Query 015743
Match_columns 401
No_of_seqs 296 out of 614
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 09:09:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015743.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015743hhsearch_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 99.8 3.7E-19 8E-24 144.3 12.0 99 132-236 1-99 (100)
2 PF03754 DUF313: Domain of unk 98.6 1.1E-07 2.3E-12 82.9 5.9 81 126-206 18-114 (114)
3 smart00380 AP2 DNA-binding dom 98.2 1.1E-06 2.4E-11 68.2 3.0 25 54-78 22-46 (64)
4 cd00018 AP2 DNA-binding domain 98.1 9.5E-07 2.1E-11 67.6 1.7 24 55-78 24-47 (61)
5 PF09217 EcoRII-N: Restriction 98.1 3.5E-05 7.6E-10 70.5 10.7 88 130-218 8-110 (156)
6 PHA00280 putative NHN endonucl 94.4 0.026 5.7E-07 50.0 2.3 40 39-78 61-112 (121)
7 PF00847 AP2: AP2 domain; Int 89.1 0.14 3E-06 38.1 0.4 25 55-79 28-52 (56)
8 PF07494 Reg_prop: Two compone 55.0 7.2 0.00016 25.0 1.2 19 46-64 6-24 (24)
9 PRK11347 antitoxin ChpS; Provi 54.9 43 0.00094 27.8 6.1 43 183-233 3-45 (83)
10 PF10844 DUF2577: Protein of u 54.8 37 0.00079 28.8 5.8 79 130-234 19-99 (100)
11 PF04014 Antitoxin-MazE: Antid 49.9 57 0.0012 23.7 5.4 40 188-234 3-42 (47)
12 smart00536 AXH domain in Ataxi 47.6 11 0.00023 33.7 1.5 27 191-217 76-112 (116)
13 TIGR02609 doc_partner putative 42.7 56 0.0012 26.3 4.8 33 185-220 3-35 (74)
14 PRK03760 hypothetical protein; 42.2 62 0.0013 28.4 5.4 27 191-220 89-117 (117)
15 PF08517 AXH: Ataxin-1 and HBP 41.7 8 0.00017 34.3 -0.2 27 191-217 75-111 (115)
16 PRK06461 single-stranded DNA-b 41.5 86 0.0019 27.6 6.2 35 168-219 41-75 (129)
17 PRK09798 antitoxin MazE; Provi 36.6 1.3E+02 0.0028 25.0 6.1 42 184-233 5-46 (82)
18 PF08922 DUF1905: Domain of un 35.8 2E+02 0.0044 23.4 7.1 78 132-218 1-79 (80)
19 cd04491 SoSSB_OBF SoSSB_OBF: A 34.2 1.6E+02 0.0036 23.1 6.3 37 167-219 23-59 (82)
20 PF14112 DUF4284: Domain of un 28.8 26 0.00056 30.8 0.9 15 57-71 3-17 (122)
21 cd01753 PLAT_LOX PLAT domain o 26.8 1.2E+02 0.0025 26.2 4.5 62 130-199 48-113 (113)
22 TIGR01643 YD_repeat_2x YD repe 26.3 99 0.0021 21.3 3.3 22 167-188 4-25 (42)
23 PF03120 DNA_ligase_OB: NAD-de 26.3 42 0.00091 28.1 1.7 20 201-220 42-61 (82)
24 PF14851 FAM176: FAM176 family 22.5 85 0.0018 29.2 3.0 14 59-72 109-122 (153)
25 PF05382 Amidase_5: Bacterioph 21.7 60 0.0013 29.8 1.9 26 195-220 60-87 (145)
26 cd04451 S1_IF1 S1_IF1: Transla 21.1 3.8E+02 0.0083 20.4 6.8 26 207-234 39-64 (64)
27 PF05593 RHS_repeat: RHS Repea 20.5 1.6E+02 0.0034 20.5 3.4 21 167-187 4-24 (38)
28 PF02643 DUF192: Uncharacteriz 20.3 2.4E+02 0.0051 24.1 5.1 50 168-218 49-107 (108)
29 PF12195 End_beta_barrel: Beta 20.0 1E+02 0.0022 26.1 2.7 28 204-231 23-50 (83)
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=99.80 E-value=3.7e-19 Score=144.30 Aligned_cols=99 Identities=33% Similarity=0.564 Sum_probs=75.4
Q ss_pred EEEecccCCCCCCCcEEeehhhhhhhCCCCCCCCCCCeEEEEEeCCCCeEEEEEEEeCCCcceEEccChhhhhhccCCCC
Q 015743 132 FDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDA 211 (401)
Q Consensus 132 F~KvLT~SDVgkl~RLvIPK~~Aek~FPl~~~~~~~g~~L~v~D~~GK~W~FR~sywnss~sYVLTkGWs~FVkeK~Lka 211 (401)
|.|+|+++|+.+.++|.||++++++|.. . ...++.+.+.|..|+.|.+++++++++.+++|++||..||++++|++
T Consensus 1 F~K~l~~s~~~~~~~l~iP~~f~~~~~~-~---~~~~~~v~l~~~~g~~W~v~~~~~~~~~~~~l~~GW~~Fv~~n~L~~ 76 (100)
T PF02362_consen 1 FFKVLKPSDVSSSCRLIIPKEFAKKHGG-N---KRKSREVTLKDPDGRSWPVKLKYRKNSGRYYLTGGWKKFVRDNGLKE 76 (100)
T ss_dssp EEEE--TTCCCCTT-EEE-HHHHTTTS------SS--CEEEEEETTTEEEEEEEEEECCTTEEEEETTHHHHHHHCT--T
T ss_pred CEEEEEccCcCCCCEEEeCHHHHHHhCC-C---cCCCeEEEEEeCCCCEEEEEEEEEccCCeEEECCCHHHHHHHcCCCC
Confidence 8999999999998999999999999831 1 12478999999999999999999988888999999999999999999
Q ss_pred CCEEEEEecccCCCCceEEEEEEeC
Q 015743 212 GDTVSFQRGVGELGKDRLYIDWRRR 236 (401)
Q Consensus 212 GDvVvF~R~~~e~~~~~l~IgvRRr 236 (401)
||+|+|+... +...++.|.+.|+
T Consensus 77 GD~~~F~~~~--~~~~~~~v~i~~~ 99 (100)
T PF02362_consen 77 GDVCVFELIG--NSNFTLKVHIFRK 99 (100)
T ss_dssp T-EEEEEE-S--SSCE-EEEEEE--
T ss_pred CCEEEEEEec--CCCceEEEEEEEC
Confidence 9999999983 2456678887775
No 2
>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=98.56 E-value=1.1e-07 Score=82.89 Aligned_cols=81 Identities=23% Similarity=0.580 Sum_probs=65.5
Q ss_pred ccccccEEEecccCCCC-CCCcEEeehhhhhh--hC-C-----C----CCCCCCCCeEEEEEeCCCCeEEEEEEEeCC--
Q 015743 126 IEKEHMFDKVVTPSDVG-KLNRLVIPKQHAEK--YF-P-----L----DSSSNEKGLLLNFEDRNGKAWRFRYSYWNS-- 190 (401)
Q Consensus 126 ~~~e~lF~KvLT~SDVg-kl~RLvIPK~~Aek--~F-P-----l----~~~~~~~g~~L~v~D~~GK~W~FR~sywns-- 190 (401)
.+...+|+|+|+.|||. .++||.||...... +| | + .......|+.+.+.|..++.|..+++.|+.
T Consensus 18 ~d~kli~~K~L~~tDv~~~qsRLsmP~~qi~~~dFLt~eE~~~i~~~~~~~~~~~Gv~V~lvdp~~~~~~m~lkkW~mg~ 97 (114)
T PF03754_consen 18 EDPKLIIEKTLFKTDVDPHQSRLSMPFNQIIDNDFLTEEEKRIIKEEKKNNDKKKGVEVILVDPSLRKWTMRLKKWNMGN 97 (114)
T ss_pred CCCeEEEeeeecccCCCCCCceeeccHHHhcccccCCHHHHHHHHHhhccCcccCCceEEEECCcCcEEEEEEEEecccC
Confidence 34568999999999999 68899999987744 33 2 1 001246799999999999999999999965
Q ss_pred -CcceEEccChhhhhhc
Q 015743 191 -SQSYVMTKGWSRFVKD 206 (401)
Q Consensus 191 -s~sYVLTkGWs~FVke 206 (401)
.-.|+|+.||..+|++
T Consensus 98 ~~~~YvL~~gWn~VV~~ 114 (114)
T PF03754_consen 98 GTSNYVLNSGWNKVVED 114 (114)
T ss_pred CceEEEEEcChHhhccC
Confidence 5689999999999874
No 3
>smart00380 AP2 DNA-binding domain in plant proteins such as APETALA2 and EREBPs.
Probab=98.19 E-value=1.1e-06 Score=68.17 Aligned_cols=25 Identities=24% Similarity=0.279 Sum_probs=22.5
Q ss_pred CCcccccCCCCCHHHHHhcCchhhh
Q 015743 54 HHQNSWLLGPIDSQEAATNFDNRED 78 (401)
Q Consensus 54 ~~~r~WLGtf~t~eeAA~ayD~~~~ 78 (401)
.+.++|||+|+|+||||+|||.++.
T Consensus 22 ~~k~~~lG~f~t~eeAa~Ayd~a~~ 46 (64)
T smart00380 22 KGKRVWLGTFDTAEEAARAYDRAAF 46 (64)
T ss_pred CCcEEecCCCCCHHHHHHHHHHHHH
Confidence 7789999999999999999998644
No 4
>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=98.13 E-value=9.5e-07 Score=67.56 Aligned_cols=24 Identities=25% Similarity=0.278 Sum_probs=21.6
Q ss_pred CcccccCCCCCHHHHHhcCchhhh
Q 015743 55 HQNSWLLGPIDSQEAATNFDNRED 78 (401)
Q Consensus 55 ~~r~WLGtf~t~eeAA~ayD~~~~ 78 (401)
+.++|||+|+|+||||+|||.++.
T Consensus 24 gk~~~lG~f~t~eeAa~Ayd~a~~ 47 (61)
T cd00018 24 GRRIWLGTFDTAEEAARAYDRAAL 47 (61)
T ss_pred CceEccCCCCCHHHHHHHHHHHHH
Confidence 789999999999999999998543
No 5
>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=98.07 E-value=3.5e-05 Score=70.52 Aligned_cols=88 Identities=20% Similarity=0.379 Sum_probs=56.9
Q ss_pred ccEEEecccCCCCC----CCcEEeehhhhhhhCCC-CC-CCCCCCeEEEEEeCCC--CeEEEEEEEeCC------CcceE
Q 015743 130 HMFDKVVTPSDVGK----LNRLVIPKQHAEKYFPL-DS-SSNEKGLLLNFEDRNG--KAWRFRYSYWNS------SQSYV 195 (401)
Q Consensus 130 ~lF~KvLT~SDVgk----l~RLvIPK~~Aek~FPl-~~-~~~~~g~~L~v~D~~G--K~W~FR~sywns------s~sYV 195 (401)
.+|.|.|++.|++. ..++.|||..++.+||. .. ...++.+.|.+.+..+ ..|+||++|+|+ ...|.
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 57999999999994 45999999999999973 22 3456789999999877 568999999987 57799
Q ss_pred EccChhhhhhccC-CCCCCEEEEE
Q 015743 196 MTKGWSRFVKDKK-LDAGDTVSFQ 218 (401)
Q Consensus 196 LTkGWs~FVkeK~-LkaGDvVvF~ 218 (401)
||. |.+...--+ =..||.++|.
T Consensus 88 IT~-~G~~~~~~~~~~tGaL~vla 110 (156)
T PF09217_consen 88 ITR-FGRGFPLQNPENTGALLVLA 110 (156)
T ss_dssp EE----TTSGGG-GGGTT-EEEEE
T ss_pred Eee-ecCCCccCCccccccEEEEE
Confidence 976 876555333 3679998887
No 6
>PHA00280 putative NHN endonuclease
Probab=94.38 E-value=0.026 Score=49.95 Aligned_cols=40 Identities=10% Similarity=0.033 Sum_probs=30.6
Q ss_pred CCCCCCCceeeec--c----------CCCcccccCCCCCHHHHHhcCchhhh
Q 015743 39 SSSVSSSKYKAFV--P----------HHHQNSWLLGPIDSQEAATNFDNRED 78 (401)
Q Consensus 39 ~s~~~s~kyrgv~--p----------~~~~r~WLGtf~t~eeAA~ayD~~~~ 78 (401)
.++..++.|+||. . ..+.++.||.|+++|+||.||+++.+
T Consensus 61 ~~~~N~SG~kGV~~~k~~~kw~A~I~~~gK~~~lG~f~~~e~A~~a~~~~~~ 112 (121)
T PHA00280 61 TPKSNTSGLKGLSWSKEREMWRGTVTAEGKQHNFRSRDLLEVVAWIYRTRRE 112 (121)
T ss_pred CCCCCCCCCCeeEEecCCCeEEEEEEECCEEEEcCCCCCHHHHHHHHHHHHH
Confidence 3455678889985 2 35667889999999999999985544
No 7
>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=89.08 E-value=0.14 Score=38.05 Aligned_cols=25 Identities=8% Similarity=-0.275 Sum_probs=21.4
Q ss_pred CcccccCCCCCHHHHHhcCchhhhc
Q 015743 55 HQNSWLLGPIDSQEAATNFDNREDL 79 (401)
Q Consensus 55 ~~r~WLGtf~t~eeAA~ayD~~~~~ 79 (401)
+.+.+||+|++++||++|||.+...
T Consensus 28 ~k~f~~g~fg~~~eA~~~a~~~r~~ 52 (56)
T PF00847_consen 28 RKRFSVGKFGFEEEAKRAAIEARKE 52 (56)
T ss_dssp EEEEEECCCCCHHHHHHHHHHHHHH
T ss_pred cEEEeCccCCCHHHHHHHHHHHHHH
Confidence 4789999999999999999976543
No 8
>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=54.98 E-value=7.2 Score=24.99 Aligned_cols=19 Identities=11% Similarity=0.097 Sum_probs=13.5
Q ss_pred ceeeeccCCCcccccCCCC
Q 015743 46 KYKAFVPHHHQNSWLLGPI 64 (401)
Q Consensus 46 kyrgv~p~~~~r~WLGtf~ 64 (401)
.-..+...+..++|+||++
T Consensus 6 ~I~~i~~D~~G~lWigT~~ 24 (24)
T PF07494_consen 6 NIYSIYEDSDGNLWIGTYN 24 (24)
T ss_dssp CEEEEEE-TTSCEEEEETS
T ss_pred eEEEEEEcCCcCEEEEeCC
Confidence 3445566788999999974
No 9
>PRK11347 antitoxin ChpS; Provisional
Probab=54.94 E-value=43 Score=27.84 Aligned_cols=43 Identities=21% Similarity=0.381 Sum_probs=35.3
Q ss_pred EEEEEeCCCcceEEccChhhhhhccCCCCCCEEEEEecccCCCCceEEEEE
Q 015743 183 FRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDW 233 (401)
Q Consensus 183 FR~sywnss~sYVLTkGWs~FVkeK~LkaGDvVvF~R~~~e~~~~~l~Igv 233 (401)
.+.+.|++|..-.|.+ .|++.-+|.+||.|.+... ++.+.|.-
T Consensus 3 ~~v~kwGNS~~vriPk---~il~~l~l~~G~~v~i~v~-----~~~iii~p 45 (83)
T PRK11347 3 ITIKRWGNSAGMVIPN---IVMKELNLQPGQSVEAQVS-----NNQLILTP 45 (83)
T ss_pred EEEEEEcCceeEEeCH---HHHHHcCCCCCCEEEEEEE-----CCEEEEEE
Confidence 4567898998889988 9999999999999999886 24566643
No 10
>PF10844 DUF2577: Protein of unknown function (DUF2577); InterPro: IPR022555 This family of proteins has no known function
Probab=54.79 E-value=37 Score=28.80 Aligned_cols=79 Identities=16% Similarity=0.180 Sum_probs=45.5
Q ss_pred ccEEEecccCCCC--CCCcEEeehhhhhhhCCCCCCCCCCCeEEEEEeCCCCeEEEEEEEeCCCcceEEccChhhhhhcc
Q 015743 130 HMFDKVVTPSDVG--KLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDK 207 (401)
Q Consensus 130 ~lF~KvLT~SDVg--kl~RLvIPK~~Aek~FPl~~~~~~~g~~L~v~D~~GK~W~FR~sywnss~sYVLTkGWs~FVkeK 207 (401)
..|-++++++-+. -.++|.|+++.. +++-.. ......+.+.... ...-.+ |.-..
T Consensus 19 i~~G~V~s~~PL~I~i~~~liL~~~~L--~i~~~l--~~~~~~~~~~~~~--------------~~~~~~-----i~~~~ 75 (100)
T PF10844_consen 19 IVIGTVVSVPPLKIKIDQKLILDKDFL--IIPELL--KDYTRDITIEHNS--------------ETDNIT-----ITFTD 75 (100)
T ss_pred eEEEEEEecccEEEEECCeEEEchHHE--Eeehhc--cceEEEEEEeccc--------------ccccee-----EEEec
Confidence 4789999988744 233588888653 233211 1122222222211 111111 66778
Q ss_pred CCCCCCEEEEEecccCCCCceEEEEEE
Q 015743 208 KLDAGDTVSFQRGVGELGKDRLYIDWR 234 (401)
Q Consensus 208 ~LkaGDvVvF~R~~~e~~~~~l~IgvR 234 (401)
.|++||.|...+.. ++.+|+|--|
T Consensus 76 ~Lk~GD~V~ll~~~---~gQ~yiVlDk 99 (100)
T PF10844_consen 76 GLKVGDKVLLLRVQ---GGQKYIVLDK 99 (100)
T ss_pred CCcCCCEEEEEEec---CCCEEEEEEe
Confidence 99999999999963 4567777544
No 11
>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=49.92 E-value=57 Score=23.69 Aligned_cols=40 Identities=18% Similarity=0.174 Sum_probs=28.0
Q ss_pred eCCCcceEEccChhhhhhccCCCCCCEEEEEecccCCCCceEEEEEE
Q 015743 188 WNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDWR 234 (401)
Q Consensus 188 wnss~sYVLTkGWs~FVkeK~LkaGDvVvF~R~~~e~~~~~l~IgvR 234 (401)
|+++..-.|-+ .|.+..+|++||.|.|.-.. ++++.|.-.
T Consensus 3 vg~s~~v~iPk---~~~~~l~l~~Gd~v~i~~~~----~g~i~i~p~ 42 (47)
T PF04014_consen 3 VGNSGQVTIPK---EIREKLGLKPGDEVEIEVEG----DGKIVIRPV 42 (47)
T ss_dssp ETTCSEEEE-H---HHHHHTTSSTTTEEEEEEET----TSEEEEEES
T ss_pred ECCCceEECCH---HHHHHcCCCCCCEEEEEEeC----CCEEEEEEC
Confidence 44555566655 77888899999999999872 336666433
No 12
>smart00536 AXH domain in Ataxins and HMG containing proteins. unknown function
Probab=47.60 E-value=11 Score=33.73 Aligned_cols=27 Identities=30% Similarity=0.407 Sum_probs=22.2
Q ss_pred CcceEEccChhhhh----------hccCCCCCCEEEE
Q 015743 191 SQSYVMTKGWSRFV----------KDKKLDAGDTVSF 217 (401)
Q Consensus 191 s~sYVLTkGWs~FV----------keK~LkaGDvVvF 217 (401)
.+-||..+||+.|- ..+.|.+||+|+-
T Consensus 76 HPfFV~gqGWsSc~P~lT~~~ygL~C~~L~vGDVCl~ 112 (116)
T smart00536 76 HPFFVKGKGWSSCYPSLTVQLYGLPCCELQVGDVCLS 112 (116)
T ss_pred CCeEEcCccccccChhhhhhhcCCcceecccCCEEec
Confidence 47799999999884 5678999999974
No 13
>TIGR02609 doc_partner putative addiction module antidote. Members of this protein family are putative addiction module antidote proteins that appear recurringly in two-gene operons with members of the Doc (death-on-curing) family TIGR01550. Members of this family contain a SpoVT/AbrB-like domain (pfam04014). Note that the gene pairs with a member of this family tend to be found on bacterial chromosomes, not on plasmids.
Probab=42.68 E-value=56 Score=26.26 Aligned_cols=33 Identities=18% Similarity=0.203 Sum_probs=26.7
Q ss_pred EEEeCCCcceEEccChhhhhhccCCCCCCEEEEEec
Q 015743 185 YSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRG 220 (401)
Q Consensus 185 ~sywnss~sYVLTkGWs~FVkeK~LkaGDvVvF~R~ 220 (401)
...|++|..-.|-+ .++..-+|..||.|.|...
T Consensus 3 i~k~GNS~~vtIPk---~i~~~lgl~~Gd~v~v~~~ 35 (74)
T TIGR02609 3 IRKVGNSLVVTLPK---EVLESLGLKEGDTLYVDEE 35 (74)
T ss_pred EEEECCeeEEEECH---HHHHHcCcCCCCEEEEEEE
Confidence 35677776667777 7899999999999988776
No 14
>PRK03760 hypothetical protein; Provisional
Probab=42.23 E-value=62 Score=28.40 Aligned_cols=27 Identities=19% Similarity=0.478 Sum_probs=21.0
Q ss_pred CcceEE--ccChhhhhhccCCCCCCEEEEEec
Q 015743 191 SQSYVM--TKGWSRFVKDKKLDAGDTVSFQRG 220 (401)
Q Consensus 191 s~sYVL--TkGWs~FVkeK~LkaGDvVvF~R~ 220 (401)
.-.||| ..|| +.+.++++||.|.|.+.
T Consensus 89 ~a~~VLEl~aG~---~~~~gi~~Gd~v~~~~~ 117 (117)
T PRK03760 89 PARYIIEGPVGK---IRVLKVEVGDEIEWIDE 117 (117)
T ss_pred cceEEEEeCCCh---HHHcCCCCCCEEEEeeC
Confidence 356887 4555 78899999999998763
No 15
>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=41.72 E-value=8 Score=34.31 Aligned_cols=27 Identities=30% Similarity=0.514 Sum_probs=17.4
Q ss_pred CcceEEccChhhh----------hhccCCCCCCEEEE
Q 015743 191 SQSYVMTKGWSRF----------VKDKKLDAGDTVSF 217 (401)
Q Consensus 191 s~sYVLTkGWs~F----------VkeK~LkaGDvVvF 217 (401)
.+-||..+||+.| ...+.|.+||+|+-
T Consensus 75 hPFFV~gkGWsS~~P~~T~~~ygL~C~~L~vGDvCl~ 111 (115)
T PF08517_consen 75 HPFFVKGKGWSSCNPSLTVQLYGLPCRQLQVGDVCLS 111 (115)
T ss_dssp -EEEETTTEEEESSHHHHHHHHTS--EE--TT-EEEE
T ss_pred CceEEeCCcccccCcchhceecCCcccccccCCEEec
Confidence 4678999999877 35678999999974
No 16
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=41.54 E-value=86 Score=27.60 Aligned_cols=35 Identities=17% Similarity=0.393 Sum_probs=26.8
Q ss_pred CeEEEEEeCCCCeEEEEEEEeCCCcceEEccChhhhhhccCCCCCCEEEEEe
Q 015743 168 GLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQR 219 (401)
Q Consensus 168 g~~L~v~D~~GK~W~FR~sywnss~sYVLTkGWs~FVkeK~LkaGDvVvF~R 219 (401)
-..+.+.|.+|. .+++.|+. ....|++||+|.+.-
T Consensus 41 v~~~~l~D~TG~---I~~tlW~~--------------~a~~l~~GdvV~I~n 75 (129)
T PRK06461 41 ISEAVVGDETGR---VKLTLWGE--------------QAGSLKEGEVVEIEN 75 (129)
T ss_pred EEEEEEECCCCE---EEEEEeCC--------------ccccCCCCCEEEEEC
Confidence 456788999995 78888864 134689999999983
No 17
>PRK09798 antitoxin MazE; Provisional
Probab=36.57 E-value=1.3e+02 Score=25.02 Aligned_cols=42 Identities=17% Similarity=0.290 Sum_probs=34.6
Q ss_pred EEEEeCCCcceEEccChhhhhhccCCCCCCEEEEEecccCCCCceEEEEE
Q 015743 184 RYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQRGVGELGKDRLYIDW 233 (401)
Q Consensus 184 R~sywnss~sYVLTkGWs~FVkeK~LkaGDvVvF~R~~~e~~~~~l~Igv 233 (401)
+...|++|+.-.|-+ .|++.-+|..||.|.+... ++++.|.-
T Consensus 5 ~v~KwGNS~~vRIPk---~~l~~l~l~~g~~vei~v~-----~~~iiI~p 46 (82)
T PRK09798 5 SVKRWGNSPAVRIPA---TLMQALNLNIDDEVKIDLV-----DGKLIIEP 46 (82)
T ss_pred EEEEEcCcceEEcCH---HHHHHcCCCCCCEEEEEEE-----CCEEEEEE
Confidence 456788888888877 9999999999999999886 36777743
No 18
>PF08922 DUF1905: Domain of unknown function (DUF1905); InterPro: IPR015018 This family consist of hypothetical bacterial proteins. ; PDB: 2D9R_A.
Probab=35.80 E-value=2e+02 Score=23.38 Aligned_cols=78 Identities=21% Similarity=0.237 Sum_probs=38.5
Q ss_pred EEEecccCCCCCCCcEEeehhhhhhhCCCCCCCCCCCeEEEEEeCCCCeEEEEEEEeC-CCcceEEccChhhhhhccCCC
Q 015743 132 FDKVVTPSDVGKLNRLVIPKQHAEKYFPLDSSSNEKGLLLNFEDRNGKAWRFRYSYWN-SSQSYVMTKGWSRFVKDKKLD 210 (401)
Q Consensus 132 F~KvLT~SDVgkl~RLvIPK~~Aek~FPl~~~~~~~g~~L~v~D~~GK~W~FR~sywn-ss~sYVLTkGWs~FVkeK~Lk 210 (401)
|+-+|-+..-+. --+.||.+.++.+-.. +-..+.+.+. .+|..|+= +... ....|+|-= =....++-++.
T Consensus 1 F~a~l~~~~~~~-~fv~vP~~v~~~l~~~----~~g~v~V~~t-I~g~~~~~--sl~p~g~G~~~Lpv-~~~vRk~~g~~ 71 (80)
T PF08922_consen 1 FTATLWKGEGGW-TFVEVPFDVAEELGEG----GWGRVPVRGT-IDGHPWRT--SLFPMGNGGYILPV-KAAVRKAIGKE 71 (80)
T ss_dssp EEEE-EE-TTS--EEEE--S-HHHHH--S------S-EEEEEE-ETTEEEEE--EEEESSTT-EEEEE--HHHHHHHT--
T ss_pred CeEEEEecCCce-EEEEeCHHHHHHhccc----cCCceEEEEE-ECCEEEEE--EEEECCCCCEEEEE-cHHHHHHcCCC
Confidence 444555444332 2466999888876443 1234566555 56765555 5543 445677611 12677888999
Q ss_pred CCCEEEEE
Q 015743 211 AGDTVSFQ 218 (401)
Q Consensus 211 aGDvVvF~ 218 (401)
+||.|.+.
T Consensus 72 ~Gd~V~v~ 79 (80)
T PF08922_consen 72 AGDTVEVT 79 (80)
T ss_dssp TTSEEEEE
T ss_pred CCCEEEEE
Confidence 99999875
No 19
>cd04491 SoSSB_OBF SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus solfataricus single-stranded (ss) DNA-binding protein (SSoSSB). SSoSSB has a single OB fold, and it physically and functionally interacts with RNA polymerase. In vitro, SSoSSB can substitute for the basal transcription factor TBP, stimulating transcription from promoters under conditions in which TBP is limiting, and supporting transcription when TBP is absent. SSoSSB selectively melts the duplex DNA of promoter sequences. It also relieves transcriptional repression by the chromatin Alba. In addition, SSoSSB activates reverse gyrase activity, which involves DNA binding, DNA cleavage, strand passage and ligation. SSoSSB stimulates all these steps in the presence of the chromatin protein, Sul7d. SSoSSB antagonizes the inhibitory effect of Sul7d on reverse gyrase supercoiling activity. It also physically and functionally interacts with Mini-chromosome Maintenance (MCM), stimulating
Probab=34.24 E-value=1.6e+02 Score=23.13 Aligned_cols=37 Identities=24% Similarity=0.488 Sum_probs=27.9
Q ss_pred CCeEEEEEeCCCCeEEEEEEEeCCCcceEEccChhhhhhccCCCCCCEEEEEe
Q 015743 167 KGLLLNFEDRNGKAWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDTVSFQR 219 (401)
Q Consensus 167 ~g~~L~v~D~~GK~W~FR~sywnss~sYVLTkGWs~FVkeK~LkaGDvVvF~R 219 (401)
.-..+.+.|.+| ..++.+|+..- ...|++||+|.+.-
T Consensus 23 ~~~~~~l~D~TG---~i~~~~W~~~~-------------~~~~~~G~vv~i~~ 59 (82)
T cd04491 23 KVQSGLVGDETG---TIRFTLWDEKA-------------ADDLEPGDVVRIEN 59 (82)
T ss_pred EEEEEEEECCCC---EEEEEEECchh-------------cccCCCCCEEEEEe
Confidence 346788889998 58888986431 45589999998873
No 20
>PF14112 DUF4284: Domain of unknown function (DUF4284)
Probab=28.81 E-value=26 Score=30.79 Aligned_cols=15 Identities=13% Similarity=0.226 Sum_probs=12.1
Q ss_pred ccccCCCCCHHHHHh
Q 015743 57 NSWLLGPIDSQEAAT 71 (401)
Q Consensus 57 r~WLGtf~t~eeAA~ 71 (401)
-||||+|.+.+|-..
T Consensus 3 siWiG~f~s~~el~~ 17 (122)
T PF14112_consen 3 SIWIGNFKSEDELEE 17 (122)
T ss_pred EEEEecCCCHHHHHH
Confidence 589999999886554
No 21
>cd01753 PLAT_LOX PLAT domain of 12/15-lipoxygenase. As a unique subfamily of the mammalian lipoxygenases, they catalyze enzymatic lipid peroxidation in complex biological structures via direct dioxygenation of phospholipids and cholesterol esters of biomembranes and plasma lipoproteins. Both types of enzymes are cytosolic but need this domain to access their sequestered membrane or micelle bound substrates.
Probab=26.85 E-value=1.2e+02 Score=26.18 Aligned_cols=62 Identities=16% Similarity=0.318 Sum_probs=40.0
Q ss_pred ccEEEecc-cCCCCCCCcEEeehhhhhhhCC--CCCCCCCCCeEEEEEeCCCCeEEEEEEEe-CCCcceEEccC
Q 015743 130 HMFDKVVT-PSDVGKLNRLVIPKQHAEKYFP--LDSSSNEKGLLLNFEDRNGKAWRFRYSYW-NSSQSYVMTKG 199 (401)
Q Consensus 130 ~lF~KvLT-~SDVgkl~RLvIPK~~Aek~FP--l~~~~~~~g~~L~v~D~~GK~W~FR~syw-nss~sYVLTkG 199 (401)
..-.-.++ +.|++.+.++.|=.+-.-.. | +. -.|.++|..|++|.|-|.-| .....++|.+|
T Consensus 48 ~~d~F~v~~~~~lG~l~~i~i~~d~~g~~-~~W~l-------~~V~V~~~~~~~~~F~c~rWl~~~~~~~~~~g 113 (113)
T cd01753 48 AVDEYKVKVPEDLGELLLVRLRKRKYLLF-DAWFC-------NYITVTGPGGDEYHFPCYRWIEGYGTLELREG 113 (113)
T ss_pred CeeEEEEecccCCCCcEEEEEEECCCCCC-CCeee-------cEEEEEcCCCCEEEEEhHHeECCCCEEEecCC
Confidence 33444455 46899888888876553221 2 11 25566788899999999999 44456666554
No 22
>TIGR01643 YD_repeat_2x YD repeat (two copies). This model describes two tandem copies of a 21-residue extracellular repeat found in Gram-negative, Gram-positive, and animal proteins. The repeat is named for a YD dipeptide, the most strongly conserved motif of the repeat. These repeats appear in general to be involved in binding carbohydrate; the chicken teneurin-1 YD-repeat region has been shown to bind heparin.
Probab=26.34 E-value=99 Score=21.28 Aligned_cols=22 Identities=27% Similarity=0.401 Sum_probs=17.8
Q ss_pred CCeEEEEEeCCCCeEEEEEEEe
Q 015743 167 KGLLLNFEDRNGKAWRFRYSYW 188 (401)
Q Consensus 167 ~g~~L~v~D~~GK~W~FR~syw 188 (401)
.+..+.+.|..|.+|+|.|--.
T Consensus 4 ~g~l~~~~~p~G~~~~~~YD~~ 25 (42)
T TIGR01643 4 AGRLTGSTDADGTTTRYTYDAA 25 (42)
T ss_pred CCCEEEEECCCCCEEEEEECCC
Confidence 4678889999999999987543
No 23
>PF03120 DNA_ligase_OB: NAD-dependent DNA ligase OB-fold domain; InterPro: IPR004150 DNA ligases catalyse the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor []. This family is a small domain found after the adenylation domain DNA_ligase_N in NAD+-dependent ligases (IPR001679 from INTERPRO). OB-fold domains generally are involved in nucleic acid binding.; GO: 0003911 DNA ligase (NAD+) activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 2OWO_A 1TAE_A 3UQ8_A 1DGS_A 1V9P_B 3SGI_A.
Probab=26.28 E-value=42 Score=28.10 Aligned_cols=20 Identities=30% Similarity=0.541 Sum_probs=16.7
Q ss_pred hhhhhccCCCCCCEEEEEec
Q 015743 201 SRFVKDKKLDAGDTVSFQRG 220 (401)
Q Consensus 201 s~FVkeK~LkaGDvVvF~R~ 220 (401)
..|+++++|..||.|.++|.
T Consensus 42 ~~~i~~~~i~~Gd~V~V~ra 61 (82)
T PF03120_consen 42 YDYIKELDIRIGDTVLVTRA 61 (82)
T ss_dssp HHHHHHTT-BBT-EEEEEEE
T ss_pred HHHHHHcCCCCCCEEEEEEC
Confidence 48999999999999999997
No 24
>PF14851 FAM176: FAM176 family
Probab=22.45 E-value=85 Score=29.22 Aligned_cols=14 Identities=7% Similarity=-0.164 Sum_probs=11.4
Q ss_pred ccCCCCCHHHHHhc
Q 015743 59 WLLGPIDSQEAATN 72 (401)
Q Consensus 59 WLGtf~t~eeAA~a 72 (401)
|-..|.++|||.+|
T Consensus 109 s~nvf~sae~~e~A 122 (153)
T PF14851_consen 109 SVNVFTSAEELERA 122 (153)
T ss_pred ccCCcccHHHHHHH
Confidence 56779999999875
No 25
>PF05382 Amidase_5: Bacteriophage peptidoglycan hydrolase ; InterPro: IPR008044 This entry is represented by Bacteriophage SFi21, lysin (Cell wall hydrolase; 3.5.1.28 from EC). At least one of proteins in this entry, the Pal protein from the pneumococcal bacteriophage Dp-1 (O03979 from SWISSPROT) has been shown to be an N-acetylmuramoyl-L-alanine amidase []. According to the known modular structure of this and other peptidoglycan hydrolases from the pneumococcal system, the active site should reside within this domain while a C-terminal domain binds to the choline residues of the cell wall teichoic acids [, ].
Probab=21.68 E-value=60 Score=29.79 Aligned_cols=26 Identities=19% Similarity=0.445 Sum_probs=17.4
Q ss_pred EEccChhhhhhc--cCCCCCCEEEEEec
Q 015743 195 VMTKGWSRFVKD--KKLDAGDTVSFQRG 220 (401)
Q Consensus 195 VLTkGWs~FVke--K~LkaGDvVvF~R~ 220 (401)
++..||...-+. ++|+.||+|++-+.
T Consensus 60 L~~~G~~~I~~~~~~~~q~GDI~I~g~~ 87 (145)
T PF05382_consen 60 LKKNGFKKISENVDWNLQRGDIFIWGRR 87 (145)
T ss_pred HhhCCcEEeccCCcccccCCCEEEEcCC
Confidence 344555544433 58999999998654
No 26
>cd04451 S1_IF1 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the formation of the first peptide bond. In Escherichia coli, the initiation mechanism requires, in addition to mRNA, fMet-tRNA, and ribosomal subunits, the presence of three additional proteins (initiation factors IF1, IF2, and IF3) and at least one GTP molecule. The three initiation factors influence both the kinetics and the stability of ternary complex formation. IF1 is the smallest of the three factors. IF1 enhances the rate of 70S ribosome subunit association and dissociation and the interaction of 30S ribosomal subunit with IF2 and IF3. It stimulates 30S complex formation. In addition, by binding to the A-site of the 30S ribosomal subunit, IF1 may contribute to the fidelity of the selection of the initiation site of th
Probab=21.10 E-value=3.8e+02 Score=20.43 Aligned_cols=26 Identities=19% Similarity=0.167 Sum_probs=16.2
Q ss_pred cCCCCCCEEEEEecccCCCCceEEEEEE
Q 015743 207 KKLDAGDTVSFQRGVGELGKDRLYIDWR 234 (401)
Q Consensus 207 K~LkaGDvVvF~R~~~e~~~~~l~IgvR 234 (401)
..+.+||.|.|..... .+.+-.|-+|
T Consensus 39 ~~~~vGD~V~~~~~~~--~~~~g~I~~~ 64 (64)
T cd04451 39 IRILPGDRVKVELSPY--DLTKGRIVYR 64 (64)
T ss_pred cccCCCCEEEEEEeec--CCCEEEEEEC
Confidence 3489999999986521 1234456554
No 27
>PF05593 RHS_repeat: RHS Repeat; InterPro: IPR006530 These sequences contain two tandem copies of a 21-residue extracellular repeat that is found in Gram-negative, Gram-positive, and animal proteins. The repeat is named for a YD dipeptide, the most strongly conserved motif of the repeat. These repeats appear in general to be involved in binding carbohydrate; the chicken teneurin-1 YD-repeat region has been shown to bind heparin [, , ].
Probab=20.54 E-value=1.6e+02 Score=20.48 Aligned_cols=21 Identities=29% Similarity=0.586 Sum_probs=16.7
Q ss_pred CCeEEEEEeCCCCeEEEEEEE
Q 015743 167 KGLLLNFEDRNGKAWRFRYSY 187 (401)
Q Consensus 167 ~g~~L~v~D~~GK~W~FR~sy 187 (401)
.+..+.+.|..|.+|+|.|--
T Consensus 4 ~G~l~~~~d~~G~~~~y~YD~ 24 (38)
T PF05593_consen 4 NGRLTSVTDPDGRTTRYTYDA 24 (38)
T ss_pred CCCEEEEEcCCCCEEEEEECC
Confidence 467888889999999776654
No 28
>PF02643 DUF192: Uncharacterized ACR, COG1430; InterPro: IPR003795 This entry describes proteins of unknown function.; PDB: 3M7A_B 3PJY_B.
Probab=20.29 E-value=2.4e+02 Score=24.08 Aligned_cols=50 Identities=20% Similarity=0.407 Sum_probs=27.2
Q ss_pred CeEEEEEeCCCCeEEEEEEE--e-------CCCcceEEccChhhhhhccCCCCCCEEEEE
Q 015743 168 GLLLNFEDRNGKAWRFRYSY--W-------NSSQSYVMTKGWSRFVKDKKLDAGDTVSFQ 218 (401)
Q Consensus 168 g~~L~v~D~~GK~W~FR~sy--w-------nss~sYVLTkGWs~FVkeK~LkaGDvVvF~ 218 (401)
.+.+.+.|.+|++-....-. | ...-+|||.- =..++...+|++||.|.|.
T Consensus 49 pLDi~fld~~g~Vv~i~~~~~P~~~~~~~~~~~a~~vLE~-~aG~~~~~~i~~Gd~v~~~ 107 (108)
T PF02643_consen 49 PLDIAFLDSDGRVVKIERMVPPWRTYPCPSYKPARYVLEL-PAGWFEKLGIKVGDRVRIE 107 (108)
T ss_dssp -EEEEEE-TTSBEEEEEEEE-TT--S-EEECCEECEEEEE-ETTHHHHHT--TT-EEE--
T ss_pred eEEEEEECCCCeEEEEEccCCCCccCCCCCCCccCEEEEc-CCCchhhcCCCCCCEEEec
Confidence 36777777777655444333 1 1224688842 2356889999999999874
No 29
>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=20.02 E-value=1e+02 Score=26.05 Aligned_cols=28 Identities=21% Similarity=0.246 Sum_probs=13.1
Q ss_pred hhccCCCCCCEEEEEecccCCCCceEEE
Q 015743 204 VKDKKLDAGDTVSFQRGVGELGKDRLYI 231 (401)
Q Consensus 204 VkeK~LkaGDvVvF~R~~~e~~~~~l~I 231 (401)
+.+++|.+||.|.|.-...-.-.+.+-+
T Consensus 23 l~~HGl~vGD~VnFsnsa~tGvSG~mTV 50 (83)
T PF12195_consen 23 LTDHGLFVGDFVNFSNSAVTGVSGNMTV 50 (83)
T ss_dssp -TT----TT-EEEEES-SSTT--EEEEE
T ss_pred EccCceeecceEEEeccccccccccEEE
Confidence 5789999999999998743222445544
Done!