Query 031023
Match_columns 167
No_of_seqs 28 out of 30
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 08:05:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031023.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031023hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG4771 FepA Outer membrane re 67.7 13 0.00029 37.0 5.9 71 88-163 202-305 (699)
2 PHA03296 envelope glycoprotein 53.7 6.8 0.00015 39.3 1.3 15 48-62 604-618 (814)
3 KOG4105 6-pyruvoyl tetrahydrob 49.8 11 0.00023 30.5 1.6 27 27-53 49-75 (141)
4 PF14683 CBM-like: Polysacchar 31.2 36 0.00078 27.5 2.0 31 127-157 39-71 (167)
5 COG4571 OmpT Outer membrane pr 30.9 91 0.002 28.5 4.6 66 92-160 136-220 (314)
6 cd00264 BPI BPI/LBP/CETP domai 30.1 31 0.00067 27.1 1.4 88 2-97 107-207 (208)
7 PF01330 RuvA_N: RuvA N termin 28.4 40 0.00086 22.6 1.5 12 143-154 49-60 (61)
8 PRK10049 pgaA outer membrane p 28.2 1.1E+02 0.0024 29.7 5.1 46 90-139 531-576 (765)
9 PF08770 SoxZ: Sulphur oxidati 27.3 1.3E+02 0.0027 22.6 4.2 30 90-119 55-87 (100)
10 PF11751 DUF3308: Protein of u 27.1 3.3E+02 0.0072 22.6 7.2 94 12-118 177-272 (274)
11 PHA03294 envelope glycoprotein 26.7 21 0.00047 36.1 0.0 60 3-62 578-650 (835)
12 cd00835 RanBD Ran-binding doma 25.9 2.2E+02 0.0047 21.3 5.4 33 123-155 53-87 (122)
13 cd00121 MATH MATH (meprin and 25.3 1E+02 0.0022 21.0 3.2 18 142-159 21-38 (126)
14 cd03775 MATH_Ubp21p Ubiquitin- 24.8 85 0.0019 23.5 3.0 38 115-161 2-39 (134)
15 cd03774 MATH_SPOP Speckle-type 22.6 1.1E+02 0.0023 22.9 3.1 42 114-160 5-49 (139)
16 PF07585 DUF1551: Protein of u 21.5 4.2E+02 0.0092 23.6 7.1 26 61-86 199-225 (339)
17 PF07305 DUF1454: Protein of u 20.8 89 0.0019 26.9 2.6 36 43-78 125-173 (200)
18 PF01065 Adeno_hexon: Hexon, a 20.7 1.2E+02 0.0025 29.4 3.6 40 70-109 29-73 (495)
No 1
>COG4771 FepA Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]
Probab=67.71 E-value=13 Score=36.96 Aligned_cols=71 Identities=20% Similarity=0.411 Sum_probs=47.8
Q ss_pred CceeEEEEeeeeeeCc------c--------c-c--cccceeeEEEEEEeecccccceeEEEeceeec------------
Q 031023 88 TGLLSFNIKGRCEVDK------E--------F-K--QRKSRGAAEFSWSIFNFQKDQDVRFKLGYEVV------------ 138 (167)
Q Consensus 88 ngl~~~~lKg~~~~d~------~--------~-~--~~~~~G~vels~~IfnF~~dQDvRLk~Gy~v~------------ 138 (167)
|+.|+|.|.|....=. . . . ....-+.++|||+ ++++|.+.|.+||..-
T Consensus 202 ~d~Lgl~lyG~~~~r~~d~~~~~~~~~~~~~~~~eg~~n~d~~~~lsw~---~tp~~~~~feaG~sRqg~D~q~~~s~a~ 278 (699)
T COG4771 202 DDKLGLRLYGSLAKRQEDDVDINTTAAGRTPAGREGVNNKDINGRLSWK---ATPDQVLDFEAGYSRQGRDTQNGNSDAL 278 (699)
T ss_pred CCceEEEEEcccccccccccccCcccccccccCcccceecCCceEEEee---cCCCceEEEecccccccccCCCCccccc
Confidence 5677888888773211 1 0 1 1122456788886 7999999999999431
Q ss_pred -cccc---ceEeeecceEEeeccCCeeEE
Q 031023 139 -DKVP---YMQIRENNWTVNADANGRWNV 163 (167)
Q Consensus 139 -~~~P---Y~qiRENNWt~n~~~~g~W~V 163 (167)
..+| +.++..+||++.+ ||+|+.
T Consensus 279 t~~~~~~~tnr~~R~~yslsH--nG~wd~ 305 (699)
T COG4771 279 TKGTYGDETNRLERQNYSLSH--NGRWDF 305 (699)
T ss_pred cCCccCcccceeeeeeEEEee--cceecC
Confidence 1222 4789999999985 678875
No 2
>PHA03296 envelope glycoprotein H; Provisional
Probab=53.66 E-value=6.8 Score=39.27 Aligned_cols=15 Identities=33% Similarity=0.835 Sum_probs=13.1
Q ss_pred hHhhhhcCCcccccc
Q 031023 48 AMIRHFYPDLSASFG 62 (167)
Q Consensus 48 ~l~r~F~p~l~~~lg 62 (167)
++.+.|+||+..|++
T Consensus 604 ~ll~aFfPEL~kCid 618 (814)
T PHA03296 604 ALADAFFPELAKCFD 618 (814)
T ss_pred hHHHHhCchhhhccC
Confidence 378999999988987
No 3
>KOG4105 consensus 6-pyruvoyl tetrahydrobiopterin synthase [Coenzyme transport and metabolism]
Probab=49.83 E-value=11 Score=30.48 Aligned_cols=27 Identities=19% Similarity=0.404 Sum_probs=23.3
Q ss_pred cceEEEEEeeecCCCCchhhhhHhhhh
Q 031023 27 NTRLQVHGELDTRVGAPSYVSAMIRHF 53 (167)
Q Consensus 27 ~~~Lqv~g~Ldt~~g~~~~~a~l~r~F 53 (167)
.+..+|+|++|+.+|..--+|.|++..
T Consensus 49 ~v~vtvrGeiDp~tGMV~nla~LKk~m 75 (141)
T KOG4105|consen 49 VVKVTVRGEIDPTTGMVYNLAKLKKEM 75 (141)
T ss_pred EEEEEEecccCCccceeEEHHHHHHHH
Confidence 467889999999999998888888765
No 4
>PF14683 CBM-like: Polysaccharide lyase family 4, domain III; PDB: 1NKG_A 2XHN_B 3NJX_A 3NJV_A.
Probab=31.18 E-value=36 Score=27.51 Aligned_cols=31 Identities=26% Similarity=0.584 Sum_probs=22.4
Q ss_pred ceeEEEeceeecccccceEeee--cceEEeecc
Q 031023 127 QDVRFKLGYEVVDKVPYMQIRE--NNWTVNADA 157 (167)
Q Consensus 127 QDvRLk~Gy~v~~~~PY~qiRE--NNWt~n~~~ 157 (167)
.|+-..||-.-..--||+|-.. ++|++.+++
T Consensus 39 ~~~~ytVG~S~~~Dw~y~~~~~~~~~w~I~F~l 71 (167)
T PF14683_consen 39 EDLTYTVGSSPAKDWPYAQWGRVNGTWTIKFDL 71 (167)
T ss_dssp -S-EEETTTS-GGGSBSEEETTTS--EEEEEEE
T ss_pred CCCEEEEccCcccCCcEEEEeccCCCEEEEEEC
Confidence 4899999998667899999999 777777665
No 5
>COG4571 OmpT Outer membrane protease [Cell envelope biogenesis, outer membrane]
Probab=30.86 E-value=91 Score=28.46 Aligned_cols=66 Identities=30% Similarity=0.498 Sum_probs=42.6
Q ss_pred EEEEeeeeeeCcccccccceee--EEEEE-------------EeecccccceeEEEeceeecccccceEe----eecceE
Q 031023 92 SFNIKGRCEVDKEFKQRKSRGA--AEFSW-------------SIFNFQKDQDVRFKLGYEVVDKVPYMQI----RENNWT 152 (167)
Q Consensus 92 ~~~lKg~~~~d~~~~~~~~~G~--vels~-------------~IfnF~~dQDvRLk~Gy~v~~~~PY~qi----RENNWt 152 (167)
+|+|||....|+..+..-..|= -.+|| .|.||-.+ +| -|||.--=+|||+-| |-|-|-
T Consensus 136 dlnlk~wlL~~~ny~~gv~~GyqeT~~swTA~GGsy~Y~~G~~ig~fP~g--~r-~IgY~Qrf~m~yiGlag~Yr~~~~e 212 (314)
T COG4571 136 DLNLKGWLLQDPNYRLGVTAGYQETRVSWTAYGGSYIYSNGFYIGNFPNG--VR-AIGYKQRFKMPYIGLAGSYRYNDFE 212 (314)
T ss_pred eeeeceeeecCCceeecccccceeeeeEEEEcccceEecCCcccccCCCC--ce-eeeecccccceeeeccceEEEeeee
Confidence 3555555555555544433332 22444 46777765 33 489988889999754 889999
Q ss_pred EeeccCCe
Q 031023 153 VNADANGR 160 (167)
Q Consensus 153 ~n~~~~g~ 160 (167)
||+-++++
T Consensus 213 ~~~~~Kys 220 (314)
T COG4571 213 FGALFKYS 220 (314)
T ss_pred eeeEEeec
Confidence 99988764
No 6
>cd00264 BPI BPI/LBP/CETP domain; Bactericidal permeability-increasing protein (BPI) / Lipopolysaccharide-binding protein (LBP) / Cholesteryl ester transfer protein (CETP) domain; binds to and neutralizes lipopolysaccharides from the outer membrane of Gram-negative bacteria.; Apolar pockets on the concave surface bind a molecule of phosphatidylcholine, primarily by interacting with their acyl chains; this suggests that the pockets may also bind the acyl chains of lipopolysaccharide.
Probab=30.09 E-value=31 Score=27.10 Aligned_cols=88 Identities=16% Similarity=0.194 Sum_probs=52.1
Q ss_pred cceEEeecCCceeeeeeeeecccCCcceEEEEEeeecCCCC--c-hhhhhHhhhh----cCCcccccccceeE------e
Q 031023 2 ETSLRYGKDSKALRIYAKEKIPIDSNTRLQVHGELDTRVGA--P-SYVSAMIRHF----YPDLSASFGLGVQY------D 68 (167)
Q Consensus 2 ETsLry~~~~k~L~ihAKek~~~d~~~~Lqv~g~Ldt~~g~--~-~~~a~l~r~F----~p~l~~~lg~Gv~y------~ 68 (167)
.++++...+++.+.++...--..=+.....++| -|. . .....+.... -|.+...++-|++. +
T Consensus 107 ~~~~~l~~~~g~l~~~l~~c~~~~~~~~~~~~g-----~~~~~~~~l~~~l~~~lc~~v~~~~n~~l~~~l~l~~~~~~~ 181 (208)
T cd00264 107 SASLQLSVDPGRLTLSLSLCSSTVELLSSNIGG-----FGNFIVSLLQKVLNTILCPVVLPALNSKLRSGLPLLPVPPVP 181 (208)
T ss_pred EEEEEEEeeCCEEEEEEecCcceeeEEEEEEec-----cchhHHHHHHHHHHHHHHHHHHHHHHHHHHccCCcCCccCCC
Confidence 356666666688888888777777777777876 111 1 1122222222 23334456667766 6
Q ss_pred eCCceEEEEeeeeeeeecCCceeEEEEee
Q 031023 69 KHEKLRYTVRGKKVFPVTSTGLLSFNIKG 97 (167)
Q Consensus 69 ~~~~l~y~v~~KK~~~v~~ngl~~~~lKg 97 (167)
.-..+.|... ..|+..++++.+.++|
T Consensus 182 ~~~~i~~~~~---~~~~~~~~~l~~~~~~ 207 (208)
T cd00264 182 SPAGVDYSLT---AEPVLSASFLLLDADV 207 (208)
T ss_pred ceeEEEEEEc---cCCceeccEEEEcccc
Confidence 5556777664 4566677777776665
No 7
>PF01330 RuvA_N: RuvA N terminal domain; InterPro: IPR013849 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. This entry represents domain I of RuvA, which has an OB-fold structure. This domain forms the RuvA tetramer contacts [].; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1HJP_A 1D8L_B 1CUK_A 1C7Y_A 1IXR_B 2ZTC_A 2ZTD_B 2H5X_A 2ZTE_A 1BVS_E ....
Probab=28.39 E-value=40 Score=22.58 Aligned_cols=12 Identities=25% Similarity=0.614 Sum_probs=9.9
Q ss_pred ceEeeecceEEe
Q 031023 143 YMQIRENNWTVN 154 (167)
Q Consensus 143 Y~qiRENNWt~n 154 (167)
|+++||+.|+|-
T Consensus 49 ~~~vrEd~~~Ly 60 (61)
T PF01330_consen 49 YLIVREDAISLY 60 (61)
T ss_dssp EEEEETTEEEEE
T ss_pred EEEEeechhhcC
Confidence 788899998874
No 8
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=28.25 E-value=1.1e+02 Score=29.68 Aligned_cols=46 Identities=20% Similarity=0.174 Sum_probs=37.1
Q ss_pred eeEEEEeeeeeeCcccccccceeeEEEEEEeecccccceeEEEeceeecc
Q 031023 90 LLSFNIKGRCEVDKEFKQRKSRGAAEFSWSIFNFQKDQDVRFKLGYEVVD 139 (167)
Q Consensus 90 l~~~~lKg~~~~d~~~~~~~~~G~vels~~IfnF~~dQDvRLk~Gy~v~~ 139 (167)
...-.+.+|+++ +.+.....+|||+.-|++--..=.|+.++|++.|
T Consensus 531 ~~~~~~g~G~e~----~~~~~~~e~~~~~~~~~~~~~~g~~~~~~~~~nd 576 (765)
T PRK10049 531 GIVRDWLAGVEW----RSRDIWLEAELSERVFGHEHKPGARLSGWYDFND 576 (765)
T ss_pred eeEEEEeeeeEE----EecceeEEEEeeccccCCCCCcccEEEeeeccCC
Confidence 345567777777 7788889999999988888777799999998665
No 9
>PF08770 SoxZ: Sulphur oxidation protein SoxZ; InterPro: IPR014880 SoxZ forms an anti parallel beta structure and forms a complex with SoxY. Sulphur oxidation occurs at the thiol of a conserved cysteine residue of the SoxY subunit []. ; PDB: 1V8H_B 2OX5_E 2OXG_E 2OXH_C.
Probab=27.25 E-value=1.3e+02 Score=22.56 Aligned_cols=30 Identities=10% Similarity=0.295 Sum_probs=16.0
Q ss_pred eeEEEEeeeeeeCcccc---cccceeeEEEEEE
Q 031023 90 LLSFNIKGRCEVDKEFK---QRKSRGAAEFSWS 119 (167)
Q Consensus 90 l~~~~lKg~~~~d~~~~---~~~~~G~vels~~ 119 (167)
++++++-..+.-||-++ +....|.++++|+
T Consensus 55 v~~~~~~~siS~NP~l~F~~~~~~~g~l~v~~~ 87 (100)
T PF08770_consen 55 VFRADWGPSISENPYLRFSFKGKKSGTLTVTWT 87 (100)
T ss_dssp EEEEEE-TTB-SS-EEEEEEEESSSEEEEEEEE
T ss_pred EEEEEeCCcccCCCcEEEEEecCCCcEEEEEEE
Confidence 44555566666666552 3345668888875
No 10
>PF11751 DUF3308: Protein of unknown function (DUF3308); InterPro: IPR019861 This entry describes a protein family unique to, and greatly expanded in, the Bacteriodetes. Species in this lineage include several, such as Cytophaga hutchinsonii and Cytophaga johnsonae (Flavobacterium johnsoniae), that exhibit a poorly understood rapid gliding phenotype. Several members of this protein family are found in operons with other genes whose loss leads to a loss of the rapid gliding phenotype.
Probab=27.06 E-value=3.3e+02 Score=22.63 Aligned_cols=94 Identities=16% Similarity=0.228 Sum_probs=51.2
Q ss_pred ceeeeeeeeecccCCcceEEEEEeeecCCCCchhhhhHhhhhcCCcccccccceeEeeCCceEEEEeeeeeeeecCCcee
Q 031023 12 KALRIYAKEKIPIDSNTRLQVHGELDTRVGAPSYVSAMIRHFYPDLSASFGLGVQYDKHEKLRYTVRGKKVFPVTSTGLL 91 (167)
Q Consensus 12 k~L~ihAKek~~~d~~~~Lqv~g~Ldt~~g~~~~~a~l~r~F~p~l~~~lg~Gv~y~~~~~l~y~v~~KK~~~v~~ngl~ 91 (167)
+.+-+||-=++++++...|+-+...-...+.+.....=.+..|.+ .+.+|+.|...+.+.-.+-.+ +.+
T Consensus 177 ~~~~~~~gy~~~~~~~~~l~p~~~~~~~~~~~~~~~~~~~~~~~~---~~~~G~~yr~~~a~~~~~g~~----~~~---- 245 (274)
T PF11751_consen 177 RHYYLSAGYRFDLNEDFKLSPSVLYRYQGGSPQQLDIGAMFRYND---RFWAGLGYRSNDAFSFMLGFN----LKN---- 245 (274)
T ss_pred eEEEEEEEEEEecCCCeEEEEEEEEEEeCCCceEEEEEEEEEEee---eEEEEEEEeCCCcEEEEEEEE----ECC----
Confidence 577788888888888888888887777777665111111111222 455566665433322211111 111
Q ss_pred EEEEeeeeeeCccccc--ccceeeEEEEE
Q 031023 92 SFNIKGRCEVDKEFKQ--RKSRGAAEFSW 118 (167)
Q Consensus 92 ~~~lKg~~~~d~~~~~--~~~~G~vels~ 118 (167)
+++=++.||...+. ....|+-||+-
T Consensus 246 --~~~igysYd~~~s~l~~~~~gshEi~l 272 (274)
T PF11751_consen 246 --NFRIGYSYDFNLSNLNNYSGGSHEISL 272 (274)
T ss_pred --CEEEEEEEeeecccccCCCCCeEEEEE
Confidence 23345556655433 45788888863
No 11
>PHA03294 envelope glycoprotein H; Provisional
Probab=26.74 E-value=21 Score=36.12 Aligned_cols=60 Identities=23% Similarity=0.268 Sum_probs=39.0
Q ss_pred ceEEeecCCce----eeeeeeeecccCCcceEEEEE--eeecCCCCchh-------hhhHhhhhcCCcccccc
Q 031023 3 TSLRYGKDSKA----LRIYAKEKIPIDSNTRLQVHG--ELDTRVGAPSY-------VSAMIRHFYPDLSASFG 62 (167)
Q Consensus 3 TsLry~~~~k~----L~ihAKek~~~d~~~~Lqv~g--~Ldt~~g~~~~-------~a~l~r~F~p~l~~~lg 62 (167)
+|||+|-.+.. |-..|-++..++..++-|.+| ......+.... -....+.|+|++..|.+
T Consensus 578 ~SLRfDltee~~v~~Lls~ap~~~~~~~~l~~~~~~~~~~~~~~~a~~~l~~l~~~~~~~l~~~~PEl~~C~~ 650 (835)
T PHA03294 578 ASLRFDLAEEAHVLDLLSAVPRRPALDEALEQQTDGGEIKELEAKAVGSLTTRRAHDIALLRAFAPELFSCSD 650 (835)
T ss_pred ccccccccchhHHHHHHHhCccccchhhhhhccccccchhhhhhHHHHHHHhccccchhhHhhhCcHhhhCCC
Confidence 58999998766 667777777777777777776 22211221111 11456789999977775
No 12
>cd00835 RanBD Ran-binding domain. Ran-binding domain; This domain of approximately 150 residues shares structural similarity to the PH domain, but lacks detectable sequence similarity. Ran is a Ras-like nuclear small GTPase, which regulates receptor-mediated transport between the nucleus and the cytoplasm. RanGTP hydrolysis is stimulated by RanGAP together with the Ran-binding domain containing acessory proteins RanBP1 and RanBP2. These accessory proteins stabilize the active GTP-bound form of Ran . The Ran-binding domain is found in multiple copies in Nuclear pore complex proteins.
Probab=25.88 E-value=2.2e+02 Score=21.30 Aligned_cols=33 Identities=15% Similarity=0.246 Sum_probs=26.8
Q ss_pred ccccceeEEEeceeecccccceEee--ecceEEee
Q 031023 123 FQKDQDVRFKLGYEVVDKVPYMQIR--ENNWTVNA 155 (167)
Q Consensus 123 F~~dQDvRLk~Gy~v~~~~PY~qiR--ENNWt~n~ 155 (167)
...||..|+-+=.-+...++|-... +++|.|.+
T Consensus 53 mR~d~~~kv~lN~~i~~~~~~~~~~~~~k~~~~~~ 87 (122)
T cd00835 53 MRRDQVLKLCLNHKLVPGMKLQPMGNSDKSIVWAA 87 (122)
T ss_pred EEeCCccEEEEeeEecCCcEEeecCCCCcEEEEEe
Confidence 3556888888888888899998888 89999875
No 13
>cd00121 MATH MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins. Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane and are capable of cleaving growth factors, extracellular matrix proteins, and biologically active peptides. TRAF molecules serve as adapter proteins that link cell surface receptors of the Tumor Necrosis Factor and 1nterleukin-1/Toll-like families to downstream kinase cascades, which results in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses in the immune and inflammatory systems. Other members include the ubiquitin ligases, TRIM37 and SPOP, and the ubiquitin-specific proteases, HAUSP and Ubp21p. A large number of uncharacterized members mostly from lineage-specific expansions in C. elegans and rice contain MATH and BTB domains, similar to SPOP. The MATH doma
Probab=25.28 E-value=1e+02 Score=21.03 Aligned_cols=18 Identities=22% Similarity=0.612 Sum_probs=8.5
Q ss_pred cceEeeecceEEeeccCC
Q 031023 142 PYMQIRENNWTVNADANG 159 (167)
Q Consensus 142 PY~qiRENNWt~n~~~~g 159 (167)
|-+.+...+|.+..+.+|
T Consensus 21 ~~f~~~g~~W~l~~~p~~ 38 (126)
T cd00121 21 PPFEVGGYKWRIRIYPNG 38 (126)
T ss_pred CCEEEcCEeEEEEEEcCC
Confidence 344444455555555444
No 14
>cd03775 MATH_Ubp21p Ubiquitin-specific protease 21 (Ubp21p) family, MATH domain; composed of fungal proteins with similarity to Ubp21p of fission yeast. Ubp21p is a deubiquitinating enzyme that may be involved in the regulation of the protein kinase Prp4p, which controls the formation of active spliceosomes. Members of this family are similar to human HAUSP (Herpesvirus-associated ubiquitin-specific protease) in that they contain an N-terminal MATH domain and a C-terminal catalytic protease (C19 family) domain. HAUSP is also an ubiquitin-specific protease that specifically catalyzes the deubiquitylation of p53 and MDM2. The MATH domain of HAUSP contains the binding site for p53 and MDM2. Similarly, the MATH domain of members in this family may be involved in substrate binding.
Probab=24.75 E-value=85 Score=23.46 Aligned_cols=38 Identities=18% Similarity=0.328 Sum_probs=29.3
Q ss_pred EEEEEeecccccceeEEEeceeecccccceEeeecceEEeeccCCee
Q 031023 115 EFSWSIFNFQKDQDVRFKLGYEVVDKVPYMQIRENNWTVNADANGRW 161 (167)
Q Consensus 115 els~~IfnF~~dQDvRLk~Gy~v~~~~PY~qiRENNWt~n~~~~g~W 161 (167)
.++|+|-||.+- | -.-..|.+.+-.-+|.+-.+++|.-
T Consensus 2 ~f~w~I~~fS~~-------~--~~~~S~~F~vGG~~W~l~~yP~G~~ 39 (134)
T cd03775 2 SFTWRIKNWSEL-------E--KKVHSPKFKCGGFEWRILLFPQGNS 39 (134)
T ss_pred cEEEEECCcccC-------C--cceeCCCEEECCeeEEEEEeCCCCC
Confidence 378999999882 2 1236788899999999999998754
No 15
>cd03774 MATH_SPOP Speckle-type POZ protein (SPOP) family, MATH domain; composed of proteins with similarity to human SPOP. SPOP was isolated as a novel antigen recognized by serum from a scleroderma patient, whose overexpression in COS cells results in a discrete speckled pattern in the nuclei. It contains an N-terminal MATH domain and a C-terminal BTB (also called POZ) domain. Together with Cul3, SPOP constitutes an ubiquitin E3 ligase which is able to ubiquitinate the PcG protein BMI1, the variant histone macroH2A1 and the death domain-associated protein Daxx. Therefore, SPOP may be involved in the regulation of these proteins and may play a role in transcriptional regulation, apoptosis and X-chromosome inactivation. Cul3 binds to the BTB domain of SPOP whereas Daxx and the macroH2A1 nonhistone region have been shown to bind to the MATH domain. Both MATH and BTB domains are necessary for the nuclear speckled accumulation of SPOP. There are many proteins, mostly uncharacterized, conta
Probab=22.57 E-value=1.1e+02 Score=22.87 Aligned_cols=42 Identities=24% Similarity=0.479 Sum_probs=29.0
Q ss_pred EEEEEEeecccccceeEEEeceeecccccceEeeec---ceEEeeccCCe
Q 031023 114 AEFSWSIFNFQKDQDVRFKLGYEVVDKVPYMQIREN---NWTVNADANGR 160 (167)
Q Consensus 114 vels~~IfnF~~dQDvRLk~Gy~v~~~~PY~qiREN---NWt~n~~~~g~ 160 (167)
..++|+|-||.+=.+ ..| -.-..|-+.+-.+ +|.+..+++|.
T Consensus 5 ~~~~w~I~~fS~~~~---~~~--~~i~S~~F~vgg~~~~~W~l~~yP~G~ 49 (139)
T cd03774 5 FCYMWTISNFSFCRE---EMG--EVIKSSTFSSGANDKLKWCLRVNPKGL 49 (139)
T ss_pred EEEEEEECCchhhhh---cCC--CEEECCCeecCCcCCceEEEEEeCCCC
Confidence 468899999986222 233 1335677777765 79999999884
No 16
>PF07585 DUF1551: Protein of unknown function (DUF1551); InterPro: IPR011446 This entry represents proteins identified in bacteria, the function is currently unknown.
Probab=21.51 E-value=4.2e+02 Score=23.64 Aligned_cols=26 Identities=12% Similarity=0.082 Sum_probs=15.6
Q ss_pred cccceeEee-CCceEEEEeeeeeeeec
Q 031023 61 FGLGVQYDK-HEKLRYTVRGKKVFPVT 86 (167)
Q Consensus 61 lg~Gv~y~~-~~~l~y~v~~KK~~~v~ 86 (167)
.++|+.+.. .+.+.+...+|=.+-+.
T Consensus 199 ~Q~G~~~~~~~~~~sl~~~~K~gvg~N 225 (339)
T PF07585_consen 199 PQFGFRIEYRVGRFSLGALAKAGVGVN 225 (339)
T ss_pred eEEEEEEEECCCcEEEEEEEEEEEEee
Confidence 455666662 35677777777665443
No 17
>PF07305 DUF1454: Protein of unknown function (DUF1454); InterPro: IPR009918 This family consists of several Enterobacterial sequences of around 200 residues in length, which are often known as YiiQ proteins. The function of this family is unknown.
Probab=20.81 E-value=89 Score=26.92 Aligned_cols=36 Identities=36% Similarity=0.663 Sum_probs=26.7
Q ss_pred chhhhhHhhhhcCCcc-----------cccccceeEeeC--CceEEEEe
Q 031023 43 PSYVSAMIRHFYPDLS-----------ASFGLGVQYDKH--EKLRYTVR 78 (167)
Q Consensus 43 ~~~~a~l~r~F~p~l~-----------~~lg~Gv~y~~~--~~l~y~v~ 78 (167)
.+|.++|.|+|=|.++ ..-|=|-+|..+ ..+||-|.
T Consensus 125 ~~YmaAl~r~F~Ptls~eQs~~kl~~lL~~gk~~~yy~q~~GAiRYVva 173 (200)
T PF07305_consen 125 IEYMAALMRQFEPTLSPEQSQEKLQKLLTKGKGSRYYSQTEGAIRYVVA 173 (200)
T ss_pred HHHHHHHHHHcCCcCCHHHHHHHHHHHHHcCCCCcceeeccCceEEEEe
Confidence 4899999999999995 333457777754 34888764
No 18
>PF01065 Adeno_hexon: Hexon, adenovirus major coat protein, N-terminal domain; InterPro: IPR016107 Hexon is a major coat protein found in various species-specific Adenoviruses, which are type II dsDNA viruses. Hexon coat proteins are synthesised during late infection and form homo-trimers. The 240 copies of the hexon trimer that are produced are organised so that 12 lie on each of the 20 facets. The central 9 hexons in a facet are cemented together by 12 copies of polypeptide IX. The penton complex, formed by the peripentonal hexons and base hexon (holding in place a fibre), lie at each of the 12 vertices []. The hexon coat protein is a duplication consisting of two domains with a similar fold packed together like the nucleoplasmin subunits. Within a hexon trimer, the domains are arranged around a pseudo 6-fold axis. The domains have a beta-sandwich structure consisting of 8 strands in two sheets with a jelly-roll topology; each domain is heavily decorated with many insertions []. This entry represents the N-terminal domain of hexon coat proteins.; GO: 0005198 structural molecule activity, 0019028 viral capsid; PDB: 2BVI_M 1VSZ_K 3IYN_D 3TG7_A 1P30_A 2OBE_B 2INY_A 1P2Z_A.
Probab=20.72 E-value=1.2e+02 Score=29.39 Aligned_cols=40 Identities=23% Similarity=0.402 Sum_probs=32.9
Q ss_pred CCceEEEEeeeeeeeecCCcee-----EEEEeeeeeeCccccccc
Q 031023 70 HEKLRYTVRGKKVFPVTSTGLL-----SFNIKGRCEVDKEFKQRK 109 (167)
Q Consensus 70 ~~~l~y~v~~KK~~~v~~ngl~-----~~~lKg~~~~d~~~~~~~ 109 (167)
.+|-.|+-+++=++.|.||.+| =|+|||-+|=.|-||+=.
T Consensus 29 ~eD~~~sYk~RftLaVGDnrVLDMgStYFDIRGvLDRGPSFKPYs 73 (495)
T PF01065_consen 29 REDTQYSYKVRFTLAVGDNRVLDMGSTYFDIRGVLDRGPSFKPYS 73 (495)
T ss_dssp EEECSSEEEEEEEEEETTT-BEEGGGEEEEEEEEEESTTTSBSSC
T ss_pred cccCccceEEEEEEEeCCccccccccceeeeecccccCCCcCCcc
Confidence 5677888888889999998866 489999999999998743
Done!