Query 022553
Match_columns 295
No_of_seqs 248 out of 1085
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 04:25:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022553.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022553hhsearch_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 3E-20 6.6E-25 136.7 7.8 60 104-163 1-60 (61)
2 smart00380 AP2 DNA-binding dom 99.8 2.8E-19 6E-24 133.3 7.9 61 105-165 1-61 (64)
3 PHA00280 putative NHN endonucl 99.6 3.2E-15 6.9E-20 125.7 6.8 72 84-158 47-119 (121)
4 PF00847 AP2: AP2 domain; Int 99.1 1.9E-10 4.2E-15 82.6 6.9 52 104-155 1-56 (56)
5 PF14657 Integrase_AP2: AP2-li 78.2 8.2 0.00018 26.8 5.5 38 116-153 1-42 (46)
6 PHA02601 int integrase; Provis 63.9 10 0.00023 35.1 4.4 44 108-152 2-46 (333)
7 cd00801 INT_P4 Bacteriophage P 59.7 18 0.0004 33.0 5.2 38 115-152 10-49 (357)
8 PRK09692 integrase; Provisiona 51.5 38 0.00082 32.8 6.1 42 109-150 33-80 (413)
9 PF05036 SPOR: Sporulation rel 44.2 20 0.00043 25.8 2.2 24 126-149 42-65 (76)
10 PF08846 DUF1816: Domain of un 42.1 51 0.0011 25.6 4.3 37 116-152 9-45 (68)
11 PF13356 DUF4102: Domain of un 40.3 84 0.0018 24.3 5.4 48 105-152 21-74 (89)
12 PF10729 CedA: Cell division a 37.3 62 0.0013 25.6 4.1 37 104-143 31-67 (80)
13 PF14112 DUF4284: Domain of un 27.5 43 0.00093 28.1 2.0 18 128-145 2-19 (122)
14 PF00352 TBP: Transcription fa 26.0 2.8E+02 0.0061 21.4 6.2 46 104-152 36-82 (86)
15 PF07494 Reg_prop: Two compone 23.9 92 0.002 18.8 2.5 11 126-136 14-24 (24)
16 PF09003 Phage_integ_N: Bacter 21.9 2E+02 0.0043 22.8 4.6 33 121-155 31-63 (75)
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=99.82 E-value=3e-20 Score=136.74 Aligned_cols=60 Identities=65% Similarity=1.155 Sum_probs=57.1
Q ss_pred CccccEEeCCCCcEEEEEecCCCCeEEeecCCCCHHHHHHHHHHHHHHhcCCCCCCCCCC
Q 022553 104 NKYRGVRMRPWGKWAAEIRDPFQRTRVWLGTFETAEEAALVYDQAAIRLKGPHAQTNFLR 163 (295)
Q Consensus 104 S~yRGVr~r~~GKW~AeIr~p~~~kriwLGTFdT~EEAA~AYD~Aa~~l~G~~A~~NF~~ 163 (295)
|+|+||+++++|||+|+|+++..++++|||+|+|+|||+.|||.|+++++|..+.+|||.
T Consensus 1 s~~~GV~~~~~gkw~A~I~~~~~gk~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~ 60 (61)
T cd00018 1 SKYRGVRQRPWGKWVAEIRDPSGGRRIWLGTFDTAEEAARAYDRAALKLRGSSAVLNFPD 60 (61)
T ss_pred CCccCEEECCCCcEEEEEEeCCCCceEccCCCCCHHHHHHHHHHHHHHhcCCccccCCCC
Confidence 689999988889999999997669999999999999999999999999999999999985
No 2
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=99.79 E-value=2.8e-19 Score=133.28 Aligned_cols=61 Identities=64% Similarity=1.129 Sum_probs=57.9
Q ss_pred ccccEEeCCCCcEEEEEecCCCCeEEeecCCCCHHHHHHHHHHHHHHhcCCCCCCCCCCCC
Q 022553 105 KYRGVRMRPWGKWAAEIRDPFQRTRVWLGTFETAEEAALVYDQAAIRLKGPHAQTNFLRPP 165 (295)
Q Consensus 105 ~yRGVr~r~~GKW~AeIr~p~~~kriwLGTFdT~EEAA~AYD~Aa~~l~G~~A~~NF~~~~ 165 (295)
+|+||+++++|||+|+|++|.+++++|||+|+|+||||.|||.|+++++|..+.+|||.+.
T Consensus 1 ~~kGV~~~~~gkw~A~I~~~~~~k~~~lG~f~t~eeAa~Ayd~a~~~~~g~~a~~Nf~~~~ 61 (64)
T smart00380 1 KYRGVRQRPWGKWVAEIRDPSKGKRVWLGTFDTAEEAARAYDRAAFKFRGRSARLNFPNSL 61 (64)
T ss_pred CEeeEEeCCCCeEEEEEEecCCCcEEecCCCCCHHHHHHHHHHHHHHhcCCccccCCCCcc
Confidence 5899988899999999999999999999999999999999999999999999999998653
No 3
>PHA00280 putative NHN endonuclease
Probab=99.58 E-value=3.2e-15 Score=125.68 Aligned_cols=72 Identities=14% Similarity=0.167 Sum_probs=65.1
Q ss_pred hccccCcccccccCCCCCCCCccccE-EeCCCCcEEEEEecCCCCeEEeecCCCCHHHHHHHHHHHHHHhcCCCCC
Q 022553 84 QRMKDRSIPLKKRVGGRSYDNKYRGV-RMRPWGKWAAEIRDPFQRTRVWLGTFETAEEAALVYDQAAIRLKGPHAQ 158 (295)
Q Consensus 84 ~r~~~r~~~~~~~~~~~~~~S~yRGV-r~r~~GKW~AeIr~p~~~kriwLGTFdT~EEAA~AYD~Aa~~l~G~~A~ 158 (295)
=|.+++.+|++|++..++|+|||+|| +.+..|||+|+|++ +||+++||.|+++|+|+.||. ++.+|||.+|.
T Consensus 47 Lr~~T~~eN~~N~~~~~~N~SG~kGV~~~k~~~kw~A~I~~--~gK~~~lG~f~~~e~A~~a~~-~~~~lhGeFa~ 119 (121)
T PHA00280 47 LRLALPKENSWNMKTPKSNTSGLKGLSWSKEREMWRGTVTA--EGKQHNFRSRDLLEVVAWIYR-TRRELHGQFAR 119 (121)
T ss_pred hhhcCHHHHhcccCCCCCCCCCCCeeEEecCCCeEEEEEEE--CCEEEEcCCCCCHHHHHHHHH-HHHHHhhcccc
Confidence 45578888989988889999999999 56788999999999 999999999999999999997 77899999885
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=99.12 E-value=1.9e-10 Score=82.57 Aligned_cols=52 Identities=35% Similarity=0.494 Sum_probs=45.4
Q ss_pred CccccEE-eCCCCcEEEEEecCCC---CeEEeecCCCCHHHHHHHHHHHHHHhcCC
Q 022553 104 NKYRGVR-MRPWGKWAAEIRDPFQ---RTRVWLGTFETAEEAALVYDQAAIRLKGP 155 (295)
Q Consensus 104 S~yRGVr-~r~~GKW~AeIr~p~~---~kriwLGTFdT~EEAA~AYD~Aa~~l~G~ 155 (295)
|+|+||+ .+..++|+|.|+++.. +++++||.|++++||++||+.+++.++|+
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 6899995 5678999999999532 49999999999999999999999999874
No 5
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=78.22 E-value=8.2 Score=26.81 Aligned_cols=38 Identities=18% Similarity=0.209 Sum_probs=29.8
Q ss_pred cEEEEE--ecCCCC--eEEeecCCCCHHHHHHHHHHHHHHhc
Q 022553 116 KWAAEI--RDPFQR--TRVWLGTFETAEEAALVYDQAAIRLK 153 (295)
Q Consensus 116 KW~AeI--r~p~~~--kriwLGTFdT~EEAA~AYD~Aa~~l~ 153 (295)
+|...| .+|..| ++++-+-|.|..||..+...+...+.
T Consensus 1 ~w~~~v~g~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~~~~~ 42 (46)
T PF14657_consen 1 TWYYRVYGYDDETGKRKQKTKRGFKTKKEAEKALAKIEAELE 42 (46)
T ss_pred CEEEEEEEEECCCCCEEEEEcCCCCcHHHHHHHHHHHHHHHH
Confidence 588888 355444 77899999999999999888776653
No 6
>PHA02601 int integrase; Provisional
Probab=63.94 E-value=10 Score=35.13 Aligned_cols=44 Identities=27% Similarity=0.301 Sum_probs=30.4
Q ss_pred cEEeCCCCcEEEEEecC-CCCeEEeecCCCCHHHHHHHHHHHHHHh
Q 022553 108 GVRMRPWGKWAAEIRDP-FQRTRVWLGTFETAEEAALVYDQAAIRL 152 (295)
Q Consensus 108 GVr~r~~GKW~AeIr~p-~~~kriwLGTFdT~EEAA~AYD~Aa~~l 152 (295)
||++.+.|+|.++++.. ..|+|+. .+|.|..||..........+
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 57777889999999852 2356654 36999999876655544443
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=59.68 E-value=18 Score=33.03 Aligned_cols=38 Identities=29% Similarity=0.352 Sum_probs=28.6
Q ss_pred CcEEEEEecCCCCeEEeecCCC--CHHHHHHHHHHHHHHh
Q 022553 115 GKWAAEIRDPFQRTRVWLGTFE--TAEEAALVYDQAAIRL 152 (295)
Q Consensus 115 GKW~AeIr~p~~~kriwLGTFd--T~EEAA~AYD~Aa~~l 152 (295)
+.|..+++.....+++.||+|+ +.++|..........+
T Consensus 10 ~~~~~~~~~~g~~~~~~~g~~~~~~~~~A~~~~~~~~~~~ 49 (357)
T cd00801 10 KSWRFRYRLAGKRKRLTLGSYPAVSLAEAREKADEARALL 49 (357)
T ss_pred EEEEEEeccCCceeEEeCcCCCCCCHHHHHHHHHHHHHHH
Confidence 5699999986556788899995 7778877776655554
No 8
>PRK09692 integrase; Provisional
Probab=51.50 E-value=38 Score=32.85 Aligned_cols=42 Identities=19% Similarity=0.364 Sum_probs=27.5
Q ss_pred EEeCCCCc--EEEEEecCCCCeE--EeecCCC--CHHHHHHHHHHHHH
Q 022553 109 VRMRPWGK--WAAEIRDPFQRTR--VWLGTFE--TAEEAALVYDQAAI 150 (295)
Q Consensus 109 Vr~r~~GK--W~AeIr~p~~~kr--iwLGTFd--T~EEAA~AYD~Aa~ 150 (295)
|+-++.|. |..+-+.|.+|++ +-||.|. |..+|..+...+..
T Consensus 33 l~v~~~G~k~~~~rY~~~~~gk~~~~~lG~yp~~sl~~AR~~a~~~~~ 80 (413)
T PRK09692 33 LLIKSSGSKIWQFRYYRPLTKTRAKKSFGPYPSVTLADARNYRAESRS 80 (413)
T ss_pred EEEECCCcEEEEEEEecCCCCceeeeeCCCCCCCCHHHHHHHHHHHHH
Confidence 34455554 9998876645544 6899999 77777665544443
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=44.17 E-value=20 Score=25.77 Aligned_cols=24 Identities=29% Similarity=0.383 Sum_probs=19.9
Q ss_pred CCeEEeecCCCCHHHHHHHHHHHH
Q 022553 126 QRTRVWLGTFETAEEAALVYDQAA 149 (295)
Q Consensus 126 ~~kriwLGTFdT~EEAA~AYD~Aa 149 (295)
..-|+.+|.|.+.++|..+.....
T Consensus 42 ~~yrV~~G~f~~~~~A~~~~~~l~ 65 (76)
T PF05036_consen 42 PWYRVRVGPFSSREEAEAALRKLK 65 (76)
T ss_dssp TCEEEEECCECTCCHHHHHHHHHH
T ss_pred ceEEEEECCCCCHHHHHHHHHHHh
Confidence 446889999999999998877655
No 10
>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=42.09 E-value=51 Score=25.61 Aligned_cols=37 Identities=24% Similarity=0.375 Sum_probs=28.5
Q ss_pred cEEEEEecCCCCeEEeecCCCCHHHHHHHHHHHHHHh
Q 022553 116 KWAAEIRDPFQRTRVWLGTFETAEEAALVYDQAAIRL 152 (295)
Q Consensus 116 KW~AeIr~p~~~kriwLGTFdT~EEAA~AYD~Aa~~l 152 (295)
.|=++|.--.-.-..|.|-|.|.+||..+.-.-..-+
T Consensus 9 aWWveI~T~~P~ctYyFGPF~s~~eA~~~~~gyieDL 45 (68)
T PF08846_consen 9 AWWVEIETQNPNCTYYFGPFDSREEAEAALPGYIEDL 45 (68)
T ss_pred cEEEEEEcCCCCEEEEeCCcCCHHHHHHHhccHHHHH
Confidence 4778888855668899999999999998865443333
No 11
>PF13356 DUF4102: Domain of unknown function (DUF4102); PDB: 3JU0_A 3RMP_A 3JTZ_A 2KJ8_A.
Probab=40.25 E-value=84 Score=24.27 Aligned_cols=48 Identities=23% Similarity=0.270 Sum_probs=28.7
Q ss_pred ccccE--EeCCCC--cEEEEEecCCCCeEEeecCCC--CHHHHHHHHHHHHHHh
Q 022553 105 KYRGV--RMRPWG--KWAAEIRDPFQRTRVWLGTFE--TAEEAALVYDQAAIRL 152 (295)
Q Consensus 105 ~yRGV--r~r~~G--KW~AeIr~p~~~kriwLGTFd--T~EEAA~AYD~Aa~~l 152 (295)
+..|. +-.+.| .|.-+.+.....+++.||.|. |..+|......+...+
T Consensus 21 ~~~GL~l~v~~~G~kt~~~r~~~~gk~~~~~lG~~p~~sl~~AR~~a~~~~~~~ 74 (89)
T PF13356_consen 21 GVPGLYLRVTPSGSKTFYFRYRINGKRRRITLGRYPELSLAEAREKARELRALV 74 (89)
T ss_dssp ESTTEEEEE-TTS-EEEEEEEEETTEEEEEEEEECTTS-HHHHHHHHHHHHHHH
T ss_pred CCCCcEEEEEeCCCeEEEEEEEecceEEEeccCCCccCCHHHHHHHHHHHHHHH
Confidence 34554 334554 498888874445789999996 4556655554444444
No 12
>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=37.34 E-value=62 Score=25.59 Aligned_cols=37 Identities=22% Similarity=0.179 Sum_probs=24.6
Q ss_pred CccccEEeCCCCcEEEEEecCCCCeEEeecCCCCHHHHHH
Q 022553 104 NKYRGVRMRPWGKWAAEIRDPFQRTRVWLGTFETAEEAAL 143 (295)
Q Consensus 104 S~yRGVr~r~~GKW~AeIr~p~~~kriwLGTFdT~EEAA~ 143 (295)
-+||.||.-+ |||+|.+.. +-.-.---.|.-+|.|.+
T Consensus 31 dgfrdvw~lr-gkyvafvl~--ge~f~rsp~fs~pesaqr 67 (80)
T PF10729_consen 31 DGFRDVWQLR-GKYVAFVLM--GEHFRRSPAFSVPESAQR 67 (80)
T ss_dssp TTECCECCCC-CEEEEEEES--SS-EEE---BSSHHHHHH
T ss_pred ccccceeeec-cceEEEEEe--cchhccCCCcCCcHHHHH
Confidence 6899998654 999999987 444344467877777654
No 13
>PF14112 DUF4284: Domain of unknown function (DUF4284)
Probab=27.45 E-value=43 Score=28.07 Aligned_cols=18 Identities=22% Similarity=0.796 Sum_probs=13.9
Q ss_pred eEEeecCCCCHHHHHHHH
Q 022553 128 TRVWLGTFETAEEAALVY 145 (295)
Q Consensus 128 kriwLGTFdT~EEAA~AY 145 (295)
..+|||+|.+.++-..=.
T Consensus 2 VsiWiG~f~s~~el~~Y~ 19 (122)
T PF14112_consen 2 VSIWIGNFKSEDELEEYF 19 (122)
T ss_pred eEEEEecCCCHHHHHHHh
Confidence 469999999988765543
No 14
>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=25.96 E-value=2.8e+02 Score=21.42 Aligned_cols=46 Identities=22% Similarity=0.189 Sum_probs=33.4
Q ss_pred CccccEEeC-CCCcEEEEEecCCCCeEEeecCCCCHHHHHHHHHHHHHHh
Q 022553 104 NKYRGVRMR-PWGKWAAEIRDPFQRTRVWLGTFETAEEAALVYDQAAIRL 152 (295)
Q Consensus 104 S~yRGVr~r-~~GKW~AeIr~p~~~kriwLGTFdT~EEAA~AYD~Aa~~l 152 (295)
.+|.||..| ..-+-.+-|.. .|+-+..|+ .+.|+|..|.+.....+
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 588998544 33455666666 899888886 67889999988766554
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=23.90 E-value=92 Score=18.79 Aligned_cols=11 Identities=27% Similarity=0.999 Sum_probs=8.7
Q ss_pred CCeEEeecCCC
Q 022553 126 QRTRVWLGTFE 136 (295)
Q Consensus 126 ~~kriwLGTFd 136 (295)
...++|+||+.
T Consensus 14 ~~G~lWigT~~ 24 (24)
T PF07494_consen 14 SDGNLWIGTYN 24 (24)
T ss_dssp TTSCEEEEETS
T ss_pred CCcCEEEEeCC
Confidence 56689999974
No 16
>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=21.92 E-value=2e+02 Score=22.77 Aligned_cols=33 Identities=27% Similarity=0.305 Sum_probs=21.5
Q ss_pred EecCCCCeEEeecCCCCHHHHHHHHHHHHHHhcCC
Q 022553 121 IRDPFQRTRVWLGTFETAEEAALVYDQAAIRLKGP 155 (295)
Q Consensus 121 Ir~p~~~kriwLGTFdT~EEAA~AYD~Aa~~l~G~ 155 (295)
-|.|..|+.+.||+ +.++|..+=-.|-..+...
T Consensus 31 Yr~P~tGk~~~LG~--d~~~Ai~~A~eaN~~i~~~ 63 (75)
T PF09003_consen 31 YRNPITGKEHGLGT--DRAEAIAQAIEANLRIAEQ 63 (75)
T ss_dssp EE-TTTS-EEEEES---HHHHHHHHHHHHHHHTSS
T ss_pred EecCCCCceeeCCC--CHHHHHHHHHHHHHHHHHh
Confidence 36788999999999 7777766655566666443
Done!