Query 045684
Match_columns 121
No_of_seqs 142 out of 1201
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 04:27:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045684.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045684hhsearch_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 6.1E-23 1.3E-27 129.9 7.3 59 23-86 1-61 (61)
2 smart00380 AP2 DNA-binding dom 99.8 5E-21 1.1E-25 122.5 8.2 63 24-89 1-63 (64)
3 PHA00280 putative NHN endonucl 99.7 1.9E-16 4.1E-21 113.6 6.9 65 10-80 54-119 (121)
4 PF00847 AP2: AP2 domain; Int 99.4 2.6E-12 5.6E-17 79.3 6.4 53 23-77 1-56 (56)
5 PF14657 Integrase_AP2: AP2-li 87.1 2.6 5.6E-05 24.7 5.0 41 35-75 1-42 (46)
6 PHA02601 int integrase; Provis 79.4 3.8 8.2E-05 32.3 4.6 45 27-74 2-46 (333)
7 PF05036 SPOR: Sporulation rel 66.1 5.1 0.00011 24.4 2.0 22 50-71 44-65 (76)
8 cd00652 TBP_TLF TATA box bindi 64.8 44 0.00096 25.0 7.1 92 21-119 32-127 (174)
9 PLN00062 TATA-box-binding prot 62.2 51 0.0011 25.0 7.1 49 21-75 32-81 (179)
10 cd04516 TBP_eukaryotes eukaryo 62.1 52 0.0011 24.7 7.1 49 21-75 32-81 (174)
11 PF08471 Ribonuc_red_2_N: Clas 59.5 11 0.00025 26.0 2.8 21 54-74 70-90 (93)
12 PF08846 DUF1816: Domain of un 58.1 22 0.00048 23.1 3.9 41 35-78 9-49 (68)
13 PRK00394 transcription factor; 55.8 56 0.0012 24.6 6.4 49 21-75 31-80 (179)
14 cd04517 TLF TBP-like factors ( 54.3 74 0.0016 23.8 6.8 46 24-75 35-81 (174)
15 cd00801 INT_P4 Bacteriophage P 54.2 37 0.0008 26.3 5.3 43 28-75 4-50 (357)
16 PF00352 TBP: Transcription fa 49.0 73 0.0016 20.7 5.5 46 23-74 36-82 (86)
17 PF10729 CedA: Cell division a 44.9 49 0.0011 21.9 3.9 43 20-68 28-70 (80)
18 cd04518 TBP_archaea archaeal T 43.6 1.3E+02 0.0027 22.7 6.6 88 21-118 32-125 (174)
19 PF14112 DUF4284: Domain of un 40.0 19 0.00041 25.4 1.6 18 50-67 2-19 (122)
20 COG0197 RplP Ribosomal protein 39.0 58 0.0013 24.2 4.0 36 36-77 96-131 (146)
21 COG2410 Predicted nuclease (RN 31.8 64 0.0014 24.7 3.3 42 38-86 16-57 (178)
22 COG2101 SPT15 TATA-box binding 30.9 2.2E+02 0.0048 22.0 6.1 46 23-74 133-179 (185)
23 COG2101 SPT15 TATA-box binding 30.5 2.1E+02 0.0046 22.0 6.0 61 20-88 37-98 (185)
24 PF13356 DUF4102: Domain of un 28.7 1.4E+02 0.003 19.3 4.3 38 34-74 35-74 (89)
25 COG2185 Sbm Methylmalonyl-CoA 28.5 46 0.001 24.6 2.0 18 50-67 42-59 (143)
26 PRK10113 cell division modulat 26.9 57 0.0012 21.5 2.0 42 21-68 29-70 (80)
27 PRK09692 integrase; Provisiona 26.2 2.4E+02 0.0051 23.1 6.1 40 34-74 41-82 (413)
28 TIGR01164 rplP_bact ribosomal 23.3 1.8E+02 0.0039 20.7 4.3 33 35-74 91-124 (126)
29 PF09954 DUF2188: Uncharacteri 23.3 1.8E+02 0.004 17.5 4.7 39 28-73 3-41 (62)
30 PRK10905 cell division protein 22.6 1.6E+02 0.0034 24.8 4.3 20 51-70 287-306 (328)
31 PRK09203 rplP 50S ribosomal pr 22.1 1.7E+02 0.0037 21.1 4.0 35 35-76 92-127 (138)
32 CHL00044 rpl16 ribosomal prote 21.2 1.9E+02 0.0041 20.9 4.1 35 35-76 92-127 (135)
33 PF07384 DUF1497: Protein of u 20.0 72 0.0016 19.8 1.4 30 54-83 1-30 (59)
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=99.88 E-value=6.1e-23 Score=129.92 Aligned_cols=59 Identities=64% Similarity=1.128 Sum_probs=56.0
Q ss_pred CceeeEEECCCCcEEEEEecCCCCCC--CcEEeccCCCCHHHHHHHHHHHHHHhcCCCCCCCCCcc
Q 045684 23 RHYRGVRRRQWGTYAAEIRDSNPKKK--GARVWLGTYKTPEGAALAYDRAAFKMRGSKAKLNFPHL 86 (121)
Q Consensus 23 S~yrGV~~~~~gkW~A~I~~~~~~~~--gk~i~LG~f~t~eeAA~AYd~aa~~~~G~~a~~NFP~~ 86 (121)
|+|+||+++++|||+|+|++ + |+.++||+|+|+|||+.|||.++++++|.++.+|||++
T Consensus 1 s~~~GV~~~~~gkw~A~I~~-----~~~gk~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~ 61 (61)
T cd00018 1 SKYRGVRQRPWGKWVAEIRD-----PSGGRRIWLGTFDTAEEAARAYDRAALKLRGSSAVLNFPDS 61 (61)
T ss_pred CCccCEEECCCCcEEEEEEe-----CCCCceEccCCCCCHHHHHHHHHHHHHHhcCCccccCCCCC
Confidence 78999998878999999999 5 89999999999999999999999999999999999974
No 2
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.85 E-value=5e-21 Score=122.50 Aligned_cols=63 Identities=67% Similarity=1.165 Sum_probs=57.5
Q ss_pred ceeeEEECCCCcEEEEEecCCCCCCCcEEeccCCCCHHHHHHHHHHHHHHhcCCCCCCCCCccccc
Q 045684 24 HYRGVRRRQWGTYAAEIRDSNPKKKGARVWLGTYKTPEGAALAYDRAAFKMRGSKAKLNFPHLLES 89 (121)
Q Consensus 24 ~yrGV~~~~~gkW~A~I~~~~~~~~gk~i~LG~f~t~eeAA~AYd~aa~~~~G~~a~~NFP~~~~~ 89 (121)
+|+||+++++|||+|+|++ +. +|+.++||+|+|+||||.|||.++++++|.++.+|||.+.+.
T Consensus 1 ~~kGV~~~~~gkw~A~I~~--~~-~~k~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~~y~ 63 (64)
T smart00380 1 KYRGVRQRPWGKWVAEIRD--PS-KGKRVWLGTFDTAEEAARAYDRAAFKFRGRSARLNFPNSLYD 63 (64)
T ss_pred CEeeEEeCCCCeEEEEEEe--cC-CCcEEecCCCCCHHHHHHHHHHHHHHhcCCccccCCCCccCC
Confidence 5899998888999999998 33 478999999999999999999999999999999999997653
No 3
>PHA00280 putative NHN endonuclease
Probab=99.66 E-value=1.9e-16 Score=113.60 Aligned_cols=65 Identities=14% Similarity=0.219 Sum_probs=56.7
Q ss_pred cCCCCCCCCCCCCCceeeEE-ECCCCcEEEEEecCCCCCCCcEEeccCCCCHHHHHHHHHHHHHHhcCCCCC
Q 045684 10 EAPDTQPPPAKKDRHYRGVR-RRQWGTYAAEIRDSNPKKKGARVWLGTYKTPEGAALAYDRAAFKMRGSKAK 80 (121)
Q Consensus 10 ~~~~~~~~~~~~tS~yrGV~-~~~~gkW~A~I~~~~~~~~gk~i~LG~f~t~eeAA~AYd~aa~~~~G~~a~ 80 (121)
++...+..++.++|||+||+ .+..|||+|+|.+ +||+++||.|+++|+|+.||+ ++.++||++|.
T Consensus 54 eN~~N~~~~~~N~SG~kGV~~~k~~~kw~A~I~~-----~gK~~~lG~f~~~e~A~~a~~-~~~~lhGeFa~ 119 (121)
T PHA00280 54 ENSWNMKTPKSNTSGLKGLSWSKEREMWRGTVTA-----EGKQHNFRSRDLLEVVAWIYR-TRRELHGQFAR 119 (121)
T ss_pred HHhcccCCCCCCCCCCCeeEEecCCCeEEEEEEE-----CCEEEEcCCCCCHHHHHHHHH-HHHHHhhcccc
Confidence 34444456678999999999 6688999999999 999999999999999999997 77889999885
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=99.36 E-value=2.6e-12 Score=79.30 Aligned_cols=53 Identities=28% Similarity=0.407 Sum_probs=45.8
Q ss_pred CceeeEE-ECCCCcEEEEEecCCCCCCC--cEEeccCCCCHHHHHHHHHHHHHHhcCC
Q 045684 23 RHYRGVR-RRQWGTYAAEIRDSNPKKKG--ARVWLGTYKTPEGAALAYDRAAFKMRGS 77 (121)
Q Consensus 23 S~yrGV~-~~~~gkW~A~I~~~~~~~~g--k~i~LG~f~t~eeAA~AYd~aa~~~~G~ 77 (121)
|+|+||+ .+..++|+|+|++ +..+| |.++||.|++++||+++++.++..++|+
T Consensus 1 s~~~GV~~~~~~~~W~a~i~~--~~~~g~~k~f~~g~fg~~~eA~~~a~~~r~~~~~e 56 (56)
T PF00847_consen 1 SGYKGVSWDKRRGRWRAQIRV--WSENGKRKRFSVGKFGFEEEAKRAAIEARKELEGE 56 (56)
T ss_dssp SSSTTEEEETTTTEEEEEEEE--CCCTTEEEEEEECCCCCHHHHHHHHHHHHHHCTS-
T ss_pred CCcEEEEEcCCCCEEEEEEEE--cccCcccEEEeCccCCCHHHHHHHHHHHHHHhcCC
Confidence 7899998 6678999999998 33233 8999999999999999999999999874
No 5
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=87.06 E-value=2.6 Score=24.70 Aligned_cols=41 Identities=15% Similarity=0.110 Sum_probs=29.5
Q ss_pred cEEEEEe-cCCCCCCCcEEeccCCCCHHHHHHHHHHHHHHhc
Q 045684 35 TYAAEIR-DSNPKKKGARVWLGTYKTPEGAALAYDRAAFKMR 75 (121)
Q Consensus 35 kW~A~I~-~~~~~~~gk~i~LG~f~t~eeAA~AYd~aa~~~~ 75 (121)
+|...|. ..+...+.++++-+.|.|..||..+...+...+.
T Consensus 1 ~w~~~v~g~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~~~~~ 42 (46)
T PF14657_consen 1 TWYYRVYGYDDETGKRKQKTKRGFKTKKEAEKALAKIEAELE 42 (46)
T ss_pred CEEEEEEEEECCCCCEEEEEcCCCCcHHHHHHHHHHHHHHHH
Confidence 5888884 3211223367899999999999999988776654
No 6
>PHA02601 int integrase; Provisional
Probab=79.43 E-value=3.8 Score=32.28 Aligned_cols=45 Identities=20% Similarity=0.244 Sum_probs=30.5
Q ss_pred eEEECCCCcEEEEEecCCCCCCCcEEeccCCCCHHHHHHHHHHHHHHh
Q 045684 27 GVRRRQWGTYAAEIRDSNPKKKGARVWLGTYKTPEGAALAYDRAAFKM 74 (121)
Q Consensus 27 GV~~~~~gkW~A~I~~~~~~~~gk~i~LG~f~t~eeAA~AYd~aa~~~ 74 (121)
+|++.++|+|++++.. ....|+++.. +|.|..||....+.....+
T Consensus 2 ~~~~~~~g~w~~~~~~--~~~~g~r~~~-~f~tk~eA~~~~~~~~~~~ 46 (333)
T PHA02601 2 AVRKLKDGKWLCEIYP--NGRDGKRIRK-RFATKGEALAFENYTMAEV 46 (333)
T ss_pred ceEEcCCCCEEEEEEE--CCCCCchhhh-hhcCHHHHHHHHHHHHHhc
Confidence 5666777899999986 2224666653 5999998876655544433
No 7
>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=66.12 E-value=5.1 Score=24.44 Aligned_cols=22 Identities=27% Similarity=0.392 Sum_probs=18.6
Q ss_pred cEEeccCCCCHHHHHHHHHHHH
Q 045684 50 ARVWLGTYKTPEGAALAYDRAA 71 (121)
Q Consensus 50 k~i~LG~f~t~eeAA~AYd~aa 71 (121)
-++.+|.|++.++|..+.....
T Consensus 44 yrV~~G~f~~~~~A~~~~~~l~ 65 (76)
T PF05036_consen 44 YRVRVGPFSSREEAEAALRKLK 65 (76)
T ss_dssp EEEEECCECTCCHHHHHHHHHH
T ss_pred EEEEECCCCCHHHHHHHHHHHh
Confidence 4789999999999988887665
No 8
>cd00652 TBP_TLF 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. New members of the TBP family, called TBP-like proteins (TBLP, TLF, TLP) or TBP-related factors (TRF1, TRF2,TRP), are similar to the core domain of TBPs, with identical or chemically similar amino acids at many
Probab=64.83 E-value=44 Score=24.99 Aligned_cols=92 Identities=18% Similarity=0.155 Sum_probs=54.2
Q ss_pred CCCceeeEE-ECCCCcEEEEEecCCCCCCCcEEeccCCCCHHHHHHHHHHHHHHhc--CCCCCCCCCccccccCCCCCCC
Q 045684 21 KDRHYRGVR-RRQWGTYAAEIRDSNPKKKGARVWLGTYKTPEGAALAYDRAAFKMR--GSKAKLNFPHLLESVCNDESSS 97 (121)
Q Consensus 21 ~tS~yrGV~-~~~~gkW~A~I~~~~~~~~gk~i~LG~f~t~eeAA~AYd~aa~~~~--G~~a~~NFP~~~~~~~~~~~~~ 97 (121)
+..+|.||. |-..-+-.+.|.. +||-+..|. .++++|..|.++.+..+. |... ..|++-.-..---.-..
T Consensus 32 ePe~fpgli~R~~~P~~t~lIf~-----sGKivitGa-ks~~~~~~a~~~~~~~L~~~g~~~-~~~~~~~v~NIvas~~l 104 (174)
T cd00652 32 NPKRFPGVIMRLREPKTTALIFS-----SGKMVITGA-KSEEDAKLAARKYARILQKLGFPV-EKFPEFKVQNIVASCDL 104 (174)
T ss_pred CCCccceEEEEcCCCcEEEEEEC-----CCEEEEEec-CCHHHHHHHHHHHHHHHHHcCCCc-cccCceEEEEEEEEEEC
Confidence 346899987 4455667788888 888888887 467888888888777663 3221 13332100000000001
Q ss_pred CchhcHHHHHHHHh-hcccCCCC
Q 045684 98 STERSRDQAEKELQ-RHVLNTDA 119 (121)
Q Consensus 98 ~~~~~~~~~~~~~~-~~~~~~~~ 119 (121)
.-....+.++..++ .-.|+||-
T Consensus 105 ~~~i~L~~la~~~~~~~~YePe~ 127 (174)
T cd00652 105 GFPIRLEELALKHPENASYEPEL 127 (174)
T ss_pred CCcccHHHHHhhhhcccEECCcc
Confidence 11245777777775 66777763
No 9
>PLN00062 TATA-box-binding protein; Provisional
Probab=62.24 E-value=51 Score=24.97 Aligned_cols=49 Identities=22% Similarity=0.206 Sum_probs=37.9
Q ss_pred CCCceeeEE-ECCCCcEEEEEecCCCCCCCcEEeccCCCCHHHHHHHHHHHHHHhc
Q 045684 21 KDRHYRGVR-RRQWGTYAAEIRDSNPKKKGARVWLGTYKTPEGAALAYDRAAFKMR 75 (121)
Q Consensus 21 ~tS~yrGV~-~~~~gkW~A~I~~~~~~~~gk~i~LG~f~t~eeAA~AYd~aa~~~~ 75 (121)
+...|.||. |-..-+-.+-|.. .||-+..|. .++++|..|.++.+..+.
T Consensus 32 ePe~fpgli~Rl~~Pk~t~lIF~-----SGKiviTGa-ks~e~a~~a~~~~~~~L~ 81 (179)
T PLN00062 32 NPKRFAAVIMRIREPKTTALIFA-----SGKMVCTGA-KSEHDSKLAARKYARIIQ 81 (179)
T ss_pred CCccCcEEEEEeCCCcEEEEEEC-----CCeEEEEec-CCHHHHHHHHHHHHHHHH
Confidence 345899987 4455667888888 888888775 678899999988877774
No 10
>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=62.13 E-value=52 Score=24.74 Aligned_cols=49 Identities=22% Similarity=0.227 Sum_probs=38.1
Q ss_pred CCCceeeEE-ECCCCcEEEEEecCCCCCCCcEEeccCCCCHHHHHHHHHHHHHHhc
Q 045684 21 KDRHYRGVR-RRQWGTYAAEIRDSNPKKKGARVWLGTYKTPEGAALAYDRAAFKMR 75 (121)
Q Consensus 21 ~tS~yrGV~-~~~~gkW~A~I~~~~~~~~gk~i~LG~f~t~eeAA~AYd~aa~~~~ 75 (121)
+..+|.|+. |-..-+-.+.|+. .||-+..|. .++|+|..|.++.+..+.
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 346889987 4455677889998 899998887 467889989888877763
No 11
>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=59.47 E-value=11 Score=25.95 Aligned_cols=21 Identities=29% Similarity=0.452 Sum_probs=18.3
Q ss_pred ccCCCCHHHHHHHHHHHHHHh
Q 045684 54 LGTYKTPEGAALAYDRAAFKM 74 (121)
Q Consensus 54 LG~f~t~eeAA~AYd~aa~~~ 74 (121)
-|+|+|+++|..=||.....|
T Consensus 70 ~GYF~t~eDA~~FydEl~~mL 90 (93)
T PF08471_consen 70 GGYFATEEDAEAFYDELTYML 90 (93)
T ss_pred CCCcCCHHHHHHHHHHHHHHH
Confidence 499999999999999987655
No 12
>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=58.12 E-value=22 Score=23.10 Aligned_cols=41 Identities=20% Similarity=0.333 Sum_probs=29.2
Q ss_pred cEEEEEecCCCCCCCcEEeccCCCCHHHHHHHHHHHHHHhcCCC
Q 045684 35 TYAAEIRDSNPKKKGARVWLGTYKTPEGAALAYDRAAFKMRGSK 78 (121)
Q Consensus 35 kW~A~I~~~~~~~~gk~i~LG~f~t~eeAA~AYd~aa~~~~G~~ 78 (121)
.|-++|.-..|. -.+|-|-|++.+||..+.......+-.+.
T Consensus 9 aWWveI~T~~P~---ctYyFGPF~s~~eA~~~~~gyieDL~~Eg 49 (68)
T PF08846_consen 9 AWWVEIETQNPN---CTYYFGPFDSREEAEAALPGYIEDLESEG 49 (68)
T ss_pred cEEEEEEcCCCC---EEEEeCCcCCHHHHHHHhccHHHHHHhhC
Confidence 477788764433 36899999999999998766555554433
No 13
>PRK00394 transcription factor; Reviewed
Probab=55.85 E-value=56 Score=24.63 Aligned_cols=49 Identities=22% Similarity=0.165 Sum_probs=37.7
Q ss_pred CCCceeeEE-ECCCCcEEEEEecCCCCCCCcEEeccCCCCHHHHHHHHHHHHHHhc
Q 045684 21 KDRHYRGVR-RRQWGTYAAEIRDSNPKKKGARVWLGTYKTPEGAALAYDRAAFKMR 75 (121)
Q Consensus 21 ~tS~yrGV~-~~~~gkW~A~I~~~~~~~~gk~i~LG~f~t~eeAA~AYd~aa~~~~ 75 (121)
+..+|.|+. +-..-+-.+.|+. .||-+..|.. |+++|..|-++.+..+.
T Consensus 31 ePe~fpgli~Rl~~Pk~t~lIf~-----sGKiv~tGa~-S~~~a~~a~~~~~~~l~ 80 (179)
T PRK00394 31 NPEQFPGLVYRLEDPKIAALIFR-----SGKVVCTGAK-SVEDLHEAVKIIIKKLK 80 (179)
T ss_pred CcccCceEEEEecCCceEEEEEc-----CCcEEEEccC-CHHHHHHHHHHHHHHHH
Confidence 446899987 4455677888888 8999999985 67788888888776664
No 14
>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=54.26 E-value=74 Score=23.84 Aligned_cols=46 Identities=26% Similarity=0.228 Sum_probs=36.6
Q ss_pred ceeeEE-ECCCCcEEEEEecCCCCCCCcEEeccCCCCHHHHHHHHHHHHHHhc
Q 045684 24 HYRGVR-RRQWGTYAAEIRDSNPKKKGARVWLGTYKTPEGAALAYDRAAFKMR 75 (121)
Q Consensus 24 ~yrGV~-~~~~gkW~A~I~~~~~~~~gk~i~LG~f~t~eeAA~AYd~aa~~~~ 75 (121)
+|.||. |-..-+-.+-|+. +||-+..|. .++++|..|.++.+..+.
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 899987 4455677888988 888887775 789999999988877663
No 15
>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=54.19 E-value=37 Score=26.30 Aligned_cols=43 Identities=23% Similarity=0.214 Sum_probs=28.6
Q ss_pred EEECCCCcEEEEEecCCCCCCC--cEEeccCCC--CHHHHHHHHHHHHHHhc
Q 045684 28 VRRRQWGTYAAEIRDSNPKKKG--ARVWLGTYK--TPEGAALAYDRAAFKMR 75 (121)
Q Consensus 28 V~~~~~gkW~A~I~~~~~~~~g--k~i~LG~f~--t~eeAA~AYd~aa~~~~ 75 (121)
|.....+.|..++.. +| +++.||.|+ +.++|..........+.
T Consensus 4 ~~~~g~~~~~~~~~~-----~g~~~~~~~g~~~~~~~~~A~~~~~~~~~~~~ 50 (357)
T cd00801 4 VSPSGSKSWRFRYRL-----AGKRKRLTLGSYPAVSLAEAREKADEARALLA 50 (357)
T ss_pred EcCCCCEEEEEEecc-----CCceeEEeCcCCCCCCHHHHHHHHHHHHHHHH
Confidence 333444679999888 44 456899996 67777777666555543
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=48.95 E-value=73 Score=20.73 Aligned_cols=46 Identities=22% Similarity=0.200 Sum_probs=35.2
Q ss_pred CceeeEE-ECCCCcEEEEEecCCCCCCCcEEeccCCCCHHHHHHHHHHHHHHh
Q 045684 23 RHYRGVR-RRQWGTYAAEIRDSNPKKKGARVWLGTYKTPEGAALAYDRAAFKM 74 (121)
Q Consensus 23 S~yrGV~-~~~~gkW~A~I~~~~~~~~gk~i~LG~f~t~eeAA~AYd~aa~~~ 74 (121)
..|.||. +-..-+-.+.|.. .||-+..|. .++++|..|.+.....+
T Consensus 36 e~fpgl~~r~~~p~~t~~IF~-----sGki~itGa-ks~~~~~~a~~~i~~~L 82 (86)
T PF00352_consen 36 ERFPGLIYRLRNPKATVLIFS-----SGKIVITGA-KSEEEAKKAIEKILPIL 82 (86)
T ss_dssp TTESSEEEEETTTTEEEEEET-----TSEEEEEEE-SSHHHHHHHHHHHHHHH
T ss_pred ccCCeEEEeecCCcEEEEEEc-----CCEEEEEec-CCHHHHHHHHHHHHHHH
Confidence 4788987 4455567788888 888888886 68899999988876554
No 17
>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=44.93 E-value=49 Score=21.86 Aligned_cols=43 Identities=21% Similarity=0.161 Sum_probs=27.4
Q ss_pred CCCCceeeEEECCCCcEEEEEecCCCCCCCcEEeccCCCCHHHHHHHHH
Q 045684 20 KKDRHYRGVRRRQWGTYAAEIRDSNPKKKGARVWLGTYKTPEGAALAYD 68 (121)
Q Consensus 20 ~~tS~yrGV~~~~~gkW~A~I~~~~~~~~gk~i~LG~f~t~eeAA~AYd 68 (121)
-+--+|+-|+.-+ |||+|.+.. ...-..--.|..+|.|-+--.
T Consensus 28 ~k~dgfrdvw~lr-gkyvafvl~-----ge~f~rsp~fs~pesaqrwa~ 70 (80)
T PF10729_consen 28 LKMDGFRDVWQLR-GKYVAFVLM-----GEHFRRSPAFSVPESAQRWAN 70 (80)
T ss_dssp B-TTTECCECCCC-CEEEEEEES-----SS-EEE---BSSHHHHHHHHH
T ss_pred hhcccccceeeec-cceEEEEEe-----cchhccCCCcCCcHHHHHHHH
Confidence 4456888887444 999999997 333445567888988877533
No 18
>cd04518 TBP_archaea archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, 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=43.55 E-value=1.3e+02 Score=22.65 Aligned_cols=88 Identities=18% Similarity=0.151 Sum_probs=54.5
Q ss_pred CCCceeeEE-ECCCCcEEEEEecCCCCCCCcEEeccCCCCHHHHHHHHHHHHHHhcCCCCCCCCCcccc--ccCCC--CC
Q 045684 21 KDRHYRGVR-RRQWGTYAAEIRDSNPKKKGARVWLGTYKTPEGAALAYDRAAFKMRGSKAKLNFPHLLE--SVCND--ES 95 (121)
Q Consensus 21 ~tS~yrGV~-~~~~gkW~A~I~~~~~~~~gk~i~LG~f~t~eeAA~AYd~aa~~~~G~~a~~NFP~~~~--~~~~~--~~ 95 (121)
+..+|.|+. +-+.-+-.+.|.. .||-+..|. .++++|..|-++.+..+.- ++|+.... ..-.. .+
T Consensus 32 ~P~~fpgli~Rl~~Pk~t~lIF~-----SGKiv~tGa-ks~~~a~~a~~~~~~~L~~----~g~~~~~~~~~~i~NIVas 101 (174)
T cd04518 32 NPDQFPGLVYRLEDPKIAALIFR-----SGKMVCTGA-KSVEDLHRAVKEIIKKLKD----YGIKVIEKPEIKVQNIVAS 101 (174)
T ss_pred CCCcCcEEEEEccCCcEEEEEEC-----CCeEEEEcc-CCHHHHHHHHHHHHHHHHh----cCCCccCCCceEEEEEEEE
Confidence 346899987 4455567778888 888888886 7889999998888777652 33332100 00000 00
Q ss_pred CCC-chhcHHHHHHHHhhcccCCC
Q 045684 96 SSS-TERSRDQAEKELQRHVLNTD 118 (121)
Q Consensus 96 ~~~-~~~~~~~~~~~~~~~~~~~~ 118 (121)
-.+ .....+.++..++.-.|+||
T Consensus 102 ~~l~~~i~L~~la~~~~~~~YePe 125 (174)
T cd04518 102 ADLGREVNLDAIAIGLPNAEYEPE 125 (174)
T ss_pred EEcCCccCHHHHHhhCCCCccCcc
Confidence 001 12356777777777777776
No 19
>PF14112 DUF4284: Domain of unknown function (DUF4284)
Probab=40.01 E-value=19 Score=25.42 Aligned_cols=18 Identities=17% Similarity=0.689 Sum_probs=13.6
Q ss_pred cEEeccCCCCHHHHHHHH
Q 045684 50 ARVWLGTYKTPEGAALAY 67 (121)
Q Consensus 50 k~i~LG~f~t~eeAA~AY 67 (121)
-.+|||.|.|.++--.=.
T Consensus 2 VsiWiG~f~s~~el~~Y~ 19 (122)
T PF14112_consen 2 VSIWIGNFKSEDELEEYF 19 (122)
T ss_pred eEEEEecCCCHHHHHHHh
Confidence 368999999987765443
No 20
>COG0197 RplP Ribosomal protein L16/L10E [Translation, ribosomal structure and biogenesis]
Probab=39.00 E-value=58 Score=24.19 Aligned_cols=36 Identities=28% Similarity=0.191 Sum_probs=30.4
Q ss_pred EEEEEecCCCCCCCcEEeccCCCCHHHHHHHHHHHHHHhcCC
Q 045684 36 YAAEIRDSNPKKKGARVWLGTYKTPEGAALAYDRAAFKMRGS 77 (121)
Q Consensus 36 W~A~I~~~~~~~~gk~i~LG~f~t~eeAA~AYd~aa~~~~G~ 77 (121)
|.|+|.. |+.++-=..++++.|..|.-.|+.+|-+.
T Consensus 96 waArVkp------G~vlfei~g~~e~~A~EAlr~Aa~KLP~~ 131 (146)
T COG0197 96 WAARVKP------GRVLFEIAGVPEELAREALRRAAAKLPVK 131 (146)
T ss_pred EEEEecC------CcEEEEEecCcHHHHHHHHHHHhhcCCCc
Confidence 9999985 67888888888999999999999887554
No 21
>COG2410 Predicted nuclease (RNAse H fold) [General function prediction only]
Probab=31.81 E-value=64 Score=24.74 Aligned_cols=42 Identities=14% Similarity=0.166 Sum_probs=32.0
Q ss_pred EEEecCCCCCCCcEEeccCCCCHHHHHHHHHHHHHHhcCCCCCCCCCcc
Q 045684 38 AEIRDSNPKKKGARVWLGTYKTPEGAALAYDRAAFKMRGSKAKLNFPHL 86 (121)
Q Consensus 38 A~I~~~~~~~~gk~i~LG~f~t~eeAA~AYd~aa~~~~G~~a~~NFP~~ 86 (121)
--|+. .|+..++|.|++-||=-.+.+.+. .-+-+|.+|||..
T Consensus 16 vavl~-----~~~~~~i~~~s~~eeiv~s~~~a~--vvaiDAPLs~p~~ 57 (178)
T COG2410 16 VAVLI-----EGRIEIISAWSSREEIVESCKSAK--VVAIDAPLSLPAE 57 (178)
T ss_pred EEEEE-----CCEEEEEEcccccHHHHHHhhccc--eEEecCCcccccc
Confidence 35566 678999999999777665544443 7889999999995
No 22
>COG2101 SPT15 TATA-box binding protein (TBP), component of TFIID and TFIIIB [Transcription]
Probab=30.93 E-value=2.2e+02 Score=21.96 Aligned_cols=46 Identities=20% Similarity=0.240 Sum_probs=36.4
Q ss_pred CceeeEE-ECCCCcEEEEEecCCCCCCCcEEeccCCCCHHHHHHHHHHHHHHh
Q 045684 23 RHYRGVR-RRQWGTYAAEIRDSNPKKKGARVWLGTYKTPEGAALAYDRAAFKM 74 (121)
Q Consensus 23 S~yrGV~-~~~~gkW~A~I~~~~~~~~gk~i~LG~f~t~eeAA~AYd~aa~~~ 74 (121)
-+|.|.- |-..-|-+.-|.. .||-+..|. .+++||..|+.....++
T Consensus 133 EqFPGLVYRl~~P~VV~LiF~-----SGK~ViTGa-K~~ed~~~Av~~i~~~L 179 (185)
T COG2101 133 EQFPGLVYRLDEPRVVLLLFG-----SGKLVITGA-KSEEDAEQAVEKIQSRL 179 (185)
T ss_pred ccCCeeEEEcCCCCEEEEEec-----CCcEEEecC-CCHHHHHHHHHHHHHHH
Confidence 4688964 5566778888888 889998887 78899999998876665
No 23
>COG2101 SPT15 TATA-box binding protein (TBP), component of TFIID and TFIIIB [Transcription]
Probab=30.51 E-value=2.1e+02 Score=22.05 Aligned_cols=61 Identities=23% Similarity=0.219 Sum_probs=46.7
Q ss_pred CCCCceeeEE-ECCCCcEEEEEecCCCCCCCcEEeccCCCCHHHHHHHHHHHHHHhcCCCCCCCCCcccc
Q 045684 20 KKDRHYRGVR-RRQWGTYAAEIRDSNPKKKGARVWLGTYKTPEGAALAYDRAAFKMRGSKAKLNFPHLLE 88 (121)
Q Consensus 20 ~~tS~yrGV~-~~~~gkW~A~I~~~~~~~~gk~i~LG~f~t~eeAA~AYd~aa~~~~G~~a~~NFP~~~~ 88 (121)
-+..+|.|+. |-..-|-.+-|.. .||-+..|. .+.|+..+|-.+.+..++. ...+++..+.
T Consensus 37 YnP~qFpGlv~Rl~ePk~a~LIF~-----SGK~VcTGa-Ks~ed~~~av~~~~~~L~~--~g~~~~~~p~ 98 (185)
T COG2101 37 YNPEQFPGLVYRLEEPKTAALIFR-----SGKVVCTGA-KSVEDVHRAVKKLAKKLKD--GGIDIDFEPE 98 (185)
T ss_pred cCHhHCCeeEEEecCCcceEEEEe-----cCcEEEecc-CcHHHHHHHHHHHHHHHHh--cCcCcCCCCc
Confidence 4567899986 5466777888888 899999997 7888999998888888876 4455554433
No 24
>PF13356 DUF4102: Domain of unknown function (DUF4102); PDB: 3JU0_A 3RMP_A 3JTZ_A 2KJ8_A.
Probab=28.71 E-value=1.4e+02 Score=19.26 Aligned_cols=38 Identities=21% Similarity=0.114 Sum_probs=24.1
Q ss_pred CcEEEEEecCCCCCCCcEEeccCCCC--HHHHHHHHHHHHHHh
Q 045684 34 GTYAAEIRDSNPKKKGARVWLGTYKT--PEGAALAYDRAAFKM 74 (121)
Q Consensus 34 gkW~A~I~~~~~~~~gk~i~LG~f~t--~eeAA~AYd~aa~~~ 74 (121)
..|..+... .. +.+++.||.|.. ..+|..........+
T Consensus 35 kt~~~r~~~--~g-k~~~~~lG~~p~~sl~~AR~~a~~~~~~~ 74 (89)
T PF13356_consen 35 KTFYFRYRI--NG-KRRRITLGRYPELSLAEAREKARELRALV 74 (89)
T ss_dssp EEEEEEEEE--TT-EEEEEEEEECTTS-HHHHHHHHHHHHHHH
T ss_pred eEEEEEEEe--cc-eEEEeccCCCccCCHHHHHHHHHHHHHHH
Confidence 459988877 22 125689999986 666666555544433
No 25
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=28.47 E-value=46 Score=24.56 Aligned_cols=18 Identities=39% Similarity=0.497 Sum_probs=15.4
Q ss_pred cEEeccCCCCHHHHHHHH
Q 045684 50 ARVWLGTYKTPEGAALAY 67 (121)
Q Consensus 50 k~i~LG~f~t~eeAA~AY 67 (121)
.-+++|.|.|++|++++-
T Consensus 42 eVi~~g~~~tp~e~v~aA 59 (143)
T COG2185 42 EVINLGLFQTPEEAVRAA 59 (143)
T ss_pred eEEecCCcCCHHHHHHHH
Confidence 358999999999999874
No 26
>PRK10113 cell division modulator; Provisional
Probab=26.87 E-value=57 Score=21.51 Aligned_cols=42 Identities=21% Similarity=0.211 Sum_probs=28.2
Q ss_pred CCCceeeEEECCCCcEEEEEecCCCCCCCcEEeccCCCCHHHHHHHHH
Q 045684 21 KDRHYRGVRRRQWGTYAAEIRDSNPKKKGARVWLGTYKTPEGAALAYD 68 (121)
Q Consensus 21 ~tS~yrGV~~~~~gkW~A~I~~~~~~~~gk~i~LG~f~t~eeAA~AYd 68 (121)
+--+|+-|+.-+ |||+|.+.. ...-..--.|..+|.|-+--+
T Consensus 29 kmd~frDVW~Lr-GKYVAFvl~-----ge~FrRSPaFs~PEsAQRWAn 70 (80)
T PRK10113 29 KMDSFRDVWMLR-GKYVAFVLM-----GESFLRSPAFSVPESAQRWAN 70 (80)
T ss_pred hhcchhhhheec-cceEEEEEe-----chhhccCCccCCcHHHHHHHH
Confidence 455788886444 899999887 222334467888888876543
No 27
>PRK09692 integrase; Provisional
Probab=26.15 E-value=2.4e+02 Score=23.07 Aligned_cols=40 Identities=15% Similarity=0.060 Sum_probs=24.7
Q ss_pred CcEEEEEecCCCCCCCcEEeccCCC--CHHHHHHHHHHHHHHh
Q 045684 34 GTYAAEIRDSNPKKKGARVWLGTYK--TPEGAALAYDRAAFKM 74 (121)
Q Consensus 34 gkW~A~I~~~~~~~~gk~i~LG~f~--t~eeAA~AYd~aa~~~ 74 (121)
..|..+.+.+.+. +.+++.||.|+ |..+|..+...+...+
T Consensus 41 k~~~~rY~~~~~g-k~~~~~lG~yp~~sl~~AR~~a~~~~~~~ 82 (413)
T PRK09692 41 KIWQFRYYRPLTK-TRAKKSFGPYPSVTLADARNYRAESRSLL 82 (413)
T ss_pred EEEEEEEecCCCC-ceeeeeCCCCCCCCHHHHHHHHHHHHHHH
Confidence 4498887642112 22447899999 7777766655544444
No 28
>TIGR01164 rplP_bact ribosomal protein L16, bacterial/organelle. This model describes bacterial and organellar ribosomal protein L16. The homologous protein of the eukaryotic cytosol is designated L10
Probab=23.28 E-value=1.8e+02 Score=20.67 Aligned_cols=33 Identities=24% Similarity=0.220 Sum_probs=25.8
Q ss_pred cEEEEEecCCCCCCCcEE-eccCCCCHHHHHHHHHHHHHHh
Q 045684 35 TYAAEIRDSNPKKKGARV-WLGTYKTPEGAALAYDRAAFKM 74 (121)
Q Consensus 35 kW~A~I~~~~~~~~gk~i-~LG~f~t~eeAA~AYd~aa~~~ 74 (121)
-|.|.|.. |+-+ .++. .+++.|..|...++.+|
T Consensus 91 ~~varV~~------G~ilfEi~~-~~~~~a~~al~~a~~KL 124 (126)
T TIGR01164 91 YWVAVVKP------GKILFEIAG-VPEEVAREAFRLAASKL 124 (126)
T ss_pred EEEEEECC------CCEEEEEeC-CCHHHHHHHHHHHHhcC
Confidence 39999986 4555 4555 89999999999988765
No 29
>PF09954 DUF2188: Uncharacterized protein conserved in bacteria (DUF2188); InterPro: IPR018691 This family has no known function.
Probab=23.26 E-value=1.8e+02 Score=17.53 Aligned_cols=39 Identities=26% Similarity=0.145 Sum_probs=25.3
Q ss_pred EEECCCCcEEEEEecCCCCCCCcEEeccCCCCHHHHHHHHHHHHHH
Q 045684 28 VRRRQWGTYAAEIRDSNPKKKGARVWLGTYKTPEGAALAYDRAAFK 73 (121)
Q Consensus 28 V~~~~~gkW~A~I~~~~~~~~gk~i~LG~f~t~eeAA~AYd~aa~~ 73 (121)
|..+..+.|....-. ..--..+|+|.+||..+=...+..
T Consensus 3 V~p~~~~~W~v~~eg-------~~ra~~~~~Tk~eAi~~Ar~~a~~ 41 (62)
T PF09954_consen 3 VVPREDGGWAVKKEG-------AKRASKTFDTKAEAIEAARELAKN 41 (62)
T ss_pred EEecCCCCceEEeCC-------CcccccccCcHHHHHHHHHHHHHh
Confidence 333445779877654 233378999999998775555543
No 30
>PRK10905 cell division protein DamX; Validated
Probab=22.57 E-value=1.6e+02 Score=24.77 Aligned_cols=20 Identities=25% Similarity=0.218 Sum_probs=16.6
Q ss_pred EEeccCCCCHHHHHHHHHHH
Q 045684 51 RVWLGTYKTPEGAALAYDRA 70 (121)
Q Consensus 51 ~i~LG~f~t~eeAA~AYd~a 70 (121)
.+..|.|.+.+||.+|-...
T Consensus 287 VV~yG~YaSraeAk~AiakL 306 (328)
T PRK10905 287 VLVSGVYASKEEAKRAVSTL 306 (328)
T ss_pred EEEecCCCCHHHHHHHHHHC
Confidence 45789999999999997663
No 31
>PRK09203 rplP 50S ribosomal protein L16; Reviewed
Probab=22.13 E-value=1.7e+02 Score=21.11 Aligned_cols=35 Identities=23% Similarity=0.114 Sum_probs=27.0
Q ss_pred cEEEEEecCCCCCCCcEE-eccCCCCHHHHHHHHHHHHHHhcC
Q 045684 35 TYAAEIRDSNPKKKGARV-WLGTYKTPEGAALAYDRAAFKMRG 76 (121)
Q Consensus 35 kW~A~I~~~~~~~~gk~i-~LG~f~t~eeAA~AYd~aa~~~~G 76 (121)
-|.|+|.. |+-+ -++. .+++.|..|...|+.+|-+
T Consensus 92 ~~varVk~------G~iifEi~~-~~~~~a~~al~~a~~KLP~ 127 (138)
T PRK09203 92 YWVAVVKP------GRILFEIAG-VSEELAREALRLAAAKLPI 127 (138)
T ss_pred EEEEEECC------CCEEEEEeC-CCHHHHHHHHHHHhccCCC
Confidence 39999986 4555 4555 8999999999999887654
No 32
>CHL00044 rpl16 ribosomal protein L16
Probab=21.19 E-value=1.9e+02 Score=20.90 Aligned_cols=35 Identities=26% Similarity=0.234 Sum_probs=25.6
Q ss_pred cEEEEEecCCCCCCCcEE-eccCCCCHHHHHHHHHHHHHHhcC
Q 045684 35 TYAAEIRDSNPKKKGARV-WLGTYKTPEGAALAYDRAAFKMRG 76 (121)
Q Consensus 35 kW~A~I~~~~~~~~gk~i-~LG~f~t~eeAA~AYd~aa~~~~G 76 (121)
-|.|.|.. |+-+ -++. .+++.|..|...++.+|-.
T Consensus 92 ~~va~V~~------G~ilfEi~g-~~~~~ak~al~~a~~KLP~ 127 (135)
T CHL00044 92 YWVAVVKP------GRILYEMGG-VSETIARAAIKIAAYKMPI 127 (135)
T ss_pred EEEEEECC------CcEEEEEeC-CCHHHHHHHHHHHhhcCCC
Confidence 39999986 4555 4544 6678999999888887643
No 33
>PF07384 DUF1497: Protein of unknown function (DUF1497); InterPro: IPR009972 This entry is represented by Bacteriophage r1t, Orf17. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several phage and bacterial proteins of around 59 residues in length. Members of this family seem to be found exclusively in Lactococcus lactis and the bacteriophages that infect this organism. The function of this family is unknown.
Probab=20.01 E-value=72 Score=19.80 Aligned_cols=30 Identities=17% Similarity=0.275 Sum_probs=21.9
Q ss_pred ccCCCCHHHHHHHHHHHHHHhcCCCCCCCC
Q 045684 54 LGTYKTPEGAALAYDRAAFKMRGSKAKLNF 83 (121)
Q Consensus 54 LG~f~t~eeAA~AYd~aa~~~~G~~a~~NF 83 (121)
.|+||+..||.+.-..|...+..+..+-.|
T Consensus 1 mgyyd~~nearrisklas~~isseq~~kef 30 (59)
T PF07384_consen 1 MGYYDKRNEARRISKLASQNISSEQNRKEF 30 (59)
T ss_pred CCcccchhHHHHHHHHHhcccchhhhhhhh
Confidence 489999999999887777666555444334
Done!