Query 018533
Match_columns 354
No_of_seqs 165 out of 832
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 09:48:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018533.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018533hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02362 B3: B3 DNA binding do 99.9 8.4E-23 1.8E-27 163.4 11.4 96 250-345 1-100 (100)
2 PF02362 B3: B3 DNA binding do 99.8 6.1E-21 1.3E-25 152.6 10.2 93 6-98 1-100 (100)
3 PF03754 DUF313: Domain of unk 94.6 0.19 4.1E-06 41.1 7.7 68 249-316 23-114 (114)
4 PF03754 DUF313: Domain of unk 91.4 0.86 1.9E-05 37.3 6.9 66 6-71 24-114 (114)
5 PLN03148 Blue copper-like prot 66.5 6.1 0.00013 34.5 3.1 30 67-97 39-68 (167)
6 PF04014 Antitoxin-MazE: Antid 66.2 17 0.00036 24.4 4.7 27 66-92 13-39 (47)
7 PF04014 Antitoxin-MazE: Antid 60.6 20 0.00043 24.0 4.2 23 311-333 13-35 (47)
8 smart00536 AXH domain in Ataxi 57.5 5.2 0.00011 32.7 1.0 24 304-327 79-112 (116)
9 PLN03148 Blue copper-like prot 56.6 13 0.00029 32.4 3.5 27 313-339 40-66 (167)
10 TIGR01439 lp_hng_hel_AbrB loop 54.5 23 0.00049 22.8 3.6 29 17-45 6-35 (43)
11 PF02298 Cu_bind_like: Plastoc 49.3 11 0.00025 28.9 1.7 28 69-97 14-41 (85)
12 PF08517 AXH: Ataxin-1 and HBP 48.2 4.8 0.0001 32.9 -0.6 24 304-327 78-111 (115)
13 PF08922 DUF1905: Domain of un 46.9 1.2E+02 0.0027 22.8 8.0 65 263-329 13-80 (80)
14 PF02298 Cu_bind_like: Plastoc 42.1 20 0.00044 27.5 2.1 26 314-339 14-39 (85)
15 PF09217 EcoRII-N: Restriction 40.4 2E+02 0.0044 24.8 8.0 97 248-347 8-132 (156)
16 PF11976 Rad60-SLD: Ubiquitin- 38.8 34 0.00074 24.7 2.9 49 37-88 2-50 (72)
17 PRK09798 antitoxin MazE; Provi 37.4 39 0.00084 25.9 3.0 51 17-72 12-62 (82)
18 PF12195 End_beta_barrel: Beta 37.2 17 0.00038 27.3 1.0 18 69-86 23-40 (83)
19 cd06555 ASCH_PF0470_like ASC-1 26.4 1E+02 0.0023 24.9 3.9 31 317-348 30-60 (109)
20 PF08922 DUF1905: Domain of un 26.0 2.9E+02 0.0062 20.8 7.3 67 17-84 12-80 (80)
21 PRK11347 antitoxin ChpS; Provi 21.6 1E+02 0.0022 23.6 2.9 30 17-46 11-40 (83)
22 COG2336 MazE Growth regulator 21.2 2E+02 0.0042 22.1 4.3 37 17-53 11-47 (82)
23 PF06071 YchF-GTPase_C: Protei 20.4 58 0.0013 25.1 1.3 16 70-85 69-84 (84)
24 PF09911 DUF2140: Uncharacteri 20.4 1.5E+02 0.0032 26.3 4.1 58 18-83 121-183 (187)
No 1
>PF02362 B3: B3 DNA binding domain; InterPro: IPR003340 Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see IPR001471 from INTERPRO) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors []. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1WID_A 1YEL_A.
Probab=99.89 E-value=8.4e-23 Score=163.44 Aligned_cols=96 Identities=42% Similarity=0.763 Sum_probs=73.0
Q ss_pred EEEEccCCCCCCCceEEcCHHHHHhhCCC--CCeeEEEEeCCCCeEEEEEEEe--CCeeeecccHHHhhhhcCCCCCcEE
Q 018533 250 CRVVLRPSYLYKGCIMYLPSCFAEKHLNG--VCGFIKLQLSDGKQWPVRCLYR--GGRAKFSQGWYEFTVENRLGEGDVC 325 (354)
Q Consensus 250 F~~~m~~s~v~~~~~L~iP~~f~~~~l~~--~~~~i~L~~~~Gr~W~v~~~~~--~~~~~l~~GW~~F~~~n~Lk~GD~c 325 (354)
|+++|+++++...+.|.||++|+++|... .+.+|+|+|++|+.|+|++.+. ++++.|++||.+||++|+|++||+|
T Consensus 1 F~K~l~~s~~~~~~~l~iP~~f~~~~~~~~~~~~~v~l~~~~g~~W~v~~~~~~~~~~~~l~~GW~~Fv~~n~L~~GD~~ 80 (100)
T PF02362_consen 1 FFKVLKPSDVSSSCRLIIPKEFAKKHGGNKRKSREVTLKDPDGRSWPVKLKYRKNSGRYYLTGGWKKFVRDNGLKEGDVC 80 (100)
T ss_dssp EEEE--TTCCCCTT-EEE-HHHHTTTS--SS--CEEEEEETTTEEEEEEEEEECCTTEEEEETTHHHHHHHCT--TT-EE
T ss_pred CEEEEEccCcCCCCEEEeCHHHHHHhCCCcCCCeEEEEEeCCCCEEEEEEEEEccCCeEEECCCHHHHHHHcCCCCCCEE
Confidence 78999999998877899999999999643 5679999999999999999643 4678999999999999999999999
Q ss_pred EEEEecCceeEEEEEEEeec
Q 018533 326 VFEVLRAREFVLKVTVFRVS 345 (354)
Q Consensus 326 vFel~~~~~~~~~V~Ifr~~ 345 (354)
+|+++++....+.|+|||+.
T Consensus 81 ~F~~~~~~~~~~~v~i~~~~ 100 (100)
T PF02362_consen 81 VFELIGNSNFTLKVHIFRKS 100 (100)
T ss_dssp EEEE-SSSCE-EEEEEE---
T ss_pred EEEEecCCCceEEEEEEECc
Confidence 99999876778899999963
No 2
>PF02362 B3: B3 DNA binding domain; InterPro: IPR003340 Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see IPR001471 from INTERPRO) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors []. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1WID_A 1YEL_A.
Probab=99.85 E-value=6.1e-21 Score=152.61 Aligned_cols=93 Identities=31% Similarity=0.521 Sum_probs=70.6
Q ss_pred EEEeecccccc-cceeecchHHHHHhcCC--CCCcEEEEcCCCCEEEEEE--EEEcCeEEEcccHHHHHhHcCCCCCcEE
Q 018533 6 FHKLILASTIR-DKRLRIPENFVRNFKDD--LSAAATLIVPNGMVSRVGL--RRLDNKVWFYDGWQEFMERYFIRIGYFL 80 (354)
Q Consensus 6 F~k~~~~~~~~-~~~l~IP~~F~~~~~~~--~~~~v~L~~~~G~~W~V~l--~k~~~~~~~~~GW~~F~~~~~L~~gd~l 80 (354)
|+|+|+++... .+.|.||..|++.|+.. .+..|+|++++|+.|.|.+ .+..+..+|++||++||++|+|++||+|
T Consensus 1 F~K~l~~s~~~~~~~l~iP~~f~~~~~~~~~~~~~v~l~~~~g~~W~v~~~~~~~~~~~~l~~GW~~Fv~~n~L~~GD~~ 80 (100)
T PF02362_consen 1 FFKVLKPSDVSSSCRLIIPKEFAKKHGGNKRKSREVTLKDPDGRSWPVKLKYRKNSGRYYLTGGWKKFVRDNGLKEGDVC 80 (100)
T ss_dssp EEEE--TTCCCCTT-EEE-HHHHTTTS--SS--CEEEEEETTTEEEEEEEEEECCTTEEEEETTHHHHHHHCT--TT-EE
T ss_pred CEEEEEccCcCCCCEEEeCHHHHHHhCCCcCCCeEEEEEeCCCCEEEEEEEEEccCCeEEECCCHHHHHHHcCCCCCCEE
Confidence 89999877553 46799999999999754 5779999999999999999 5566889999999999999999999999
Q ss_pred EEEEeccceE--EEEEEcCC
Q 018533 81 VFRYEGNSAF--NVYIFNLP 98 (354)
Q Consensus 81 vF~~~g~s~F--~V~if~~~ 98 (354)
+|++++++.| .|.||+.+
T Consensus 81 ~F~~~~~~~~~~~v~i~~~~ 100 (100)
T PF02362_consen 81 VFELIGNSNFTLKVHIFRKS 100 (100)
T ss_dssp EEEE-SSSCE-EEEEEE---
T ss_pred EEEEecCCCceEEEEEEECc
Confidence 9999987777 99999864
No 3
>PF03754 DUF313: Domain of unknown function (DUF313) ; InterPro: IPR005508 This is a family of proteins from Arabidopsis thaliana (Mouse-ear cress) with uncharacterised function.
Probab=94.64 E-value=0.19 Score=41.14 Aligned_cols=68 Identities=12% Similarity=0.089 Sum_probs=48.1
Q ss_pred eEEEEccCCCCCC-CceEEcCHHHHHh--hC----------------CCCCeeEEEEeCCCCeEEEEEEEeCC-----ee
Q 018533 249 FCRVVLRPSYLYK-GCIMYLPSCFAEK--HL----------------NGVCGFIKLQLSDGKQWPVRCLYRGG-----RA 304 (354)
Q Consensus 249 ~F~~~m~~s~v~~-~~~L~iP~~f~~~--~l----------------~~~~~~i~L~~~~Gr~W~v~~~~~~~-----~~ 304 (354)
.+.+.|.+|+|.. ..+|.||-.=... +| ....-.|+|.|+.++.|.+++.+-.. .+
T Consensus 23 i~~K~L~~tDv~~~qsRLsmP~~qi~~~dFLt~eE~~~i~~~~~~~~~~~Gv~V~lvdp~~~~~~m~lkkW~mg~~~~~Y 102 (114)
T PF03754_consen 23 IIEKTLFKTDVDPHQSRLSMPFNQIIDNDFLTEEEKRIIKEEKKNNDKKKGVEVILVDPSLRKWTMRLKKWNMGNGTSNY 102 (114)
T ss_pred EEeeeecccCCCCCCceeeccHHHhcccccCCHHHHHHHHHhhccCcccCCceEEEECCcCcEEEEEEEEecccCCceEE
Confidence 4556788888864 2478899764422 12 12345799999999999999875322 47
Q ss_pred eecccHHHhhhh
Q 018533 305 KFSQGWYEFTVE 316 (354)
Q Consensus 305 ~l~~GW~~F~~~ 316 (354)
.|..||..+|.+
T Consensus 103 vL~~gWn~VV~~ 114 (114)
T PF03754_consen 103 VLNSGWNKVVED 114 (114)
T ss_pred EEEcChHhhccC
Confidence 899999998864
No 4
>PF03754 DUF313: Domain of unknown function (DUF313) ; InterPro: IPR005508 This is a family of proteins from Arabidopsis thaliana (Mouse-ear cress) with uncharacterised function.
Probab=91.44 E-value=0.86 Score=37.28 Aligned_cols=66 Identities=17% Similarity=0.328 Sum_probs=45.5
Q ss_pred EEEeecccccc--cceeecchHHHHHh------------------cCCCCCcEEEEcCCCCEEEEEEEEEcC-----eEE
Q 018533 6 FHKLILASTIR--DKRLRIPENFVRNF------------------KDDLSAAATLIVPNGMVSRVGLRRLDN-----KVW 60 (354)
Q Consensus 6 F~k~~~~~~~~--~~~l~IP~~F~~~~------------------~~~~~~~v~L~~~~G~~W~V~l~k~~~-----~~~ 60 (354)
+-|.+..+.+. +.+|.||-.=+... .....-.|.|.+|.++.|.+.|++=.- ...
T Consensus 24 ~~K~L~~tDv~~~qsRLsmP~~qi~~~dFLt~eE~~~i~~~~~~~~~~~Gv~V~lvdp~~~~~~m~lkkW~mg~~~~~Yv 103 (114)
T PF03754_consen 24 IEKTLFKTDVDPHQSRLSMPFNQIIDNDFLTEEEKRIIKEEKKNNDKKKGVEVILVDPSLRKWTMRLKKWNMGNGTSNYV 103 (114)
T ss_pred EeeeecccCCCCCCceeeccHHHhcccccCCHHHHHHHHHhhccCcccCCceEEEECCcCcEEEEEEEEecccCCceEEE
Confidence 44666666663 46788886644111 112345899999999999999997422 455
Q ss_pred EcccHHHHHhH
Q 018533 61 FYDGWQEFMER 71 (354)
Q Consensus 61 ~~~GW~~F~~~ 71 (354)
|..||..+|++
T Consensus 104 L~~gWn~VV~~ 114 (114)
T PF03754_consen 104 LNSGWNKVVED 114 (114)
T ss_pred EEcChHhhccC
Confidence 99999999864
No 5
>PLN03148 Blue copper-like protein; Provisional
Probab=66.45 E-value=6.1 Score=34.52 Aligned_cols=30 Identities=23% Similarity=0.502 Sum_probs=21.3
Q ss_pred HHHhHcCCCCCcEEEEEEeccceEEEEEEcC
Q 018533 67 EFMERYFIRIGYFLVFRYEGNSAFNVYIFNL 97 (354)
Q Consensus 67 ~F~~~~~L~~gd~lvF~~~g~s~F~V~if~~ 97 (354)
.-+..+.+..||.|+|+|..+. -+|..-+.
T Consensus 39 ~WA~~k~F~VGD~LvF~Y~~~~-hnV~~V~~ 68 (167)
T PLN03148 39 LWANNQTFYVGDLISFRYQKTQ-YNVFEVNQ 68 (167)
T ss_pred HhhcCCCCccCCEEEEEecCCC-ceEEEECh
Confidence 3467889999999999998653 23444344
No 6
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=66.16 E-value=17 Score=24.43 Aligned_cols=27 Identities=19% Similarity=0.283 Sum_probs=22.8
Q ss_pred HHHHhHcCCCCCcEEEEEEeccceEEE
Q 018533 66 QEFMERYFIRIGYFLVFRYEGNSAFNV 92 (354)
Q Consensus 66 ~~F~~~~~L~~gd~lvF~~~g~s~F~V 92 (354)
++|++.++|+.||-+.+.+.++..-.+
T Consensus 13 k~~~~~l~l~~Gd~v~i~~~~~g~i~i 39 (47)
T PF04014_consen 13 KEIREKLGLKPGDEVEIEVEGDGKIVI 39 (47)
T ss_dssp HHHHHHTTSSTTTEEEEEEETTSEEEE
T ss_pred HHHHHHcCCCCCCEEEEEEeCCCEEEE
Confidence 578899999999999999998874433
No 7
>PF04014 Antitoxin-MazE: Antidote-toxin recognition MazE; InterPro: IPR007159 This domain is found in AbrB from Bacillus subtilis. The product of the abrB gene is an ambiactive repressor and activator of the transcription of genes expressed during the transition state between vegetative growth and the onset of stationary phase and sporulation []. AbrB is thought to interact directly with the transcription initiation regions of genes under its control []. AbrB contains a helix-turn-helix structure, but this domain ends before the helix-turn-helix begins []. The product of the B. subtilis gene spoVT is another member of this family and is also a transcriptional regulator []. DNA-binding activity in this AbrB homologue requires hexamerisation []. Another family member has been isolated from the Sulfolobus solfataricus and has been identified as a homologue of bacterial repressor-like proteins. The Escherichia coli family member SohA or Prl1F appears to be bifunctional and is able to regulate its own expression as well as relieve the export block imposed by high-level synthesis of beta-galactosidase hybrid proteins [].; PDB: 2L66_A 2GLW_A 3TND_D 2W1T_B 2RO5_B 2FY9_A 2RO3_B 1UB4_C 3ZVK_G 1YFB_B ....
Probab=60.63 E-value=20 Score=24.04 Aligned_cols=23 Identities=26% Similarity=0.153 Sum_probs=19.6
Q ss_pred HHhhhhcCCCCCcEEEEEEecCc
Q 018533 311 YEFTVENRLGEGDVCVFEVLRAR 333 (354)
Q Consensus 311 ~~F~~~n~Lk~GD~cvFel~~~~ 333 (354)
++|++..+|++||.+.++..+..
T Consensus 13 k~~~~~l~l~~Gd~v~i~~~~~g 35 (47)
T PF04014_consen 13 KEIREKLGLKPGDEVEIEVEGDG 35 (47)
T ss_dssp HHHHHHTTSSTTTEEEEEEETTS
T ss_pred HHHHHHcCCCCCCEEEEEEeCCC
Confidence 46788899999999999998753
No 8
>smart00536 AXH domain in Ataxins and HMG containing proteins. unknown function
Probab=57.49 E-value=5.2 Score=32.68 Aligned_cols=24 Identities=29% Similarity=0.433 Sum_probs=18.2
Q ss_pred eeecccHHHhhh----------hcCCCCCcEEEE
Q 018533 304 AKFSQGWYEFTV----------ENRLGEGDVCVF 327 (354)
Q Consensus 304 ~~l~~GW~~F~~----------~n~Lk~GD~cvF 327 (354)
+..+.||..|.= -..|++||+|+-
T Consensus 79 FV~gqGWsSc~P~lT~~~ygL~C~~L~vGDVCl~ 112 (116)
T smart00536 79 FVKGKGWSSCYPSLTVQLYGLPCCELQVGDVCLS 112 (116)
T ss_pred EEcCccccccChhhhhhhcCCcceecccCCEEec
Confidence 346789998863 357899999984
No 9
>PLN03148 Blue copper-like protein; Provisional
Probab=56.65 E-value=13 Score=32.45 Aligned_cols=27 Identities=19% Similarity=0.300 Sum_probs=19.7
Q ss_pred hhhhcCCCCCcEEEEEEecCceeEEEE
Q 018533 313 FTVENRLGEGDVCVFEVLRAREFVLKV 339 (354)
Q Consensus 313 F~~~n~Lk~GD~cvFel~~~~~~~~~V 339 (354)
-+..+..++||.++|.+.....-+++|
T Consensus 40 WA~~k~F~VGD~LvF~Y~~~~hnV~~V 66 (167)
T PLN03148 40 WANNQTFYVGDLISFRYQKTQYNVFEV 66 (167)
T ss_pred hhcCCCCccCCEEEEEecCCCceEEEE
Confidence 357789999999999997653334444
No 10
>TIGR01439 lp_hng_hel_AbrB looped-hinge helix DNA binding domain, AbrB family. This DNA-binding domain family includes AbrB, a transition state regulator in Bacillus subtilis, whose DNA-binding domain structure in solution was determined by NMR. The domain binds DNA as a dimer in what is termed a looped-hinge helix fold. Some members of the family have two copies of the domain in tandem. The domain is found usually at the N-terminus of a small protein. This model excludes members of family TIGR02609.
Probab=54.46 E-value=23 Score=22.81 Aligned_cols=29 Identities=17% Similarity=0.299 Sum_probs=24.4
Q ss_pred cceeecchHHHHHhcCCCCCcEEEE-cCCC
Q 018533 17 DKRLRIPENFVRNFKDDLSAAATLI-VPNG 45 (354)
Q Consensus 17 ~~~l~IP~~F~~~~~~~~~~~v~L~-~~~G 45 (354)
..++.||..|.+.++......+.+. .++|
T Consensus 6 kgri~iP~~~r~~l~~~~gd~~~i~~~~~~ 35 (43)
T TIGR01439 6 KGQIVIPKEIREKLGLKEGDRLEVIRVEDG 35 (43)
T ss_pred CCeEEecHHHHHHcCcCCCCEEEEEEeCCC
Confidence 3789999999999998888888888 5555
No 11
>PF02298 Cu_bind_like: Plastocyanin-like domain; InterPro: IPR003245 Blue (type 1) copper proteins are small proteins which bind a single copper atom and which are characterised by an intense electronic absorption band near 600 nm [, ]. The most well known members of this class of proteins are the plant chloroplastic plastocyanins, which exchange electrons with cytochrome c6, and the distantly related bacterial azurins, which exchange electrons with cytochrome c551. This family of proteins also includes amicyanin from bacteria such as Methylobacterium extorquens or Paracoccus versutus (Thiobacillus versutus) that can grow on methylamine; auracyanins A and B from Chloroflexus aurantiacus []; blue copper protein from Alcaligenes faecalis; cupredoxin (CPC) from Cucumis sativus (Cucumber) peelings []; cusacyanin (basic blue protein; plantacyanin, CBP) from cucumber; halocyanin from Natronomonas pharaonis (Natronobacterium pharaonis) [], a membrane associated copper-binding protein; pseudoazurin from Pseudomonas; rusticyanin from Thiobacillus ferrooxidans []; stellacyanin from Rhus vernicifera (Japanese lacquer tree); umecyanin from the roots of Armoracia rusticana (Horseradish); and allergen Ra3 from ragweed. Although there is an appreciable amount of divergence in the sequences of all these proteins, the copper ligand sites are conserved. This domain is found in a variety of plant cyanins and pollern allergen. Some of the proteins in this family are allergens. Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Amb a 3.; GO: 0005507 copper ion binding, 0009055 electron carrier activity; PDB: 1JER_A 1WS7_A 1WS8_D 1F56_B 1X9R_B 1X9U_A 2CBP_A.
Probab=49.34 E-value=11 Score=28.88 Aligned_cols=28 Identities=25% Similarity=0.360 Sum_probs=16.6
Q ss_pred HhHcCCCCCcEEEEEEeccceEEEEEEcC
Q 018533 69 MERYFIRIGYFLVFRYEGNSAFNVYIFNL 97 (354)
Q Consensus 69 ~~~~~L~~gd~lvF~~~g~s~F~V~if~~ 97 (354)
+....+..||.|+|.|.... -.|...+.
T Consensus 14 a~~~~F~vGD~LvF~y~~~~-h~V~~V~~ 41 (85)
T PF02298_consen 14 ASGKTFRVGDTLVFNYDSGQ-HSVVEVSK 41 (85)
T ss_dssp HCTS-BETTEEEEEE--TTT-B-EEEESH
T ss_pred hcCCcEeCCCEEEEEecCCC-CeEEecCh
Confidence 56677899999999998752 23444443
No 12
>PF08517 AXH: Ataxin-1 and HBP1 module (AXH); InterPro: IPR013723 AXH is a protein-protein and RNA binding motif found in Ataxin-1 (ATX1)[]. ATX1 is responsible for the autosomal-dominant neurodegenerative disorder Spinocerebellar ataxia type-1 (SCA1) in humans. The AXH module has also been identified in the apparently unrelated transcription factor HBP1 which is thought to be involved in the architectural regulation of chromatin and in specific gene expression []. ; GO: 0005488 binding; PDB: 1OA8_C 3QVE_C 1V06_A.
Probab=48.16 E-value=4.8 Score=32.94 Aligned_cols=24 Identities=29% Similarity=0.510 Sum_probs=14.7
Q ss_pred eeecccHHHhhh----------hcCCCCCcEEEE
Q 018533 304 AKFSQGWYEFTV----------ENRLGEGDVCVF 327 (354)
Q Consensus 304 ~~l~~GW~~F~~----------~n~Lk~GD~cvF 327 (354)
+..+.||..|.= -..|++||+|+-
T Consensus 78 FV~gkGWsS~~P~~T~~~ygL~C~~L~vGDvCl~ 111 (115)
T PF08517_consen 78 FVKGKGWSSCNPSLTVQLYGLPCRQLQVGDVCLS 111 (115)
T ss_dssp EETTTEEEESSHHHHHHHHTS--EE--TT-EEEE
T ss_pred EEeCCcccccCcchhceecCCcccccccCCEEec
Confidence 346789988853 357899999973
No 13
>PF08922 DUF1905: Domain of unknown function (DUF1905); InterPro: IPR015018 This family consist of hypothetical bacterial proteins. ; PDB: 2D9R_A.
Probab=46.92 E-value=1.2e+02 Score=22.79 Aligned_cols=65 Identities=17% Similarity=0.143 Sum_probs=37.0
Q ss_pred ceEEcCHHHHHhhCCC--CCeeEEEEeCCCCeEEEEEEEeC-CeeeecccHHHhhhhcCCCCCcEEEEEE
Q 018533 263 CIMYLPSCFAEKHLNG--VCGFIKLQLSDGKQWPVRCLYRG-GRAKFSQGWYEFTVENRLGEGDVCVFEV 329 (354)
Q Consensus 263 ~~L~iP~~f~~~~l~~--~~~~i~L~~~~Gr~W~v~~~~~~-~~~~l~~GW~~F~~~n~Lk~GD~cvFel 329 (354)
..+.||..-+...... ..-.|...- +|..|...+...+ +.+.|. ==++.-+.-++.+||.+-++|
T Consensus 13 ~fv~vP~~v~~~l~~~~~g~v~V~~tI-~g~~~~~sl~p~g~G~~~Lp-v~~~vRk~~g~~~Gd~V~v~l 80 (80)
T PF08922_consen 13 TFVEVPFDVAEELGEGGWGRVPVRGTI-DGHPWRTSLFPMGNGGYILP-VKAAVRKAIGKEAGDTVEVTL 80 (80)
T ss_dssp EEEE--S-HHHHH--S--S-EEEEEEE-TTEEEEEEEEESSTT-EEEE-E-HHHHHHHT--TTSEEEEEE
T ss_pred EEEEeCHHHHHHhccccCCceEEEEEE-CCEEEEEEEEECCCCCEEEE-EcHHHHHHcCCCCCCEEEEEC
Confidence 4789999999887766 455555554 4789999765433 443321 114667788999999998875
No 14
>PF02298 Cu_bind_like: Plastocyanin-like domain; InterPro: IPR003245 Blue (type 1) copper proteins are small proteins which bind a single copper atom and which are characterised by an intense electronic absorption band near 600 nm [, ]. The most well known members of this class of proteins are the plant chloroplastic plastocyanins, which exchange electrons with cytochrome c6, and the distantly related bacterial azurins, which exchange electrons with cytochrome c551. This family of proteins also includes amicyanin from bacteria such as Methylobacterium extorquens or Paracoccus versutus (Thiobacillus versutus) that can grow on methylamine; auracyanins A and B from Chloroflexus aurantiacus []; blue copper protein from Alcaligenes faecalis; cupredoxin (CPC) from Cucumis sativus (Cucumber) peelings []; cusacyanin (basic blue protein; plantacyanin, CBP) from cucumber; halocyanin from Natronomonas pharaonis (Natronobacterium pharaonis) [], a membrane associated copper-binding protein; pseudoazurin from Pseudomonas; rusticyanin from Thiobacillus ferrooxidans []; stellacyanin from Rhus vernicifera (Japanese lacquer tree); umecyanin from the roots of Armoracia rusticana (Horseradish); and allergen Ra3 from ragweed. Although there is an appreciable amount of divergence in the sequences of all these proteins, the copper ligand sites are conserved. This domain is found in a variety of plant cyanins and pollern allergen. Some of the proteins in this family are allergens. Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Amb a 3.; GO: 0005507 copper ion binding, 0009055 electron carrier activity; PDB: 1JER_A 1WS7_A 1WS8_D 1F56_B 1X9R_B 1X9U_A 2CBP_A.
Probab=42.14 E-value=20 Score=27.47 Aligned_cols=26 Identities=23% Similarity=0.305 Sum_probs=16.1
Q ss_pred hhhcCCCCCcEEEEEEecCceeEEEE
Q 018533 314 TVENRLGEGDVCVFEVLRAREFVLKV 339 (354)
Q Consensus 314 ~~~n~Lk~GD~cvFel~~~~~~~~~V 339 (354)
+..+.+++||.++|.+.....-+++|
T Consensus 14 a~~~~F~vGD~LvF~y~~~~h~V~~V 39 (85)
T PF02298_consen 14 ASGKTFRVGDTLVFNYDSGQHSVVEV 39 (85)
T ss_dssp HCTS-BETTEEEEEE--TTTB-EEEE
T ss_pred hcCCcEeCCCEEEEEecCCCCeEEec
Confidence 46678899999999997653334444
No 15
>PF09217 EcoRII-N: Restriction endonuclease EcoRII, N-terminal; InterPro: IPR023372 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry represents the N-terminal effector-binding domain of the type II restriction endonuclease EcoRII, which has a DNA recognition fold, allowing for binding to 5'-CCWGG sequences. It assumes a structure composed of an eight-stranded beta-sheet with the strands in the order of b2, b5, b4, b3, b7, b6, b1 and b8. They are mostly antiparallel to each other except that b3 is parallel to b7. Alternatively, it may also be viewed as consisting of two mini beta-sheets of four antiparallel beta-strands, sheet I from beta-strands b2, b5, b4, b3 and sheet II from strands b7, b6, b1, b8, folded into an open mixed beta-barrel with a novel topology. Sheet I has a simple Greek key motif while sheet II does not []. The domain represented by this entry is only found in bacterial proteins.; PDB: 3HQF_A 1NA6_A.
Probab=40.40 E-value=2e+02 Score=24.78 Aligned_cols=97 Identities=16% Similarity=0.184 Sum_probs=50.0
Q ss_pred CeEEEEccCCCCCC----CceEEcCHHHHHhhCCCC--------CeeEEEEeCCC--CeEEEEEEEeCC------e--ee
Q 018533 248 PFCRVVLRPSYLYK----GCIMYLPSCFAEKHLNGV--------CGFIKLQLSDG--KQWPVRCLYRGG------R--AK 305 (354)
Q Consensus 248 P~F~~~m~~s~v~~----~~~L~iP~~f~~~~l~~~--------~~~i~L~~~~G--r~W~v~~~~~~~------~--~~ 305 (354)
-.|++.|++.+... ...++||+..+...+|.. +..|.+...++ ..|.|+..|-++ | ++
T Consensus 8 ~~~~K~LSaNDtGaTGgHQaGiyIpk~~~~~lFp~~~~~~~~Np~~~~~~~~~s~~~~~~~~r~iYYnn~~~~gTRNE~R 87 (156)
T PF09217_consen 8 AIYCKRLSANDTGATGGHQAGIYIPKSAAELLFPSINHTKEENPDIWLKARWQSHFVTDSQVRFIYYNNRLFGGTRNEYR 87 (156)
T ss_dssp EEEEEE--CCCCTTTSSS--EEEE-HHHHHHH-GGG-SSSSSS-EEEEEEEETTTT---EEEEEEEE-CCCTTSS--EEE
T ss_pred EEEEEEccCCCCCCcCcccceeEecccHHHHhCCCCCcccccCCceeEEEEECCCCccceeEEEEEEcccccCCCcCceE
Confidence 35889998877653 136899999988776421 24455566666 457788765322 2 34
Q ss_pred e---cccHHHhhhhcCCCCCcEEEEEEecCc---eeEEEEEEEeecCC
Q 018533 306 F---SQGWYEFTVENRLGEGDVCVFEVLRAR---EFVLKVTVFRVSES 347 (354)
Q Consensus 306 l---~~GW~~F~~~n~Lk~GD~cvFel~~~~---~~~~~V~Ifr~~~~ 347 (354)
| ++|-. |. |.=..||.+||.+.... ...+.|-|.+..++
T Consensus 88 IT~~G~~~~-~~--~~~~tGaL~vlaf~~~~~~~~~~~~~wVc~s~~E 132 (156)
T PF09217_consen 88 ITRFGRGFP-LQ--NPENTGALLVLAFDPEQKQDCDLYDVWVCESEDE 132 (156)
T ss_dssp EE---TTSG-GG---GGGTT-EEEEEEE-TTSS---EEEEEE--SHHH
T ss_pred EeeecCCCc-cC--CccccccEEEEEEccCCCCccceEEEEEECCHHH
Confidence 4 44444 33 22347999999876432 34577777766543
No 16
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=38.81 E-value=34 Score=24.69 Aligned_cols=49 Identities=8% Similarity=0.074 Sum_probs=37.1
Q ss_pred cEEEEcCCCCEEEEEEEEEcCeEEEcccHHHHHhHcCCCCCcEEEEEEeccc
Q 018533 37 AATLIVPNGMVSRVGLRRLDNKVWFYDGWQEFMERYFIRIGYFLVFRYEGNS 88 (354)
Q Consensus 37 ~v~L~~~~G~~W~V~l~k~~~~~~~~~GW~~F~~~~~L~~gd~lvF~~~g~s 88 (354)
+++|++.+|+.-.+.+... .-|..=...|++.+++..-.-+.|.|+|.-
T Consensus 2 ~i~v~~~~~~~~~~~v~~~---~~~~~l~~~~~~~~~i~~~~~~~l~fdG~~ 50 (72)
T PF11976_consen 2 TIKVRSQDGKEIKFKVKPT---TTVSKLIEKYCEKKGIPPEESIRLIFDGKR 50 (72)
T ss_dssp EEEEEETTSEEEEEEEETT---SCCHHHHHHHHHHHTTTT-TTEEEEETTEE
T ss_pred EEEEEeCCCCEEEEEECCC---CcHHHHHHHHHHhhCCCccceEEEEECCEE
Confidence 5789999999777776643 256666799999999999666788887754
No 17
>PRK09798 antitoxin MazE; Provisional
Probab=37.40 E-value=39 Score=25.85 Aligned_cols=51 Identities=10% Similarity=0.225 Sum_probs=34.8
Q ss_pred cceeecchHHHHHhcCCCCCcEEEEcCCCCEEEEEEEEEcCeEEEcccHHHHHhHc
Q 018533 17 DKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLRRLDNKVWFYDGWQEFMERY 72 (354)
Q Consensus 17 ~~~l~IP~~F~~~~~~~~~~~v~L~~~~G~~W~V~l~k~~~~~~~~~GW~~F~~~~ 72 (354)
+.-++||..|++.++.....+|.|...+|+. -+......- .-+|.++...+
T Consensus 12 S~~vRIPk~~l~~l~l~~g~~vei~v~~~~i---iI~p~~~~~--r~~l~eLla~~ 62 (82)
T PRK09798 12 SPAVRIPATLMQALNLNIDDEVKIDLVDGKL---IIEPVRKEP--VFTLAELVNDI 62 (82)
T ss_pred cceEEcCHHHHHHcCCCCCCEEEEEEECCEE---EEEECCCCC--CCCHHHHHhcC
Confidence 3679999999999999888888888876652 232211111 13688887654
No 18
>PF12195 End_beta_barrel: Beta barrel domain of bacteriophage endosialidase; InterPro: IPR024427 This entry represents the beta barrel domain of endosialidases which is nested in a beta propeller domain. This beta barrel domain is approximately 80 amino acids in length and represents one of the two sialic acid binding sites of the enzyme [].; PDB: 1V0E_B 1V0F_E 3JU4_A 3GVL_A 3GVK_B 3GVJ_A.
Probab=37.18 E-value=17 Score=27.27 Aligned_cols=18 Identities=17% Similarity=0.264 Sum_probs=9.2
Q ss_pred HhHcCCCCCcEEEEEEec
Q 018533 69 MERYFIRIGYFLVFRYEG 86 (354)
Q Consensus 69 ~~~~~L~~gd~lvF~~~g 86 (354)
..+|+|..||++.|.-.+
T Consensus 23 l~~HGl~vGD~VnFsnsa 40 (83)
T PF12195_consen 23 LTDHGLFVGDFVNFSNSA 40 (83)
T ss_dssp -TT----TT-EEEEES-S
T ss_pred EccCceeecceEEEeccc
Confidence 468999999999997653
No 19
>cd06555 ASCH_PF0470_like ASC-1 homology domain, subfamily similar to Pyrococcus furiosus Pf0470. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation, RNA-processing and the regulation of prokaryotic translation.
Probab=26.41 E-value=1e+02 Score=24.90 Aligned_cols=31 Identities=23% Similarity=0.292 Sum_probs=20.6
Q ss_pred cCCCCCcEEEEEEecCceeEEEEEEEeecCCC
Q 018533 317 NRLGEGDVCVFEVLRAREFVLKVTVFRVSESA 348 (354)
Q Consensus 317 n~Lk~GD~cvFel~~~~~~~~~V~Ifr~~~~~ 348 (354)
.++++||.++|.-..+. -.+.|.|.....+.
T Consensus 30 ~~ikvGD~I~f~~~~~~-~~l~v~V~~i~~Y~ 60 (109)
T cd06555 30 QQIKVGDKILFNDLDTG-QQLLVKVVDIRKYD 60 (109)
T ss_pred hcCCCCCEEEEEEcCCC-cEEEEEEEEEEecC
Confidence 46899999999766542 24666666655544
No 20
>PF08922 DUF1905: Domain of unknown function (DUF1905); InterPro: IPR015018 This family consist of hypothetical bacterial proteins. ; PDB: 2D9R_A.
Probab=26.01 E-value=2.9e+02 Score=20.75 Aligned_cols=67 Identities=7% Similarity=-0.063 Sum_probs=37.9
Q ss_pred cceeecchHHHHHhcCCCCCcEEEEc-CCCCEEEEEEEEE-cCeEEEcccHHHHHhHcCCCCCcEEEEEE
Q 018533 17 DKRLRIPENFVRNFKDDLSAAATLIV-PNGMVSRVGLRRL-DNKVWFYDGWQEFMERYFIRIGYFLVFRY 84 (354)
Q Consensus 17 ~~~l~IP~~F~~~~~~~~~~~v~L~~-~~G~~W~V~l~k~-~~~~~~~~GW~~F~~~~~L~~gd~lvF~~ 84 (354)
...+.||..-++.++..--+.+.++. -+|..|+-.|-.. ++..+|. ==++..+.-++..||.+.+++
T Consensus 12 ~~fv~vP~~v~~~l~~~~~g~v~V~~tI~g~~~~~sl~p~g~G~~~Lp-v~~~vRk~~g~~~Gd~V~v~l 80 (80)
T PF08922_consen 12 WTFVEVPFDVAEELGEGGWGRVPVRGTIDGHPWRTSLFPMGNGGYILP-VKAAVRKAIGKEAGDTVEVTL 80 (80)
T ss_dssp -EEEE--S-HHHHH--S--S-EEEEEEETTEEEEEEEEESSTT-EEEE-E-HHHHHHHT--TTSEEEEEE
T ss_pred eEEEEeCHHHHHHhccccCCceEEEEEECCEEEEEEEEECCCCCEEEE-EcHHHHHHcCCCCCCEEEEEC
Confidence 35688999999988865223444432 3789999988773 3443322 127888999999999987764
No 21
>PRK11347 antitoxin ChpS; Provisional
Probab=21.57 E-value=1e+02 Score=23.57 Aligned_cols=30 Identities=13% Similarity=0.196 Sum_probs=25.2
Q ss_pred cceeecchHHHHHhcCCCCCcEEEEcCCCC
Q 018533 17 DKRLRIPENFVRNFKDDLSAAATLIVPNGM 46 (354)
Q Consensus 17 ~~~l~IP~~F~~~~~~~~~~~v~L~~~~G~ 46 (354)
+.-++||..+++.++-....++.|...+|.
T Consensus 11 S~~vriPk~il~~l~l~~G~~v~i~v~~~~ 40 (83)
T PRK11347 11 SAGMVIPNIVMKELNLQPGQSVEAQVSNNQ 40 (83)
T ss_pred ceeEEeCHHHHHHcCCCCCCEEEEEEECCE
Confidence 367999999999999999988888776653
No 22
>COG2336 MazE Growth regulator [Signal transduction mechanisms]
Probab=21.24 E-value=2e+02 Score=22.12 Aligned_cols=37 Identities=14% Similarity=0.207 Sum_probs=30.9
Q ss_pred cceeecchHHHHHhcCCCCCcEEEEcCCCCEEEEEEE
Q 018533 17 DKRLRIPENFVRNFKDDLSAAATLIVPNGMVSRVGLR 53 (354)
Q Consensus 17 ~~~l~IP~~F~~~~~~~~~~~v~L~~~~G~~W~V~l~ 53 (354)
+--++||...++..+...+..|+|...++..--+.-.
T Consensus 11 S~avrIP~~l~kql~l~~g~~v~v~v~n~~~i~~~p~ 47 (82)
T COG2336 11 SAAVRIPAALLKQLNLTIGDEVEVEVGNDQSILIRPV 47 (82)
T ss_pred cceeeccHHHHHHhCCCcCceEEEEEcCCcEEEeccc
Confidence 3679999999999999999999999887766665444
No 23
>PF06071 YchF-GTPase_C: Protein of unknown function (DUF933); InterPro: IPR013029 This domain is found at the C terminus of family of conserved hypothetical proteins found in both prokaryotes and eukaryotes. While the function of these proteins is not known, the crystal structure of P44681 from SWISSPROT from Haemophilus influenzae has been determined []. This protein consists of three domains: an N-terminal domain which has a mononucleotide binding fold typical for the P-loop NTPases, a central domain which forms an alpha-helical coiled coil, and this C-terminal domain which is composed of a six-stranded half-barrel curved around an alpha helix. The central domain and this domain are topologically similar to RNA-binding proteins, while the N-terminal region contains the features typical of GTP-dependent molecular switches. The purified protein was capable of binding both double-stranded nucleic acid and GTP. It was suggested, therefore, that this protein might be part of a nucleoprotein complex and could function as a GTP-dependent translation factor.; PDB: 1NI3_A 1JAL_A 2DWQ_B 2DBY_A 2OHF_A.
Probab=20.39 E-value=58 Score=25.11 Aligned_cols=16 Identities=25% Similarity=0.704 Sum_probs=10.3
Q ss_pred hHcCCCCCcEEEEEEe
Q 018533 70 ERYFIRIGYFLVFRYE 85 (354)
Q Consensus 70 ~~~~L~~gd~lvF~~~ 85 (354)
++|-++.||++.|++.
T Consensus 69 K~YivqDGDIi~f~fN 84 (84)
T PF06071_consen 69 KDYIVQDGDIIHFRFN 84 (84)
T ss_dssp TT-B--TTEEEEEEE-
T ss_pred CceeEeCCCEEEEEcC
Confidence 4677899999999873
No 24
>PF09911 DUF2140: Uncharacterized protein conserved in bacteria (DUF2140); InterPro: IPR018672 This family of conserved hypothetical proteins has no known function.
Probab=20.37 E-value=1.5e+02 Score=26.34 Aligned_cols=58 Identities=17% Similarity=0.320 Sum_probs=42.1
Q ss_pred ceeecchHHHHHhcC---CCCCcEEEEcCCCCEEEEEEEEE--cCeEEEcccHHHHHhHcCCCCCcEEEEE
Q 018533 18 KRLRIPENFVRNFKD---DLSAAATLIVPNGMVSRVGLRRL--DNKVWFYDGWQEFMERYFIRIGYFLVFR 83 (354)
Q Consensus 18 ~~l~IP~~F~~~~~~---~~~~~v~L~~~~G~~W~V~l~k~--~~~~~~~~GW~~F~~~~~L~~gd~lvF~ 83 (354)
+.|.||.+|+-.|.. ++|+-|++ +|+-++--|.|.+- ++++++. |+.-+|..+ -+.|.
T Consensus 121 G~L~LP~s~Vl~yi~~~y~lP~wV~i-~p~~~~I~i~L~~~~~~~g~~~k------a~~idL~~d-~i~f~ 183 (187)
T PF09911_consen 121 GTLPLPISFVLKYIKKSYKLPKWVTI-NPKKKTIYIDLQEIKNKNGIYVK------AKKIDLKND-QIEFD 183 (187)
T ss_pred cCccCCHHHHHHHHHhhCCCCCcEEE-cCCCcEEEEEHHHccCCCCcEEE------EEEeecCCC-EEEEE
Confidence 779999999999975 67888887 77778888888753 4666666 566667644 34443
Done!