96 waArVk---pG~vlfei~g~~e~~A~EAlr~Aa~KLP~~ 131 (146)
T COG0197 96 WAARVK---PGRVLFEIAGVPEELAREALRRAAAKLPVK 131 (146)
T ss_pred EEEEec---CCcEEEEEecCcHHHHHHHHHHHhhcCCCc
Confidence 999998 466777777788888999999998887544
Done!